Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 395 of 427
Found at i:114463016 original size:25 final size:27
Alignment explanation
Indices: 114462959--114463016 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
114462949 TTTTTAATAC
* *
114462959 TATATTTTTAATACCATATATATTGTG
1 TATATTCTTAATACCATATATATTGTA
114462986 TATATTCTTAATA-C-TATATATTGTA
1 TATATTCTTAATACCATATATATTGTA
*
114463011 TGTATT
1 TATATT
114463017 TTTTAATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 15 0.54
26 1 0.04
27 12 0.43
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (27 bp):
TATATTCTTAATACCATATATATTGTA
Found at i:114465116 original size:2 final size:2
Alignment explanation
Indices: 114465109--114465139 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
114465099 ATTTTCATAC
114465109 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
114465140 ATTTGTGATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114465320 original size:14 final size:14
Alignment explanation
Indices: 114465301--114465330 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
114465291 TACTTGATTG
114465301 TTAGTCCATCATTT
1 TTAGTCCATCATTT
*
114465315 TTAGTCCATTATTT
1 TTAGTCCATCATTT
114465329 TT
1 TT
114465331 GTGTCGTGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.17, G:0.07, T:0.57
Consensus pattern (14 bp):
TTAGTCCATCATTT
Found at i:114466696 original size:75 final size:75
Alignment explanation
Indices: 114466566--114466711 Score: 188
Period size: 75 Copynumber: 1.9 Consensus size: 75
114466556 GTTTTCCTCA
*** * * **
114466566 TTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAACT
1 TTGAAATACCATACCTACATTTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
114466631 CAGTATAGAT
66 CAGTATAGAT
*
114466641 TTGATAATACCATACCTACA-TTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACAA
1 TTGA-AATACCATACCTACATTTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACAA
114466704 CTCAGTAT
64 CTCAGTAT
114466712 GGATGATACT
Statistics
Matches: 61, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
74 3 0.05
75 43 0.70
76 15 0.25
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.34
Consensus pattern (75 bp):
TTGAAATACCATACCTACATTTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATAGAT
Found at i:114466730 original size:33 final size:35
Alignment explanation
Indices: 114466570--114466735 Score: 167
Period size: 35 Copynumber: 4.6 Consensus size: 35
114466560 TCCTCATTGA
*** *
114466570 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
114466606 AATGCCATACCTACATTTCTTAACTCAGTATAGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
114466646 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
114466681 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
114466716 GATA-C-TACCTACATTTCACA
1 AATACCATACCTACATTTCACA
114466736 CTTTGCCATG
Statistics
Matches: 115, Mismatches: 10, Indels: 13
0.83 0.07 0.09
Matches are distributed among these distances:
33 15 0.13
34 1 0.01
35 55 0.48
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.23, G:0.10, T:0.33
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:114473630 original size:35 final size:35
Alignment explanation
Indices: 114473586--114473752 Score: 201
Period size: 35 Copynumber: 4.6 Consensus size: 35
114473576 TCCTCATTGA
** *
114473586 AATACCATACCTACATTTTTCAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
114473621 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
114473661 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
114473696 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
114473731 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
114473753 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 10, Indels: 10
0.85 0.07 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.25, G:0.11, T:0.31
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:114473669 original size:75 final size:73
Alignment explanation
Indices: 114473581--114473752 Score: 226
Period size: 75 Copynumber: 2.4 Consensus size: 73
114473571 GGTTTTCCTC
** * * **
114473581 ATTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
114473645 TCAGTATGG
65 TCAGTATGG
*
114473654 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
114473719 CTCAGTATGG
64 CTCAGTATGG
114473729 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
114473753 CTTTGCCATG
Statistics
Matches: 89, Mismatches: 7, Indels: 9
0.85 0.07 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 58 0.65
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:114475920 original size:23 final size:23
Alignment explanation
Indices: 114475897--114475973 Score: 79
Period size: 23 Copynumber: 3.4 Consensus size: 23
114475887 AACTATATTT
114475897 ATATATATTATGTATATACTTTTA
1 ATAT-TATTATGTATATACTTTTA
* *
114475921 ATATTATTATGTATTTA-TTTTT
1 ATATTATTATGTATATACTTTTA
*
114475943 A-ATTA-TATGTGTATACTTATTA
1 ATATTATTATGTATATACTT-TTA
*
114475965 TTATTATTA
1 ATATTATTA
114475974 ATAGTTGTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
20 8 0.19
21 6 0.14
22 7 0.16
23 16 0.37
24 6 0.14
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (23 bp):
ATATTATTATGTATATACTTTTA
Found at i:114476034 original size:17 final size:18
Alignment explanation
Indices: 114476014--114476052 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
114476004 ATATGTATAA
* *
114476014 AATATGTATATA-TTTTT
1 AATATATATATACTTTGT
114476031 AATATATATATACTTTGT
1 AATATATATATACTTTGT
114476049 AATA
1 AATA
114476053 CTATTATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (18 bp):
AATATATATATACTTTGT
Found at i:114477810 original size:5 final size:5
Alignment explanation
Indices: 114477802--114477836 Score: 56
Period size: 5 Copynumber: 7.4 Consensus size: 5
114477792 TTATGTTTTA
114477802 ATTAT ATTAT ATTAT A-TAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
114477837 AAACATAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 8 0.29
5 20 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
ATTAT
Found at i:114477823 original size:14 final size:14
Alignment explanation
Indices: 114477804--114477836 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
114477794 ATGTTTTAAT
114477804 TATATTATATTATA
1 TATATTATATTATA
114477818 TATATTATATTATA
1 TATATTATATTATA
114477832 TATAT
1 TATAT
114477837 AAACATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TATATTATATTATA
Found at i:114479165 original size:18 final size:19
Alignment explanation
Indices: 114479144--114479182 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
114479134 ATATATAGAT
114479144 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
114479162 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
114479181 AT
1 AT
114479183 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:114479532 original size:39 final size:39
Alignment explanation
Indices: 114479422--114479556 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
114479412 GACCTCGAGT
* * * *
114479422 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
114479463 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
114479501 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
114479540 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
114479557 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:114479700 original size:18 final size:19
Alignment explanation
Indices: 114479679--114479719 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
114479669 AATAAAATGA
114479679 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
114479697 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
114479716 GAAA
1 GAAA
114479720 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:114484212 original size:5 final size:5
Alignment explanation
Indices: 114484202--114484238 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
114484192 TTATGTTTTA
114484202 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
114484239 ATAAACATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:114485563 original size:18 final size:19
Alignment explanation
Indices: 114485542--114485580 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
114485532 ATATATAGAT
114485542 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
114485560 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
114485579 AT
1 AT
114485581 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:114485930 original size:39 final size:39
Alignment explanation
Indices: 114485820--114485954 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
114485810 GACCTCGAGT
* * * *
114485820 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
114485861 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
114485899 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
114485938 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
114485955 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:114486098 original size:18 final size:19
Alignment explanation
Indices: 114486077--114486117 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
114486067 AATAAAATGA
114486077 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
114486095 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
114486114 GAAA
1 GAAA
114486118 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:114487117 original size:53 final size:53
Alignment explanation
Indices: 114487036--114487186 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
114487026 CTTACACGGT
* *
114487036 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
*
114487091 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
114487144 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
114487187 GCACACTTGT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:114499407 original size:73 final size:73
Alignment explanation
Indices: 114499317--114499540 Score: 288
Period size: 75 Copynumber: 3.0 Consensus size: 73
114499307 TGATGTTTTT
* *
114499317 ATTTCTGTTTTCAAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCTCAAGACACATTGAGG
1 ATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGG
114499382 TATTTTCA
66 TATTTTCA
* * **
114499390 ATTTCTGTCTTTAAAAAAAATCAATTCATATTGCGAGAAGTGAGTTGAGCCTCAAGACACGCTGA
1 ATTTCTGT-TTT-AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGA
*
114499455 GGTAATTTCA
64 GGTATTTTCA
* * ** *
114499465 ATTTCTGTTTGT-CAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACATGTCG
1 ATTTCTGTTT-TAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACAT-T-G
114499529 AGGTATTTTCA
63 AGGTATTTTCA
114499540 A
1 A
114499541 AATTTGTTTT
Statistics
Matches: 129, Mismatches: 17, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
73 47 0.36
74 6 0.05
75 76 0.59
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.33
Consensus pattern (73 bp):
ATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACATTGAGG
TATTTTCA
Found at i:114499624 original size:88 final size:87
Alignment explanation
Indices: 114499460--114499706 Score: 270
Period size: 88 Copynumber: 2.8 Consensus size: 87
114499450 GCTGAGGTAA
* * *
114499460 TTTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACAT
1 TTTCAAATTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCACAT
* *
114499525 GTCGAGGTATTTTCAAAATTTGT-T
65 GTCGAGCTATTTTC--AATTTCTAT
* *
114499549 TTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCAT-TGG-CTCATG
1 TTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCACATG
114499612 TGCTGAGCTATTTTCAATTTCTAT
66 T-C-GAGCTATTTTCAATTTCTAT
* * * * * *
114499636 TTT-TAATGTCTGTTTTTAAAGAGTCAACTCATATTGCGAGAAGTGAGTTGAGC-TCAGGATCAT
1 TTTCAAAT-TCTGTTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCATC-GGGTCAC
114499699 ATGTCGAG
63 ATGTCGAG
114499707 TAAAGAATAA
Statistics
Matches: 135, Mismatches: 15, Indels: 17
0.81 0.09 0.10
Matches are distributed among these distances:
86 15 0.11
87 19 0.14
88 80 0.59
89 16 0.12
90 5 0.04
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.38
Consensus pattern (87 bp):
TTTCAAATTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCATCGGGTCACATG
TCGAGCTATTTTCAATTTCTAT
Found at i:114500831 original size:12 final size:11
Alignment explanation
Indices: 114500806--114500845 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
114500796 TATGAGTATT
*
114500806 AAAAAACATAA
1 AAAAAATATAA
*
114500817 AAAAAATATAC
1 AAAAAATATAA
114500828 AAAAAA-ATAA
1 AAAAAATATAA
114500838 AAAAAATA
1 AAAAAATA
114500846 CATTTATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.82, C:0.05, G:0.00, T:0.12
Consensus pattern (11 bp):
AAAAAATATAA
Found at i:114501595 original size:24 final size:24
Alignment explanation
Indices: 114501547--114501608 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
114501537 TTTTTTTTGT
*
114501547 TATTAT-TATTTTTCTTAATATTA
1 TATTATGTATTTTTCTTAATAATA
*
114501570 TATTATGTATTTATTCTT-TTAATA
1 TATTATGTATTT-TTCTTAATAATA
*
114501594 TATTAGGTATATTTT
1 TATTATGTAT-TTTT
114501609 AAATTCTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 6 0.18
24 20 0.61
25 7 0.21
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (24 bp):
TATTATGTATTTTTCTTAATAATA
Found at i:114501642 original size:25 final size:23
Alignment explanation
Indices: 114501592--114501644 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
114501582 ATTCTTTTAA
* **
114501592 TATATTAGGTATATTTTAAATTC
1 TATATTACGTATATTTTAAACAC
114501615 TATATTACGTATATACTTTAAACAC
1 TATATTACGTATAT--TTTAAACAC
114501640 TATAT
1 TATAT
114501645 CAAGTACGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 13 0.52
25 12 0.48
ACGTcount: A:0.38, C:0.09, G:0.06, T:0.47
Consensus pattern (23 bp):
TATATTACGTATATTTTAAACAC
Found at i:114501964 original size:27 final size:25
Alignment explanation
Indices: 114501934--114502016 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
114501924 TTTTTAATAC
* *
114501934 TATATTTTTAGTACCATATATATTGTG
1 TATATTTTTAATA-C-TATATATTGTA
*
114501961 TATATTCTTAATACTATATATTGTA
1 TATATTTTTAATACTATATATTGTA
* *
114501986 TGTATTTTTTAATAACTAT-T-TTATA
1 TATA-TTTTTAAT-ACTATATATTGTA
114502011 TATATT
1 TATATT
114502017 ATGTATATAC
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
24 2 0.04
25 20 0.43
26 9 0.19
27 16 0.34
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (25 bp):
TATATTTTTAATACTATATATTGTA
Found at i:114502137 original size:11 final size:11
Alignment explanation
Indices: 114502121--114502161 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
114502111 TTATCTCTAA
114502121 TATGTATATAT
1 TATGTATATAT
114502132 TATGTATATAT
1 TATGTATATAT
*
114502143 T-TTTA-ATAT
1 TATGTATATAT
*
114502152 TATATATATA
1 TATGTATATA
114502162 CTTTGTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 5 0.19
10 6 0.23
11 15 0.58
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (11 bp):
TATGTATATAT
Found at i:114502151 original size:20 final size:21
Alignment explanation
Indices: 114502123--114502171 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
114502113 ATCTCTAATA
*
114502123 TGTATATATTATGTATATA-TT
1 TGTA-ATATTATATATATACTT
*
114502144 TTTAATATTATATATATACTT
1 TGTAATATTATATATATACTT
114502165 TGTAATA
1 TGTAATA
114502172 CTATTATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (21 bp):
TGTAATATTATATATATACTT
Found at i:114502191 original size:47 final size:45
Alignment explanation
Indices: 114502002--114502203 Score: 122
Period size: 46 Copynumber: 4.4 Consensus size: 45
114501992 TTTTAATAAC
*
114502002 TATTTTATATATATTATGTATATACTTT-T-A-ATATTATTATGTATT
1 TATTTT-TA-ATATTATATATATACTTTGTAATATATTATTATGT-TT
* * * *
114502047 TATTTTTAATATAGATATGTGTATACTTATGTAGTATTATTAATA-G--T
1 TATTTTTAATAT---TATATATATACTT-TGTAATA-TATTATTATGTTT
* *
114502094 TATTTTTAATATTATCAT-TAT-C--TCTAATATGTATATATTATGTATA
1 TATTTTTAATATTAT-ATATATACTTTGTAATA--TAT-TATTATGT-TT
114502140 TATTTTTAATATTATATATATACTTTGTAATACTATTATTATG-TT
1 TATTTTTAATATTATATATATACTTTGTAATA-TATTATTATGTTT
114502185 TATATTTTAATA-TATATAT
1 TAT-TTTTAATATTATATAT
114502204 GTATGTCTAT
Statistics
Matches: 125, Mismatches: 12, Indels: 40
0.71 0.07 0.23
Matches are distributed among these distances:
40 5 0.04
41 3 0.02
42 4 0.03
43 6 0.05
44 8 0.06
45 20 0.16
46 38 0.30
47 22 0.18
48 4 0.03
49 6 0.05
50 2 0.02
51 7 0.06
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (45 bp):
TATTTTTAATATTATATATATACTTTGTAATATATTATTATGTTT
Found at i:114502209 original size:26 final size:27
Alignment explanation
Indices: 114502149--114502214 Score: 66
Period size: 26 Copynumber: 2.5 Consensus size: 27
114502139 ATATTTTTAA
* *
114502149 TATTATATATATACTTTGTAATACTAT
1 TATTATGTCTATACTTTGTAATACTAT
*
114502176 TATTATGTTTATA-TTT-TAATA-TAT
1 TATTATGTCTATACTTTGTAATACTAT
114502200 ATATGTATGTCTATA
1 -TAT-TATGTCTATA
114502215 GATAACATTA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
24 3 0.09
25 8 0.24
26 12 0.35
27 11 0.32
ACGTcount: A:0.35, C:0.05, G:0.06, T:0.55
Consensus pattern (27 bp):
TATTATGTCTATACTTTGTAATACTAT
Found at i:114507467 original size:31 final size:30
Alignment explanation
Indices: 114507432--114507497 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
114507422 TAGTAAATGT
* *
114507432 AAAATTGTATTTTGACCCCTTAAAAATTATA
1 AAAATT-TAATTTAACCCCTTAAAAATTATA
* *
114507463 AAAATTTAATTTAATCCTTTAAAAATTATA
1 AAAATTTAATTTAACCCCTTAAAAATTATA
114507493 AAAAT
1 AAAAT
114507498 ATAAATATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 25 0.81
31 6 0.19
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.39
Consensus pattern (30 bp):
AAAATTTAATTTAACCCCTTAAAAATTATA
Found at i:114507762 original size:28 final size:27
Alignment explanation
Indices: 114507717--114507796 Score: 65
Period size: 28 Copynumber: 2.9 Consensus size: 27
114507707 TAAAAGACTT
* * *
114507717 TTAATAATTATTTAAATT-TATAAGAAA
1 TTAAAAATTATTGAAATTATA-AAAAAA
*
114507744 TTATAAAATTATTGCAATTATAAAAAAA
1 TTA-AAAATTATTGAAATTATAAAAAAA
*
114507772 TTAAAAA-TATAAGAAATTAATAAAA
1 TTAAAAATTAT-TGAAATT-ATAAAA
114507797 TAAGACTCAT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
26 3 0.07
27 12 0.28
28 26 0.60
29 2 0.05
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.36
Consensus pattern (27 bp):
TTAAAAATTATTGAAATTATAAAAAAA
Found at i:114507790 original size:16 final size:16
Alignment explanation
Indices: 114507769--114507801 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
114507759 AATTATAAAA
114507769 AAATTAA-AAATATAAG
1 AAATTAATAAA-ATAAG
114507785 AAATTAATAAAATAAG
1 AAATTAATAAAATAAG
114507801 A
1 A
114507802 CTCATCAACT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.24
Consensus pattern (16 bp):
AAATTAATAAAATAAG
Found at i:114511664 original size:49 final size:49
Alignment explanation
Indices: 114511592--114511688 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
114511582 TCCAGCTGTT
* *
114511592 ATCCAAATTTGAACCCCACATCAAAAGCAACAAAATTTATTGGAAAACA
1 ATCCAAATTGGAACCCCACATCAAAAGCAACAAAATTTATTAGAAAACA
114511641 ATCCAAATTGGAACCCCACATCAAAAGCAACAAAATTTATTAGAAAAC
1 ATCCAAATTGGAACCCCACATCAAAAGCAACAAAATTTATTAGAAAAC
114511689 GTTGCTTAGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.49, C:0.23, G:0.08, T:0.20
Consensus pattern (49 bp):
ATCCAAATTGGAACCCCACATCAAAAGCAACAAAATTTATTAGAAAACA
Found at i:114518724 original size:18 final size:18
Alignment explanation
Indices: 114518693--114518740 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
114518683 GTAATTTTCA
*
114518693 AAATAATTTTTAAAATTCT
1 AAAT-ATTTATAAAATTCT
114518712 AAATATTTATAAAAATTCT
1 AAATATTTAT-AAAATTCT
114518731 AAA-ATTTATA
1 AAATATTTATA
114518741 TATTTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 1 0.04
18 11 0.41
19 15 0.56
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (18 bp):
AAATATTTATAAAATTCT
Found at i:114518726 original size:19 final size:18
Alignment explanation
Indices: 114518704--114518740 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
114518694 AATAATTTTT
114518704 AAAATTCTAAATATTTATA
1 AAAATTCTAAA-ATTTATA
114518723 AAAATTCTAAAATTTATA
1 AAAATTCTAAAATTTATA
114518741 TATTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAATTCTAAAATTTATA
Found at i:114521643 original size:14 final size:15
Alignment explanation
Indices: 114521626--114521654 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
114521616 GAGTATGGTA
114521626 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
114521640 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
114521655 TACTAATAGT
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:114522077 original size:13 final size:14
Alignment explanation
Indices: 114522059--114522091 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
114522049 CAATCATAAT
114522059 ATAAAA-TAAAAAA
1 ATAAAATTAAAAAA
114522072 ATAAAATTAAAAAA
1 ATAAAATTAAAAAA
*
114522086 TTAAAA
1 ATAAAA
114522092 GTATAACTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAAAATTAAAAAA
Found at i:114523029 original size:21 final size:20
Alignment explanation
Indices: 114522996--114523034 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
114522986 TTATGTTTTC
* *
114522996 TATGTTATGTTAATATCAAA
1 TATGTTATATTAAAATCAAA
114523016 TATGTTTATATTAAAATCA
1 TATG-TTATATTAAAATCA
114523035 CATTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (20 bp):
TATGTTATATTAAAATCAAA
Found at i:114523081 original size:22 final size:24
Alignment explanation
Indices: 114523040--114523093 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 24
114523030 AATCACATTT
114523040 TAAAACAAAATAATTAATTAAAAA
1 TAAAACAAAATAATTAATTAAAAA
*
114523064 TAAAA-AAAAT-ATTTATT-AAAA
1 TAAAACAAAATAATTAATTAAAAA
*
114523085 TAATACAAA
1 TAAAACAAA
114523094 TGTGTTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 8 0.30
22 9 0.33
23 5 0.19
24 5 0.19
ACGTcount: A:0.69, C:0.04, G:0.00, T:0.28
Consensus pattern (24 bp):
TAAAACAAAATAATTAATTAAAAA
Found at i:114527549 original size:13 final size:14
Alignment explanation
Indices: 114527520--114527549 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
114527510 CTAGAAAAGT
114527520 AAATTATTTTTCAG
1 AAATTATTTTTCAG
114527534 AAATTATTTTTC-G
1 AAATTATTTTTCAG
114527547 AAA
1 AAA
114527550 AATATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (14 bp):
AAATTATTTTTCAG
Found at i:114529194 original size:42 final size:42
Alignment explanation
Indices: 114529125--114529215 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 42
114529115 CTTGGCTGGA
** *
114529125 GAAGAAGTTGGTGCAGAGACAGCAGTTGCAACTGTCCTGGCT
1 GAAGAAGTTGGAACAGAGACAGCAGTTGCAACTGGCCTGGCT
* * * * *
114529167 GGAGAAGTTGGAACAGAGGCAGTAGTTGCCACTGGCTTGGCT
1 GAAGAAGTTGGAACAGAGACAGCAGTTGCAACTGGCCTGGCT
114529209 GAAGAAG
1 GAAGAAG
114529216 AAGGCAATGA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.27, C:0.16, G:0.36, T:0.20
Consensus pattern (42 bp):
GAAGAAGTTGGAACAGAGACAGCAGTTGCAACTGGCCTGGCT
Found at i:114535186 original size:20 final size:21
Alignment explanation
Indices: 114535151--114535191 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
114535141 AGATATGATA
114535151 AAATATAAATATTTTAAATAT
1 AAATATAAATATTTTAAATAT
*
114535172 AAATATAAA-ATTTTATATAT
1 AAATATAAATATTTTAAATAT
114535192 TTGAAATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATATAAATATTTTAAATAT
Found at i:114535202 original size:33 final size:33
Alignment explanation
Indices: 114535168--114535246 Score: 72
Period size: 33 Copynumber: 2.4 Consensus size: 33
114535158 AATATTTTAA
* *
114535168 ATATAAATATAAAAT-TTTATATATTTGAA-ATAA
1 ATATAAATA-AAAATAATTATATACTT-AATATAA
* *
114535201 ATTTTAATAAAAATAATTATATACTTAATATAA
1 ATATAAATAAAAATAATTATATACTTAATATAA
*
114535234 ATATTACATAAAA
1 ATA-TAAATAAAA
114535247 TATATTAAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
32 7 0.19
33 22 0.61
34 7 0.19
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (33 bp):
ATATAAATAAAAATAATTATATACTTAATATAA
Found at i:114535247 original size:33 final size:32
Alignment explanation
Indices: 114535176--114535253 Score: 79
Period size: 33 Copynumber: 2.4 Consensus size: 32
114535166 AAATATAAAT
* * *
114535176 ATAAAAT-TTTATATATTTGAAATAAATTTTA
1 ATAAAATAATTATATACTTGAAATAAATATTA
114535207 ATAAAAATAATTATATACTT-AATATAAATATTA
1 AT-AAAATAATTATATACTTGAA-ATAAATATTA
114535240 CATAAAATATATTA
1 -ATAAAATA-ATTA
114535254 AATTACAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
31 2 0.05
32 7 0.18
33 24 0.62
34 6 0.15
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (32 bp):
ATAAAATAATTATATACTTGAAATAAATATTA
Found at i:114535541 original size:25 final size:24
Alignment explanation
Indices: 114535507--114535553 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
114535497 TGAATTCGTA
* *
114535507 ATGATTATATTTTAATATTAAAAT
1 ATGATTATATATTAAAATTAAAAT
114535531 ATGATTTATATATTAAAATTAAA
1 ATGA-TTATATATTAAAATTAAA
114535554 TTTTTATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
ATGATTATATATTAAAATTAAAAT
Found at i:114535561 original size:19 final size:19
Alignment explanation
Indices: 114535510--114535561 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
114535500 ATTCGTAATG
* *
114535510 ATTATATTTTAATATTAAA
1 ATTAAATTTTTATATTAAA
* *
114535529 A-TATGATTTATATATTAAA
1 ATTA-AATTTTTATATTAAA
114535548 ATTAAATTTTTATA
1 ATTAAATTTTTATA
114535562 AATAAATTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
18 2 0.08
19 22 0.85
20 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (19 bp):
ATTAAATTTTTATATTAAA
Found at i:114536541 original size:20 final size:22
Alignment explanation
Indices: 114536501--114536542 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
114536491 TTTAATCATA
*
114536501 TAATAAATATAATTTATTATTT
1 TAATAAATATAATTTAATATTT
114536523 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
114536543 CAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 1 0.05
22 8 0.42
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
TAATAAATATAATTTAATATTT
Found at i:114536566 original size:13 final size:14
Alignment explanation
Indices: 114536550--114536591 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
114536540 TTTCAATTTT
114536550 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
114536563 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
114536578 ATTTTAAATAATAT
1 ATTTT-AATAATAT
114536592 GATTCAGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:114536576 original size:16 final size:16
Alignment explanation
Indices: 114536554--114536590 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
114536544 AATTTTATTT
114536554 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
114536571 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
114536586 TAATA
1 TAATA
114536591 TGATTCAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:114536643 original size:15 final size:15
Alignment explanation
Indices: 114536623--114536679 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
114536613 ATTCAATATT
114536623 AATATTTTAATAATA
1 AATATTTTAATAATA
*
114536638 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
114536657 AATATATTAATAATA
1 AATATTTTAATAATA
*
114536672 AATGTTTT
1 AATATTTT
114536680 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:114544732 original size:22 final size:24
Alignment explanation
Indices: 114544704--114544748 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
114544694 CGAATACGCC
114544704 AACAGAAGCTCA-AA-AGCTGAAA
1 AACAGAAGCTCATAAGAGCTGAAA
114544726 AACAGAAGCTCATAAGAGCTGAA
1 AACAGAAGCTCATAAGAGCTGAA
114544749 CAGAAGCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.57
23 2 0.10
24 7 0.33
ACGTcount: A:0.51, C:0.18, G:0.20, T:0.11
Consensus pattern (24 bp):
AACAGAAGCTCATAAGAGCTGAAA
Found at i:114544772 original size:22 final size:21
Alignment explanation
Indices: 114544725--114544775 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
114544715 AAAAGCTGAA
*
114544725 AAACAGAAGCTCATAAGAGCT
1 AAACAGAAGCTCATAAGAACT
* **
114544746 GAACAGAAGCTTTGTAAGAACT
1 AAACAGAAGC-TCATAAGAACT
114544768 AAACAGAA
1 AAACAGAA
114544776 AGTGAAACAC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.49, C:0.16, G:0.20, T:0.16
Consensus pattern (21 bp):
AAACAGAAGCTCATAAGAACT
Found at i:114562254 original size:3 final size:3
Alignment explanation
Indices: 114562246--114562275 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
114562236 AAGTGCAAAT
114562246 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
114562276 AACTTACCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:114563422 original size:49 final size:48
Alignment explanation
Indices: 114563331--114563451 Score: 136
Period size: 49 Copynumber: 2.5 Consensus size: 48
114563321 GTTTACAATA
* * *
114563331 GTTATACGGTCACGGGTTGAAGTATAACTAGGGCTTTTAGTTGAAGATG
1 GTTATACGGTCACGGGTTCAAGTATAACTAGGGCTCTCAGTTGAAGA-G
* * *
114563380 GTTATACGGTCACGAGTTCAAGTATAACTTGAGGC-CTCAGTTGATGAG
1 GTTATACGGTCACGGGTTCAAGTATAACTAG-GGCTCTCAGTTGAAGAG
* *
114563428 GATTATGCGGTCATGGGTTCAAGT
1 G-TTATACGGTCACGGGTTCAAGT
114563452 TTCATGCCAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
48 2 0.03
49 56 0.92
50 3 0.05
ACGTcount: A:0.26, C:0.13, G:0.30, T:0.31
Consensus pattern (48 bp):
GTTATACGGTCACGGGTTCAAGTATAACTAGGGCTCTCAGTTGAAGAG
Found at i:114564283 original size:85 final size:85
Alignment explanation
Indices: 114564173--114564331 Score: 228
Period size: 85 Copynumber: 1.9 Consensus size: 85
114564163 AACACTCCAC
* * ** *** *
114564173 ATACTTGTGTTGTTGCAAGTATGTCATAGGATCATTTGAAATTGAATTCTGACTTGATCTCTGAC
1 ATACTTGTGTTATTGCAAGTATGTCACAAAATCATCCAAAATTGAATTCTGACATGATCTCTGAC
114564238 ATTATCTTACTTATTTTTAA
66 ATTATCTTACTTATTTTTAA
* *
114564258 ATACTTGTGTTATTGCAAGTATGTCACAAAATCATCCAAAATTGAATTCTGACATGATTTCTTAC
1 ATACTTGTGTTATTGCAAGTATGTCACAAAATCATCCAAAATTGAATTCTGACATGATCTCTGAC
114564323 ATTATCTTA
66 ATTATCTTA
114564332 TCTATGGTGA
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 64 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (85 bp):
ATACTTGTGTTATTGCAAGTATGTCACAAAATCATCCAAAATTGAATTCTGACATGATCTCTGAC
ATTATCTTACTTATTTTTAA
Found at i:114566195 original size:77 final size:73
Alignment explanation
Indices: 114565997--114566263 Score: 261
Period size: 77 Copynumber: 3.5 Consensus size: 73
114565987 TTTTTGGTAA
* * * * * * *
114565997 ATTGTAAATAAGTATATGTTCTTAATATAAAATACAGTAGAATACTATATAAACAATTTTTTCAT
1 ATTGTAAATAAG-ATATATTATTGATATAAAATACAATAGAATACAATACAAA-AATTTTTT-AA
*
114566062 TTTTTTCGTAG
63 TTTTTTCATAG
* * *** *
114566073 ATTGTAAATAA-ATATTTTATTGAGGA-GGTATACGATAGAATACAATACAAAAATGTTTTTAAT
1 ATTGTAAATAAGATATATTATTGA-TATAAAATACAATAGAATACAATACAAAAAT-TTTTTAAT
114566136 TTTCGTTCATAG
64 TTT--TTCATAG
*
114566148 ATTGTAAATAAGTATATATTATTGATATAAAATACAATAGAATACAATACAAATATTTTTTTAAA
1 ATTGTAAATAAG-ATATATTATTGATATAAAATACAATAGAATACAATACAAA-AATTTTTT--A
114566213 ATTTTTTCATAG
62 ATTTTTTCATAG
* *
114566225 ATTGTAAATAAG-TATATTATTGATGTAAAATACGATAGA
1 ATTGTAAATAAGATATATTATTGATATAAAATACAATAGA
114566264 GAAAATTTTT
Statistics
Matches: 159, Mismatches: 22, Indels: 21
0.79 0.11 0.10
Matches are distributed among these distances:
73 8 0.05
74 32 0.20
75 43 0.27
76 12 0.08
77 56 0.35
78 2 0.01
79 6 0.04
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (73 bp):
ATTGTAAATAAGATATATTATTGATATAAAATACAATAGAATACAATACAAAAATTTTTTAATTT
TTTCATAG
Found at i:114567876 original size:21 final size:21
Alignment explanation
Indices: 114567852--114567896 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
114567842 TTATTTGACA
114567852 TTAAAAGACCCCTAATTAACC
1 TTAAAAGACCCCTAATTAACC
114567873 TTAAAAGACCCCTAATTAACC
1 TTAAAAGACCCCTAATTAACC
114567894 TTA
1 TTA
114567897 GTATGAATGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.42, C:0.27, G:0.04, T:0.27
Consensus pattern (21 bp):
TTAAAAGACCCCTAATTAACC
Found at i:114568428 original size:32 final size:32
Alignment explanation
Indices: 114568391--114568454 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
114568381 CTTAATAATT
114568391 ATATTAATTAAAATAATAATAATATTTTCTTA
1 ATATTAATTAAAATAATAATAATATTTTCTTA
114568423 ATATTAATTAAAATAATAATAATATTTTCTTA
1 ATATTAATTAAAATAATAATAATATTTTCTTA
114568455 CCATTTGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (32 bp):
ATATTAATTAAAATAATAATAATATTTTCTTA
Found at i:114575316 original size:50 final size:50
Alignment explanation
Indices: 114575262--114575358 Score: 167
Period size: 50 Copynumber: 1.9 Consensus size: 50
114575252 CTCCTTGCCC
*
114575262 CTTGACCACATGCCTCTTTTGTGTCACATTTCCTCTTGAAATATTTACCA
1 CTTGACCACATGCCTCTTTTGTGTCACATTTCCTCTCGAAATATTTACCA
* *
114575312 CTTGACCACGTGCCTCTTTTGTGTCACCTTTCCTCTCGAAATATTTA
1 CTTGACCACATGCCTCTTTTGTGTCACATTTCCTCTCGAAATATTTA
114575359 TAAGGCCTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.20, C:0.29, G:0.11, T:0.40
Consensus pattern (50 bp):
CTTGACCACATGCCTCTTTTGTGTCACATTTCCTCTCGAAATATTTACCA
Found at i:114578612 original size:130 final size:131
Alignment explanation
Indices: 114578423--114578788 Score: 331
Period size: 130 Copynumber: 2.8 Consensus size: 131
114578413 CCTGAGTATT
** * * *
114578423 ACCTTCGTATTAAAGGATTTTTAAAAGATGTGAGTGAAATTTTGAAGGGATAGTTGATTATTTTA
1 ACCTTCGTATTAAAGGATTTTTAAAAGACATAAGTGAAATTTTAAAGGGATA-TTGATTACTTTA
* * * *
114578488 AGCAGAC-AAGAAATTGCAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATATCACAC
65 AGCAAACGAA-AAATTACAACCCAACACGTTAGGGCACGATTCCACGAATTACCAAATATCACAC
114578552 ATC
129 ATC
* *
114578555 ACCTTC-TTTTAAGGGA-TTTTAAAAGACATAAGTGAAATTTTAAAGGGACT-TTCGATTACTTT
1 ACCTTCGTATTAAAGGATTTTTAAAAGACATAAGTGAAATTTTAAAGGGA-TATT-GATTACTTT
* *
114578617 GAGCAAACGAAAAATTACAACCCAACACGTTAGGGCACGATTCCACGAATTACCAAGTATCGA-A
64 AAGCAAACGAAAAATTACAACCCAACACGTTAGGGCACGATTCCACGAATTACCAAATATC-ACA
*
114578681 TATC
128 CATC
* ** **** * * *
114578685 GCCTTCGT-TT--AGGATTTAGAAAA-ATGCGAGTGAAATTCTAAAGGAATATTTGATTATTTTG
1 ACCTTCGTATTAAAGGATTTTTAAAAGACATAAGTGAAATTTTAAAGGGATA-TTGATTACTTT-
** * *
114578746 AA-CAAACGGGAAATCGA-AACCCAACACGATAGGGCACGATTCC
64 AAGCAAACGAAAAAT-TACAACCCAACACGTTAGGGCACGATTCC
114578789 CGAGTTTTCA
Statistics
Matches: 194, Mismatches: 30, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
127 1 0.01
128 63 0.32
129 12 0.06
130 99 0.51
131 13 0.07
132 6 0.03
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (131 bp):
ACCTTCGTATTAAAGGATTTTTAAAAGACATAAGTGAAATTTTAAAGGGATATTGATTACTTTAA
GCAAACGAAAAATTACAACCCAACACGTTAGGGCACGATTCCACGAATTACCAAATATCACACAT
C
Found at i:114583406 original size:26 final size:26
Alignment explanation
Indices: 114583370--114583505 Score: 227
Period size: 26 Copynumber: 5.2 Consensus size: 26
114583360 CATGATATTC
114583370 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
114583396 TTATCAAGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
114583422 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
114583448 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
114583474 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
114583500 TTATCA
1 TTATCA
114583506 ATTTGTATCA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 102 1.00
ACGTcount: A:0.38, C:0.25, G:0.05, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:114584328 original size:34 final size:32
Alignment explanation
Indices: 114584285--114584352 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 32
114584275 TTTTCCAAAA
114584285 AATTGGCCCA-CATAGCTGGTAGCCCACACGACCT
1 AATTGGCCCAGCAT-G-T-GTAGCCCACACGACCT
* *
114584319 AATTGGCCCAGCCTGTGTGGCCCACACGACCT
1 AATTGGCCCAGCATGTGTAGCCCACACGACCT
114584351 AA
1 AA
114584353 CACACACCCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 17 0.55
33 1 0.03
34 11 0.35
35 2 0.06
ACGTcount: A:0.25, C:0.35, G:0.22, T:0.18
Consensus pattern (32 bp):
AATTGGCCCAGCATGTGTAGCCCACACGACCT
Found at i:114585568 original size:21 final size:20
Alignment explanation
Indices: 114585538--114585578 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 20
114585528 AATGCAACCA
114585538 AGGGCACACGCCCGTGTGTC
1 AGGGCACACGCCCGTGTGTC
114585558 AGGGCGACACGCCCGTGTGTC
1 AGGGC-ACACGCCCGTGTGTC
114585579 CTCTTAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.15, C:0.34, G:0.37, T:0.15
Consensus pattern (20 bp):
AGGGCACACGCCCGTGTGTC
Found at i:114586958 original size:48 final size:48
Alignment explanation
Indices: 114586736--114586968 Score: 252
Period size: 48 Copynumber: 4.9 Consensus size: 48
114586726 GTAAGATGCT
* * * * * **
114586736 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTAACAAAACC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAAGGCC
* * * * *
114586784 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAAGGCC
* * * *
114586832 GATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCATAATAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAAGGCC
* * * *
114586880 GATGCCATGTTCCA-AGCATGATCTTACACTGGCTCACATATTGAGGCC
1 GATGCCATGTCCCAGA-CATGGTCTTACACTGGCTCACATAATAAGGCC
* *
114586928 GATGCCATGTCCCAGACATGGTCTTACACTGGTTTACATAA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAA
114586969 CCTTAGTATC
Statistics
Matches: 149, Mismatches: 34, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
47 1 0.01
48 147 0.99
49 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCACATAATAAGGCC
Found at i:114586968 original size:96 final size:96
Alignment explanation
Indices: 114586736--114586957 Score: 363
Period size: 96 Copynumber: 2.3 Consensus size: 96
114586726 GTAAGATGCT
* *
114586736 GATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCGTAACAAAACCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAAAACCGATGCCATGTTCCAAAC
*
114586801 ATGGTCTTACACTGGCTCACATATTGAGGCA
66 ATGATCTTACACTGGCTCACATATTGAGGCA
* * ** *
114586832 GATGCCATGTCCCAGACATGGTCTTATACTAGCTCTCATAATAATGCCGATGCCATGTTCCAAGC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAAAACCGATGCCATGTTCCAAAC
*
114586897 ATGATCTTACACTGGCTCACATATTGAGGCC
66 ATGATCTTACACTGGCTCACATATTGAGGCA
114586928 GATGCCATGTCCCAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
114586958 GGTTTACATA
Statistics
Matches: 116, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 116 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.27
Consensus pattern (96 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATAACAAAACCGATGCCATGTTCCAAAC
ATGATCTTACACTGGCTCACATATTGAGGCA
Found at i:114590551 original size:44 final size:45
Alignment explanation
Indices: 114590484--114590591 Score: 112
Period size: 44 Copynumber: 2.4 Consensus size: 45
114590474 TGTCTTTGAC
** * * *
114590484 ATGGACTTACATGAATTATTCCTG-TCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGGCTCAATCCTGCT-TCCAAAGCCATATTATAAT
*
114590528 ATGGACTTACATGGCTCAATCCTGCTTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGCTTCCAAAGCCATA-TTATAAT
* *
114590574 ATGGGCATACATGGCTCA
1 ATGGACTTACATGGCTCA
114590592 TTTCTGTTCT
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
44 31 0.58
45 1 0.02
46 21 0.40
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (45 bp):
ATGGACTTACATGGCTCAATCCTGCTTCCAAAGCCATATTATAAT
Found at i:114597897 original size:44 final size:45
Alignment explanation
Indices: 114597844--114597945 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
114597834 TGTCTTTGAC
* * *
114597844 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
114597888 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
114597934 ATGG-CTTACATG
1 ATGGACTTACATG
114597946 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
44 33 0.66
45 8 0.16
46 9 0.18
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:114606971 original size:46 final size:44
Alignment explanation
Indices: 114606867--114606974 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
114606857 TGTCTTTGAC
** * * *
114606867 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
114606911 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
114606957 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
114606975 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:114614351 original size:46 final size:44
Alignment explanation
Indices: 114614246--114614353 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
114614236 TGTCTTTGGC
** * * *
114614246 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
114614290 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
*
114614336 ATGGGCTTACATGGCTCA
1 ATGGACTTACATGGCTCA
114614354 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 33 0.60
46 22 0.40
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:114616204 original size:2 final size:2
Alignment explanation
Indices: 114616197--114616227 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
114616187 GAGACTAGTC
114616197 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
114616228 CATGTCATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114618263 original size:30 final size:30
Alignment explanation
Indices: 114618229--114618289 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
114618219 TCCTTAACTC
114618229 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
114618259 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
114618289 A
1 A
114618290 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:114620661 original size:2 final size:2
Alignment explanation
Indices: 114620654--114620680 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
114620644 GAGACTAGTC
114620654 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
114620681 CATGTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:114622715 original size:30 final size:30
Alignment explanation
Indices: 114622681--114622741 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
114622671 TCCTTAACTC
114622681 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
114622711 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
114622741 A
1 A
114622742 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:114625063 original size:20 final size:21
Alignment explanation
Indices: 114625038--114625083 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
114625028 TATTAAATAG
*
114625038 ATATTTATTATTTAAA-AAAT
1 ATATTTATTAATTAAATAAAT
*
114625058 ATATTTATTAATTAAATAATT
1 ATATTTATTAATTAAATAAAT
114625079 ATATT
1 ATATT
114625084 ATAAGATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATATTTATTAATTAAATAAAT
Found at i:114625085 original size:20 final size:19
Alignment explanation
Indices: 114625029--114625085 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
114625019 TGTATTTGAT
114625029 ATTAAATAGATAT-TTATTA
1 ATTAAATA-ATATATTATTA
* *
114625048 TTTAAAAAATATATTTATTA
1 ATTAAATAATATA-TTATTA
114625068 ATTAAATAATTATATTAT
1 ATTAAATAA-TATATTAT
114625086 AAGATATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 4 0.13
19 6 0.19
20 17 0.55
21 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
ATTAAATAATATATTATTA
Found at i:114625232 original size:23 final size:22
Alignment explanation
Indices: 114625194--114625239 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 22
114625184 ATATTTACTT
114625194 ATTATATAAGTATATT-AGTAA
1 ATTATATAAGTATATTAAGTAA
*
114625215 ATTATATATATTATTATTAAGTAA
1 ATTATATA-AGTA-TATTAAGTAA
114625239 A
1 A
114625240 AGATATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 8 0.38
22 3 0.14
23 4 0.19
24 6 0.29
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.46
Consensus pattern (22 bp):
ATTATATAAGTATATTAAGTAA
Found at i:114625365 original size:2 final size:2
Alignment explanation
Indices: 114625353--114625387 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
114625343 TTATTATTGT
114625353 TA TA T- 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
114625388 AAGTAAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:114628067 original size:6 final size:6
Alignment explanation
Indices: 114628058--114628082 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
114628048 CCGAAGCCGG
114628058 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
114628083 CGGTACATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:114629275 original size:5 final size:5
Alignment explanation
Indices: 114629265--114629350 Score: 129
Period size: 5 Copynumber: 17.0 Consensus size: 5
114629255 TGTTTCTTTT
114629265 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA-A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
* *
114629314 TATAAGA ATATA ATATA ATATA ACATA ATATA ATATA
1 -AT-ATA ATATA ATATA ATATA ATATA ATATA ATATA
114629351 CTTAATTATT
Statistics
Matches: 75, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
4 1 0.01
5 70 0.93
6 3 0.04
7 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (5 bp):
ATATA
Found at i:114633561 original size:27 final size:27
Alignment explanation
Indices: 114633512--114633652 Score: 171
Period size: 27 Copynumber: 5.2 Consensus size: 27
114633502 GTGACGAAGT
114633512 CACCAGATACAGATAT-TGTGGCAGAGC
1 CACCAGA-ACAGATATATGTGGCAGAGC
* * *
114633539 CACTAAAACAAATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
114633566 CACCAGATCAGATA-ATCGTGGCATAGC
1 CACCAGAACAGATATAT-GTGGCAGAGC
114633593 CACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAACAGATATATGTGGCAGAGC
* *
114633620 CACCAGATCAGATA-ATTGTGGCATAGC
1 CACCAGAACAGATATA-TGTGGCAGAGC
114633647 CACCAG
1 CACCAG
114633653 GACGCTTCCT
Statistics
Matches: 98, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
26 10 0.10
27 86 0.88
28 2 0.02
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (27 bp):
CACCAGAACAGATATATGTGGCAGAGC
Found at i:114633652 original size:54 final size:54
Alignment explanation
Indices: 114633512--114633652 Score: 221
Period size: 54 Copynumber: 2.6 Consensus size: 54
114633502 GTGACGAAGT
* * *
114633512 CACCAGATACAGAT-ATTGTGGCAGAGCCACTAAAACAAATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAAATATATGTGGCAGAGC
* *
114633566 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAAATATATGTGGCAGAGC
114633620 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
114633653 GACGCTTCCT
Statistics
Matches: 80, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
53 5 0.06
54 75 0.94
ACGTcount: A:0.36, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAAATATATGTGGCAGAGC
Found at i:114635253 original size:26 final size:26
Alignment explanation
Indices: 114635222--114635329 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
114635212 TGAAATGCCC
*
114635222 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
114635248 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
114635274 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
114635300 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
114635326 ATCA
1 ATCA
114635330 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:114640594 original size:27 final size:27
Alignment explanation
Indices: 114640546--114640704 Score: 175
Period size: 27 Copynumber: 5.9 Consensus size: 27
114640536 GCGAGGCTGC
* *
114640546 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
114640573 CAGATATTGTGGCAGAGCCACCA-AAA
1 CAGATATTGTGGCAGAGCCACCAGATA
*
114640599 CAGATATATGTGGTAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
114640626 CAGATAATCGTGGCATAGCCACCAGA-A
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
114640653 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
114640680 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
114640705 GACGCTTCCT
Statistics
Matches: 113, Mismatches: 11, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
26 11 0.10
27 96 0.85
28 6 0.05
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:114640704 original size:54 final size:54
Alignment explanation
Indices: 114640564--114640704 Score: 230
Period size: 54 Copynumber: 2.6 Consensus size: 54
114640554 GTGACGAAGT
* * *
114640564 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAAAACAGATATATGTGGTAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
114640618 CACCAGATCAGATAATCGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
114640672 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
114640705 GACGCTTCCT
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 5 0.06
54 76 0.94
ACGTcount: A:0.35, C:0.23, G:0.23, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:114642308 original size:26 final size:26
Alignment explanation
Indices: 114642277--114642384 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
114642267 TGAAATGCCC
*
114642277 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
114642303 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
114642329 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
114642355 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
114642381 ATCA
1 ATCA
114642385 ATTTGTATCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:114645119 original size:60 final size:59
Alignment explanation
Indices: 114644992--114645130 Score: 147
Period size: 60 Copynumber: 2.3 Consensus size: 59
114644982 TTTAGTGTTA
* * * *
114644992 ACTGGGCATTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTAACAGAGTAT
1 ACTGGGC-CTAGCCCATATCAATATCAATCTAGGCCATAGCCCATTACAGT-ACAGAGTAT
* *
114645053 ACTGGGCCTAGCCCATATCAGTATCAATCTAGGCCGTAGCCCTATTACAAGT-C-GAGATAT
1 ACTGGGCCTAGCCCATATCAATATCAATCTAGGCCATAGCCC-ATTAC-AGTACAGAG-TAT
* *
114645113 ATTGGGCCTTGCCCATAT
1 ACTGGGCCTAGCCCATAT
114645131 TGAAACAGTT
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
59 3 0.04
60 50 0.75
61 11 0.16
62 3 0.04
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (59 bp):
ACTGGGCCTAGCCCATATCAATATCAATCTAGGCCATAGCCCATTACAGTACAGAGTAT
Found at i:114645773 original size:8 final size:8
Alignment explanation
Indices: 114645760--114645789 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
114645750 ACAAATGCCA
114645760 GCTTTTCG
1 GCTTTTCG
*
114645768 GCTTTTTG
1 GCTTTTCG
114645776 GCTTTTCG
1 GCTTTTCG
114645784 GCTTTT
1 GCTTTT
114645790 GCCGATCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.23, T:0.57
Consensus pattern (8 bp):
GCTTTTCG
Found at i:114647852 original size:19 final size:18
Alignment explanation
Indices: 114647815--114647858 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
114647805 ATACATGCAG
114647815 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
114647832 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
114647851 TACTAATT
1 TAATAATT
114647859 AAAATTTTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:114649436 original size:6 final size:6
Alignment explanation
Indices: 114649427--114649451 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
114649417 CCGAAGCCGG
114649427 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
114649452 CGGTACACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:114650646 original size:5 final size:5
Alignment explanation
Indices: 114650636--114650713 Score: 142
Period size: 5 Copynumber: 16.0 Consensus size: 5
114650626 TTTCTTTTAT
114650636 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
114650686 ATATA ATAT- A-ATA ATATA ATATA ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA
114650714 CTTAATTATT
Statistics
Matches: 71, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
3 2 0.03
4 2 0.03
5 67 0.94
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:114658795 original size:13 final size:13
Alignment explanation
Indices: 114658777--114658804 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
114658767 GTTGTTCATA
114658777 ATTAATATGAATT
1 ATTAATATGAATT
114658790 ATTAATATGAATT
1 ATTAATATGAATT
114658803 AT
1 AT
114658805 AGACTCGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTAATATGAATT
Found at i:114667714 original size:15 final size:15
Alignment explanation
Indices: 114667681--114667718 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
114667671 ATGTGATATT
*
114667681 TAATAA-TATAATAA
1 TAATAATTATAAGAA
*
114667695 AAATAATTATAAGAA
1 TAATAATTATAAGAA
114667710 TAATAATTA
1 TAATAATTA
114667719 CATAAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
14 5 0.25
15 15 0.75
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (15 bp):
TAATAATTATAAGAA
Found at i:114668023 original size:19 final size:18
Alignment explanation
Indices: 114667991--114668030 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
114667981 TAATATATAG
*
114667991 ATAAAAATGGATAATAAT
1 ATAAAAATGCATAATAAT
114668009 ATAAAAATGACATAATAAT
1 ATAAAAATG-CATAATAAT
114668028 ATA
1 ATA
114668031 TAATATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.62, C:0.03, G:0.07, T:0.28
Consensus pattern (18 bp):
ATAAAAATGCATAATAAT
Found at i:114668050 original size:18 final size:18
Alignment explanation
Indices: 114668023--114668142 Score: 101
Period size: 18 Copynumber: 6.7 Consensus size: 18
114668013 AAATGACATA
114668023 ATAATATATAATATAATT
1 ATAATATATAATATAATT
* *
114668041 ATAATGTATAATATAAAGGT
1 ATAATATATAATAT-AA-TT
114668061 AT-ATATAT-ATATAA--
1 ATAATATATAATATAATT
114668075 ATAATATATAATATAATT
1 ATAATATATAATATAATT
*
114668093 AATAAATATATAATATAATA
1 -AT-AATATATAATATAATT
114668113 AT-ATATA-AATAATAATGT
1 ATAATATATAAT-ATAAT-T
*
114668131 AAAATA-ATAATA
1 ATAATATATAATA
114668143 ATTTATGAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 24
0.74 0.05 0.21
Matches are distributed among these distances:
14 2 0.02
15 6 0.07
16 9 0.11
17 12 0.14
18 20 0.24
19 17 0.20
20 18 0.21
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
ATAATATATAATATAATT
Found at i:114668123 original size:11 final size:11
Alignment explanation
Indices: 114668067--114668126 Score: 70
Period size: 11 Copynumber: 5.3 Consensus size: 11
114668057 AGGTATATAT
114668067 ATATATAAATA
1 ATATATAAATA
114668078 ATATATAATATA
1 ATATATAA-ATA
114668090 AT-TAATAAAT-
1 ATAT-ATAAATA
114668100 ATATAATATAATA
1 ATAT-ATA-AATA
114668113 ATATATAAATA
1 ATATATAAATA
114668124 ATA
1 ATA
114668127 ATGTAAAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
10 2 0.05
11 23 0.52
12 15 0.34
13 4 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
ATATATAAATA
Found at i:114668123 original size:27 final size:27
Alignment explanation
Indices: 114667972--114668142 Score: 92
Period size: 27 Copynumber: 6.5 Consensus size: 27
114667962 TTAAAACCTT
*
114667972 TAATGATAATAATATATAGATAAA-A-A
1 TAAT-ATAATAATATATAAATAAATATA
** * *
114667998 T-GGATAATAATATAAAAATGACATA-A
1 TAATATAATAATATATAAAT-AAATATA
* *
114668024 TAATAT-AT-A-ATATAATTATAATGTA
1 TAATATAATAATATATAAATA-AATATA
* * * *
114668049 TAATATAA-AGGTATATATATATATAAA
1 TAATATAATA-ATATATAAATAAATATA
*
114668076 TAATAT-ATAATATAATTAATAAATATA
1 TAATATAATAATAT-ATAAATAAATATA
*
114668103 TAATATAATAATATATAAAT-AATAATG
1 TAATATAATAATATATAAATAAAT-ATA
*
114668130 TAAAATAATAATA
1 TAATATAATAATA
114668143 ATTTATGAAA
Statistics
Matches: 107, Mismatches: 25, Indels: 25
0.68 0.16 0.16
Matches are distributed among these distances:
23 1 0.01
24 22 0.21
25 10 0.09
26 14 0.13
27 46 0.43
28 14 0.13
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (27 bp):
TAATATAATAATATATAAATAAATATA
Found at i:114668124 original size:19 final size:19
Alignment explanation
Indices: 114668001--114668126 Score: 87
Period size: 19 Copynumber: 7.1 Consensus size: 19
114667991 ATAAAAATGG
* * *
114668001 ATAATAATATAAAAATGAC
1 ATAATAATATATAAATAAT
114668020 ATAATAATATATAATATAAT
1 ATAATAATATATAA-ATAAT
*
114668040 -T-ATAATGTAT-AAT-AT
1 ATAATAATATATAAATAAT
*
114668055 A-AAGGT-ATATATATAT-AT
1 ATAA--TAATATATAAATAAT
114668073 A-AATAATATATAATATAAT
1 ATAATAATATATAA-ATAAT
114668092 -TAATAA-ATAT--ATAAT
1 ATAATAATATATAAATAAT
114668107 ATAATAATATATAAATAAT
1 ATAATAATATATAAATAAT
114668126 A
1 A
114668127 ATGTAAAATA
Statistics
Matches: 86, Mismatches: 7, Indels: 28
0.71 0.06 0.23
Matches are distributed among these distances:
15 7 0.08
16 10 0.12
17 17 0.20
18 22 0.26
19 27 0.31
20 3 0.03
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (19 bp):
ATAATAATATATAAATAAT
Found at i:114668126 original size:30 final size:31
Alignment explanation
Indices: 114668048--114668144 Score: 96
Period size: 31 Copynumber: 3.2 Consensus size: 31
114668038 ATTATAATGT
*
114668048 ATAATATAAAGGTATATATATATATAA-ATAATA
1 ATAATATAAA--TA-ATAAATATATAATATAATA
*
114668081 TATAATATAATTAATAAATATATAATATAATA
1 -ATAATATAAATAATAAATATATAATATAATA
*
114668113 AT-ATATAAATAAT-AATGTA-AA-ATAATA
1 ATAATATAAATAATAAATATATAATATAATA
114668140 ATAAT
1 ATAAT
114668145 TTATGAAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
27 8 0.14
28 4 0.07
29 5 0.09
30 10 0.18
31 13 0.23
32 8 0.14
34 9 0.16
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (31 bp):
ATAATATAAATAATAAATATATAATATAATA
Found at i:114668139 original size:52 final size:52
Alignment explanation
Indices: 114668022--114668127 Score: 144
Period size: 54 Copynumber: 2.0 Consensus size: 52
114668012 AAAATGACAT
* * *
114668022 AATAATATATAATATAATTATAATGTATAATATAAAGGTATATATATATATA
1 AATAATATATAATATAATTATAATATATAATATAAAGATATATAAATATATA
114668074 AATAATATATAATATAATTAATAAATATATAATATAATA-ATATATAAATA-ATA
1 AATAATATATAATATAATT-AT-AATATATAATATAA-AGATATATAAATATATA
114668127 A
1 A
114668128 TGTAAAATAA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
52 19 0.40
53 6 0.12
54 22 0.46
55 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (52 bp):
AATAATATATAATATAATTATAATATATAATATAAAGATATATAAATATATA
Found at i:114668142 original size:35 final size:36
Alignment explanation
Indices: 114668021--114668125 Score: 114
Period size: 35 Copynumber: 3.0 Consensus size: 36
114668011 AAAAATGACA
*
114668021 TAAT-AATATATAATATAATTATAATGTATAATATAA-
1 TAATAAATATATAATATAA--ATAATATATAATATAAT
* *
114668057 -AGGTATATATAT-ATATAAATAATATATAATATAAT
1 TA-ATAAATATATAATATAAATAATATATAATATAAT
114668092 TAATAAATATATAATAT-AATAATATATAA-ATAAT
1 TAATAAATATATAATATAAATAATATATAATATAAT
114668126 AATGTAAAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 12
0.78 0.07 0.16
Matches are distributed among these distances:
34 20 0.34
35 21 0.36
36 12 0.20
37 6 0.10
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (36 bp):
TAATAAATATATAATATAAATAATATATAATATAAT
Found at i:114668157 original size:30 final size:30
Alignment explanation
Indices: 114668107--114668174 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 30
114668097 AATATATAAT
*
114668107 ATAATAATATATAAATAATAATGTAAAATA
1 ATAATAATATATAAATAATAATGCAAAATA
* *
114668137 ATAATAATTTATGAAA-AATAATGCATAATA
1 ATAATAATATAT-AAATAATAATGCAAAATA
114668167 ATTAATAA
1 A-TAATAA
114668175 ATTAATTATA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 24 0.73
31 9 0.27
ACGTcount: A:0.60, C:0.01, G:0.04, T:0.34
Consensus pattern (30 bp):
ATAATAATATATAAATAATAATGCAAAATA
Found at i:114669643 original size:18 final size:18
Alignment explanation
Indices: 114669620--114669667 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
114669610 GGCTATTACA
*
114669620 ACTGTTACTGAATAAATG
1 ACTGTTACTAAATAAATG
114669638 ACTGTTACTAAAT-AATCG
1 ACTGTTACTAAATAAAT-G
114669656 ACTGTTACTAAA
1 ACTGTTACTAAA
114669668 CAATTGATCG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 3 0.11
18 25 0.89
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (18 bp):
ACTGTTACTAAATAAATG
Found at i:114670672 original size:6 final size:6
Alignment explanation
Indices: 114670661--114670749 Score: 85
Period size: 6 Copynumber: 15.3 Consensus size: 6
114670651 CATTTATCAC
* *
114670661 TTATTT TTA-TT TTA-TT TTA-TT TTATTT TTATTT TTAGTT TTAGTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
* * * * **
114670706 TTAGTT TTAGTT TTATTT CTATTT TTATGT TTATGG TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TT
114670750 TAGACTTATT
Statistics
Matches: 74, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
5 15 0.20
6 59 0.80
ACGTcount: A:0.17, C:0.01, G:0.08, T:0.74
Consensus pattern (6 bp):
TTATTT
Found at i:114675869 original size:33 final size:34
Alignment explanation
Indices: 114675791--114675872 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 34
114675781 CTATGGGCTA
114675791 TACTATTATCTGAATAAGGGGCTAAGGCCTAGTT
1 TACTATTATCTGAATAAGGGGCTAAGGCCTAGTT
* * * **
114675825 TAATCTAATCTGAA-AA-GGGCTCTGGCCTAGTAT
1 TACTATTATCTGAATAAGGGGCTAAGGCCTAGT-T
*
114675858 TACTGTTATCTGAAT
1 TACTATTATCTGAAT
114675873 GGGTTTAGGC
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
32 13 0.34
33 14 0.37
34 11 0.29
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.34
Consensus pattern (34 bp):
TACTATTATCTGAATAAGGGGCTAAGGCCTAGTT
Found at i:114680775 original size:29 final size:27
Alignment explanation
Indices: 114680736--114680832 Score: 130
Period size: 27 Copynumber: 3.7 Consensus size: 27
114680726 CACTTTGTGC
114680736 TATTCTGGTGTGTTTTGGATGGATTATA
1 TATTCTGGTGTGTTTTGGA-GGATTATA
*
114680764 TTATTCTGGTGTGTTTGGGAGGATTATA
1 -TATTCTGGTGTGTTTTGGAGGATTATA
*
114680792 TATACTGGTGTGTTTTGGAGGA-T-TA
1 TATTCTGGTGTGTTTTGGAGGATTATA
114680817 TA--CTGGTGTGTTTTGG
1 TATTCTGGTGTGTTTTGG
114680833 TTGGACATTT
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.22
25 4 0.06
26 1 0.02
27 20 0.31
28 8 0.12
29 18 0.28
ACGTcount: A:0.16, C:0.04, G:0.32, T:0.47
Consensus pattern (27 bp):
TATTCTGGTGTGTTTTGGAGGATTATA
Found at i:114680830 original size:23 final size:24
Alignment explanation
Indices: 114680740--114680832 Score: 98
Period size: 23 Copynumber: 3.6 Consensus size: 24
114680730 TTGTGCTATT
114680740 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
114680767 TTCTGGTGTGTTTGGGAGGATTATATATA
1 --CTGGTGTGTTTTGGAGG---ATATATA
114680796 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
114680819 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
114680833 TTGGACATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 12
0.81 0.03 0.16
Matches are distributed among these distances:
23 18 0.31
24 2 0.03
27 16 0.27
28 2 0.03
29 16 0.27
30 4 0.07
31 1 0.02
ACGTcount: A:0.16, C:0.04, G:0.33, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:114682087 original size:8 final size:8
Alignment explanation
Indices: 114682074--114682106 Score: 59
Period size: 8 Copynumber: 4.2 Consensus size: 8
114682064 ATGAAAATTT
114682074 ATAAAAAA
1 ATAAAAAA
114682082 AT-AAAAA
1 ATAAAAAA
114682089 ATAAAAAA
1 ATAAAAAA
114682097 ATAAAAAA
1 ATAAAAAA
114682105 AT
1 AT
114682107 GATAATTGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (8 bp):
ATAAAAAA
Found at i:114682094 original size:15 final size:15
Alignment explanation
Indices: 114682074--114682104 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
114682064 ATGAAAATTT
114682074 ATAAAAAAATAAAAA
1 ATAAAAAAATAAAAA
114682089 ATAAAAAAATAAAAA
1 ATAAAAAAATAAAAA
114682104 A
1 A
114682105 ATGATAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (15 bp):
ATAAAAAAATAAAAA
Found at i:114683967 original size:16 final size:16
Alignment explanation
Indices: 114683946--114683979 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
114683936 TATAATGTCT
114683946 AGAAAAGTATTAATTG
1 AGAAAAGTATTAATTG
* *
114683962 AGAAAATTTTTAATTG
1 AGAAAAGTATTAATTG
114683978 AG
1 AG
114683980 GGCTAATTGA
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:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (16 bp):
AGAAAAGTATTAATTG
Found at i:114689418 original size:24 final size:24
Alignment explanation
Indices: 114689391--114689488 Score: 126
Period size: 24 Copynumber: 4.0 Consensus size: 24
114689381 AAGGCTGTCA
* *
114689391 GGAGAAAATTTAAGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
114689415 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
114689439 GGA-AAGGATTTAGGACCTGATAAA
1 GGAGAA-GATTTAGGAGCTGATAAG
114689463 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
114689488 G
1 G
114689489 AGCAGGAGTT
Statistics
Matches: 63, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
23 1 0.02
24 57 0.90
25 5 0.08
ACGTcount: A:0.39, C:0.06, G:0.35, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:114691183 original size:33 final size:33
Alignment explanation
Indices: 114691106--114691186 Score: 85
Period size: 33 Copynumber: 2.4 Consensus size: 33
114691096 TATGGGCCAT
*
114691106 ACTGTTATCTGAATAAGGGGCTAAGGCCCAGTTT
1 ACTGTTATCTGAATAAGGGGCT-AGGCCCAGTTC
* * *
114691140 AATGTAATCTGAA-AAGGGATCT-GGCCCAGTATC
1 ACTGTTATCTGAATAAGGG-GCTAGGCCCAGT-TC
114691173 ACTGTTATCTGAAT
1 ACTGTTATCTGAAT
114691187 GGGCTTAGGA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
32 8 0.21
33 17 0.45
34 13 0.34
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (33 bp):
ACTGTTATCTGAATAAGGGGCTAGGCCCAGTTC
Found at i:114693557 original size:32 final size:32
Alignment explanation
Indices: 114693521--114693588 Score: 102
Period size: 32 Copynumber: 2.1 Consensus size: 32
114693511 AGGGACACGA
*
114693521 CCGTGTGCCACGCTC-GTGTGAAGGTGCTCAAG
1 CCGTGTACCACGC-CAGTGTGAAGGTGCTCAAG
*
114693553 CCGTGTACCACGCCAGTGTGAAGGTGCTCAGG
1 CCGTGTACCACGCCAGTGTGAAGGTGCTCAAG
114693585 CCGT
1 CCGT
114693589 ATGCAATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 1 0.03
32 32 0.97
ACGTcount: A:0.16, C:0.29, G:0.34, T:0.21
Consensus pattern (32 bp):
CCGTGTACCACGCCAGTGTGAAGGTGCTCAAG
Found at i:114697446 original size:186 final size:184
Alignment explanation
Indices: 114697119--114697580 Score: 636
Period size: 186 Copynumber: 2.5 Consensus size: 184
114697109 TAACAAAAAA
*
114697119 TTTTCTCTCATTTTCTCTCTTGCCAAACACCACTTTTTTTTTCTTCAAAACACATGGTTGGCTCA
1 TTTTCTCTCATTTTCTCTCTTGCC-AA-A-CACTTTTTTTTTCTTCAAAACATATGGTT-GCTCA
*
114697184 TTTCATCTACAAGAATTTCCATTACCATGATTATAATCATGTTTTTGTGTAATTTTTGTAAACCC
62 TTTCATCTACAAGAATTTCCATTACCATGATTATAATCATGCTTTTGTGTAATTTTTGTAAACCC
* * *
114697249 ACACCACACTTTCAGCTTAAAATCATTGTTTCCCCCCCCCCAATGTCGGTTACCATTT
127 ACACCACACTTTCAACTTAAAATCATTGTTTCCCCCCCCCCAATATCGGCTACCATTT
* *
114697307 TTTTCTTTCATTTTCTCTCTTGCCAAACACTGTTTTTTTTCTTCTAAACATATGGTTAGCTCATT
1 TTTTCTCTCATTTTCTCTCTTGCCAAACACT-TTTTTTTTCTTCAAAACATATGGTT-GCTCATT
* * **
114697372 TCATCTACAAGAATTTCTATTACCATGATTATAATCATGCTTTTGTGTGATTTTTGTAAACTGAC
64 TCATCTACAAGAATTTCCATTACCATGATTATAATCATGCTTTTGTGTAATTTTTGTAAACCCAC
* **** * * *
114697437 ACTACACTTTCAACTTAAAATCATTGTTTTTTTCCCTCCACTATCGGCTGCCATTT
129 ACCACACTTTCAACTTAAAATCATTGTTTCCCCCCCCCCAATATCGGCTACCATTT
* * * *
114697493 TTTTCTCTCATTTTCTCTCTTTCCAAACACAATTTTTCTTCTTCAAAACATATGGTTGACTTATT
1 TTTTCTCTCATTTTCTCTCTTGCCAAACAC-TTTTTTTTTCTTCAAAACATATGGTTG-CTCATT
*
114697558 TCATCTACAATAATTTCCATTAC
64 TCATCTACAAGAATTTCCATTAC
114697581 TGATAAACCA
Statistics
Matches: 243, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
185 5 0.02
186 213 0.88
187 2 0.01
188 23 0.09
ACGTcount: A:0.24, C:0.24, G:0.08, T:0.44
Consensus pattern (184 bp):
TTTTCTCTCATTTTCTCTCTTGCCAAACACTTTTTTTTTCTTCAAAACATATGGTTGCTCATTTC
ATCTACAAGAATTTCCATTACCATGATTATAATCATGCTTTTGTGTAATTTTTGTAAACCCACAC
CACACTTTCAACTTAAAATCATTGTTTCCCCCCCCCCAATATCGGCTACCATTT
Found at i:114697836 original size:30 final size:30
Alignment explanation
Indices: 114697802--114697875 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
114697792 CGAGTAAACT
114697802 ACACGCCCGTGTGTGACACACGGACAGGCC
1 ACACGCCCGTGTGTGACACACGGACAGGCC
* * **
114697832 ACACGCCCTTGTGTGATACACGGGTAGGCC
1 ACACGCCCGTGTGTGACACACGGACAGGCC
114697862 ACACGCCCGTGTGT
1 ACACGCCCGTGTGT
114697876 CATGGCCGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.20, C:0.34, G:0.30, T:0.16
Consensus pattern (30 bp):
ACACGCCCGTGTGTGACACACGGACAGGCC
Found at i:114704325 original size:15 final size:14
Alignment explanation
Indices: 114704307--114704337 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
114704297 TTTAAGTCCA
114704307 TTTATTTTATTTCTT
1 TTTATTTTATTT-TT
114704322 TTTATTTTATTTTT
1 TTTATTTTATTTTT
114704336 TT
1 TT
114704338 CTTAAGACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTATTTTATTTTT
Found at i:114707976 original size:21 final size:22
Alignment explanation
Indices: 114707947--114707987 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
114707937 GAGGGAAGAA
*
114707947 GAAATAAAATG-GAAATAAAAT
1 GAAAAAAAATGTGAAATAAAAT
*
114707968 GAAAAAAAATGTTAAATAAA
1 GAAAAAAAATGTGAAATAAA
114707988 TGACATCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (22 bp):
GAAAAAAAATGTGAAATAAAAT
Found at i:114713256 original size:2 final size:2
Alignment explanation
Indices: 114713249--114713288 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
114713239 AAATAAATGA
114713249 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114713289 TAAAATGTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:114714046 original size:20 final size:20
Alignment explanation
Indices: 114714004--114714047 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
114713994 TAAAAAATAA
*
114714004 AATTCAATTCTATAGAATTT
1 AATTCAATTCTAAAGAATTT
*
114714024 AATTCAATT-TAAATAATTAT
1 AATTCAATTCTAAAGAATT-T
114714044 AATT
1 AATT
114714048 TTTAACTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (20 bp):
AATTCAATTCTAAAGAATTT
Found at i:114716320 original size:3 final size:3
Alignment explanation
Indices: 114716312--114716351 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
114716302 GGCAATAGGA
114716312 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
114716352 TTTTGATGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:114718176 original size:12 final size:12
Alignment explanation
Indices: 114718159--114718183 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
114718149 TGGAAAAAAT
114718159 GGAAGTGGAAGC
1 GGAAGTGGAAGC
114718171 GGAAGTGGAAGC
1 GGAAGTGGAAGC
114718183 G
1 G
114718184 AATTTCTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.52, T:0.08
Consensus pattern (12 bp):
GGAAGTGGAAGC
Done.