Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 111 of 290
Found at i:37766767 original size:101 final size:98
Alignment explanation
Indices: 37766582--37766957 Score: 356
Period size: 92 Copynumber: 3.9 Consensus size: 98
37766572 AAAACAGATT
** * *
37766582 TTGAAAATACCTCAGTATGTGACCCGAGGCTCAACTCACCTCTCGAAATATGAGTTGA--TTTTT
1 TTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
37766645 G-CAAAGCATAAATTGAAAAAAAAAAGAAAAAACATCAA
66 GACAAA-CATAAATTG--AAAAAAAA-AAAAAACA--AA
* *
37766683 TTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT
1 TTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
37766748 GACAAACATAAATTG----AAAAAAAAAAGAAA
66 GACAAACATAAATTGAAAAAAAAAAAAAACAAA
* *
37766777 TTGAAAATACCTCAGCGTGT--CCTGAGGCTGAACTCACCTCTTGCAATATGAGTTGATTTTTTT
1 TTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * * *
37766840 GGAAAAACA-AAATTTG-------AAAAACAGAAT
66 -GACAAACATAAA-TTGAAAAAAAAAAAAAACAAA
** * * *
37766867 TTGAAAATACCTCAGCGTGTGAATTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTT
1 TTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
* * *
37766932 GA-AACACAGAAATTGAAGAACAAAAA
66 GACAA-ACATAAATTGAAAAAAAAAAA
37766958 TGGAAAACAC
Statistics
Matches: 238, Mismatches: 21, Indels: 35
0.81 0.07 0.12
Matches are distributed among these distances:
90 31 0.13
91 8 0.03
92 82 0.34
93 10 0.04
94 21 0.09
96 7 0.03
97 4 0.02
98 4 0.02
101 52 0.22
103 15 0.06
104 4 0.02
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.26
Consensus pattern (98 bp):
TTGAAAATACCTCAGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
GACAAACATAAATTGAAAAAAAAAAAAAACAAA
Found at i:37766827 original size:92 final size:91
Alignment explanation
Indices: 37766681--37767037 Score: 424
Period size: 92 Copynumber: 3.9 Consensus size: 91
37766671 AAAAAACATC
*
37766681 AATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
1 AATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
*
37766746 TTGACAA-ACATAAATTGAAAAAAAAAAGA
65 TTGA-AACACAGAAATTG--AAAAAAAAGA
* * *
37766775 AATTGAAAATACCTCAGCGTGT-CCTGAGGCTGAACTCACCTCTTGCAATATGAGTTGATTTTTT
1 AATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
* *
37766839 TGGAAAAACA-AAATTTG-AAAAACAGA
66 T-GAAACACAGAAA-TTGAAAAAAAAGA
* ** * *
37766865 ATTTGAAAATACCTCAGCGTGTGAATTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTT
1 AATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTT
* *
37766930 TTGAAACACAGAAATTGAAGAACAA-A
65 TTGAAACACAGAAATTGAAAAAAAAGA
* * * *
37766956 AATGGAAAACACCTCAGC--GT-CTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
1 AATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
*
37767018 TGAAAGACAGAAATTGAAAA
66 TGAAACACAGAAATTGAAAA
37767038 TACCTCAACG
Statistics
Matches: 230, Mismatches: 26, Indels: 21
0.83 0.09 0.08
Matches are distributed among these distances:
87 56 0.24
89 2 0.01
90 29 0.13
91 26 0.11
92 88 0.38
93 8 0.03
94 21 0.09
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.27
Consensus pattern (91 bp):
AATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTT
TGAAACACAGAAATTGAAAAAAAAGA
Found at i:37766873 original size:13 final size:14
Alignment explanation
Indices: 37766841--37766873 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
37766831 GATTTTTTTG
37766841 GAAAAACAAAATTT
1 GAAAAACAAAATTT
*
37766855 GAAAAACAGAATTT
1 GAAAAACAAAATTT
37766869 GAAAA
1 GAAAA
37766874 TACCTCAGCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.12, T:0.18
Consensus pattern (14 bp):
GAAAAACAAAATTT
Found at i:37766888 original size:184 final size:178
Alignment explanation
Indices: 37766683--37767037 Score: 480
Period size: 184 Copynumber: 2.0 Consensus size: 178
37766673 AAAACATCAA
* * * *
37766683 TTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCACCTCTCGCAATATGAGCTGATTTTTTT
1 TTGAAAATACCTCAGCGTGTGAACTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTT
* * * *
37766748 GACAA-ACATAAATTGAAAAAAAAAAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTGAACTC
66 GA-AACACAGAAATTG--AAAAAAAA-AAATGGAAAACACCTCAGC--GTCCTGAGGCTCAACTC
* *
37766812 ACCTCTTGCAATATGAGTTGATTTTTTTGGAAAAACA-AAATTTGAAAAACAGAAT
125 ACCTCTCGCAATATGAGCTGATTTTTTT-GAAAAACAGAAA-TTGAAAAACAGAAT
*
37766867 TTGAAAATACCTCAGCGTGTGAATTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTT
1 TTGAAAATACCTCAGCGTGTGAACTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTT
* * * *
37766932 GAAACACAGAAATTGAAGAACAAAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCT
66 GAAACACAGAAATTGAAAAAAAAAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTCACCTCT
*
37766997 CGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAA
131 CGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAA
37767038 TACCTCAACG
Statistics
Matches: 153, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
178 14 0.09
179 43 0.28
181 17 0.11
182 6 0.04
183 2 0.01
184 71 0.46
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (178 bp):
TTGAAAATACCTCAGCGTGTGAACTAAGGCTCAACTCACCACTCGCAATATGAGCTGATTTTTTT
GAAACACAGAAATTGAAAAAAAAAAATGGAAAACACCTCAGCGTCCTGAGGCTCAACTCACCTCT
CGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAAACAGAAT
Found at i:37767065 original size:75 final size:75
Alignment explanation
Indices: 37766974--37767321 Score: 427
Period size: 77 Copynumber: 4.6 Consensus size: 75
37766964 ACACCTCAGC
* *
37766974 GTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAGACAGAAATTGAAAAT
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAAT
37767039 ACCTCAACGT
66 ACCTCAACGT
* * * * * *
37767049 GTCTTGAGGCTCAACTCACTTCTTGCAGTATGAGTTGA--ATTTT-CAA-ACAGAAA-TAAAAAT
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAA-
* *
37767109 TATCTCAGCGT
65 TACCTCAACGT
***
37767120 GTCCCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAA
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAGACAGAAATTGAAA
* *
37767185 TTACCTCAGCGT
64 ATACCTCAACGT
* *
37767197 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAAT
1 GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAAT
37767262 ACCTCAACGT
66 ACCTCAACGT
** * *
37767272 GTCAGTCAAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAA
1 GTC--TTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA
37767322 CCATAGAAAT
Statistics
Matches: 232, Mismatches: 31, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
70 5 0.02
71 48 0.21
72 2 0.01
73 4 0.02
75 74 0.32
76 2 0.01
77 93 0.40
78 4 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (75 bp):
GTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAGACAGAAATTGAAAAT
ACCTCAACGT
Found at i:37767519 original size:75 final size:75
Alignment explanation
Indices: 37767337--37768169 Score: 893
Period size: 75 Copynumber: 10.8 Consensus size: 75
37767327 GAAATTAAAG
* *
37767337 AACAGAAATGGAAAATACCTCAGCGTATGACCC-GAGGCTCAACTCACCTCTT-GCAATATGAGT
1 AACAGAAATTGAAAATACCTCAGCG--TG-CCCTTAGGCTCAACTCACCT-TTCGCAATATGAGT
* *
37767400 TTGTTTTTTTAAAAACA
62 TAGTTTTTTT---GACA
* *
37767417 AACAGAAATTGAAAATACCTCAGCGTGCCCTTAGACTCAACTCACCTTTCACAATATGAGTTAGT
1 AACAGAAATTGAAAATACCTCAGCGTGCCCTTAGGCTCAACTCACCTTTCGCAATATGAGTTAGT
37767482 TTTTTTGACA
66 TTTTTTGACA
* *
37767492 AACAGAAATTGAAAATACCTCAGCGTGCCCTTAGACTCAACTCACCTTTCACAATATGAGTTAGT
1 AACAGAAATTGAAAATACCTCAGCGTGCCCTTAGGCTCAACTCACCTTTCGCAATATGAGTTAGT
37767557 TTTTTTGACA
66 TTTTTTGACA
* *
37767567 AACAGAAATTGAAAATACCTCAGCGTGCCCTTAGACTCAACTCACCTTTCACAATATGAGTTAGT
1 AACAGAAATTGAAAATACCTCAGCGTGCCCTTAGGCTCAACTCACCTTTCGCAATATGAGTTAGT
37767632 TTTTTTGACA
66 TTTTTTGACA
* *
37767642 AACAGAAATTGAAAATACCTCAGCGTGCCCTTAGACTCAACTCACCTTTCACAATATGAGTTAGT
1 AACAGAAATTGAAAATACCTCAGCGTGCCCTTAGGCTCAACTCACCTTTCGCAATATGAGTTAGT
37767707 TTTTTTGACA
66 TTTTTTGACA
* *
37767717 AACAGAAATTGAAAATACCTCAGCGTGCCCTTAGACTCAACTCACCTTTCACAATATGAGTTAGT
1 AACAGAAATTGAAAATACCTCAGCGTGCCCTTAGGCTCAACTCACCTTTCGCAATATGAGTTAGT
37767782 TTTTTTGACA
66 TTTTTTGACA
** *
37767792 AACAGAAATTGAAAATACCTCAGCGTGCCCTGGGGCTCAACTCACCTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAGCGTGCCCTTAGGCTCAACTCACCTTTCGCAATATGA---G--
*
37767857 ATATGAGTTGATTTTGACAAACA
61 -T-T-AGTT-TTTTTG----ACA
* * *
37767880 GAGACAGAAATTGAAAATGCCTCAGCACGTGAGCC-GAGGCTCAACTCACCTCTT-GCAATATGA
1 -A-ACAGAAATTGAAAATACCTCAG--CGTG-CCCTTAGGCTCAACTCACCT-TTCGCAATATGA
37767943 GTT-GATTTTTTTGAC-
60 GTTAG-TTTTTTTGACA
* * * * * *
37767958 AATAGAAATT-ACAATTACCTTAGCATGTCCC-AAGGCTCAACTCACCTCTCGCAATATGAGTT-
1 AACAGAAATTGA-AAATACCTCAGCGTG-CCCTTAGGCTCAACTCACCTTTCGCAATATGAGTTA
*
37768020 GATTCTTTTGA-A
64 G-TTTTTTTGACA
* * * ** *
37768032 AAGTAGAAATTTAAAATACCTC-GACATGTGACCC-GAGGCTCAACTCACCTCCCGCAACATGAG
1 AA-CAGAAATTGAAAATACCTCAG-C--GTG-CCCTTAGGCTCAACTCACCTTTCGCAATATGAG
*
37768095 TT-G-ATTTTTGACA
61 TTAGTTTTTTTGACA
* ** **
37768108 AACAGCAATTGAAAATACCTCAGCGTGCCCCAAGGCTCAACTCACCTCCCGCAATATGAGTT
1 AACAGAAATTGAAAATACCTCAGCGTGCCCTTAGGCTCAACTCACCTTTCGCAATATGAGTT
37768170 GATTTAAAAA
Statistics
Matches: 679, Mismatches: 41, Indels: 73
0.86 0.05 0.09
Matches are distributed among these distances:
72 3 0.00
73 33 0.05
74 45 0.07
75 397 0.58
76 21 0.03
77 40 0.06
78 36 0.05
79 2 0.00
80 24 0.04
81 1 0.00
82 1 0.00
83 10 0.01
84 7 0.01
85 1 0.00
86 1 0.00
88 3 0.00
89 2 0.00
90 21 0.03
92 28 0.04
93 3 0.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (75 bp):
AACAGAAATTGAAAATACCTCAGCGTGCCCTTAGGCTCAACTCACCTTTCGCAATATGAGTTAGT
TTTTTTGACA
Found at i:37768005 original size:74 final size:73
Alignment explanation
Indices: 37767916--37768174 Score: 299
Period size: 74 Copynumber: 3.5 Consensus size: 73
37767906 ACGTGAGCCG
** *
37767916 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTGACAATAGAAATTACAATTACCTTAG
1 AGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTTTGACAATAGAAATTA-AAATACCTTAG
37767981 CATGTCCCA
65 CATGTCCCA
* * * *
37767990 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTCTTTTGAAAAGTAGAAATTTAAAATACC-TC
1 AGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTTTGACAA-TAGAAA-TTAAAATACCTTA
*
37768054 GACATGTGACCCG
64 G-CATGT--CCCA
* * * *
37768067 AGGCTCAACTCACCTCCCGCAACATGAGTTGA--TTTTTGACAAACAGCAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTTTGAC-AATAGAAATT-AAAATACCTTA
* *
37768130 GCGTGCCCCA
64 GCATGTCCCA
37768140 AGGCTCAACTCACCTCCCGCAATATGAGTTGATTT
1 AGGCTCAACTCACCTCCCGCAATATGAGTTGATTT
37768175 AAAAAACAGA
Statistics
Matches: 157, Mismatches: 18, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
73 34 0.22
74 45 0.29
75 39 0.25
76 6 0.04
77 33 0.21
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (73 bp):
AGGCTCAACTCACCTCCCGCAATATGAGTTGATTTTTTTGACAATAGAAATTAAAATACCTTAGC
ATGTCCCA
Found at i:37768018 original size:166 final size:165
Alignment explanation
Indices: 37767718--37768021 Score: 404
Period size: 166 Copynumber: 1.8 Consensus size: 165
37767708 TTTTTGACAA
*
37767718 ACAGAAATTGAAAATACCTCAGCGTGCCCTTAGACTCAACTCACCTTTCACAATATGAGTTAGTT
1 ACAGAAATTGAAAATACCTCAGCGTGCCCTGAGACTCAACTCACCTTTCACAATATGAGTTAGTT
* **
37767783 TTTTTGACAAACAGAAATTGAAAATACCTCAGCGTGCCCTGGGGCTCAACTCACCTCTCGCAATA
66 TTTTTGACAAACAGAAATTGAAAATACCTCAGCATGCCCTAAGGCTCAACTCACCTCTCGCAATA
37767848 TGAGTTGAAATATGAGTTGATTTTGACAAACAGAG
131 TGAGTTGAAATATGAGTTGATTTTGACAAACAGAG
* * * *
37767883 ACAGAAATTGAAAATGCCTCAGCACGTGAGCC-GAGGCTCAACTCACCTCTT-GCAATATGAGTT
1 ACAGAAATTGAAAATACCTCAG--CGTG-CCCTGAGACTCAACTCACCT-TTCACAATATGAGTT
* * *
37767946 -GATTTTTTTGAC-AATAGAAATT-ACAATTACCTTAGCATGTCCC-AAGGCTCAACTCACCTCT
62 AG-TTTTTTTGACAAACAGAAATTGA-AAATACCTCAGCATG-CCCTAAGGCTCAACTCACCTCT
37768007 CGCAATATGAGTTGA
124 CGCAATATGAGTTGA
37768022 TTCTTTTGAA
Statistics
Matches: 121, Mismatches: 11, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
165 22 0.18
166 53 0.44
167 42 0.35
168 4 0.03
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (165 bp):
ACAGAAATTGAAAATACCTCAGCGTGCCCTGAGACTCAACTCACCTTTCACAATATGAGTTAGTT
TTTTTGACAAACAGAAATTGAAAATACCTCAGCATGCCCTAAGGCTCAACTCACCTCTCGCAATA
TGAGTTGAAATATGAGTTGATTTTGACAAACAGAG
Found at i:37775223 original size:16 final size:15
Alignment explanation
Indices: 37775197--37775231 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
37775187 TGATGTGAAT
37775197 AATATAAAATATTAA
1 AATATAAAATATTAA
*
37775212 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
37775228 AATA
1 AATA
37775232 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:37778651 original size:29 final size:29
Alignment explanation
Indices: 37778609--37778667 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
37778599 GATGAAACCG
37778609 AAAAAAATGTAGTTGTCGACAAAAATTTT
1 AAAAAAATGTAGTTGTCGACAAAAATTTT
37778638 AAAAAAATGTAGTTGTCGACAAAAATTTT
1 AAAAAAATGTAGTTGTCGACAAAAATTTT
37778667 A
1 A
37778668 CTTATAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.49, C:0.07, G:0.14, T:0.31
Consensus pattern (29 bp):
AAAAAAATGTAGTTGTCGACAAAAATTTT
Found at i:37779362 original size:19 final size:20
Alignment explanation
Indices: 37779340--37779378 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
37779330 TACAAACAGT
37779340 CACATAATAATTTAA-CATA
1 CACATAATAATTTAATCATA
*
37779359 CACATTATAATTTAATCATA
1 CACATAATAATTTAATCATA
37779379 ATATCCCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
CACATAATAATTTAATCATA
Found at i:37779466 original size:22 final size:20
Alignment explanation
Indices: 37779441--37779480 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37779431 AAACTCTACC
37779441 GAAAGTTCAGAAAATTTTTCGT
1 GAAAGTTC--AAAATTTTTCGT
*
37779463 GAAATTTCAAAATTTTTC
1 GAAAGTTCAAAATTTTTC
37779481 CTAAGTACAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.38, C:0.10, G:0.12, T:0.40
Consensus pattern (20 bp):
GAAAGTTCAAAATTTTTCGT
Found at i:37780904 original size:5 final size:5
Alignment explanation
Indices: 37780894--37780921 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
37780884 ATATACTCAT
37780894 AATTC AATTC AATTC AATTC AATTC AAT
1 AATTC AATTC AATTC AATTC AATTC AAT
37780922 ACCAATACTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.43, C:0.18, G:0.00, T:0.39
Consensus pattern (5 bp):
AATTC
Found at i:37781588 original size:15 final size:16
Alignment explanation
Indices: 37781568--37781602 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
37781558 TCTCCTTCTT
37781568 TTTCTTTCCT-TTTTC
1 TTTCTTTCCTATTTTC
*
37781583 TTTCTTTCCTATTTTG
1 TTTCTTTCCTATTTTC
37781599 TTTC
1 TTTC
37781603 AAGCTTCTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.03, C:0.23, G:0.03, T:0.71
Consensus pattern (16 bp):
TTTCTTTCCTATTTTC
Found at i:37781635 original size:15 final size:15
Alignment explanation
Indices: 37781615--37781647 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
37781605 GCTTCTGTTC
37781615 TTTCTTTTCTTTT-TG
1 TTTCTTTT-TTTTATG
37781630 TTTCTTTTTTTTATG
1 TTTCTTTTTTTTATG
37781645 TTT
1 TTT
37781648 TAAATTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.03, C:0.09, G:0.06, T:0.82
Consensus pattern (15 bp):
TTTCTTTTTTTTATG
Found at i:37789594 original size:11 final size:11
Alignment explanation
Indices: 37789578--37789602 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37789568 ACATGATAAA
37789578 AGATGGTAATG
1 AGATGGTAATG
37789589 AGATGGTAATG
1 AGATGGTAATG
37789600 AGA
1 AGA
37789603 GAGAGAAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (11 bp):
AGATGGTAATG
Found at i:37793428 original size:22 final size:22
Alignment explanation
Indices: 37793386--37793429 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
37793376 GTAAGAATGT
*
37793386 TTTCTGAAAAACCTTGCATTGA
1 TTTCTGAAAAACCTTGAATTGA
*
37793408 TTTCT-AAAAAGCTTTGAATTGA
1 TTTCTGAAAAA-CCTTGAATTGA
37793430 CATCCTCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (22 bp):
TTTCTGAAAAACCTTGAATTGA
Found at i:37798685 original size:56 final size:55
Alignment explanation
Indices: 37798599--37798705 Score: 196
Period size: 56 Copynumber: 1.9 Consensus size: 55
37798589 AACAGGTCCA
*
37798599 GATTTTCCACACGCTACTCCATTGATGTTAAACTTGATAACGCCACAAGGAAGAG
1 GATTTTCCACACGCTACTCCATTGACGTTAAACTTGATAACGCCACAAGGAAGAG
37798654 NGATTTTCCACACGCTACTCCATTGACGTTAAACTTGATAACGCCACAAGGA
1 -GATTTTCCACACGCTACTCCATTGACGTTAAACTTGATAACGCCACAAGGA
37798706 GAAGCGTGCC
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (55 bp):
GATTTTCCACACGCTACTCCATTGACGTTAAACTTGATAACGCCACAAGGAAGAG
Found at i:37799700 original size:20 final size:20
Alignment explanation
Indices: 37799664--37799702 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
37799654 TATATATATA
*
37799664 AATTTTTAACTTTTATTTTG
1 AATTTTTAACTTATATTTTG
37799684 AATTTTTAA-TATATATTTT
1 AATTTTTAACT-TATATTTT
37799703 AAGTTTTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (20 bp):
AATTTTTAACTTATATTTTG
Found at i:37802792 original size:16 final size:16
Alignment explanation
Indices: 37802773--37802810 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
37802763 TCATTAATTA
37802773 TATAAATTT-ATTTCTT
1 TATAAATTTAATTT-TT
37802789 TATAAATTTAATTTTT
1 TATAAATTTAATTTTT
37802805 TATAAA
1 TATAAA
37802811 ATAAATTTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TATAAATTTAATTTTT
Found at i:37802812 original size:17 final size:17
Alignment explanation
Indices: 37802770--37802812 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
37802760 AAGTCATTAA
37802770 TTATATAAATTTATTTCT
1 TTATA-AAATTTATTTCT
37802788 TTAT-AAATTTAATTT-T
1 TTATAAAATTT-ATTTCT
37802804 TTATAAAAT
1 TTATAAAAT
37802813 AAATTTCCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 11 0.48
17 8 0.35
18 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (17 bp):
TTATAAAATTTATTTCT
Found at i:37802817 original size:16 final size:17
Alignment explanation
Indices: 37802782--37802819 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
37802772 ATATAAATTT
* *
37802782 ATTTCTTTATAAATTTA
1 ATTTCTTTATAAAATAA
37802799 ATTT-TTTATAAAATAA
1 ATTTCTTTATAAAATAA
37802815 ATTTC
1 ATTTC
37802820 CATTTTTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTCTTTATAAAATAA
Found at i:37805907 original size:62 final size:62
Alignment explanation
Indices: 37805778--37805913 Score: 236
Period size: 62 Copynumber: 2.2 Consensus size: 62
37805768 ATCTAGCCCT
* *
37805778 GACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTAAAATGGATTTAGCTCG
1 GACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTAAAATGGATTTAACCCG
*
37805840 AACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTAAAATGGATTTAACCCG
1 GACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTAAAATGGATTTAACCCG
*
37805902 GACGGGTAATCC
1 GACGGGTGATCC
37805914 GAATTAGGGT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 69 1.00
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.26
Consensus pattern (62 bp):
GACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTAAAATGGATTTAACCCG
Found at i:37817337 original size:15 final size:15
Alignment explanation
Indices: 37817317--37817349 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
37817307 ATGATTATCA
37817317 TCATACCAAAAGATT
1 TCATACCAAAAGATT
37817332 TCATACCAAAAGATT
1 TCATACCAAAAGATT
37817347 TCA
1 TCA
37817350 ACTTAGTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.06, T:0.27
Consensus pattern (15 bp):
TCATACCAAAAGATT
Found at i:37819941 original size:10 final size:11
Alignment explanation
Indices: 37819905--37819944 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
37819895 GAAAATGATC
*
37819905 AAAATTAATAA
1 AAAATTAATAT
*
37819916 AAAATTATTAT
1 AAAATTAATAT
37819927 AAAATTAAT-T
1 AAAATTAATAT
37819937 AAAATTAA
1 AAAATTAA
37819945 AAATTTTAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAATTAATAT
Found at i:37822475 original size:13 final size:13
Alignment explanation
Indices: 37822457--37822486 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
37822447 ATCATTGACC
37822457 ATGGTGATGTCAA
1 ATGGTGATGTCAA
37822470 ATGGTGATGTCAA
1 ATGGTGATGTCAA
37822483 ATGG
1 ATGG
37822487 CCATTTGTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.07, G:0.33, T:0.30
Consensus pattern (13 bp):
ATGGTGATGTCAA
Found at i:37822677 original size:49 final size:48
Alignment explanation
Indices: 37822604--37822699 Score: 147
Period size: 49 Copynumber: 2.0 Consensus size: 48
37822594 TTGCCTTGTT
* *
37822604 TAACTTCCTATAATTCCTACAAATCCTCCAACCCGTGACTCGAATATG
1 TAACTTCCTATAATTCCTACAAATCCTCCAACACATGACTCGAATATG
* *
37822652 TNAACTTCCTGTAATTCCTACAAATCCTCCAACATATGACTCGAATAT
1 T-AACTTCCTATAATTCCTACAAATCCTCCAACACATGACTCGAATAT
37822700 CTGCAATAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
48 1 0.02
49 42 0.98
ACGTcount: A:0.32, C:0.29, G:0.07, T:0.30
Consensus pattern (48 bp):
TAACTTCCTATAATTCCTACAAATCCTCCAACACATGACTCGAATATG
Found at i:37826779 original size:22 final size:22
Alignment explanation
Indices: 37826733--37826779 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
37826723 GAAAATGATC
*
37826733 AAAATTAATTAAAATTTATTAT
1 AAAATTAATTAAAATTTACTAT
37826755 AAAATTAATTAAAATCTTACT-T
1 AAAATTAATTAAAAT-TTACTAT
37826777 AAA
1 AAA
37826780 TTATTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (22 bp):
AAAATTAATTAAAATTTACTAT
Found at i:37832656 original size:2 final size:2
Alignment explanation
Indices: 37832651--37832677 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
37832641 ATACATACTT
37832651 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
37832678 TATATATACA
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:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:37846756 original size:23 final size:23
Alignment explanation
Indices: 37846713--37846756 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
37846703 TATTGAATTT
* *
37846713 TATTAATTAAATGGGATAAATAG
1 TATTAATTAAAAGGGAAAAATAG
37846736 TATT-ATTAAAAGGGTAAAAAT
1 TATTAATTAAAAGGG-AAAAAT
37846757 GGTAATTAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (23 bp):
TATTAATTAAAAGGGAAAAATAG
Found at i:37847377 original size:10 final size:11
Alignment explanation
Indices: 37847351--37847388 Score: 51
Period size: 10 Copynumber: 3.4 Consensus size: 11
37847341 CCTACCTCTA
37847351 TCTTCTTCATC
1 TCTTCTTCATC
37847362 TTTCTTCTTCA-C
1 --TCTTCTTCATC
37847374 TCTTCTTCATC
1 TCTTCTTCATC
37847385 TCTT
1 TCTT
37847389 AGTTTTAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 9 0.38
11 5 0.21
12 1 0.04
13 9 0.38
ACGTcount: A:0.08, C:0.34, G:0.00, T:0.58
Consensus pattern (11 bp):
TCTTCTTCATC
Found at i:37848042 original size:17 final size:17
Alignment explanation
Indices: 37848022--37848060 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
37848012 AGAGGTAAGG
37848022 AAAAGAA-AAATAAAAAA
1 AAAAGAAGAAA-AAAAAA
*
37848039 AAAAGAAGAAAAAAATA
1 AAAAGAAGAAAAAAAAA
37848056 AAAAG
1 AAAAG
37848061 GGAAAACGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 17 0.85
18 3 0.15
ACGTcount: A:0.85, C:0.00, G:0.10, T:0.05
Consensus pattern (17 bp):
AAAAGAAGAAAAAAAAA
Found at i:37852053 original size:18 final size:18
Alignment explanation
Indices: 37852030--37852065 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
37852020 TGCTAGAAAT
* *
37852030 TCCAAATTAAAATCCAAA
1 TCCAAAATAAAACCCAAA
37852048 TCCAAAATAAAACCCAAA
1 TCCAAAATAAAACCCAAA
37852066 ATTCCAGAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.58, C:0.25, G:0.00, T:0.17
Consensus pattern (18 bp):
TCCAAAATAAAACCCAAA
Found at i:37852698 original size:33 final size:33
Alignment explanation
Indices: 37852661--37852751 Score: 105
Period size: 33 Copynumber: 2.8 Consensus size: 33
37852651 TTTGCTAATG
*
37852661 TGGCCTATACAGCCCAAAATAGCCTTGGCC-ATA
1 TGGCCTACACAGCCCAAAATAGCCTT-GCCTATA
** *
37852694 TGGCCTACACAATCTAAAATAGCCTTGCCTATA
1 TGGCCTACACAGCCCAAAATAGCCTTGCCTATA
*
37852727 TGG-GTCACACAGCCCAAAATAGCCT
1 TGGCCT-ACACAGCCCAAAATAGCCT
37852752 AAACCGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
32 4 0.08
33 44 0.92
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (33 bp):
TGGCCTACACAGCCCAAAATAGCCTTGCCTATA
Found at i:37856756 original size:61 final size:61
Alignment explanation
Indices: 37856661--37856784 Score: 221
Period size: 61 Copynumber: 2.0 Consensus size: 61
37856651 CCGATCACAA
*
37856661 TCACCTCCACATCATCCTCAAATATCAGAATCACTCTCTTAGTAGCACAGTCCAAACTGAC
1 TCACCTCCACATCATACTCAAATATCAGAATCACTCTCTTAGTAGCACAGTCCAAACTGAC
**
37856722 TCACCTCCACATCATACTCAAATATCAGAATCACTCTCTTAGTAGCACAGTCTGAACTGAC
1 TCACCTCCACATCATACTCAAATATCAGAATCACTCTCTTAGTAGCACAGTCCAAACTGAC
37856783 TC
1 TC
37856785 GATACTCCAC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.32, C:0.33, G:0.09, T:0.26
Consensus pattern (61 bp):
TCACCTCCACATCATACTCAAATATCAGAATCACTCTCTTAGTAGCACAGTCCAAACTGAC
Found at i:37859041 original size:34 final size:34
Alignment explanation
Indices: 37859002--37859070 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
37858992 ATAAAACACA
37859002 AAAGTCCAGAGAGTCCAAAATTTACAAAACTCTT
1 AAAGTCCAGAGAGTCCAAAATTTACAAAACTCTT
*
37859036 AAAGTCCAGAGAGTCCAAAATTTTCAAAACTCTT
1 AAAGTCCAGAGAGTCCAAAATTTACAAAACTCTT
37859070 A
1 A
37859071 GTCTAGAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (34 bp):
AAAGTCCAGAGAGTCCAAAATTTACAAAACTCTT
Found at i:37879470 original size:5 final size:5
Alignment explanation
Indices: 37879460--37879484 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
37879450 TCTTACTTTA
37879460 AGGGG AGGGG AGGGG AGGGG AGGGG
1 AGGGG AGGGG AGGGG AGGGG AGGGG
37879485 GTTGTGGCGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.80, T:0.00
Consensus pattern (5 bp):
AGGGG
Found at i:37886413 original size:49 final size:49
Alignment explanation
Indices: 37886354--37886453 Score: 173
Period size: 49 Copynumber: 2.0 Consensus size: 49
37886344 GCTACAGGTT
* *
37886354 TCCCTCCACCTAAAGTTGGTCAGTTGAAGTGCCCTGATGTGGTTATTGC
1 TCCCTACACCTAAAGTTGGCCAGTTGAAGTGCCCTGATGTGGTTATTGC
*
37886403 TCCCTACACCTAAAGTTGGCCAGTTGAAGTGCCCTGATGTGGTTCTTGC
1 TCCCTACACCTAAAGTTGGCCAGTTGAAGTGCCCTGATGTGGTTATTGC
37886452 TC
1 TC
37886454 ATCCACAGAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.18, C:0.26, G:0.24, T:0.32
Consensus pattern (49 bp):
TCCCTACACCTAAAGTTGGCCAGTTGAAGTGCCCTGATGTGGTTATTGC
Found at i:37891488 original size:3 final size:3
Alignment explanation
Indices: 37891480--37891505 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
37891470 TTGTCATCGT
37891480 CAC CAC CAC CAC CAC CAC CAC CAC CA
1 CAC CAC CAC CAC CAC CAC CAC CAC CA
37891506 ACATCAGCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.65, G:0.00, T:0.00
Consensus pattern (3 bp):
CAC
Found at i:37891537 original size:3 final size:3
Alignment explanation
Indices: 37891531--37891560 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
37891521 GCAGCAGCAA
*
37891531 CAT CAT CAT CAT CAT CAT CAC CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
37891561 TGCCATCAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.37, G:0.00, T:0.30
Consensus pattern (3 bp):
CAT
Found at i:37892717 original size:28 final size:28
Alignment explanation
Indices: 37892634--37892721 Score: 77
Period size: 29 Copynumber: 3.0 Consensus size: 28
37892624 CAACTTATTA
* * *
37892634 TTTTAGAAAATTTTTAAAATTTTAACTTT
1 TTTTATAAAA-TTTTAAAATTATAAATTT
* * * **
37892663 CTTTATATATTCTTTAAAAAAATTAAATTT
1 TTTTATAAAAT-TTTAAAATTA-TAAATTT
37892693 TTTTATAAAATTTTAAAATTATAAATTT
1 TTTTATAAAATTTTAAAATTATAAATTT
37892721 T
1 T
37892722 GGAATTTTTA
Statistics
Matches: 44, Mismatches: 13, Indels: 5
0.71 0.21 0.08
Matches are distributed among these distances:
28 9 0.20
29 21 0.48
30 14 0.32
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.53
Consensus pattern (28 bp):
TTTTATAAAATTTTAAAATTATAAATTT
Found at i:37895410 original size:23 final size:24
Alignment explanation
Indices: 37895384--37895433 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 24
37895374 TGATTTTTAA
37895384 ATTTTA-AATTATTTAGTGATAAT
1 ATTTTAGAATTATTTAGTGATAAT
*
37895407 A-TTTAGGATTATTTAGTGATAAT
1 ATTTTAGAATTATTTAGTGATAAT
37895430 ATTT
1 ATTT
37895434 AGGAAAAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 4 0.17
23 18 0.75
24 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.12, T:0.52
Consensus pattern (24 bp):
ATTTTAGAATTATTTAGTGATAAT
Found at i:37895411 original size:13 final size:13
Alignment explanation
Indices: 37895393--37895435 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
37895383 AATTTTAAAT
37895393 TATTTAGTGATAA
1 TATTTAGTGATAA
37895406 TATTTAG-GAT--
1 TATTTAGTGATAA
37895416 TATTTAGTGATAA
1 TATTTAGTGATAA
37895429 TATTTAG
1 TATTTAG
37895436 GAAAAATCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (13 bp):
TATTTAGTGATAA
Found at i:37895434 original size:23 final size:23
Alignment explanation
Indices: 37895391--37895437 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
37895381 TAAATTTTAA
37895391 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
37895414 ATTATTTAGTGATAATATTTAGG
1 ATTATTTAGTGATAATATTTAGG
37895437 A
1 A
37895438 AAAATCTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.17, T:0.47
Consensus pattern (23 bp):
ATTATTTAGTGATAATATTTAGG
Found at i:37900154 original size:27 final size:26
Alignment explanation
Indices: 37900117--37900172 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 26
37900107 CTACATTTGG
*
37900117 AAAAATAATAATAAA-ATATAAAATAT
1 AAAAATAATAATAAATAAAT-AAATAT
37900143 AAAAATAAATAATAAATAAATAAATAT
1 AAAAAT-AATAATAAATAAATAAATAT
37900170 AAA
1 AAA
37900173 TAAAAGTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 6 0.22
27 18 0.67
28 3 0.11
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (26 bp):
AAAAATAATAATAAATAAATAAATAT
Found at i:37900156 original size:15 final size:14
Alignment explanation
Indices: 37900119--37900172 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 14
37900109 ACATTTGGAA
37900119 AAATAATAATAAAAT
1 AAATAATAA-AAAAT
37900134 ATAA-AATATAAAAAT
1 A-AATAATA-AAAAAT
37900149 AAATAATAAATAAAT
1 AAATAATAAA-AAAT
37900164 AAAT-ATAAA
1 AAATAATAAA
37900173 TAAAAGTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
14 9 0.26
15 23 0.66
16 3 0.09
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AAATAATAAAAAAT
Found at i:37900183 original size:14 final size:13
Alignment explanation
Indices: 37900134--37900184 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
37900124 ATAATAAAAT
*
37900134 ATAAAATATAAAA
1 ATAAAATATATAA
37900147 AT-AAATA-ATAA
1 ATAAAATATATAA
*
37900158 ATAAATAAATATAA
1 ATAAA-ATATATAA
37900172 ATAAAAGTATATA
1 ATAAAA-TATATA
37900185 TTAGGTATGA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
11 5 0.16
12 7 0.23
13 5 0.16
14 14 0.45
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (13 bp):
ATAAAATATATAA
Found at i:37904570 original size:70 final size:70
Alignment explanation
Indices: 37904451--37904625 Score: 287
Period size: 70 Copynumber: 2.5 Consensus size: 70
37904441 TATGGAAAAC
* * *
37904451 TTATGATACGTAGGTATGGTATTATCCATACTGAGCTATAATACGTAGGTATGGTATTTTCCATA
1 TTATGATACGTAGGTATGGTATTATCCATACTGAGCTATAAAACATAGGTATGGTATTTCCCATA
37904516 CTGAG
66 CTGAG
37904521 TTATGATACGTAGGTATGGTATTATCCATACTGAGCTATAAAACATAGGTATGGTATTTCCCATA
1 TTATGATACGTAGGTATGGTATTATCCATACTGAGCTATAAAACATAGGTATGGTATTTCCCATA
37904586 CTGAG
66 CTGAG
* * * *
37904591 TTGTGAAACGTAGGTATGGTATTAACCATATTGAG
1 TTATGATACGTAGGTATGGTATTATCCATACTGAG
37904626 TTGTGAATCA
Statistics
Matches: 98, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 98 1.00
ACGTcount: A:0.30, C:0.13, G:0.22, T:0.35
Consensus pattern (70 bp):
TTATGATACGTAGGTATGGTATTATCCATACTGAGCTATAAAACATAGGTATGGTATTTCCCATA
CTGAG
Found at i:37904626 original size:35 final size:35
Alignment explanation
Indices: 37904451--37904632 Score: 233
Period size: 35 Copynumber: 5.2 Consensus size: 35
37904441 TATGGAAAAC
*
37904451 TTATGATACGTAGGTATGGTATTATCCATACTGAG
1 TTATGAAACGTAGGTATGGTATTATCCATACTGAG
* *
37904486 CTAT-AATACGTAGGTATGGTATTTTCCATACTGAG
1 TTATGAA-ACGTAGGTATGGTATTATCCATACTGAG
*
37904521 TTATGATACGTAGGTATGGTATTATCCATACTGAG
1 TTATGAAACGTAGGTATGGTATTATCCATACTGAG
* * *
37904556 CTATAAAACATAGGTATGGTATT-TCCCATACTGAG
1 TTATGAAACGTAGGTATGGTATTAT-CCATACTGAG
* * *
37904591 TTGTGAAACGTAGGTATGGTATTAACCATATTGAG
1 TTATGAAACGTAGGTATGGTATTATCCATACTGAG
*
37904626 TTGTGAA
1 TTATGAA
37904633 TCATGGCACT
Statistics
Matches: 127, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
34 2 0.02
35 124 0.98
36 1 0.01
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.36
Consensus pattern (35 bp):
TTATGAAACGTAGGTATGGTATTATCCATACTGAG
Found at i:37907028 original size:19 final size:19
Alignment explanation
Indices: 37906996--37907045 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
37906986 ATACTTGAAT
37906996 TCATTTCA-AGTTTCACATC
1 TCATTTCATA-TTTCACATC
**
37907015 TCATTTCATATTTCATTTC
1 TCATTTCATATTTCACATC
*
37907034 TCATCTCATATT
1 TCATTTCATATT
37907046 CAATTCTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.50
Consensus pattern (19 bp):
TCATTTCATATTTCACATC
Found at i:37908908 original size:90 final size:90
Alignment explanation
Indices: 37908755--37909055 Score: 602
Period size: 90 Copynumber: 3.3 Consensus size: 90
37908745 TGCCATAGGA
37908755 TTGGAAGTGTTCAGGGATACTTTGACCTTGAGTCGATAAGGCACTATAAGTGTCGTACTGTTATT
1 TTGGAAGTGTTCAGGGATACTTTGACCTTGAGTCGATAAGGCACTATAAGTGTCGTACTGTTATT
37908820 TTTACTGTTCCAGATTTATAAAGTG
66 TTTACTGTTCCAGATTTATAAAGTG
37908845 TTGGAAGTGTTCAGGGATACTTTGACCTTGAGTCGATAAGGCACTATAAGTGTCGTACTGTTATT
1 TTGGAAGTGTTCAGGGATACTTTGACCTTGAGTCGATAAGGCACTATAAGTGTCGTACTGTTATT
37908910 TTTACTGTTCCAGATTTATAAAGTG
66 TTTACTGTTCCAGATTTATAAAGTG
37908935 TTGGAAGTGTTCAGGGATACTTTGACCTTGAGTCGATAAGGCACTATAAGTGTCGTACTGTTATT
1 TTGGAAGTGTTCAGGGATACTTTGACCTTGAGTCGATAAGGCACTATAAGTGTCGTACTGTTATT
37909000 TTTACTGTTCCAGATTTATAAAGTG
66 TTTACTGTTCCAGATTTATAAAGTG
37909025 TTGGAAGTGTTCAGGGATACTTTGACCTTGA
1 TTGGAAGTGTTCAGGGATACTTTGACCTTGA
37909056 CTCTGTACCG
Statistics
Matches: 211, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 211 1.00
ACGTcount: A:0.25, C:0.13, G:0.24, T:0.38
Consensus pattern (90 bp):
TTGGAAGTGTTCAGGGATACTTTGACCTTGAGTCGATAAGGCACTATAAGTGTCGTACTGTTATT
TTTACTGTTCCAGATTTATAAAGTG
Found at i:37910238 original size:22 final size:21
Alignment explanation
Indices: 37910185--37910240 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 21
37910175 TGTCATGGAG
37910185 ACACGGGCGTGTCTCCTAGGCC
1 ACAC-GGCGTGTCTCCTAGGCC
*
37910207 ACGCGAGCGTGTCTCCTAGGCC
1 ACACG-GCGTGTCTCCTAGGCC
37910229 ACACAGGCGTGT
1 ACAC-GGCGTGT
37910241 GATACTGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 1 0.03
22 28 0.93
23 1 0.03
ACGTcount: A:0.16, C:0.34, G:0.32, T:0.18
Consensus pattern (21 bp):
ACACGGCGTGTCTCCTAGGCC
Found at i:37910581 original size:10 final size:10
Alignment explanation
Indices: 37910566--37910593 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
37910556 CTTTCTCAAT
37910566 TTCTTTCTTC
1 TTCTTTCTTC
37910576 TTCTTTCTTC
1 TTCTTTCTTC
37910586 TTCTTTCT
1 TTCTTTCT
37910594 CTTTTGATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TTCTTTCTTC
Found at i:37912490 original size:17 final size:19
Alignment explanation
Indices: 37912451--37912501 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 19
37912441 TAATATATTA
37912451 TTTAATATTTATATTTGGT
1 TTTAATATTTATATTTGGT
*
37912470 TTTAATATTT-T-TTTTGT
1 TTTAATATTTATATTTGGT
*
37912487 TTTAAT-TTGATATTT
1 TTTAATATTTATATTT
37912502 AAGTTTGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
16 2 0.07
17 12 0.43
18 4 0.14
19 10 0.36
ACGTcount: A:0.24, C:0.00, G:0.08, T:0.69
Consensus pattern (19 bp):
TTTAATATTTATATTTGGT
Found at i:37921881 original size:52 final size:52
Alignment explanation
Indices: 37921755--37921893 Score: 140
Period size: 52 Copynumber: 2.6 Consensus size: 52
37921745 CACATATCAT
* * * * * *
37921755 ACCGATGTCATATCCCAGATATGGTATTATACGGAATCATATTATCACATGAC
1 ACCGATGCCATA-CCCTGCTATGGTCTTATACGGAATCATAGTATAACATGAC
* *
37921808 ACCGATGCTATAACCTAGCTATGGTCTTATACAGGAA-CAT-GTATAACATTG-C
1 ACCGATGCCATACCCT-GCTATGGTCTTATAC-GGAATCATAGTATAACA-TGAC
37921860 ACCGATGCCATAGCCCTGCTATGGTCTTATACGG
1 ACCGATGCCATA-CCCTGCTATGGTCTTATACGG
37921894 GCGCACAAAA
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
51 2 0.03
52 35 0.49
53 31 0.43
54 4 0.06
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (52 bp):
ACCGATGCCATACCCTGCTATGGTCTTATACGGAATCATAGTATAACATGAC
Found at i:37929289 original size:53 final size:51
Alignment explanation
Indices: 37929172--37929372 Score: 225
Period size: 52 Copynumber: 4.0 Consensus size: 51
37929162 ACACACCACA
* * * *
37929172 CACCGAAGCCATAGCCCTGCCATGGTCTTACAC-GGATCACATAT--CAT-
1 CACCGATGCCATAGCCCAGCTATGGTCTTATACGGGATCACATATCACATG
* *
37929219 -ACCGATGCCATATCCCAGATATGGTCTTATACGGGATCACATTATCACATG
1 CACCGATGCCATAGCCCAGCTATGGTCTTATACGGGATCACA-TATCACATG
* *
37929270 ACACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAACACGTATCACATTG
1 -CACCGATGCCATAGCCCAGCTATGGTCTTATACGGGATCACATATCACA-TG
* * *
37929323 CACTGATGTCATAGCCCTGCTATGGTCTTATACGGG-TACACATATCACAT
1 CACCGATGCCATAGCCCAGCTATGGTCTTATACGGGAT-CACATATCACAT
37929373 CTATTCCGTT
Statistics
Matches: 130, Mismatches: 15, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
46 26 0.20
47 8 0.06
48 3 0.02
50 3 0.02
51 1 0.01
52 50 0.38
53 39 0.30
ACGTcount: A:0.28, C:0.28, G:0.18, T:0.25
Consensus pattern (51 bp):
CACCGATGCCATAGCCCAGCTATGGTCTTATACGGGATCACATATCACATG
Found at i:37932062 original size:17 final size:18
Alignment explanation
Indices: 37932040--37932073 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
37932030 ACAACACTCC
*
37932040 TTTCTT-CTTCACTCTCG
1 TTTCTTCCTTCAATCTCG
37932057 TTTCTTCCTTCAATCTC
1 TTTCTTCCTTCAATCTC
37932074 ACTCTCTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.09, C:0.35, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTCTTCCTTCAATCTCG
Found at i:37933154 original size:17 final size:18
Alignment explanation
Indices: 37933118--37933160 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
37933108 TTTAACTTGA
* *
37933118 TTTTTTTTTGGTCACCTT
1 TTTTTTTTTGCTCACATT
37933136 TTTTTTTTTGCTCA-ATT
1 TTTTTTTTTGCTCACATT
37933153 TTTTTTTT
1 TTTTTTTT
37933161 CACTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.07, C:0.12, G:0.07, T:0.74
Consensus pattern (18 bp):
TTTTTTTTTGCTCACATT
Found at i:37933217 original size:14 final size:14
Alignment explanation
Indices: 37933135--37933217 Score: 71
Period size: 14 Copynumber: 5.6 Consensus size: 14
37933125 TTGGTCACCT
37933135 TTTTTTTTTTGCTCAA
1 TTTTTTTTTT-C-CAA
*
37933151 TTTTTTTTTT-CAC
1 TTTTTTTTTTCCAA
*
37933164 TTTTTTTTTT-GAA
1 TTTTTTTTTTCCAA
37933177 TATTTTTTTTTCAATCAA
1 T-TTTTTTTTTC---CAA
*
37933195 TTTTTTTTTTCGAA
1 TTTTTTTTTTCCAA
37933209 TTTTTTTTT
1 TTTTTTTTT
37933218 GATTTTTTTT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
13 14 0.25
14 20 0.35
16 10 0.18
17 10 0.18
18 3 0.05
ACGTcount: A:0.14, C:0.08, G:0.04, T:0.73
Consensus pattern (14 bp):
TTTTTTTTTTCCAA
Found at i:37933222 original size:11 final size:13
Alignment explanation
Indices: 37933196--37933227 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
37933186 TTCAATCAAT
37933196 TTTTTTTTTCGAA
1 TTTTTTTTTCGAA
37933209 TTTTTTTTT-G-A
1 TTTTTTTTTCGAA
37933220 TTTTTTTT
1 TTTTTTTT
37933228 GTTACTCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 9 0.47
12 1 0.05
13 9 0.47
ACGTcount: A:0.09, C:0.03, G:0.06, T:0.81
Consensus pattern (13 bp):
TTTTTTTTTCGAA
Found at i:37936299 original size:25 final size:25
Alignment explanation
Indices: 37936265--37936313 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
37936255 TGCCGATTCA
37936265 TCCATACTCTTTTTGGGAGAAATTT
1 TCCATACTCTTTTTGGGAGAAATTT
*
37936290 TCCATACTCTTTTTGGGTGAAATT
1 TCCATACTCTTTTTGGGAGAAATT
37936314 AGATTGTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.45
Consensus pattern (25 bp):
TCCATACTCTTTTTGGGAGAAATTT
Found at i:37939749 original size:6 final size:6
Alignment explanation
Indices: 37939738--37939762 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
37939728 AATAATTTTT
37939738 TTTTAG TTTTAG TTTTAG TTTTAG T
1 TTTTAG TTTTAG TTTTAG TTTTAG T
37939763 GTTCTAATTA
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:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (6 bp):
TTTTAG
Found at i:37944853 original size:7 final size:7
Alignment explanation
Indices: 37944812--37944861 Score: 50
Period size: 7 Copynumber: 7.0 Consensus size: 7
37944802 GTAATAGTTA
37944812 ACTAACT
1 ACTAACT
37944819 A-TAACT
1 ACTAACT
37944825 ACCATAACT
1 A-C-TAACT
37944834 ACTAAGCT
1 ACTAA-CT
37944842 -CTAACT
1 ACTAACT
*
37944848 ATTAACT
1 ACTAACT
37944855 ACTAACT
1 ACTAACT
37944862 GCCATAACCA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
6 8 0.22
7 19 0.53
8 3 0.08
9 6 0.17
ACGTcount: A:0.42, C:0.26, G:0.02, T:0.30
Consensus pattern (7 bp):
ACTAACT
Found at i:37947115 original size:25 final size:25
Alignment explanation
Indices: 37947087--37947145 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
37947077 ATATAGAAAG
*
37947087 AAATAATAAAGAT-TTTTATACTAAT
1 AAATAATAAA-ATATATTATACTAAT
*
37947112 AAAT-ATAAAATATATTATGCTAAT
1 AAATAATAAAATATATTATACTAAT
*
37947136 AAATACTAAA
1 AAATAATAAA
37947146 TATTCTAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 2 0.07
24 19 0.66
25 8 0.28
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (25 bp):
AAATAATAAAATATATTATACTAAT
Found at i:37970938 original size:19 final size:19
Alignment explanation
Indices: 37970914--37970952 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
37970904 AGTACACATT
*
37970914 TTTGTAACATTCAATTTGA
1 TTTGTAACACTCAATTTGA
37970933 TTTGTAACACTCAATTTGA
1 TTTGTAACACTCAATTTGA
37970952 T
1 T
37970953 AAGATTCTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (19 bp):
TTTGTAACACTCAATTTGA
Found at i:37971563 original size:52 final size:52
Alignment explanation
Indices: 37971506--37971605 Score: 182
Period size: 52 Copynumber: 1.9 Consensus size: 52
37971496 CCATTTGTGG
* *
37971506 TGATATTAATAACAAGATAGAGGAGCTCTGACTTCAAAATCTGAGTTAGTGA
1 TGATATTAATAAAAAGATAGAGGAGCTCTAACTTCAAAATCTGAGTTAGTGA
37971558 TGATATTAATAAAAAGATAGAGGAGCTCTAACTTCAAAATCTGAGTTA
1 TGATATTAATAAAAAGATAGAGGAGCTCTAACTTCAAAATCTGAGTTA
37971606 ATCGTATGCG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.41, C:0.11, G:0.19, T:0.29
Consensus pattern (52 bp):
TGATATTAATAAAAAGATAGAGGAGCTCTAACTTCAAAATCTGAGTTAGTGA
Found at i:37974705 original size:29 final size:29
Alignment explanation
Indices: 37974663--37974719 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
37974653 AACTGTCGAT
* *
37974663 GCCACATGGTCATGTGCT-AGACCGTGTGA
1 GCCACACGGGCATGT-CTGAGACCGTGTGA
*
37974692 GCCACACGGGCATGTCTGAGACTGTGTG
1 GCCACACGGGCATGTCTGAGACCGTGTG
37974720 GGTGACACAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.19, C:0.25, G:0.33, T:0.23
Consensus pattern (29 bp):
GCCACACGGGCATGTCTGAGACCGTGTGA
Found at i:37981325 original size:5 final size:6
Alignment explanation
Indices: 37981307--37981333 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
37981297 AAGAGGTTGG
37981307 AATAAA AATAAA AATAAA AATAAA AAT
1 AATAAA AATAAA AATAAA AATAAA AAT
37981334 CAAGGGAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:37984234 original size:23 final size:21
Alignment explanation
Indices: 37984182--37984277 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
37984172 CCTGATCAGT
** * *
37984182 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
37984203 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
37984224 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
37984245 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
37984266 AAATACGACACA
1 --ATACGACACA
37984278 TAAAGTGCCT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 57 0.85
23 10 0.15
ACGTcount: A:0.36, C:0.27, G:0.23, T:0.14
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:37984242 original size:42 final size:43
Alignment explanation
Indices: 37984182--37984287 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 43
37984172 CCTGATCAGT
*
37984182 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG-
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTGA
* * * *
37984224 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTG-A
*
37984268 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
37984288 GATCGATAAA
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
42 37 0.69
44 17 0.31
ACGTcount: A:0.36, C:0.26, G:0.23, T:0.15
Consensus pattern (43 bp):
ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTGA
Found at i:37984685 original size:15 final size:15
Alignment explanation
Indices: 37984660--37984713 Score: 74
Period size: 15 Copynumber: 3.5 Consensus size: 15
37984650 TCATGTATAT
37984660 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
37984676 TATAAATTCAATCAA
1 TATAAATTCAATCAA
*
37984691 AAT-AATATCAATCAA
1 TATAAAT-TCAATCAA
37984706 TATAAATT
1 TATAAATT
37984714 TAATAAATTC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
14 3 0.09
15 24 0.71
16 7 0.21
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:37985987 original size:13 final size:13
Alignment explanation
Indices: 37985969--37985996 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
37985959 CCTCTTTTTA
37985969 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
37985982 TTCTTTTGTTTCT
1 TTCTTTTGTTTCT
37985995 TT
1 TT
37985997 TATATATATA
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:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (13 bp):
TTCTTTTGTTTCT
Found at i:37997440 original size:13 final size:13
Alignment explanation
Indices: 37997422--37997457 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
37997412 GACCATGGCA
37997422 TCGATATGTGACT
1 TCGATATGTGACT
37997435 TCGATATGTGACT
1 TCGATATGTGACT
37997448 TCGATATGTG
1 TCGATATGTG
37997458 TTTACGAGTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.22, C:0.14, G:0.25, T:0.39
Consensus pattern (13 bp):
TCGATATGTGACT
Found at i:38000164 original size:39 final size:39
Alignment explanation
Indices: 38000105--38000254 Score: 210
Period size: 39 Copynumber: 3.8 Consensus size: 39
38000095 GCATGATATC
* * *
38000105 GGGAATATATCCAGACATGAGGTCCGCAAGCTATATGCT
1 GGGAATATATCCGGACATGAAGTCCGCAGGCTATATGCT
* *
38000144 GGGATTATATCCGGACATGAGGTCCGCAGGCTATATGCT
1 GGGAATATATCCGGACATGAAGTCCGCAGGCTATATGCT
* *
38000183 GGGAATATATCCGGACTTGAAGTCCGCAGGCTATGTGCT
1 GGGAATATATCCGGACATGAAGTCCGCAGGCTATATGCT
* * *
38000222 GGAAATATATCCGGACTTGAAGTCCGTAGGCTA
1 GGGAATATATCCGGACATGAAGTCCGCAGGCTA
38000255 CGTGCTGGAA
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 102 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.25
Consensus pattern (39 bp):
GGGAATATATCCGGACATGAAGTCCGCAGGCTATATGCT
Found at i:38006806 original size:39 final size:39
Alignment explanation
Indices: 38006651--38006800 Score: 219
Period size: 39 Copynumber: 3.8 Consensus size: 39
38006641 GCATGATATC
*
38006651 GGGAATATATCCGGACATGAGGTCCGCAGGCTATATGCT
1 GGGAATATATCCGGACATGAAGTCCGCAGGCTATATGCT
* * *
38006690 GGGATTATATCTGGACATGAGGTCCGCAGGCTATATGCT
1 GGGAATATATCCGGACATGAAGTCCGCAGGCTATATGCT
* * *
38006729 GGGAATATATCCGGACTTGAAGTCTGCAGGCTATGTGCT
1 GGGAATATATCCGGACATGAAGTCCGCAGGCTATATGCT
* *
38006768 GGAAATATATCCGGACTTGAAGTCCGCAGGCTA
1 GGGAATATATCCGGACATGAAGTCCGCAGGCTA
38006801 CGTGCTAGAA
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 101 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (39 bp):
GGGAATATATCCGGACATGAAGTCCGCAGGCTATATGCT
Found at i:38016904 original size:19 final size:20
Alignment explanation
Indices: 38016880--38016931 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
38016870 TATTATTTTA
*
38016880 TTATTTATTATT-ATTTGGT
1 TTATTTATTATTAATTTAGT
38016899 TTATTT-TTATTAGATTTAGT
1 TTATTTATTATTA-ATTTAGT
38016919 TTATTATATTATT
1 TTATT-TATTATT
38016932 GTTACCAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.18
19 6 0.21
20 11 0.39
21 1 0.04
22 5 0.18
ACGTcount: A:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (20 bp):
TTATTTATTATTAATTTAGT
Found at i:38016908 original size:18 final size:16
Alignment explanation
Indices: 38016857--38016910 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 16
38016847 TCCAACTGCC
*
38016857 TTATCTTTTA-TTTTA
1 TTATTTTTTATTTTTA
38016872 TTATTTTATTATTTATTA
1 TTATTTT-TTATTT-TTA
38016890 TTATTTGGTTTATTTTTA
1 TTATTT--TTTATTTTTA
38016908 TTA
1 TTA
38016911 GATTTAGTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
15 6 0.18
16 3 0.09
17 2 0.06
18 15 0.45
19 6 0.18
20 1 0.03
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (16 bp):
TTATTTTTTATTTTTA
Found at i:38030337 original size:3 final size:3
Alignment explanation
Indices: 38030329--38030353 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
38030319 TTCCTATACT
38030329 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
38030354 ATAGTAGTGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:38030391 original size:25 final size:23
Alignment explanation
Indices: 38030342--38030392 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
38030332 TTATTATTAT
* *
38030342 TATTATTATTATATAGTAGTGCA
1 TATTATTATTATATAGTAATACA
*
38030365 TATTTTTATTATATACGTAAATACA
1 TATTATTATTATATA-GT-AATACA
38030390 TAT
1 TAT
38030393 ATGTATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 14 0.61
24 2 0.09
25 7 0.30
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (23 bp):
TATTATTATTATATAGTAATACA
Found at i:38030604 original size:26 final size:24
Alignment explanation
Indices: 38030565--38030621 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 24
38030555 ATACTATATC
*
38030565 TATTATTTATTAGCATTTTATTAA
1 TATTATTTATTAGCATTTTATCAA
*
38030589 TATTATTAGTATTAGCTTTTTATCAA
1 TATTATT--TATTAGCATTTTATCAA
38030615 TACTTAT
1 TA-TTAT
38030622 ATGTATGTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 7 0.25
26 17 0.61
27 4 0.14
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.56
Consensus pattern (24 bp):
TATTATTTATTAGCATTTTATCAA
Found at i:38031639 original size:22 final size:22
Alignment explanation
Indices: 38031611--38031654 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
38031601 CGAGATGAGA
38031611 ATGTCTTTAACGTTCAAATGTT
1 ATGTCTTTAACGTTCAAATGTT
38031633 ATGTCTTTAACGTTCAAATGTT
1 ATGTCTTTAACGTTCAAATGTT
38031655 TTTTTACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (22 bp):
ATGTCTTTAACGTTCAAATGTT
Found at i:38042850 original size:64 final size:64
Alignment explanation
Indices: 38042749--38042933 Score: 325
Period size: 64 Copynumber: 2.9 Consensus size: 64
38042739 TCATTCGTGA
* *
38042749 CACATCTAGTTAGGAGCATTTGATTTATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
*
38042813 CACATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGATATAAGCAT
1 CACATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
* *
38042877 CACATTTAGTTAGGAGCATTTGATTCATTTCAATCATAGCGTCCTAATTATTTGACA
1 CACATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACA
38042934 CAAACACAGA
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 115 1.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.38
Consensus pattern (64 bp):
CACATTTAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:38043120 original size:44 final size:45
Alignment explanation
Indices: 38043056--38043476 Score: 301
Period size: 44 Copynumber: 9.5 Consensus size: 45
38043046 ATTTACAGAT
*
38043056 CTTAACCCCCTAAGCAGTAGGGAAACAGATC-GAAGATGATGAGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCTGAAGATGATAAGC
* * * *
38043100 CCTAACCCCCTAAGCAGTAGGGTAACAG-GCTGAAGATG-TACAGAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCTGAAGATGATA-AG-C
* **
38043145 CTTAACCCCCTAAGCAGCAGGGAAACAGATC-GAAGATGATGGGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCTGAAGATGATAAGC
* * * * ** *
38043189 CCTAACCCCCTAAACAGTAGGGTAACAG-GCTG-A-ATTTTCAG-
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCTGAAGATGATAAGC
* * * * * *
38043230 ATCTCACCTCCCTAAGCAGTAGGGAAACAGATC-AAAGGTGACAGGC
1 CT-TAACC-CCCTAAGCAGTAGGGAAACAGATCTGAAGATGATAAGC
* * * * **
38043276 CTTAACCCCCTAAACAGTAGGGTAACAG-GCTGAAGATTGACAAAT
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCTGAAGA-TGATAAGC
* * * * *
38043321 TTTAACCCCCTAAGTAGTAGGGAAACAGATC-AAAGGTGACAAGC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCTGAAGATGATAAGC
* * * * * *
38043365 CTTAACCCCCTAAACAGTAGGGTAACAG-GCTAAAGATTGACAAAC
1 CTTAACCCCCTAAGCAGTAGGGAAACAGATCTGAAGA-TGATAAGC
* * **
38043410 CTTAACCCCCCTAAACAGTAGGGAAACAGATCAGAAG-TGATGGGC
1 CTTAA-CCCCCTAAGCAGTAGGGAAACAGATCTGAAGATGATAAGC
*
38043455 CTTAAACCCCTAAGCAGTAGGG
1 CTTAACCCCCTAAGCAGTAGGG
38043477 TCACAGGCTG
Statistics
Matches: 288, Mismatches: 70, Indels: 38
0.73 0.18 0.10
Matches are distributed among these distances:
42 8 0.03
43 25 0.09
44 133 0.46
45 92 0.32
46 26 0.09
47 4 0.01
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.17
Consensus pattern (45 bp):
CTTAACCCCCTAAGCAGTAGGGAAACAGATCTGAAGATGATAAGC
Found at i:38043169 original size:89 final size:88
Alignment explanation
Indices: 38043020--38043494 Score: 577
Period size: 89 Copynumber: 5.4 Consensus size: 88
38043010 AGCCTTATTT
*
38043020 CCCTAAGCAGTAGGGTAACAGGCT-AA-ATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
1 CCCTAAACAGTAGGGTAACAGGCTGAAGA-TTACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
*
38043083 GATCGAAGATGATGAGCCCTAACC
65 GATCGAAGATGATGAGCCTTAACC
* *
38043107 CCCTAAGCAGTAGGGTAACAGGCTGAAGATGTACAGATCTTAACCCCCTAAGCAGCAGGGAAACA
1 CCCTAAACAGTAGGGTAACAGGCTGAAGAT-TACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
* *
38043172 GATCGAAGATGATGGGCCCTAACC
65 GATCGAAGATGATGAGCCTTAACC
* * *
38043196 CCCTAAACAGTAGGGTAACAGGCTGAA-TTTTCAGATC-TCACCTCCCTAAGCAGTAGGGAAACA
1 CCCTAAACAGTAGGGTAACAGGCTGAAGATTACAGATCTTAACC-CCCTAAGCAGTAGGGAAACA
* * *
38043259 GATCAAAGGTGA-CAGGCCTTAACC
65 GATCGAAGATGATGA-GCCTTAACC
* * *
38043283 CCCTAAACAGTAGGGTAACAGGCTGAAGATTGACAAATTTTAACCCCCTAAGTAGTAGGGAAACA
1 CCCTAAACAGTAGGGTAACAGGCTGAAGATT-ACAGATCTTAACCCCCTAAGCAGTAGGGAAACA
* * **
38043348 GATCAAAGGTGACAAGCCTTAACC
65 GATCGAAGATGATGAGCCTTAACC
* * * *
38043372 CCCTAAACAGTAGGGTAACAGGCTAAAGATTGACAAACCTTAACCCCCCTAAACAGTAGGGAAAC
1 CCCTAAACAGTAGGGTAACAGGCTGAAGATT-ACAGATCTTAA-CCCCCTAAGCAGTAGGGAAAC
* *
38043437 AGATCAGAAG-TGATGGGCCTTAAAC
64 AGATC-GAAGATGATGAGCCTTAACC
* *
38043462 CCCTAAGCAGTAGGGTCACAGGCTGGAA-ATTAC
1 CCCTAAACAGTAGGGTAACAGGCT-GAAGATTAC
38043495 GAATCTCTTC
Statistics
Matches: 344, Mismatches: 32, Indels: 22
0.86 0.08 0.06
Matches are distributed among these distances:
86 4 0.01
87 95 0.28
88 6 0.02
89 169 0.49
90 65 0.19
91 5 0.01
ACGTcount: A:0.36, C:0.24, G:0.23, T:0.18
Consensus pattern (88 bp):
CCCTAAACAGTAGGGTAACAGGCTGAAGATTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAG
ATCGAAGATGATGAGCCTTAACC
Found at i:38043328 original size:176 final size:175
Alignment explanation
Indices: 38043020--38043486 Score: 598
Period size: 176 Copynumber: 2.6 Consensus size: 175
38043010 AGCCTTATTT
*
38043020 CCCTAAGCAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
1 CCCTAAACAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
* * * * *
38043085 TCGAAGATGATGAGCCCTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATGTACAGATCTTAA
66 TCAAAGGTGAAG-GCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATGTACAAATCTTAA
* ***
38043150 CCCCCTAAGCAGCAGGGAAACAGATCGAAGATGATGGGCCCTAACC
130 CCCCCTAAGCAGCAGGGAAACAGATCAAAGATGACAAGCCCTAACC
* * *
38043196 CCCTAAACAGTAGGGTAACAGGCTGAATTTTCAGATC-TCACCTCCCTAAGCAGTAGGGAAACAG
1 CCCTAAACAGTAGGGTAACAGGCTAAATTTACAGATCTTAACC-CCCTAAGCAGTAGGGAAACAG
* *
38043260 ATCAAAGGTGACAGGCCTTAACCCCCTAAACAGTAGGGTAACAGGCTGAAGAT-TGACAAATTTT
65 ATCAAAGGTGA-AGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATGT-ACAAATCTT
* * * *
38043324 AACCCCCTAAGTAGTAGGGAAACAGATCAAAGGTGACAAGCCTTAACC
128 AACCCCCTAAGCAGCAGGGAAACAGATCAAAGATGACAAGCCCTAACC
* * * *
38043372 CCCTAAACAGTAGGGTAACAGGCTAAAGATTGACAAACCTTAACCCCCCTAAACAGTAGGGAAAC
1 CCCTAAACAGTAGGGTAACAGGCT-AA-ATTTACAGATCTTAA-CCCCCTAAGCAGTAGGGAAAC
* * *
38043437 AGATCAGAA-GTGATGGGCCTTAAACCCCTAAGCAGTAGGGTCACAGGCTG
63 AGATCA-AAGGTGA-AGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTG
38043487 GAAATTACGA
Statistics
Matches: 252, Mismatches: 31, Indels: 13
0.85 0.10 0.04
Matches are distributed among these distances:
175 5 0.02
176 172 0.68
177 2 0.01
178 7 0.03
179 62 0.25
180 4 0.02
ACGTcount: A:0.35, C:0.24, G:0.23, T:0.18
Consensus pattern (175 bp):
CCCTAAACAGTAGGGTAACAGGCTAAATTTACAGATCTTAACCCCCTAAGCAGTAGGGAAACAGA
TCAAAGGTGAAGGCCTTAACCCCCTAAGCAGTAGGGTAACAGGCTGAAGATGTACAAATCTTAAC
CCCCTAAGCAGCAGGGAAACAGATCAAAGATGACAAGCCCTAACC
Found at i:38043929 original size:17 final size:18
Alignment explanation
Indices: 38043907--38043946 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
38043897 CCAAATTAAA
*
38043907 CCAAATAACCCC-AAAGC
1 CCAAATAACCCCTAAAAC
38043924 CCAAATAACCCCTAAAAC
1 CCAAATAACCCCTAAAAC
38043942 CCAAA
1 CCAAA
38043947 CAAACTCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.50, C:0.40, G:0.03, T:0.07
Consensus pattern (18 bp):
CCAAATAACCCCTAAAAC
Found at i:38045273 original size:9 final size:9
Alignment explanation
Indices: 38045256--38045309 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
38045246 TAAATGCCAT
38045256 TATTATTAC
1 TATTATTAC
*
38045265 TATTGTTAC
1 TATTATTAC
38045274 T-TCTATTAC
1 TAT-TATTAC
38045283 TATTATTAC
1 TATTATTAC
* *
38045292 TATTGTTAT
1 TATTATTAC
38045301 TATATATTA
1 TAT-TATTA
38045310 ATGTATGCTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
8 1 0.03
9 31 0.84
10 5 0.14
ACGTcount: A:0.30, C:0.09, G:0.04, T:0.57
Consensus pattern (9 bp):
TATTATTAC
Found at i:38045452 original size:25 final size:23
Alignment explanation
Indices: 38045403--38045453 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
38045393 TATACTTTAT
* *
38045403 TATTATTATTATATAGTAGTGCA
1 TATTATTATTATATAGTAATACA
*
38045426 TATTTTTATTATATACGTAAATACA
1 TATTATTATTATATA-GT-AATACA
38045451 TAT
1 TAT
38045454 ATGTATATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 14 0.61
24 2 0.09
25 7 0.30
ACGTcount: A:0.37, C:0.06, G:0.08, T:0.49
Consensus pattern (23 bp):
TATTATTATTATATAGTAATACA
Found at i:38045819 original size:26 final size:26
Alignment explanation
Indices: 38045773--38045830 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 26
38045763 ATTATGCATA
* *
38045773 TATATATTGTCAATAACTATATTATG
1 TATATATTGTCAATAACTATATCACG
38045799 TATATATT-TCATATATA-TATATCACG
1 TATATATTGTCA-ATA-ACTATATCACG
38045825 TATATA
1 TATATA
38045831 CATTTTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 3 0.11
26 24 0.86
27 1 0.04
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (26 bp):
TATATATTGTCAATAACTATATCACG
Found at i:38045872 original size:9 final size:10
Alignment explanation
Indices: 38045845--38045876 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
38045835 TTAATATCTC
38045845 ATATATAT-T
1 ATATATATGT
38045854 ATATATATGT
1 ATATATATGT
38045864 ATATA-ATGT
1 ATATATATGT
38045873 ATAT
1 ATAT
38045877 TTTCTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 16 0.73
10 6 0.27
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (10 bp):
ATATATATGT
Found at i:38045901 original size:26 final size:25
Alignment explanation
Indices: 38045872--38045927 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
38045862 GTATATAATG
* *
38045872 TATATTTTCTTTTTTAATACTACGTA
1 TATATTTT-ATTTCTAATACTACGTA
* *
38045898 TATATTTTATTTCTATTATTACGTA
1 TATATTTTATTTCTAATACTACGTA
38045923 TATAT
1 TATAT
38045928 CTCAATGCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
25 18 0.69
26 8 0.31
ACGTcount: A:0.29, C:0.09, G:0.04, T:0.59
Consensus pattern (25 bp):
TATATTTTATTTCTAATACTACGTA
Found at i:38047096 original size:22 final size:22
Alignment explanation
Indices: 38047068--38047111 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
38047058 CGAGATGAGA
38047068 ATGTCTTTAACGTTCAAATGTT
1 ATGTCTTTAACGTTCAAATGTT
38047090 ATGTCTTTAACGTTCAAATGTT
1 ATGTCTTTAACGTTCAAATGTT
38047112 TTTTTACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.14, T:0.45
Consensus pattern (22 bp):
ATGTCTTTAACGTTCAAATGTT
Found at i:38048736 original size:21 final size:21
Alignment explanation
Indices: 38048677--38048744 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 21
38048667 AAACCTTGTA
*
38048677 ATATAAA-ATATATATGATA-T
1 ATATAAATA-ATATATTATAGT
38048697 GATATAAATAATATATTATAGT
1 -ATATAAATAATATATTATAGT
*
38048719 ATATAAATAATA-ATTTATATT
1 ATATAAATAATATA-TTATAGT
38048740 ATATA
1 ATATA
38048745 TTATATATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 1 0.02
21 39 0.93
22 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (21 bp):
ATATAAATAATATATTATAGT
Found at i:38050018 original size:81 final size:82
Alignment explanation
Indices: 38049877--38050057 Score: 301
Period size: 81 Copynumber: 2.2 Consensus size: 82
38049867 TCTATACTGG
* *
38049877 TCAAGTCAATCCATACAGAAAATTAAAATTGTAAATTGAATGAAAATAGGTTGTAAAATTGATTA
1 TCAAGTCAACCCATACAAAAAATTAAAATTGTAAATTGAATGAAAATAGGTTGTAAAATTGATTA
*
38049942 AAGTCTATAAATGCTGC
66 AAGTCTATAAATGCTGA
* *
38049959 TCAAGTAAACCCATACAAAAAATTAAGATTGT-AATTGAATGAAAATAGGTTGTAAAATTGATTA
1 TCAAGTCAACCCATACAAAAAATTAAAATTGTAAATTGAATGAAAATAGGTTGTAAAATTGATTA
*
38050023 AAGTCTATAAATGTTGA
66 AAGTCTATAAATGCTGA
38050040 TCAAGTCAACCCATACAA
1 TCAAGTCAACCCATACAA
38050058 CCAAACACAA
Statistics
Matches: 92, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
81 64 0.70
82 28 0.30
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (82 bp):
TCAAGTCAACCCATACAAAAAATTAAAATTGTAAATTGAATGAAAATAGGTTGTAAAATTGATTA
AAGTCTATAAATGCTGA
Found at i:38050356 original size:13 final size:13
Alignment explanation
Indices: 38050340--38050364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38050330 TCATATTTTT
38050340 ATTTAAAAATTTA
1 ATTTAAAAATTTA
38050353 ATTTAAAAATTT
1 ATTTAAAAATTT
38050365 TCTGTTTTTC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTAAAAATTTA
Found at i:38052089 original size:30 final size:31
Alignment explanation
Indices: 38052045--38052104 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 31
38052035 AGCGTGTGCC
*
38052045 AGGCCGTGTGGACCATACAGG-CCAGACCCTT
1 AGGCCGTGTGGACCACAC-GGACCAGACCCTT
*
38052076 AGGCTGTGT-GACCACACGGACCAGACCCT
1 AGGCCGTGTGGACCACACGGACCAGACCCT
38052105 CACTCCGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 2 0.08
30 16 0.62
31 8 0.31
ACGTcount: A:0.23, C:0.33, G:0.28, T:0.15
Consensus pattern (31 bp):
AGGCCGTGTGGACCACACGGACCAGACCCTT
Found at i:38053532 original size:19 final size:19
Alignment explanation
Indices: 38053457--38053532 Score: 53
Period size: 22 Copynumber: 3.7 Consensus size: 19
38053447 TAATAACAAC
* *
38053457 AAAAAAATAGCAATATAAC
1 AAAAAAATAGCAAAATAAT
* *
38053476 AACGAAATACTAGCAAAACAAT
1 AA--AAA-AATAGCAAAATAAT
*
38053498 GAAAAAACAGTGGCAAAATAAT
1 -AAAAAA-A-TAGCAAAATAAT
38053520 AAAAAAATAGCAA
1 AAAAAAATAGCAA
38053533 TAATTTTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
19 7 0.16
20 2 0.05
21 12 0.28
22 20 0.47
23 2 0.05
ACGTcount: A:0.64, C:0.12, G:0.11, T:0.13
Consensus pattern (19 bp):
AAAAAAATAGCAAAATAAT
Found at i:38055126 original size:10 final size:10
Alignment explanation
Indices: 38055098--38055127 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
38055088 TAGCAATTTG
*
38055098 AAGAAAAAAA
1 AAGAAAAAGA
38055108 AAGAAAAAGA
1 AAGAAAAAGA
38055118 AAGAAAAAGA
1 AAGAAAAAGA
38055128 GTTCACAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:38056940 original size:26 final size:26
Alignment explanation
Indices: 38056861--38056961 Score: 87
Period size: 26 Copynumber: 3.9 Consensus size: 26
38056851 TCTCATCCCT
* *
38056861 ATTTTACCTTGA-CAAAATTTTGACG
1 ATTTTACCTTTAGTAAAATTTTGACG
* ** *
38056886 ATTTTACCTTTGGTAAAATTTAAATG
1 ATTTTACCTTTAGTAAAATTTTGACG
* *
38056912 ATTTTACTTTTAGTAATATTTTGACG
1 ATTTTACCTTTAGTAAAATTTTGACG
* ** *
38056938 ATTTTGCCCATGGTAAAATTTTGA
1 ATTTTACCTTTAGTAAAATTTTGA
38056962 GAAAATGTGT
Statistics
Matches: 57, Mismatches: 18, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
25 10 0.18
26 47 0.82
ACGTcount: A:0.31, C:0.11, G:0.13, T:0.46
Consensus pattern (26 bp):
ATTTTACCTTTAGTAAAATTTTGACG
Found at i:38062951 original size:13 final size:13
Alignment explanation
Indices: 38062933--38062957 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38062923 AACGAAGAAG
38062933 GACACGGTCGTGC
1 GACACGGTCGTGC
38062946 GACACGGTCGTG
1 GACACGGTCGTG
38062958 TGCACCCACA
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:0.28, G:0.40, T:0.16
Consensus pattern (13 bp):
GACACGGTCGTGC
Found at i:38068833 original size:14 final size:14
Alignment explanation
Indices: 38068814--38068844 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
38068804 CACTTCTCAA
38068814 TCATCCCTCATCCT
1 TCATCCCTCATCCT
38068828 TCATCCCTCATCCT
1 TCATCCCTCATCCT
38068842 TCA
1 TCA
38068845 ACATTCATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.16, C:0.48, G:0.00, T:0.35
Consensus pattern (14 bp):
TCATCCCTCATCCT
Found at i:38068840 original size:21 final size:21
Alignment explanation
Indices: 38068814--38068858 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
38068804 CACTTCTCAA
* *
38068814 TCATCCCTCATCCTTCATCCC
1 TCATCCCTCAACATTCATCCC
* *
38068835 TCATCCTTCAACATTCATCTC
1 TCATCCCTCAACATTCATCCC
38068856 TCA
1 TCA
38068859 CTCTCACTAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.44, G:0.00, T:0.36
Consensus pattern (21 bp):
TCATCCCTCAACATTCATCCC
Found at i:38072148 original size:6 final size:6
Alignment explanation
Indices: 38072131--38072188 Score: 82
Period size: 6 Copynumber: 9.8 Consensus size: 6
38072121 CAACATGATC
* **
38072131 TCCCCT TTCCCT TCCCCT TCCCCT TCCCCT T-CCCT TTTCCT TCCCCT
1 TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT
38072178 TCCCCT TCCCC
1 TCCCCT TCCCC
38072189 CATCCTTTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
5 5 0.11
6 41 0.89
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (6 bp):
TCCCCT
Found at i:38072166 original size:23 final size:23
Alignment explanation
Indices: 38072131--38072187 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 23
38072121 CAACATGATC
38072131 TCCCCTTTCCCTTCCCCTTCCCCT
1 TCCCC-TTCCCTTCCCCTTCCCCT
**
38072155 TCCCCTTCCCTTTTCCTTCCCCT
1 TCCCCTTCCCTTCCCCTTCCCCT
38072178 TCCCCTTCCC
1 TCCCCTTCCC
38072188 CCATCCTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
23 26 0.84
24 5 0.16
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (23 bp):
TCCCCTTCCCTTCCCCTTCCCCT
Found at i:38072194 original size:23 final size:23
Alignment explanation
Indices: 38072146--38072195 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
38072136 TTTCCCTTCC
***
38072146 CCTTCCCCTTCCCCTTCCCTTTT
1 CCTTCCCCTTCCCCTTCCCCCAT
38072169 CCTTCCCCTTCCCCTTCCCCCAT
1 CCTTCCCCTTCCCCTTCCCCCAT
38072192 CCTT
1 CCTT
38072196 TTCGGTAAGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.02, C:0.60, G:0.00, T:0.38
Consensus pattern (23 bp):
CCTTCCCCTTCCCCTTCCCCCAT
Found at i:38072195 original size:29 final size:29
Alignment explanation
Indices: 38072133--38072198 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
38072123 ACATGATCTC
* *
38072133 CCCTTTCCCTTCCCCTTCCCCTTCCCCTT
1 CCCTTTTCCTTCCCCTTCCCCTTCCCCAT
38072162 CCCTTTTCCTTCCCCTTCCCCTTCCCCCAT
1 CCCTTTTCCTTCCCCTTCCCCTT-CCCCAT
38072192 -CCTTTTC
1 CCCTTTTC
38072199 GGTAAGAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 29 0.85
30 5 0.15
ACGTcount: A:0.02, C:0.59, G:0.00, T:0.39
Consensus pattern (29 bp):
CCCTTTTCCTTCCCCTTCCCCTTCCCCAT
Found at i:38077342 original size:23 final size:23
Alignment explanation
Indices: 38077316--38077362 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
38077306 ACCTAATATT
38077316 TAAAAAAACTAAA-AAAAATAAAA
1 TAAAAAAA-TAAAGAAAAATAAAA
* *
38077339 TAAAATAATAAAGAAAACTAAAA
1 TAAAAAAATAAAGAAAAATAAAA
38077362 T
1 T
38077363 TAATATCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (23 bp):
TAAAAAAATAAAGAAAAATAAAA
Found at i:38082166 original size:43 final size:42
Alignment explanation
Indices: 38082034--38082187 Score: 191
Period size: 42 Copynumber: 3.6 Consensus size: 42
38082024 CTAAAACTAT
*
38082034 GTGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
* *
38082076 GTGTAAGACCATATCTGGGATATAGCATCGATGTGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
* * * * **
38082118 GTGTAAGACCATAACTAGGCTATTGGCATCGATACGAGATCCC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTTC
* * *
38082161 ATGTAAGACCATATTTGAGATATGGCA
1 GTGTAAGACCATATCTGGGATATGGCA
38082188 CTGGTATCCT
Statistics
Matches: 94, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 63 0.67
43 31 0.33
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
Found at i:38084794 original size:33 final size:32
Alignment explanation
Indices: 38084757--38084838 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 32
38084747 TGGTCCAATC
* * * *
38084757 ATGGTCTTACGTCCATAGTGCCATAACCCAGTT
1 ATGGTCTTACAT-CAGAATGCCATAACCCAGCT
*
38084790 ATGGTCTTATCATCAGAATGCCATAGCCCAGCT
1 ATGGTCTTA-CATCAGAATGCCATAACCCAGCT
38084823 ATGGTCTTACAT-AGAA
1 ATGGTCTTACATCAGAA
38084839 ACACTGCCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
31 4 0.09
32 3 0.07
33 34 0.79
34 2 0.05
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (32 bp):
ATGGTCTTACATCAGAATGCCATAACCCAGCT
Found at i:38084847 original size:101 final size:101
Alignment explanation
Indices: 38084671--38084862 Score: 312
Period size: 101 Copynumber: 1.9 Consensus size: 101
38084661 TTTACATTTG
* * * * *
38084671 TAGTGCCATAACCCGGTTATGGTTTTATCATCAGAATGTCATAGCCCACCTATGGTCTTAGATAT
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCACCTATGGTCTTACATAG
* *
38084736 AAACATTGCCATGGTCCAATCATGGTCTTACGTCCA
66 AAACACTGCCATGGTCCAACCATGGTCTTACGTCCA
*
38084772 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAGCTATGGTCTTACATAG
1 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCACCTATGGTCTTACATAG
38084837 AAACACTGCCATGGTCCAACCATGGT
66 AAACACTGCCATGGTCCAACCATGGT
38084863 TTTATGTTTG
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 83 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (101 bp):
TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCACCTATGGTCTTACATAG
AAACACTGCCATGGTCCAACCATGGTCTTACGTCCA
Found at i:38110343 original size:14 final size:14
Alignment explanation
Indices: 38110326--38110355 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
38110316 TCTTCCATTA
38110326 TTCTTTAAAGTATG
1 TTCTTTAAAGTATG
38110340 TTCTTTAAAGTATG
1 TTCTTTAAAGTATG
38110354 TT
1 TT
38110356 GCATCGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (14 bp):
TTCTTTAAAGTATG
Found at i:38111218 original size:205 final size:205
Alignment explanation
Indices: 38110860--38111609 Score: 1160
Period size: 205 Copynumber: 3.7 Consensus size: 205
38110850 CTGAAGCAAT
* *
38110860 ATCCAAGATGGTTCGGCATCCTTGTGCTTACAAGGAGA-AAATCGAAGACATAGCTGATTTGGTT
1 ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGA-ACAAATCGAAGACATAGCTGATTTGGCT
* *
38110924 TTCGCGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAAAGAACAAAT
65 TTCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAAT
* * **
38110989 TGAAGTCCGGCATCTCTGCTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTA
130 CGAAGTCTGGCATCTCCACTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTA
*
38111054 TACTGAAGTAG
195 TACTAAAGTAG
*
38111065 ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAGCAAATCGAAGACATAGCTGATTTGGCTT
1 ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTT
* *
38111130 TCACGTGCTTACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTATATTGTCAGAGAACAAATC
66 TCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
38111195 GAAGTCTGGCATCTCCACTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTAT
131 GAAGTCTGGCATCTCCACTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTAT
38111260 ACTAAAGTAG
196 ACTAAAGTAG
* * * * *
38111270 ATCCAAGATGGTTTGGTATCCTTGTGATTACAAGGAACAAATCAAAGACATAGTTGATTTGGTTT
1 ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTT
* *
38111335 TCGCGTGCTTACGCTGAAGCAAGTCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
66 TCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
* ** * * * * *
38111400 GAAGTTTGGGGTCTCCATATTCGACAGAGGGCAGACACATAACAGATCTAACCTTCAGATGATTA
131 GAAGTCTGGCATCTCCA-CTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTA
* *
38111465 GACTAAAGCAG
195 TACTAAAGTAG
* * *
38111476 ATCCAAGATGGTTTGGTATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGTTGATTTGACTT
1 ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTT
* * *
38111541 TCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAACAAATT
66 TCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
38111606 GAAG
131 GAAG
38111610 AAGCAGATTT
Statistics
Matches: 502, Mismatches: 41, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
205 326 0.65
206 176 0.35
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (205 bp):
ATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTGATTTGGCTT
TCACGTGCTTACGCTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAGAACAAATC
GAAGTCTGGCATCTCCACTTCGACGGAGGGCAGACACATAGCAGATCCAACCTTCAGATGTTTAT
ACTAAAGTAG
Found at i:38112872 original size:16 final size:16
Alignment explanation
Indices: 38112851--38112881 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38112841 TACTTTCATA
38112851 TTATATTATAATTATT
1 TTATATTATAATTATT
*
38112867 TTATATTATATTTAT
1 TTATATTATAATTAT
38112882 ACTATTATAT
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:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTATATTATAATTATT
Found at i:38112887 original size:21 final size:21
Alignment explanation
Indices: 38112848--38112894 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
38112838 ATATACTTTC
* *
38112848 ATATTATATTATAATTATTTT
1 ATATTATATTATAACTATTAT
38112869 ATATTATATT-TATACTATTAT
1 ATATTATATTATA-ACTATTAT
38112890 ATATT
1 ATATT
38112895 TTTTTATCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
ATATTATATTATAACTATTAT
Found at i:38113079 original size:21 final size:23
Alignment explanation
Indices: 38113054--38113112 Score: 72
Period size: 22 Copynumber: 2.7 Consensus size: 23
38113044 ATCATTAATT
*
38113054 ACTTATTTTATAT-TATTCTA-A
1 ACTTATTTTATATATATTATATA
38113075 ACTTATATTTATATATATTATATA
1 ACTTAT-TTTATATATATTATATA
38113099 A-TTATTTTAT-TATA
1 ACTTATTTTATATATA
38113113 AATATAAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
21 10 0.29
22 12 0.35
23 10 0.29
24 2 0.06
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (23 bp):
ACTTATTTTATATATATTATATA
Found at i:38113186 original size:18 final size:19
Alignment explanation
Indices: 38113165--38113211 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
38113155 TTCTAAACCA
38113165 ATATATTTTTTATT-TTAT
1 ATATATTTTTTATTCTTAT
* * *
38113183 ATATAATTATTATTCTTTT
1 ATATATTTTTTATTCTTAT
*
38113202 ATAAATTTTT
1 ATATATTTTT
38113212 GTTATTATAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (19 bp):
ATATATTTTTTATTCTTAT
Found at i:38113642 original size:17 final size:17
Alignment explanation
Indices: 38113620--38113658 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
38113610 AGCTCAGGTG
38113620 GCAACAGTAATCTATAC
1 GCAACAGTAATCTATAC
38113637 GCAACAGTAATCTATAC
1 GCAACAGTAATCTATAC
38113654 GCAAC
1 GCAAC
38113659 CGGCCCAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.26, G:0.13, T:0.21
Consensus pattern (17 bp):
GCAACAGTAATCTATAC
Found at i:38134642 original size:49 final size:49
Alignment explanation
Indices: 38134570--38134664 Score: 190
Period size: 49 Copynumber: 1.9 Consensus size: 49
38134560 TTTGTCTTAG
38134570 GTTTCATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAACTAAAAGGA
1 GTTTCATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAACTAAAAGGA
38134619 GTTTCATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAACTAAAA
1 GTTTCATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAACTAAAA
38134665 AGGAAAACAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (49 bp):
GTTTCATTCCCCTTAGGTATTTAGGGGATTTAGTTCATAACTAAAAGGA
Found at i:38135675 original size:510 final size:513
Alignment explanation
Indices: 38134674--38135705 Score: 1357
Period size: 510 Copynumber: 2.0 Consensus size: 513
38134664 AAGGAAAACA
*
38134674 TCTCAGAAGAATAATGAATACAAAATATAAAGAAAACCCAAAAATCCTGAAAGGAAATTGAGGGG
1 TCTCAGAAGAATAATGAATACAAAACATAAAGAAAACCCAAAAATCCTGAAAGGAAATTGAGGGG
* * *
38134739 AGATCTTCAGTCTCGATGAAGAATTCGACTTCTAAGATGGATCAATCGGCTTTCTTCGAGTAATT
66 AGATCTTCAATCTCGATGAAGAATCCGACTTCTAAGATGGATCAATCAGCTTTCTTCGAGTAATT
** * * * *
38134804 CCTTTCTTCCTCTCTGTGCCTTCCCCTTTTCTTCCTCCTTTAGGTCGTATTTATAGGCTTTGGAA
131 CCTGCCTACCTCTCCGTGCCTTCCCCTTTTCTTCCTCCTCTAGGTCGTATTTATAGGCTTTAGAA
* * * *
38134869 TGCCTAAGAACCCTCAAAATTAGCCTTTTCCGAATTGGATTTAATTTGGGCTCGGCAGGGACTTG
196 TGCCTAAGAACCCTCAAAATTAGCCTTTTCCGAATTGGACTCAACTTGGGCTCAGCA--GA----
* * *
38134934 CTCGTGTGACACGCCCGTGTGCGATTACTTCAGGTAGTGCTCGAGCCTATTAGAATGGCACGGGC
255 ----TGTGACACGCCCGTGTGCGATTACTTCAGGCAGTGCTCGAGCCTATTAGAATCGCACAGGC
* *
38134999 GTGTATTCTACCTGTGTGAGTCATGCTTCGATTTTGCCAAATTGACACGGCTGTGTGGTCTGCCC
316 GTGTATTCTACCCGTGTGAGTCATGCTTCGATTTTGCCAAATTGACACGGCTGTGTGGTCTACCC
* * * * *
38135064 GTGTGAGGGAGTCTAGGCCGTGTTGATTTCGTACTTTGGCCCATTTTCTCCGTTTTTGGCCTATT
381 GTGTGAGGAAGTCTAGGCCGTGTTGATTTCGTACATTGGCCAATTTTCTCCGTTTTTGACCCATT
* * * *
38135129 TCTCGTTCCTTTCGCTCTCCTATGCTCTCCTAAGTATAAAACATGAAATTACGGTATTAGGAGCA
446 TCTCATTCCTTTCGCTCTCCTATGCTCACCTAAGTATAAAACATGAAATTAAGGCATTAGGAGCA
38135194 TCG
511 TCG
* * *
38135197 TCTCAGAAGAATAATGAATACAAAACATAAAGAAAACCCAAAACTCTTGAAGGGAAATTGAGGGG
1 TCTCAGAAGAATAATGAATACAAAACATAAAGAAAACCCAAAAATCCTGAAAGGAAATTGAGGGG
* * * * * *
38135262 AGATCTTCAATCTCTATCG-CGAATCCGGCTTCTGAGATGGATCAATCAGTTTTCCTT-GAGTAG
66 AGATCTTCAATCTCGAT-GAAGAATCCGACTTCTAAGATGGATCAATCAGCTTT-CTTCGAGTAA
* *
38135325 TTCCCTGCCTACCTTTCTCCGTGTC-TCCTC-TTTCTTCCTCCTCTAGGGT-GTATTTATAGGCT
129 TT-CCTGCCTACC--TCTCCGTGCCTTCCCCTTTTCTTCCTCCTCTA-GGTCGTATTTATAGGCT
**
38135387 TTAGAATGCCTAA-AAGCCCTCAAAATTAGTGTTTTCCGAATTGGACTCAACTTGGGCTCAGCA-
190 TTAGAATGCCTAAGAA-CCCTCAAAATTAGCCTTTTCCGAATTGGACTCAACTTGGGCTCAGCAG
** * * *
38135450 A-G-GACACGCCCGTGTGCGATTACTTCAGGCCTTGCTCGAGCCTGTTAGAATCGTATAGGCGTG
254 ATGTGACACGCCCGTGTGCGATTACTTCAGGCAGTGCTCGAGCCTATTAGAATCGCACAGGCGTG
* *
38135513 TGTTCTACCCGTGTGAGTCATGCTTCGATTCTT-CCAAATTGACATGGC-GTGTGGTCTACCCGT
319 TATTCTACCCGTGTGAGTCATGCTTCGATT-TTGCCAAATTGACACGGCTGTGTGGTCTACCCGT
* *
38135576 GTGAGGAAGTCTAGGTCGTGTTGATTTCGTACATTGGCCAATTTTCTCCGTTTTTGACCCGTTTC
383 GTGAGGAAGTCTAGGCCGTGTTGATTTCGTACATTGGCCAATTTTCTCCGTTTTTGACCCATTTC
* *
38135641 TCATTCCTTTCGCTCTTCTATGCTCACCTAAGTATAAAATATGAAATTAAGGCATTAGGAGCATC
448 TCATTCCTTTCGCTCTCCTATGCTCACCTAAGTATAAAACATGAAATTAAGGCATTAGGAGCATC
38135706 AAATTCACCA
Statistics
Matches: 449, Mismatches: 52, Indels: 29
0.85 0.10 0.05
Matches are distributed among these distances:
510 131 0.29
511 95 0.21
512 3 0.01
521 1 0.00
523 113 0.25
524 91 0.20
525 7 0.02
526 8 0.02
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (513 bp):
TCTCAGAAGAATAATGAATACAAAACATAAAGAAAACCCAAAAATCCTGAAAGGAAATTGAGGGG
AGATCTTCAATCTCGATGAAGAATCCGACTTCTAAGATGGATCAATCAGCTTTCTTCGAGTAATT
CCTGCCTACCTCTCCGTGCCTTCCCCTTTTCTTCCTCCTCTAGGTCGTATTTATAGGCTTTAGAA
TGCCTAAGAACCCTCAAAATTAGCCTTTTCCGAATTGGACTCAACTTGGGCTCAGCAGATGTGAC
ACGCCCGTGTGCGATTACTTCAGGCAGTGCTCGAGCCTATTAGAATCGCACAGGCGTGTATTCTA
CCCGTGTGAGTCATGCTTCGATTTTGCCAAATTGACACGGCTGTGTGGTCTACCCGTGTGAGGAA
GTCTAGGCCGTGTTGATTTCGTACATTGGCCAATTTTCTCCGTTTTTGACCCATTTCTCATTCCT
TTCGCTCTCCTATGCTCACCTAAGTATAAAACATGAAATTAAGGCATTAGGAGCATCG
Found at i:38138143 original size:20 final size:20
Alignment explanation
Indices: 38138105--38138143 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
38138095 AAGATTTAAT
* *
38138105 TTTTTTTTAAGTTTCATTTG
1 TTTTGTTTAAATTTCATTTG
*
38138125 TTTTGTTTAAATTTTATTT
1 TTTTGTTTAAATTTCATTT
38138144 TTATGTTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.03, G:0.08, T:0.72
Consensus pattern (20 bp):
TTTTGTTTAAATTTCATTTG
Done.