Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D07
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: 58101237
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1550000 characters in sequence are not A, C, G, or T
File 21 of 199
Found at i:6770201 original size:6 final size:7
Alignment explanation
Indices: 6770183--6770234 Score: 72
Period size: 7 Copynumber: 7.7 Consensus size: 7
6770173 AGTTATTTTA
6770183 GAAAAAT
1 GAAAAAT
6770190 GAAAAAT
1 GAAAAAT
6770197 GAAAAAT
1 GAAAAAT
*
6770204 GAAAAAA
1 GAAAAAT
*
6770211 GAAAAAA
1 GAAAAAT
6770218 GAAAAA-
1 GAAAAAT
6770224 GAAAAA-
1 GAAAAAT
6770230 GAAAA
1 GAAAA
6770235 GCAAACAGCA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
6 11 0.25
7 33 0.75
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (7 bp):
GAAAAAT
Found at i:6776137 original size:24 final size:24
Alignment explanation
Indices: 6776118--6776199 Score: 146
Period size: 24 Copynumber: 3.4 Consensus size: 24
6776108 ATTGGCTCGC
6776118 ATGAGCTTCCTGAATATGGCTCTT
1 ATGAGCTTCCTGAATATGGCTCTT
6776142 ATGAGCTTCCTGAATATGGCTCTT
1 ATGAGCTTCCTGAATATGGCTCTT
* *
6776166 ATGAGTTTCCTGAATATGGCTATT
1 ATGAGCTTCCTGAATATGGCTCTT
6776190 ATGAGCTTCC
1 ATGAGCTTCC
6776200 CATTATAAAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.38
Consensus pattern (24 bp):
ATGAGCTTCCTGAATATGGCTCTT
Found at i:6776148 original size:48 final size:48
Alignment explanation
Indices: 6776096--6776196 Score: 132
Period size: 48 Copynumber: 2.1 Consensus size: 48
6776086 TGATTCTTTG
*
6776096 GAGCTACCCG-ATATTGGCTCGCATGAGCTTCCTGAATATGGCTCTTAT
1 GAGCTACCCGAATA-TGGCTCGCATGAGCTTCCTGAATATGGCTATTAT
* * ** *
6776144 GAGCTTCCTGAATATGGCTCTTATGAGTTTCCTGAATATGGCTATTAT
1 GAGCTACCCGAATATGGCTCGCATGAGCTTCCTGAATATGGCTATTAT
6776192 GAGCT
1 GAGCT
6776197 TCCCATTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 43 0.93
49 3 0.07
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.35
Consensus pattern (48 bp):
GAGCTACCCGAATATGGCTCGCATGAGCTTCCTGAATATGGCTATTAT
Found at i:6796482 original size:106 final size:105
Alignment explanation
Indices: 6796287--6796594 Score: 436
Period size: 106 Copynumber: 2.9 Consensus size: 105
6796277 AGCATAGATT
* * *
6796287 AAAATTCAAGAGGATATTTGGCAATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCAC
1 AAAATT-AAAAGGATATTTAGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCAC
* *
6796352 GTTCCTCAAATTTCCAAACGCAAAACATTACCTTATTTTGTA
65 GTTCCTCGAATTTCCAAACGCAAAACATTACCTTATTTT-AA
*** * *
6796394 ATTTTTGAAAGGATATTTAGCTATTTGGTTGAACGAGAAATCGAAACCCAGCACCTTAGGGCACG
1 AAAATTAAAAGGATATTTAGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACG
* *
6796459 TTCCTCGAATTTCCAAACACAAAACATTGCCTTATTTTAA
66 TTCCTCGAATTTCCAAACGCAAAACATTACCTTATTTTAA
* *
6796499 AAAATTAAAAGGATATTAAGCTATTTGGTTAAACGAGAAAAATCGACACCCAGCACCTTAGGGCA
1 AAAATTAAAAGGATATTTAGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCA
*
6796564 CGTTTTCTCGAATTTCCAAACGCAAAACATT
64 CG-TTCCTCGAATTTCCAAACGCAAAACATT
6796595 GCCTCAATTA
Statistics
Matches: 177, Mismatches: 21, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
105 32 0.18
106 89 0.50
107 30 0.17
108 26 0.15
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (105 bp):
AAAATTAAAAGGATATTTAGCTATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACG
TTCCTCGAATTTCCAAACGCAAAACATTACCTTATTTTAA
Found at i:6797206 original size:4 final size:4
Alignment explanation
Indices: 6797197--6797222 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
6797187 CCATAGAGAA
6797197 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
6797223 TAACAAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:6799857 original size:19 final size:18
Alignment explanation
Indices: 6799831--6799866 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
6799821 AATATTTTTT
*
6799831 AATAATAATAATTATATC
1 AATAATAATAAATATATC
6799849 AATATATAATAAATATAT
1 AATA-ATAATAAATATAT
6799867 ACTTAGATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (18 bp):
AATAATAATAAATATATC
Found at i:6800310 original size:47 final size:47
Alignment explanation
Indices: 6800239--6800333 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
6800229 GTATGACCTG
*
6800239 AAATTTCCTCTTCGAAAAACCATTACTTTAATA-TACTGTTATTTTTT
1 AAATTTCCTCTTCGAAAAACCATTACTTTAATACT-CTATTATTTTTT
* *
6800286 AAATTTCCTCTTCGAGAAATCATTACTTTAATACTCTATTATTTTTT
1 AAATTTCCTCTTCGAAAAACCATTACTTTAATACTCTATTATTTTTT
6800333 A
1 A
6800334 GACACTTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
47 43 0.98
48 1 0.02
ACGTcount: A:0.32, C:0.17, G:0.04, T:0.47
Consensus pattern (47 bp):
AAATTTCCTCTTCGAAAAACCATTACTTTAATACTCTATTATTTTTT
Found at i:6807702 original size:45 final size:45
Alignment explanation
Indices: 6807638--6807725 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
6807628 AACAGATACT
* * *
6807638 GGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTCC
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAACGATGTCC
*
6807683 GGTGGAATCAGCACATAGCACCCACCTTACTAATCAACGATGT
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAACGATGT
6807726 TTGGTTTACA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTACTAATCAACGATGTCC
Found at i:6807794 original size:51 final size:50
Alignment explanation
Indices: 6807736--6807918 Score: 181
Period size: 51 Copynumber: 3.6 Consensus size: 50
6807726 TTGGTTTACA
*
6807736 TAGTAGCCTGCACATAGTACTACACATGTGAACATTACCATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGAAC-TTACCATCCGATACACG
* * * * * * *
6807787 TAGTAGCCTGCACATAGTACTACACACCTGATCGTAACTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGAAC-TTACCATCCGATACACG
* * * * * *
6807838 TAGTAGCTTGCACATAGTGCTACACATGCG-ACCTATCATTCC-AGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGAACTTACCA-TCCGA-TACACG
*
6807888 TAGTAGCTTGCACATAGTACTACACACGTGA
1 TAGTAGCCTGCACATAGTACTACACACGTGA
6807919 CCATCACTTT
Statistics
Matches: 104, Mismatches: 25, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
49 2 0.02
50 35 0.34
51 67 0.64
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
TAGTAGCCTGCACATAGTACTACACACGTGAACTTACCATCCGATACACG
Found at i:6807941 original size:101 final size:100
Alignment explanation
Indices: 6807730--6807952 Score: 236
Period size: 101 Copynumber: 2.2 Consensus size: 100
6807720 CGATGTTTGG
* *
6807730 TTTACATAGTAGCCTGCACATAGTACTACACATGTGAACATTACCATCCGATACACGTAGTAGCC
1 TTTACATAGTAGCCTGCACATAGTACTACACATGCGAACACTACCATCCGATACACGTAGTAGCC
* *
6807795 TGCACATAGTACTACACACCTGATCGTAACTATCC
66 TGCACATAGTACTACACACCTGACCATAACTATCC
** * * *
6807830 GGTACGCATAGTAGCTTGCACATAGTGCTACACATGCG-AC-CTATCATTCC-AGTACACGTAGT
1 TTTA--CATAGTAGCCTGCACATAGTACTACACATGCGAACACTACCA-TCCGA-TACACGTAGT
* * * *
6807892 AGCTTGCACATAGTACTACACACGTGACCATCACTTTCAC
62 AGCCTGCACATAGTACTACACACCTGACCATAACTATC-C
* *
6807932 TTTTACATAGTGGCCTACACA
1 -TTTACATAGTAGCCTGCACA
6807953 CAATCCGTGC
Statistics
Matches: 99, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
100 7 0.07
101 60 0.61
102 30 0.30
103 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (100 bp):
TTTACATAGTAGCCTGCACATAGTACTACACATGCGAACACTACCATCCGATACACGTAGTAGCC
TGCACATAGTACTACACACCTGACCATAACTATCC
Found at i:6812487 original size:15 final size:16
Alignment explanation
Indices: 6812467--6812508 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
6812457 GGCCTATTGC
6812467 TTTTTTGGTTTT-CTA
1 TTTTTTGGTTTTCCTA
*
6812482 TTTTTT-GTTTTCCTG
1 TTTTTTGGTTTTCCTA
*
6812497 TTATTTGGTTTT
1 TTTTTTGGTTTT
6812509 TCCTTTTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 5 0.22
15 13 0.57
16 5 0.22
ACGTcount: A:0.05, C:0.07, G:0.14, T:0.74
Consensus pattern (16 bp):
TTTTTTGGTTTTCCTA
Found at i:6814800 original size:19 final size:19
Alignment explanation
Indices: 6814764--6814800 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
6814754 CAACTTCTCT
*
6814764 TTTAAATATTATATTTTTA
1 TTTAAATATTATAATTTTA
*
6814783 TTTAAATATTTTAATTTT
1 TTTAAATATTATAATTTT
6814801 TCGAATTAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTAAATATTATAATTTTA
Found at i:6826689 original size:24 final size:24
Alignment explanation
Indices: 6826662--6826707 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
6826652 AATCTAATTC
6826662 TAATCAAA-GTCAAATATATTATGT
1 TAAT-AAATGTCAAATATATTATGT
*
6826686 TAATAAATGTTAAATATATTAT
1 TAATAAATGTCAAATATATTAT
6826708 ACTTATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.48, C:0.04, G:0.07, T:0.41
Consensus pattern (24 bp):
TAATAAATGTCAAATATATTATGT
Found at i:6826723 original size:24 final size:24
Alignment explanation
Indices: 6826673--6826724 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
6826663 AATCAAAGTC
* **
6826673 AAATATATTATGTTAATAAATGTT
1 AAATATATTATCTTAATAAATACT
6826697 AAATATATTATACTT-ATAAATACT
1 AAATATATTAT-CTTAATAAATACT
6826721 AAAT
1 AAAT
6826725 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.92
25 2 0.08
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (24 bp):
AAATATATTATCTTAATAAATACT
Found at i:6834483 original size:37 final size:37
Alignment explanation
Indices: 6834433--6834511 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
6834423 TTATTACGAA
* * *
6834433 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
6834470 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
6834507 GTCTT
1 GTCTT
6834512 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:6834789 original size:47 final size:47
Alignment explanation
Indices: 6834629--6834947 Score: 575
Period size: 47 Copynumber: 6.7 Consensus size: 47
6834619 GCCCTTCGGG
*
6834629 ACTTATCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATAC
1 ACTT-TCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
6834679 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
6834728 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
6834775 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
6834822 ACTTTCACATTCATCACATCGGCCATTAGGCATTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
6834869 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
6834916 ACTTTCACATTCATCACATCGGCCATTAGGCC
1 ACTTTCACATTCATCACATCGGCCATTAGGCC
6834948 ATACTATCAT
Statistics
Matches: 266, Mismatches: 3, Indels: 3
0.98 0.01 0.01
Matches are distributed among these distances:
47 179 0.67
49 83 0.31
50 4 0.02
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.31
Consensus pattern (47 bp):
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
Found at i:6842100 original size:23 final size:23
Alignment explanation
Indices: 6842074--6842147 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
6842064 GTGTTATTGA
6842074 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
*
6842097 TCAGTGGTAGCTTTGGCTACA-T
1 TCAGTGGTAGCTTCGGCTACATT
* *
6842119 CCAGTGGTAGCTTCGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATT
6842142 TCAGTG
1 TCAGTG
6842148 TGGCACTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
22 20 0.44
23 25 0.56
ACGTcount: A:0.19, C:0.22, G:0.27, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:6842126 original size:22 final size:22
Alignment explanation
Indices: 6842075--6842140 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
6842065 TGTTATTGAT
*
6842075 CAGTGGTAGCTTCGGCTACATTT
1 CAGTGGTAGCTTCGGCTACA-TC
*
6842098 CAGTGGTAGCTTTGGCTACATC
1 CAGTGGTAGCTTCGGCTACATC
6842120 CAGTGGTAGCTTCGGCTACAT
1 CAGTGGTAGCTTCGGCTACAT
6842141 ATCAGTGTGG
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
22 21 0.52
23 19 0.47
ACGTcount: A:0.18, C:0.23, G:0.27, T:0.32
Consensus pattern (22 bp):
CAGTGGTAGCTTCGGCTACATC
Found at i:6848607 original size:39 final size:37
Alignment explanation
Indices: 6848540--6848632 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
6848530 ACCAGAATGG
* *
6848540 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
6848579 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
6848616 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
6848633 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:6849008 original size:15 final size:15
Alignment explanation
Indices: 6848988--6849017 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6848978 ATTCCCACTC
6848988 ATACTAATAATAATA
1 ATACTAATAATAATA
*
6849003 ATACTAATATTAATA
1 ATACTAATAATAATA
6849018 CTTACCTCAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
ATACTAATAATAATA
Found at i:6849696 original size:11 final size:11
Alignment explanation
Indices: 6849680--6849705 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6849670 CTTTTTCTTC
6849680 TTTCTCCCCTG
1 TTTCTCCCCTG
6849691 TTTCTCCCCTG
1 TTTCTCCCCTG
6849702 TTTC
1 TTTC
6849706 GTCTCTTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:6850077 original size:21 final size:21
Alignment explanation
Indices: 6850053--6850095 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
6850043 AATAATAACT
6850053 AATAACTAATAATAAATAATA
1 AATAACTAATAATAAATAATA
* * * *
6850074 AATATCTTATACTAATTAATA
1 AATAACTAATAATAAATAATA
6850095 A
1 A
6850096 GCAAATTAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAACTAATAATAAATAATA
Found at i:6851170 original size:21 final size:21
Alignment explanation
Indices: 6851144--6851273 Score: 75
Period size: 21 Copynumber: 6.2 Consensus size: 21
6851134 CCGTAAGGGT
6851144 TAAACGGAAGCTCATAAGAGC
1 TAAACGGAAGCTCATAAGAGC
* * * * *
6851165 TGAACGGAAACCCATAAGGGT
1 TAAACGGAAGCTCATAAGAGC
* *
6851186 TAAACTGAAGCTCAAAAGAGC
1 TAAACGGAAGCTCATAAGAGC
* * * * * *
6851207 TAAACTGAAACCCAGAAGGGT
1 TAAACGGAAGCTCATAAGAGC
* *
6851228 TAAACTGAAACTCATATA-AG-
1 TAAACGGAAGCTCATA-AGAGC
* **
6851248 TTAATTGAAGCTCATAAGAGC
1 TAAACGGAAGCTCATAAGAGC
6851269 TAAAC
1 TAAAC
6851274 TGAAAGCAAA
Statistics
Matches: 81, Mismatches: 25, Indels: 6
0.72 0.22 0.05
Matches are distributed among these distances:
19 1 0.01
20 15 0.19
21 64 0.79
22 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (21 bp):
TAAACGGAAGCTCATAAGAGC
Found at i:6851176 original size:42 final size:42
Alignment explanation
Indices: 6851129--6851243 Score: 160
Period size: 42 Copynumber: 2.7 Consensus size: 42
6851119 ATGCTAAGCA
* *
6851129 GAAACCCGTAAGGGTTAAACGGAAGCTCATAAGAGCTGAACG
1 GAAACCCGTAAGGGTTAAACTGAAGCTCATAAGAGCTAAACG
* * *
6851171 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTAAACT
1 GAAACCCGTAAGGGTTAAACTGAAGCTCATAAGAGCTAAACG
*
6851213 GAAACCCAG-AAGGGTTAAACTGAAACTCATA
1 GAAACCC-GTAAGGGTTAAACTGAAGCTCATA
6851244 TAAGTTAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.43, C:0.19, G:0.23, T:0.16
Consensus pattern (42 bp):
GAAACCCGTAAGGGTTAAACTGAAGCTCATAAGAGCTAAACG
Found at i:6853881 original size:14 final size:14
Alignment explanation
Indices: 6853856--6853898 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
6853846 AAACACCTAG
6853856 TTTTTCTT-TTTCT
1 TTTTTCTTCTTTCT
*
6853869 TTTTTTTTCTTTCT
1 TTTTTCTTCTTTCT
* *
6853883 TCTTTCTTCTCTCT
1 TTTTTCTTCTTTCT
6853897 TT
1 TT
6853899 CTCTTTTTCC
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 7 0.29
14 17 0.71
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTCTTCTTTCT
Found at i:6855305 original size:21 final size:21
Alignment explanation
Indices: 6855267--6855319 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
6855257 CTATAAAATA
* *
6855267 TAGTTACTATAGCGATGATAT
1 TAGTTACTATAGCAATGAGAT
*
6855288 TAGTTACTATAGTAATGAGAT
1 TAGTTACTATAGCAATGAGAT
6855309 TAAG-TACTATA
1 T-AGTTACTATA
6855320 ACGGTGAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 26 0.93
22 2 0.07
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (21 bp):
TAGTTACTATAGCAATGAGAT
Found at i:6856353 original size:18 final size:18
Alignment explanation
Indices: 6856327--6856361 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
6856317 CTTTTCCAGA
6856327 AAAAGGAAAA-AAAATAC
1 AAAAGGAAAAGAAAATAC
6856344 AAAAGTGAAAAGAAAATA
1 AAAAG-GAAAAGAAAATA
6856362 ATTTAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.74, C:0.03, G:0.14, T:0.09
Consensus pattern (18 bp):
AAAAGGAAAAGAAAATAC
Found at i:6856426 original size:31 final size:29
Alignment explanation
Indices: 6856388--6856457 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
6856378 ACTACTAAAA
* *
6856388 TAGTCACTTTTGTTTGACCCAGGTTACATTT
1 TAGTCACTTATGTTTGA--AAGGTTACATTT
* *
6856419 TAGTCACTTATGTTTGAAATGTTACGTTT
1 TAGTCACTTATGTTTGAAAGGTTACATTT
6856448 TAGTCACTTA
1 TAGTCACTTA
6856458 CGTTATTGTG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 19 0.54
31 16 0.46
ACGTcount: A:0.23, C:0.16, G:0.16, T:0.46
Consensus pattern (29 bp):
TAGTCACTTATGTTTGAAAGGTTACATTT
Found at i:6857537 original size:23 final size:23
Alignment explanation
Indices: 6857486--6857544 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
6857476 CATTTTCTTC
6857486 TTTATTTAATTTTTTTATGATTT
1 TTTATTTAATTTTTTTATGATTT
* *
6857509 TCTATTTAATTTTTTT-TGTGTTT
1 TTTATTTAATTTTTTTATG-ATTT
*
6857532 TTTATTTACTTTT
1 TTTATTTAATTTT
6857545 GAAAGATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 2 0.06
23 29 0.94
ACGTcount: A:0.17, C:0.03, G:0.05, T:0.75
Consensus pattern (23 bp):
TTTATTTAATTTTTTTATGATTT
Found at i:6862993 original size:31 final size:31
Alignment explanation
Indices: 6862955--6863013 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
6862945 GAAAACCCTA
*
6862955 AAGTTTAGGCTCC-AATGTGAGAACAATTGTC
1 AAGTTTAGGC-CCTAATATGAGAACAATTGTC
6862986 AAGTTTAGGCCCTAATATGAGAACAATT
1 AAGTTTAGGCCCTAATATGAGAACAATT
6863014 ACCAAATTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 2 0.08
31 24 0.92
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.29
Consensus pattern (31 bp):
AAGTTTAGGCCCTAATATGAGAACAATTGTC
Found at i:6863135 original size:89 final size:90
Alignment explanation
Indices: 6863006--6863176 Score: 193
Period size: 90 Copynumber: 1.9 Consensus size: 90
6862996 CCTAATATGA
* * * * * ** **
6863006 GAACAATTACCAAATTCAAGGACTAACTTGGACAACAAAA-GTTCAAGTCTCAATGTGGGGACTG
1 GAACAATTACCAAATTCAAGGACTAACTTGAAAAAAAAAAGGTTCAAGTCCCAACGTGGAAAAAG
*
6863070 TTGCCTAGTTCAGGCCCCGATGTTG
66 TTGCCAAGTTCAGGCCCCGATGTTG
* * * *
6863095 GAACTATTGCCAAGTTCAA-GACCTAACTTGAAAAAAAAAAGGTTCAGGTCCCAACGTGGAAAAA
1 GAACAATTACCAAATTCAAGGA-CTAACTTGAAAAAAAAAAGGTTCAAGTCCCAACGTGGAAAAA
6863159 GTTGCCAAGTTCAGGCCC
65 GTTGCCAAGTTCAGGCCC
6863177 TAAATGTTGA
Statistics
Matches: 66, Mismatches: 14, Indels: 3
0.80 0.17 0.04
Matches are distributed among these distances:
88 2 0.03
89 31 0.47
90 33 0.50
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (90 bp):
GAACAATTACCAAATTCAAGGACTAACTTGAAAAAAAAAAGGTTCAAGTCCCAACGTGGAAAAAG
TTGCCAAGTTCAGGCCCCGATGTTG
Found at i:6870164 original size:16 final size:17
Alignment explanation
Indices: 6870143--6870177 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
6870133 AATTAATTTA
*
6870143 AATTAATTAATTTT-TC
1 AATTAAATAATTTTCTC
6870159 AATTAAATAATTTTCTC
1 AATTAAATAATTTTCTC
6870176 AA
1 AA
6870178 CACAATTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTAAATAATTTTCTC
Found at i:6872831 original size:82 final size:82
Alignment explanation
Indices: 6872618--6872836 Score: 289
Period size: 82 Copynumber: 2.7 Consensus size: 82
6872608 TTAATTTAAA
* * * * **
6872618 CAGATTCACTGGCACTTCA-CCTGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTG
1 CAGA-TCACCGGCACTT-AGCCTGCTAGACGTAAAGCCTGAAACAGTTCACCGGCACTTAGCCTG
6872682 CTAGGCTTATAGCCTGATT
64 CTAGGCTTATAGCCTGATT
* * * **
6872701 CAGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCT
1 CAGATCACCGGCACTTAGCCTGCTAGACGTAAAGCCTGAAACAGTTCACCGGCACTTAGCCTGCT
6872766 AGGCTTATAGCCTGATT
66 AGGCTTATAGCCTGATT
*
6872783 CAGATCACCGGCACTTAGCCTGCTAGACGTAAAGTCC-GAAACATTTCACCGGCA
1 CAGATCACCGGCACTTAGCCTGCTAGACGTAAAG-CCTGAAACAGTTCACCGGCA
6872837 ATTAATCTGA
Statistics
Matches: 127, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
81 1 0.01
82 120 0.94
83 6 0.05
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.26
Consensus pattern (82 bp):
CAGATCACCGGCACTTAGCCTGCTAGACGTAAAGCCTGAAACAGTTCACCGGCACTTAGCCTGCT
AGGCTTATAGCCTGATT
Found at i:6872836 original size:41 final size:41
Alignment explanation
Indices: 6872622--6872808 Score: 331
Period size: 41 Copynumber: 4.6 Consensus size: 41
6872612 TTTAAACAGA
*
6872622 TTCACTGGCACTTCA-CCTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTT-AGCCTGCTAGGCTTATAGCCTGATTCAG
6872663 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
*
6872704 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
6872745 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
*
6872786 ATCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
6872809 ACGTAAAGTC
Statistics
Matches: 141, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
40 1 0.01
41 140 0.99
ACGTcount: A:0.20, C:0.30, G:0.21, T:0.28
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAG
Found at i:6891811 original size:40 final size:40
Alignment explanation
Indices: 6891767--6891875 Score: 157
Period size: 40 Copynumber: 2.8 Consensus size: 40
6891757 TTAGATAAAT
* *
6891767 AACGCCGCTAAAGATCAAGCATTAGCGGCGCTTTTTGAAA
1 AACGCCGCTAAAGATCAAGCATTAGTGGCGCTTTATGAAA
* * *
6891807 AACGCCGCTAAAGATCGAGTATTAATGGCGCTTTATGAAA
1 AACGCCGCTAAAGATCAAGCATTAGTGGCGCTTTATGAAA
*
6891847 AACGCCGCTAAA-AACAAGCATTAGTGGCG
1 AACGCCGCTAAAGATCAAGCATTAGTGGCG
6891876 TTTCCCAGAA
Statistics
Matches: 60, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
39 13 0.22
40 47 0.78
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (40 bp):
AACGCCGCTAAAGATCAAGCATTAGTGGCGCTTTATGAAA
Found at i:6892016 original size:41 final size:41
Alignment explanation
Indices: 6891935--6892350 Score: 595
Period size: 41 Copynumber: 10.2 Consensus size: 41
6891925 GAGCTTTCTA
6891935 GGCTTTAGCGGCGTTTTTGGG-AAGCGCCGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAG
** * *
6891975 GGCTTTAGCGGTATTTTTGGAAAAGCGCCGCTAATGGTCAG
1 GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAG
* * *
6892016 GGCTTTAGCGGCGTTTTTGAGAAAGTGCCGCTAATGCTTAG
1 GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAG
*
6892057 GGCTTTAGCGGCGTTTTTGGGGAAGCGCCGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAG
*
6892098 GGCTTTAGCGGCGTTTTTGGGGAAGCGCCGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAG
*
6892139 GGCTTTAGCGGCGTTTTTGGGGAAGCGCCGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAG
6892180 GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAG
*
6892221 GGCTTTAGCGGCGTTTTTGGGATAGCGCCGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAG
** * * *
6892262 GGCTTTTAGCGGCGTTTTTGATAAAGCGTCGCGAATGCTTTA-
1 GGC-TTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGC-TCAG
** ***
6892304 -TTTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCTCAG
1 GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAG
*
6892344 GGATTTA
1 GGCTTTA
6892351 AAATAATTTA
Statistics
Matches: 339, Mismatches: 32, Indels: 9
0.89 0.08 0.02
Matches are distributed among these distances:
39 2 0.01
40 48 0.14
41 258 0.76
42 29 0.09
43 2 0.01
ACGTcount: A:0.18, C:0.20, G:0.33, T:0.30
Consensus pattern (41 bp):
GGCTTTAGCGGCGTTTTTGGGAAAGCGCCGCTAATGCTCAG
Found at i:6892320 original size:40 final size:40
Alignment explanation
Indices: 6892265--6892340 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
6892255 TGCTCAGGGC
* *
6892265 TTTTAGCGGCGTTTTTGATAAAGCGTCGCGAATGCTTTAT
1 TTTTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCTTTAT
* *
6892305 TTTTAGCGGCGTTTTTTAAAAAGCGCCGCTAATGCT
1 TTTTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCT
6892341 CAGGGATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.21, C:0.17, G:0.24, T:0.38
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTTGAAAAAGCGCCGCGAATGCTTTAT
Found at i:6892579 original size:22 final size:21
Alignment explanation
Indices: 6892554--6892601 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
6892544 GTGATACCAT
* *
6892554 TTTAAGGTTTGTGGATTATGAG
1 TTTAAGGGTTATGGATTATG-G
* *
6892576 TTTAGGGGTTATGGTTTATGG
1 TTTAAGGGTTATGGATTATGG
6892597 TTTAA
1 TTTAA
6892602 AGGCTGGGGT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (21 bp):
TTTAAGGGTTATGGATTATGG
Found at i:6892982 original size:14 final size:14
Alignment explanation
Indices: 6892965--6893002 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
6892955 GGGTTGAGAT
*
6892965 TTAAGATTTAAGGG
1 TTAAGAGTTAAGGG
*
6892979 TTAAGAGTTATGGG
1 TTAAGAGTTAAGGG
6892993 TTAAGAGTTA
1 TTAAGAGTTA
6893003 GTGATTTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.29, T:0.37
Consensus pattern (14 bp):
TTAAGAGTTAAGGG
Found at i:6892996 original size:21 final size:21
Alignment explanation
Indices: 6892944--6893002 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
6892934 GATTTAGGGA
* *
6892944 TTATGGTTTAAGGGTTGAGAT
1 TTATGGTTTAAGGGTTAAGAG
* *
6892965 TTAAGATTTAAGGGTTAAGAG
1 TTATGGTTTAAGGGTTAAGAG
* *
6892986 TTATGGGTTAAGAGTTA
1 TTATGGTTTAAGGGTTA
6893003 GTGATTTAGG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.39
Consensus pattern (21 bp):
TTATGGTTTAAGGGTTAAGAG
Found at i:6896082 original size:43 final size:43
Alignment explanation
Indices: 6895983--6896295 Score: 366
Period size: 43 Copynumber: 7.3 Consensus size: 43
6895973 AGATTATGTT
* ** *
6895983 TTTAGCGGCGTTTTTGCTAGAAA-CGCCGCTAAAGGT-TTGTTC
1 TTTAGCGGCGTTTGTGGGA-AAAGCGCCGCTAAAGGTCTTGGTC
*
6896025 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGT-
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
** * *
6896067 TTATAGCGGCGTTTGTGATAAAAGCGCCGCGAAAGGTCATGGTC
1 TT-TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * *
6896111 TATAGCGACGTTTGT-GGAAATAGCGCCGTTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAA-AGCGCCGCTAAAGGTCTTGGTC
* * *
6896154 TTTAACGGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTTGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * * *
6896197 TTTAGCGGTGTTTGT-GGAAGAACCGCCGTTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGGGAA-AAGCGCCGCTAAAGGTCTTGGTC
* *
6896240 TTTAGCGGCGTTTGTGGAAAAAGTGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
6896283 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
6896296 TTTCTAAAGT
Statistics
Matches: 229, Mismatches: 34, Indels: 15
0.82 0.12 0.05
Matches are distributed among these distances:
41 3 0.01
42 37 0.16
43 181 0.79
44 8 0.03
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:6900204 original size:49 final size:49
Alignment explanation
Indices: 6900132--6900230 Score: 164
Period size: 49 Copynumber: 2.0 Consensus size: 49
6900122 GTTTGTGTAT
* *
6900132 TCATAACAATTTGGTACCAAAGCCTATCACAA-TAGGCAATGATGTACTA
1 TCATAACAATTTGGTACCAAAGCCTACCACAACT-GGCAACGATGTACTA
6900181 TCATAACAATTTGGTACCAAAGCCTACCACAACTGGCAACGATGTACTA
1 TCATAACAATTTGGTACCAAAGCCTACCACAACTGGCAACGATGTACTA
6900230 T
1 T
6900231 GTTGTTACAA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
49 46 0.98
50 1 0.02
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.25
Consensus pattern (49 bp):
TCATAACAATTTGGTACCAAAGCCTACCACAACTGGCAACGATGTACTA
Found at i:6903077 original size:12 final size:12
Alignment explanation
Indices: 6903060--6903099 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
6903050 TATGGTTTTC
6903060 TTTCTTTTCTTT
1 TTTCTTTTCTTT
*
6903072 TTTCTTTTTTTT
1 TTTCTTTTCTTT
* *
6903084 TTTGTTTTGTTT
1 TTTCTTTTCTTT
6903096 TTTC
1 TTTC
6903100 ATATATATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (12 bp):
TTTCTTTTCTTT
Found at i:6909328 original size:48 final size:48
Alignment explanation
Indices: 6909272--6909368 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
6909262 TTTAATTTCC
6909272 TCTGTTTTTCATAGTTTATTTGTTTGTATTTGAATGTATTTTGAGGCT
1 TCTGTTTTTCATAGTTTATTTGTTTGTATTTGAATGTATTTTGAGGCT
6909320 TCTGTTTTTCATAGTTTATTTGTTTGTATTTGAATGTATTTTGAGGCT
1 TCTGTTTTTCATAGTTTATTTGTTTGTATTTGAATGTATTTTGAGGCT
6909368 T
1 T
6909369 AATTTGGGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.16, C:0.06, G:0.19, T:0.59
Consensus pattern (48 bp):
TCTGTTTTTCATAGTTTATTTGTTTGTATTTGAATGTATTTTGAGGCT
Found at i:6917983 original size:11 final size:11
Alignment explanation
Indices: 6917967--6917993 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
6917957 GTACAAGGGA
6917967 TTTTATGGTAC
1 TTTTATGGTAC
6917978 TTTTATGGTAC
1 TTTTATGGTAC
6917989 TTTTA
1 TTTTA
6917994 CATGAAGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.19, C:0.07, G:0.15, T:0.59
Consensus pattern (11 bp):
TTTTATGGTAC
Found at i:6922435 original size:43 final size:43
Alignment explanation
Indices: 6922388--6922473 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
6922378 AAGAATTGGA
6922388 TAGATTTCATATTGAACTGATGAAAAGTCCACTGACATACAAG
1 TAGATTTCATATTGAACTGATGAAAAGTCCACTGACATACAAG
*
6922431 TAGATTTCATATTGAACTGATGAAAAGTCCATTGACATACAAG
1 TAGATTTCATATTGAACTGATGAAAAGTCCACTGACATACAAG
6922474 AAATTTTAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.40, C:0.15, G:0.16, T:0.29
Consensus pattern (43 bp):
TAGATTTCATATTGAACTGATGAAAAGTCCACTGACATACAAG
Found at i:6923740 original size:16 final size:17
Alignment explanation
Indices: 6923706--6923746 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 17
6923696 GTTGACATAT
6923706 TTTACAAATTTTAATTAA
1 TTTA-AAATTTTAATTAA
6923724 -TTAAAATATTTAA-TAA
1 TTTAAAAT-TTTAATTAA
6923740 TTTAAAA
1 TTTAAAA
6923747 AAAAAAACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 7 0.33
17 14 0.67
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (17 bp):
TTTAAAATTTTAATTAA
Found at i:6924507 original size:125 final size:126
Alignment explanation
Indices: 6924295--6924823 Score: 708
Period size: 125 Copynumber: 4.2 Consensus size: 126
6924285 TTGCAGTCGT
* * * * *
6924295 GCCCACGTGTACGTGCTTTTGCTACAGTAGGTCCTGGAA-AATTTATTTCGAGTTGACATTTCTG
1 GCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTG
* * *
6924359 AGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATATGTGAATAATTTGTGAAATCGC
66 AGCAAATAGTATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCGC
* * * * *
6924420 GCCCTCCTGGATGCGCTTTTGCTACAGTCGGTCTTGGAAGAAATAATTTCGAGTTGACGTTTCTG
1 GCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTG
* * *
6924485 AGCAAATAGTAT-AAAATCGCTTCTACCAGGATGCTTTATGAGAAGAATTTGTGAAATCGC
66 AGCAAATAGTATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCGC
* * * *
6924545 GCCCACGTGGACGTGCTTTTACTACAGTAGGTCCT--AAAAAATTATTTCGAGTTGACGTTTCTG
1 GCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTG
* * *
6924608 AGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTATTTGAGAAGAATTTCTGAAATCGC
66 AGCAAATAGTATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCGC
* * * * *
6924669 GTCCTCGTAGACGCGCTTTTGCTACAGTTGGTCCTAGAAGAAATAATTTCGAGTTGACGTTTCTG
1 GCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTG
* * * * *
6924734 AACAAATAGTAT-AAAATCGCTTCTACCAAGATGCTTTATGAGAAGAATTTGTGAAATCGC
66 AGCAAATAGTATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCGC
* *
6924794 ACCCACGTGGACGCACTTTTGCTACAGTAG
1 GCCCACGTGGACGCGCTTTTGCTACAGTAG
6924824 CATGTTTGGG
Statistics
Matches: 347, Mismatches: 53, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
123 38 0.11
124 71 0.20
125 167 0.48
126 71 0.20
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (126 bp):
GCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTG
AGCAAATAGTATAAAAAACGCTTCAACCAGGATGCTATATGAGAAGAATTTGTGAAATCGC
Found at i:6924711 original size:249 final size:250
Alignment explanation
Indices: 6924261--6924823 Score: 867
Period size: 249 Copynumber: 2.3 Consensus size: 250
6924251 AAAATCAAAG
* * * * * * * *
6924261 CAGGATGATTTATCAGAAGGATTTTTGCAGTCGTGCCCACGTGTACGTGCTTTTGCTACAGTAGG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAGTAGG
* *
6924326 TCCTGGAAAATTTATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGA
66 TCCTGAAAAAATTATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGA
* * * * * * *
6924391 TGCTATATGTGAATAATTTGTGAAATCGCGCCCTCCTGGATGCGCTTTTGCTACAGTCGGTCTTG
131 TGCTATATGAGAAGAATTTCTGAAATCGCGCCCTCCTAGACGCGCTTTTGCTACAGTCGGTCCTA
*
6924456 GAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAC
196 GAAGAAATAATTTCGAGTTGACGTTTCTGAACAAATAGTATAAAATCGCTTCTAC
*
6924511 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTACTACAGTAGG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAGTAGG
*
6924576 TCCT-AAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGA
66 TCCTGAAAAAATTATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGA
* * * *
6924640 TGCTATTTGAGAAGAATTTCTGAAATCGCGTCCTCGTAGACGCGCTTTTGCTACAGTTGGTCCTA
131 TGCTATATGAGAAGAATTTCTGAAATCGCGCCCTCCTAGACGCGCTTTTGCTACAGTCGGTCCTA
6924705 GAAGAAATAATTTCGAGTTGACGTTTCTGAACAAATAGTATAAAATCGCTTCTAC
196 GAAGAAATAATTTCGAGTTGACGTTTCTGAACAAATAGTATAAAATCGCTTCTAC
* * **
6924760 CAAGATGCTTTATGAGAAGAATTTGTGAAATCGCACCCACGTGGACGCACTTTTGCTACAGTAG
1 CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAGTAG
6924824 CATGTTTGGG
Statistics
Matches: 284, Mismatches: 29, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
249 224 0.79
250 60 0.21
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (250 bp):
CAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGTGCTTTTGCTACAGTAGG
TCCTGAAAAAATTATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGA
TGCTATATGAGAAGAATTTCTGAAATCGCGCCCTCCTAGACGCGCTTTTGCTACAGTCGGTCCTA
GAAGAAATAATTTCGAGTTGACGTTTCTGAACAAATAGTATAAAATCGCTTCTAC
Found at i:6928434 original size:18 final size:18
Alignment explanation
Indices: 6928403--6928437 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6928393 TTGTTGGCCA
6928403 TATGAACAAATGCAATGG
1 TATGAACAAATGCAATGG
* *
6928421 TATGACCAATTGCAATG
1 TATGAACAAATGCAATG
6928438 TGTAAGCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (18 bp):
TATGAACAAATGCAATGG
Found at i:6930183 original size:17 final size:18
Alignment explanation
Indices: 6930163--6930196 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6930153 ATAAGTATGT
6930163 TTTAAT-TCTTTTAAAAG
1 TTTAATCTCTTTTAAAAG
*
6930180 TTTAATCTTTTTTAAAA
1 TTTAATCTCTTTTAAAA
6930197 TATCATTATT
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:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAATCTCTTTTAAAAG
Found at i:6930831 original size:36 final size:36
Alignment explanation
Indices: 6930784--6930860 Score: 147
Period size: 36 Copynumber: 2.2 Consensus size: 36
6930774 CACTAATGGA
6930784 AGAGTCAAGGATACTTGCCTATTGTAAAAGAAAACT
1 AGAGTCAAGGATACTTGCCTATTGTAAAAGAAAACT
6930820 AGAGTCAAGGATACTTGCCTATTGTAAAAGAAAACT
1 AGAGTCAAGGATACTTGCCTATTGTAAAAGAAAACT
6930856 A-AGTC
1 AGAGTC
6930861 CTAAATGGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 4 0.10
36 37 0.90
ACGTcount: A:0.42, C:0.14, G:0.19, T:0.25
Consensus pattern (36 bp):
AGAGTCAAGGATACTTGCCTATTGTAAAAGAAAACT
Found at i:6940869 original size:16 final size:16
Alignment explanation
Indices: 6940832--6940871 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
6940822 TTGATAAAAT
* *
6940832 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
6940848 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
6940864 TAAAATTA
1 TAAAATTA
6940872 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:6940899 original size:16 final size:16
Alignment explanation
Indices: 6940875--6940913 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
6940865 AAAATTATCA
* *
6940875 AATTATTAATTGTATT
1 AATTGTTAATTATATT
6940891 AATTGTTAATTATATT
1 AATTGTTAATTATATT
6940907 AATTGTT
1 AATTGTT
6940914 GTAACAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (16 bp):
AATTGTTAATTATATT
Found at i:6941166 original size:19 final size:19
Alignment explanation
Indices: 6941139--6941184 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
6941129 TCTGTAGGGG
*
6941139 AAATGAAATTGAAAACTAA
1 AAATAAAATTGAAAACTAA
*
6941158 AAATAAAATTGAAAACTTA
1 AAATAAAATTGAAAACTAA
*
6941177 AACTAAAA
1 AAATAAAA
6941185 ACTTAAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.22
Consensus pattern (19 bp):
AAATAAAATTGAAAACTAA
Found at i:6941185 original size:13 final size:13
Alignment explanation
Indices: 6941151--6941199 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
6941141 ATGAAATTGA
*
6941151 AAACTAAAAA-TA
1 AAACTAAAAACTT
* *
6941163 AAATTGAAAACTT
1 AAACTAAAAACTT
6941176 AAACTAAAAACTT
1 AAACTAAAAACTT
6941189 AAACATAAAAA
1 AAAC-TAAAAA
6941200 TAAAAAAATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
12 8 0.27
13 16 0.53
14 6 0.20
ACGTcount: A:0.67, C:0.10, G:0.02, T:0.20
Consensus pattern (13 bp):
AAACTAAAAACTT
Found at i:6941274 original size:20 final size:20
Alignment explanation
Indices: 6941246--6941286 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
6941236 AATGTCGGGG
6941246 AAATGAAATTGAAAACATAA
1 AAATGAAATTGAAAACATAA
* *
6941266 AAATTAAATTGAAAACTTAA
1 AAATGAAATTGAAAACATAA
6941286 A
1 A
6941287 CTGTAAGGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.24
Consensus pattern (20 bp):
AAATGAAATTGAAAACATAA
Found at i:6941378 original size:16 final size:16
Alignment explanation
Indices: 6941357--6941389 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
6941347 TATATTTTTT
6941357 AAACATAAAAAACTTA
1 AAACATAAAAAACTTA
*
6941373 AAACATAAAAAATTTA
1 AAACATAAAAAACTTA
6941389 A
1 A
6941390 TATATTTTCG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.70, C:0.09, G:0.00, T:0.21
Consensus pattern (16 bp):
AAACATAAAAAACTTA
Found at i:6948582 original size:2 final size:2
Alignment explanation
Indices: 6948575--6948609 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6948565 TATCCCTATA
6948575 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
6948610 AAGCACAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:6966445 original size:23 final size:23
Alignment explanation
Indices: 6966415--6966571 Score: 113
Period size: 23 Copynumber: 6.7 Consensus size: 23
6966405 AATCTACCCT
* * *
6966415 ATTTGGACAGCTTTTATACATCA
1 ATTTGGACAGCATATATACAACA
*
6966438 ATTTGGACAGCATAAATACAACA
1 ATTTGGACAGCATATATACAACA
*
6966461 ATTTGGGCAGCATATATACAACA
1 ATTTGGACAGCATATATACAACA
* * * *
6966484 GTTT-GAGCAGCATTTTTACACCAA
1 ATTTGGA-CAGCATATATACAAC-A
**
6966508 AACTGGACAGCATATATACAACA
1 ATTTGGACAGCATATATACAACA
* * *
6966531 AATT-GAGCAGCATTTA-AGCATCAA
1 ATTTGGA-CAGCATATATA-CAAC-A
*
6966555 AATTGGACAGCATATAT
1 ATTTGGACAGCATATAT
6966572 GTAACAAATT
Statistics
Matches: 105, Mismatches: 21, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
22 4 0.04
23 70 0.67
24 27 0.26
25 4 0.04
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.27
Consensus pattern (23 bp):
ATTTGGACAGCATATATACAACA
Found at i:6966526 original size:47 final size:47
Alignment explanation
Indices: 6966468--6966582 Score: 151
Period size: 47 Copynumber: 2.4 Consensus size: 47
6966458 ACAATTTGGG
** *
6966468 CAGCATATATACAACAGTTTGAGCAGCATTTTTA-CACCAAAACTGGA
1 CAGCATATATACAACAAATTGAGCAGCA-TTTAAGCACCAAAACTGGA
* *
6966515 CAGCATATATACAACAAATTGAGCAGCATTTAAGCATCAAAATTGGA
1 CAGCATATATACAACAAATTGAGCAGCATTTAAGCACCAAAACTGGA
**
6966562 CAGCATATATGTAACAAATTG
1 CAGCATATATACAACAAATTG
6966583 GTTCAACTCA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
46 4 0.07
47 56 0.93
ACGTcount: A:0.42, C:0.18, G:0.15, T:0.25
Consensus pattern (47 bp):
CAGCATATATACAACAAATTGAGCAGCATTTAAGCACCAAAACTGGA
Found at i:6967485 original size:43 final size:42
Alignment explanation
Indices: 6967419--6967547 Score: 156
Period size: 43 Copynumber: 3.0 Consensus size: 42
6967409 AACTCGTACA
* *
6967419 ATGCCAACGTCCCAAACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGTAA-CACATATCG
6967462 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGTAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGT-AACACATA-TCG
*
6967505 ATGCCAACGTCCTAGACGTGGTCTTACACGATAACACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-TAACACATATCG
6967548 GAAATCCTAT
Statistics
Matches: 75, Mismatches: 3, Indels: 16
0.80 0.03 0.17
Matches are distributed among these distances:
42 4 0.05
43 64 0.85
44 7 0.09
ACGTcount: A:0.30, C:0.29, G:0.19, T:0.22
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGTAACACATATCG
Found at i:6968959 original size:10 final size:10
Alignment explanation
Indices: 6968902--6968960 Score: 50
Period size: 10 Copynumber: 5.9 Consensus size: 10
6968892 TGATAAAAAA
*
6968902 TAAAAGTTA-
1 TAAAAATTAT
*
6968911 TAAAAATGAT
1 TAAAAATTAT
**
6968921 TAAATTTTAAT
1 TAAAAATT-AT
6968932 TAAAAA-TAT
1 TAAAAATTAT
6968941 TAAAAAATTAT
1 T-AAAAATTAT
6968952 TAAAAATTA
1 TAAAAATTA
6968961 GAATTTTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
9 10 0.26
10 19 0.49
11 10 0.26
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.37
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:6969039 original size:20 final size:21
Alignment explanation
Indices: 6969015--6969066 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
6969005 AAGTCGTAAG
6969015 AAAATTATAAAAAAT-G-TAA
1 AAAATTATAAAAAATAGTTAA
*
6969034 AGAAA-TAT-AAAATTAGTTAA
1 A-AAATTATAAAAAATAGTTAA
6969054 AAAATTATAAAAA
1 AAAATTATAAAAA
6969067 TATCGTACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
18 5 0.19
19 8 0.30
20 10 0.37
21 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (21 bp):
AAAATTATAAAAAATAGTTAA
Found at i:6969381 original size:13 final size:14
Alignment explanation
Indices: 6969363--6969396 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
6969353 AAAATTAGGG
6969363 ACAGTTAACT-TTA
1 ACAGTTAACTGTTA
6969376 ACAGTTAACTGTTA
1 ACAGTTAACTGTTA
6969390 A-AGTTAA
1 ACAGTTAA
6969397 TGGCTAAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (14 bp):
ACAGTTAACTGTTA
Found at i:6986451 original size:9 final size:9
Alignment explanation
Indices: 6986437--6986470 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
6986427 ATTCAATTCA
6986437 ATTTATATT
1 ATTTATATT
6986446 ATTTATATT
1 ATTTATATT
6986455 ATTTAT-TT
1 ATTTATATT
6986463 ATTT-TATT
1 ATTTATATT
6986471 CTATTTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 1 0.04
8 8 0.33
9 15 0.62
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (9 bp):
ATTTATATT
Found at i:6986475 original size:18 final size:17
Alignment explanation
Indices: 6986432--6986482 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 17
6986422 TGACAATTCA
*
6986432 ATTCAATTTATATTATTT
1 ATTCTATTTAT-TTATTT
6986450 ATAT-TATTTATTTATTTT
1 AT-TCTATTTATTTA-TTT
6986468 ATTCTATTTTATTTA
1 ATTCTA-TTTATTTA
6986483 CTCTAGGGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 4 0.14
18 15 0.54
19 9 0.32
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (17 bp):
ATTCTATTTATTTATTT
Found at i:6988709 original size:19 final size:20
Alignment explanation
Indices: 6988685--6988725 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
6988675 ATCATTTTTT
*
6988685 AGAAGCTC-GAAAGCTGAAC
1 AGAAGCTCAGAAAGCTAAAC
6988704 AGAAGCTCATGAAAGCTAAAC
1 AGAAGCTCA-GAAAGCTAAAC
6988725 A
1 A
6988726 AAAACCCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
21 11 0.58
ACGTcount: A:0.46, C:0.20, G:0.22, T:0.12
Consensus pattern (20 bp):
AGAAGCTCAGAAAGCTAAAC
Found at i:6988779 original size:21 final size:21
Alignment explanation
Indices: 6988696--6988779 Score: 62
Period size: 21 Copynumber: 4.0 Consensus size: 21
6988686 GAAGCTCGAA
* *
6988696 AGCTGAACAGAAGCTCATGAA-
1 AGCTGAACAGAAACCCAT-AAG
* *
6988717 AGCTAAACAAAAACCCATAAG
1 AGCTGAACAGAAACCCATAAG
* * * * * *
6988738 GGTTGAACGGAAGCTCGTAAG
1 AGCTGAACAGAAACCCATAAG
6988759 AGCTGAACAGAAACCCATAAG
1 AGCTGAACAGAAACCCATAAG
6988780 GGTTAAACAG
Statistics
Matches: 44, Mismatches: 18, Indels: 2
0.69 0.28 0.03
Matches are distributed among these distances:
20 2 0.05
21 42 0.95
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (21 bp):
AGCTGAACAGAAACCCATAAG
Found at i:6988788 original size:21 final size:21
Alignment explanation
Indices: 6988720--6988791 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
6988710 TCATGAAAGC
*
6988720 TAAACAAAAACCCATAAGGGT
1 TAAACAGAAACCCATAAGGGT
* * * * * * *
6988741 TGAACGGAAGCTCGTAAGAGC
1 TAAACAGAAACCCATAAGGGT
*
6988762 TGAACAGAAACCCATAAGGGT
1 TAAACAGAAACCCATAAGGGT
6988783 TAAACAGAA
1 TAAACAGAA
6988792 GCTCAATAGA
Statistics
Matches: 36, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.14
Consensus pattern (21 bp):
TAAACAGAAACCCATAAGGGT
Found at i:6988809 original size:21 final size:22
Alignment explanation
Indices: 6988781--6988837 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
6988771 ACCCATAAGG
6988781 GTTAAACAGAAGCTCAATA-GA
1 GTTAAACAGAAGCTCAATATGA
* * *
6988802 GTTCAACAGAAACT-TATATGA
1 GTTAAACAGAAGCTCAATATGA
6988823 GTTAAACAGAAGCTC
1 GTTAAACAGAAGCTC
6988838 GTGAGAGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 3 0.10
21 26 0.90
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.23
Consensus pattern (22 bp):
GTTAAACAGAAGCTCAATATGA
Found at i:6988810 original size:42 final size:42
Alignment explanation
Indices: 6988701--6988855 Score: 143
Period size: 42 Copynumber: 3.7 Consensus size: 42
6988691 TCGAAAGCTG
* * *
6988701 AACAGAAGCTCATGAA-AGCTAAACAAAAACCCATAAGGGTTG
1 AACAGAAGCTCAT-AAGAGCTCAACAGAAACCCATAAGGGTTA
* * *
6988743 AACGGAAGCTCGTAAGAGCTGAACAGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTCAACAGAAACCCATAAGGGTTA
* ** * *
6988785 AACAGAAGCTCA-ATAGAGTTCAACAGAAACTTATATGAGTTA
1 AACAGAAGCTCATA-AGAGCTCAACAGAAACCCATAAGGGTTA
* * * *
6988827 AACAGAAGCTCGTGAGAGCTAAACGGAAA
1 AACAGAAGCTCATAAGAGCTCAACAGAAA
6988856 GAAAACATGA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
41 3 0.03
42 89 0.97
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (42 bp):
AACAGAAGCTCATAAGAGCTCAACAGAAACCCATAAGGGTTA
Found at i:6998369 original size:26 final size:27
Alignment explanation
Indices: 6998340--6998397 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
6998330 AAATCCCAAA
*
6998340 TTTTCTTT-CTTTCCTTCCCT-TTTTAG
1 TTTTCTTTCCTTT-CTCCCCTGTTTTAG
*
6998366 TTTTCTTTCCTTTCTCCCCTGTTTTCG
1 TTTTCTTTCCTTTCTCCCCTGTTTTAG
6998393 TTTTC
1 TTTTC
6998398 CTATTCTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 14 0.50
27 14 0.50
ACGTcount: A:0.02, C:0.29, G:0.05, T:0.64
Consensus pattern (27 bp):
TTTTCTTTCCTTTCTCCCCTGTTTTAG
Found at i:7009526 original size:16 final size:16
Alignment explanation
Indices: 7009489--7009528 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
7009479 TTAATAAAAT
* *
7009489 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
*
7009505 TTAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
7009521 TAAAATTA
1 TAAAATTA
7009529 TCAAATTATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.45
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:7009598 original size:66 final size:67
Alignment explanation
Indices: 7009517--7009659 Score: 252
Period size: 68 Copynumber: 2.1 Consensus size: 67
7009507 AAATTAATTG
*
7009517 TTAGTAAAATTATCAAATTATTAATTG-TTAATTGTATTAATTGTTGTAATAAAATCTAACATTT
1 TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
7009581 GA
66 GA
*
7009583 TTAGTAAATTTATCAAATTATTAATTGTATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
1 TTAGTAAAATTATCAAATTATTAATTG-ATTAATTGTATTAATTGTTGTAACAAAATCTAACATT
7009648 TGA
65 TGA
7009651 TTAGTAAAA
1 TTAGTAAAA
7009660 CAAACTTAAT
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
66 26 0.36
68 46 0.64
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (67 bp):
TTAGTAAAATTATCAAATTATTAATTGATTAATTGTATTAATTGTTGTAACAAAATCTAACATTT
GA
Found at i:7009613 original size:9 final size:9
Alignment explanation
Indices: 7009601--7009628 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
7009591 TTTATCAAAT
7009601 TATTAATTG
1 TATTAATTG
7009610 TATTAATTG
1 TATTAATTG
7009619 TATTAATTG
1 TATTAATTG
7009628 T
1 T
7009629 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:7010509 original size:11 final size:11
Alignment explanation
Indices: 7010495--7010540 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
7010485 ATATCCAAAT
*
7010495 AATAATAATAA
1 AATAATAGTAA
*
7010506 AATAATAGCAA
1 AATAATAGTAA
*
7010517 TATAATAGTAA
1 AATAATAGTAA
*
7010528 AATAATAGCAA
1 AATAATAGTAA
7010539 AA
1 AA
7010541 CTGCAACAGA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.24
Consensus pattern (11 bp):
AATAATAGTAA
Found at i:7010521 original size:22 final size:22
Alignment explanation
Indices: 7010496--7010538 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
7010486 TATCCAAATA
7010496 ATAATAATAAAATAATAGCAAT
1 ATAATAATAAAATAATAGCAAT
*
7010518 ATAATAGTAAAATAATAGCAA
1 ATAATAATAAAATAATAGCAA
7010539 AACTGCAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.63, C:0.05, G:0.07, T:0.26
Consensus pattern (22 bp):
ATAATAATAAAATAATAGCAAT
Found at i:7017663 original size:110 final size:109
Alignment explanation
Indices: 7017429--7017851 Score: 557
Period size: 110 Copynumber: 3.8 Consensus size: 109
7017419 GAATTTCGAG
* * * * * *
7017429 AGGATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGTACG-TTCCTC
1 AGGATATTTAGC-ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
* * * ** **
7017491 AAATTTCTAAACGCGAAACATTGCCTTATTTTGAAATTTTTTAAA
65 GAATTTCCAAACGCAAAACATTGCCTTATTTAAAAAAATTTTAAA
*
7017536 AGGATATTTAGCTATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGC-ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
*
7017601 GAATTTCCCAAACGCAAAACATCGCCTTA-TTAAAAAAATTTTAAA
65 GAATTT-CCAAACGCAAAACATTGCCTTATTTAAAAAAATTTTAAA
* * *
7017646 AGGATATTAAGTCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATATTTTCTC
1 AGGATATTTAG-CATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
* *
7017711 GAATTTCCAAACGCAAAACATTGTCTTATTTTAAAAAAAAATTTAAA
65 GAATTTCCAAACGCAAAACATTGCCTTA-TTT-AAAAAAATTTTAAA
7017758 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAG-CATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
*
7017823 GAATTTCTCAAACGCAAAGCATTGCCTTA
65 GAATTTC-CAAACGCAAAACATTGCCTTA
7017852 ATTGGAAATA
Statistics
Matches: 279, Mismatches: 28, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
107 25 0.09
109 45 0.16
110 87 0.31
111 22 0.08
112 81 0.29
113 19 0.07
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (109 bp):
AGGATATTTAGCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCG
AATTTCCAAACGCAAAACATTGCCTTATTTAAAAAAATTTTAAA
Found at i:7017810 original size:222 final size:217
Alignment explanation
Indices: 7017442--7017851 Score: 599
Period size: 222 Copynumber: 1.9 Consensus size: 217
7017432 ATATTTGGCT
* *
7017442 ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGTACGTTCCTCAAATTTCTAAACGCGA
1 ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGTACGTTCCTCAAATTTCCAAACGCAA
* *** * *
7017507 AACATTGCCTTATTTTGAAATTTTTTAAAAGGATATTTAGCTATTTGGTTGAATGAGAAAAATCG
66 AACATTGCCTTATTTTAAAAAAATTTAAAAGGATATTTAGCCATTTGGTTGAACGAGAAAAATCG
7017572 ACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATCGCCTTATTAAAAA
131 ACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATCGCCTTATTAAAAA
7017637 AATTTTAAAAGGATATTAAGTC
196 AATTTTAAAAGGATATTAAGTC
* * * *
7017659 ATTTGGTTGAACGAGAAAAATC-AACACCCAGCACCTTAGGGCATA-TTTTCTCGAATTTCCAAA
1 ATTTGGTTAAACGAG--AAATCGAA-ACCCAGCACCTTAGGG--TACGTTCCTCAAATTTCCAAA
*
7017722 CGCAAAACATTGTCTTATTTTAAAAAAAAATTTAAAAGGATATTTAGCCATTTGGTTGAACGAGA
61 CGCAAAACATTGCCTTATTTT--AAAAAAATTTAAAAGGATATTTAGCCATTTGGTTGAACGAGA
* * *
7017787 AAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCTCAAACGCAAAGCATTGCCTTA
124 AAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATCGCCTTA
7017852 ATTGGAAATA
Statistics
Matches: 170, Mismatches: 16, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
217 14 0.08
218 2 0.01
219 21 0.12
220 33 0.19
221 2 0.01
222 98 0.58
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.30
Consensus pattern (217 bp):
ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGTACGTTCCTCAAATTTCCAAACGCAA
AACATTGCCTTATTTTAAAAAAATTTAAAAGGATATTTAGCCATTTGGTTGAACGAGAAAAATCG
ACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCAAAACATCGCCTTATTAAAAA
AATTTTAAAAGGATATTAAGTC
Found at i:7018240 original size:39 final size:39
Alignment explanation
Indices: 7018186--7018260 Score: 96
Period size: 39 Copynumber: 1.9 Consensus size: 39
7018176 AAGCATATAC
* * *
7018186 ATATATATATGTATGTAACTATCATAAAATAAAAAGTAT
1 ATATATAGATATATGTAACAATCATAAAATAAAAAGTAT
** *
7018225 ATATATAGATATATGTATGAATCATAAAATATAAAG
1 ATATATAGATATATGTAACAATCATAAAATAAAAAG
7018261 AACACATATA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 30 1.00
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (39 bp):
ATATATAGATATATGTAACAATCATAAAATAAAAAGTAT
Found at i:7018381 original size:20 final size:20
Alignment explanation
Indices: 7018340--7018381 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7018330 TGTGTGTAAG
* *
7018340 TATATAAAAAAATATATGTA
1 TATATAAAAAAACATATATA
*
7018360 TATATAAAAAAACGTATATA
1 TATATAAAAAAACATATATA
7018380 TA
1 TA
7018382 AGGGCAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (20 bp):
TATATAAAAAAACATATATA
Found at i:7018399 original size:3 final size:3
Alignment explanation
Indices: 7018391--7018423 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
7018381 AAGGGCAATT
*
7018391 ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7018424 TTATTATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:7020017 original size:50 final size:50
Alignment explanation
Indices: 7019940--7020766 Score: 320
Period size: 50 Copynumber: 16.5 Consensus size: 50
7019930 ATCTTCAATT
* * * * * *
7019940 GTTGTAGCTTCAATCTGTTT-TGCTGCACCGCCGGGGGAGTAAAATTCACC
1 GTTGTGGCTTCAATCT-TTTAAGTTGCACCGCCGGGGAAGTAAGATTCGCC
* * * *
7019990 GTTGTGGCTTCAATCTTTTAAATTGCACTGTCGGGGAAGTGAGATTCGCC
1 GTTGTGGCTTCAATCTTTTAAGTTGCACCGCCGGGGAAGTAAGATTCGCC
* * * ** ** * * *
7020040 ATCGTAGCTTCAATCCATTCCGCTGCACCACCTGGGAAGTAAGATTCGCC
1 GTTGTGGCTTCAATCTTTTAAGTTGCACCGCCGGGGAAGTAAGATTCGCC
** * * * *
7020090 GTTGTGGCTTCAATCTTTTAAGTTGCAATGTCAGGGAAGTGAGATTTGCC
1 GTTGTGGCTTCAATCTTTTAAGTTGCACCGCCGGGGAAGTAAGATTCGCC
* * ** * * * * *
7020140 GTCGTAGCTTCAATCTTTTCCGCTGCATCGCCTGAGAAGTAAGATTCACC
1 GTTGTGGCTTCAATCTTTTAAGTTGCACCGCCGGGGAAGTAAGATTCGCC
* * ** * ** * * *
7020190 GTTGTGGCTTCGATCTTTTAAATTGCAATGTCAAGGAAGCAAGATCCGCT
1 GTTGTGGCTTCAATCTTTTAAGTTGCACCGCCGGGGAAGTAAGATTCGCC
* * * * * * *
7020240 GTTGTAGCTTCAATCTGTTTAA-CTGCACTGCCTGGGAAATAAGATTCACT
1 GTTGTGGCTTCAATCT-TTTAAGTTGCACCGCCGGGGAAGTAAGATTCGCC
* * * **** * * * *
7020290 GTTGGGGCTTCGATCTTTTAAATTGCAATATCGAGGAAGCAAGATCCGCT
1 GTTGTGGCTTCAATCTTTTAAGTTGCACCGCCGGGGAAGTAAGATTCGCC
* * * * * * *
7020340 GTTGTAGCTTCAATCTGTTCAA-CTGCACTGCCTGGGAAATAAGATTCACC
1 GTTGTGGCTTCAATCT-TTTAAGTTGCACCGCCGGGGAAGTAAGATTCGCC
* * * * * * * * * *
7020390 GTTAAT-TCTTCGATCTTTTAAATTGCTA-TGTCGAGGAAGCAAGATCCGCT
1 GTT-GTGGCTTCAATCTTTTAAGTTGC-ACCGCCGGGGAAGTAAGATTCGCC
* * * * * * *
7020440 GTTGTAGCTTCAATCTATTCAA-CTGCACTGCCTGGGAAATAAGATTCACC
1 GTTGTGGCTTCAATCT-TTTAAGTTGCACCGCCGGGGAAGTAAGATTCGCC
* * ** * *
7020490 GTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGGGAAGTAAGATTCGCT
1 GTTGTGGCTTCAATCTTTTAAGTTGCACCGCCGGGGAAGTAAGATTCGCC
* * ** * * ** * * *
7020540 GTTGTAGCTTCAATCTGTTCCGCTGCATCGCTAGGGAAATGAGATTTGCC
1 GTTGTGGCTTCAATCTTTTAAGTTGCACCGCCGGGGAAGTAAGATTCGCC
* * ** *** * *
7020590 GTTGTGACTTTAATCTTTTGAA-TTGCAATGTTAGGGAAGTAAAATTCGCT
1 GTTGTGGCTTCAATCTTTT-AAGTTGCACCGCCGGGGAAGTAAGATTCGCC
* * ** ** *
7020640 GTTGTAGCTTCAATCTTTTAAATTGCAATGTTGGGGAAGTGAGATTCGCC
1 GTTGTGGCTTCAATCTTTTAAGTTGCACCGCCGGGGAAGTAAGATTCGCC
* * * * * ** * * * * **
7020690 ATCGTAGCTTCGATCTGTTCTGTTGCATCGCCAGGGAGGTGAGATTTACC
1 GTTGTGGCTTCAATCTTTTAAGTTGCACCGCCGGGGAAGTAAGATTCGCC
*
7020740 GTTGTGGCTTCAATATTTTGAA-TTGCA
1 GTTGTGGCTTCAATCTTTT-AAGTTGCA
7020767 ATCTATGGTT
Statistics
Matches: 558, Mismatches: 205, Indels: 28
0.71 0.26 0.04
Matches are distributed among these distances:
49 20 0.04
50 523 0.94
51 15 0.03
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (50 bp):
GTTGTGGCTTCAATCTTTTAAGTTGCACCGCCGGGGAAGTAAGATTCGCC
Found at i:7020116 original size:100 final size:100
Alignment explanation
Indices: 7019939--7020655 Score: 808
Period size: 100 Copynumber: 7.2 Consensus size: 100
7019929 AATCTTCAAT
** * * * * *
7019939 TGTTGTAGCTTCAATCTGTTTTGCTGCACCGCCGGGGGAGTAAAATTCACCGTTGTGGCTTCAAT
1 TGTTGTAGCTTCAATCTGTTCAGCTGCACCGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGAT
* *
7020004 CTTTTAAATTGCACTGTCGGGGAAGTGAGATTCGC
66 CTTTTAAATTGCAATGTCGGGGAAGTAAGATTCGC
** * ** * * * * *
7020039 CATCGTAGCTTCAATCCATTCCGCTGCACCACCTGGGAAGTAAGATTCGCCGTTGTGGCTTCAAT
1 TGTTGTAGCTTCAATCTGTTCAGCTGCACCGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGAT
* * * *
7020104 CTTTTAAGTTGCAATGTCAGGGAAGTGAGATTTGC
66 CTTTTAAATTGCAATGTCGGGGAAGTAAGATTCGC
* * * * * * *
7020139 CGTCGTAGCTTCAATCTTTTCCGCTGCATCGCCTGAGAAGTAAGATTCACCGTTGTGGCTTCGAT
1 TGTTGTAGCTTCAATCTGTTCAGCTGCACCGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGAT
** * *
7020204 CTTTTAAATTGCAATGTCAAGGAAGCAAGATCCGC
66 CTTTTAAATTGCAATGTCGGGGAAGTAAGATTCGC
* * * * *
7020239 TGTTGTAGCTTCAATCTGTTTAACTGCACTGCCTGGGAAATAAGATTCACTGTTGGGGCTTCGAT
1 TGTTGTAGCTTCAATCTGTTCAGCTGCACCGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGAT
* * * *
7020304 CTTTTAAATTGCAATATCGAGGAAGCAAGATCCGC
66 CTTTTAAATTGCAATGTCGGGGAAGTAAGATTCGC
* * * *
7020339 TGTTGTAGCTTCAATCTGTTCAACTGCACTGCCTGGGAAATAAGATTCACCGTTAAT-TCTTCGA
1 TGTTGTAGCTTCAATCTGTTCAGCTGCACCGCCTGGGAAATAAGATTCACCGTT-GTGGCTTCGA
* * * *
7020403 TCTTTTAAATTGCTATGTCGAGGAAGCAAGATCCGC
65 TCTTTTAAATTGCAATGTCGGGGAAGTAAGATTCGC
* * *
7020439 TGTTGTAGCTTCAATCTATTCAACTGCACTGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGAT
1 TGTTGTAGCTTCAATCTGTTCAGCTGCACCGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGAT
7020504 CTTTTAAATTGCAATGTCGGGGAAGTAAGATTCGC
66 CTTTTAAATTGCAATGTCGGGGAAGTAAGATTCGC
* * * ** * **
7020539 TGTTGTAGCTTCAATCTGTTCCGCTGCATCG-CTAGGGAAATGAGATTTGCCGTTGTGACTTTAA
1 TGTTGTAGCTTCAATCTGTTCAGCTGCACCGCCT-GGGAAATAAGATTCACCGTTGTGGCTTCGA
* ** *
7020603 TCTTTTGAATTGCAATGTTAGGGAAGTAAAATTCGC
65 TCTTTTAAATTGCAATGTCGGGGAAGTAAGATTCGC
7020639 TGTTGTAGCTTCAATCT
1 TGTTGTAGCTTCAATCT
7020656 TTTAAATTGC
Statistics
Matches: 541, Mismatches: 73, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
99 3 0.01
100 538 0.99
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (100 bp):
TGTTGTAGCTTCAATCTGTTCAGCTGCACCGCCTGGGAAATAAGATTCACCGTTGTGGCTTCGAT
CTTTTAAATTGCAATGTCGGGGAAGTAAGATTCGC
Found at i:7020685 original size:150 final size:150
Alignment explanation
Indices: 7020490--7020768 Score: 405
Period size: 150 Copynumber: 1.9 Consensus size: 150
7020480 AAGATTCACC
* * ** *
7020490 GTTGTGGCTTCGATCTTTTAAATTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTAGCTTCAATC
1 GTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTAAGATTCGCCATCGTAGCTTCAATC
* * * *
7020555 TGTTCCGCTGCATCGCTAGGGAAATGAGATTTGCCGTTGTGACTTTAATCTTTTGAATTGCAATG
66 TGTTCCGCTGCATCGCCAGGGAAATGAGATTTACCGTTGTGACTTCAATATTTTGAATTGCAATG
7020620 TTAGGGAAGTAAAATTCGCT
131 TTAGGGAAGTAAAATTCGCT
* * *
7020640 GTTGTAGCTTCAATCTTTTAAATTGCAATGTTGGGGAAGTGAGATTCGCCATCGTAGCTTCGATC
1 GTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTAAGATTCGCCATCGTAGCTTCAATC
* * ** *
7020705 TGTTCTGTTGCATCGCCAGGGAGGTGAGATTTACCGTTGTGGCTTCAATATTTTGAATTGCAAT
66 TGTTCCGCTGCATCGCCAGGGAAATGAGATTTACCGTTGTGACTTCAATATTTTGAATTGCAAT
7020769 CTATGGTTTT
Statistics
Matches: 112, Mismatches: 17, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
150 112 1.00
ACGTcount: A:0.23, C:0.16, G:0.25, T:0.36
Consensus pattern (150 bp):
GTTGTAGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTAAGATTCGCCATCGTAGCTTCAATC
TGTTCCGCTGCATCGCCAGGGAAATGAGATTTACCGTTGTGACTTCAATATTTTGAATTGCAATG
TTAGGGAAGTAAAATTCGCT
Found at i:7023137 original size:6 final size:6
Alignment explanation
Indices: 7023126--7023164 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
7023116 TTGACTTCTC
7023126 CTTTTT CTTTTT C-TTTT CTTTTTT CTTCTTT CTTTTT CT
1 CTTTTT CTTTTT CTTTTT C-TTTTT CTT-TTT CTTTTT CT
7023165 CTTATGATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 5 0.17
6 14 0.47
7 11 0.37
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
CTTTTT
Found at i:7023154 original size:15 final size:15
Alignment explanation
Indices: 7023126--7023167 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
7023116 TTGACTTCTC
*
7023126 CTTTTTCTTTTTCTTTT
1 CTTTTTC-TCTTC-TTT
7023143 CTTTTT-TCTTCTTT
1 CTTTTTCTCTTCTTT
7023157 CTTTTTCTCTT
1 CTTTTTCTCTT
7023168 ATGATTTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 9 0.39
15 8 0.35
17 6 0.26
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
CTTTTTCTCTTCTTT
Found at i:7023192 original size:8 final size:9
Alignment explanation
Indices: 7023172--7023202 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
7023162 TCTCTTATGA
*
7023172 TTTTTTGAT
1 TTTTTTTAT
7023181 TTTTTTTAT
1 TTTTTTTAT
7023190 TTTTTTTAT
1 TTTTTTTAT
7023199 TTTT
1 TTTT
7023203 CTTTCGAGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.03, T:0.87
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:7026775 original size:110 final size:111
Alignment explanation
Indices: 7026541--7027074 Score: 783
Period size: 111 Copynumber: 4.8 Consensus size: 111
7026531 GAAATTCGAG
* * * * * * *
7026541 AGGATATTTGGCTATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGTACG-TTCCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
* * * **
7026603 AAATTTCCAAACGCGAAACATTGTCTTATTT-TGAAATTTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTAAAAAATTTTTTAAA
* * *
7026648 AGGATATTTAGCTATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCTTGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
7026713 GAATTTCCCAAACGCAAAACATTGCCTTA-TT-AAAAATTTTTTAAA
66 GAATTT-CCAAACGCAAAACATTGCCTTATTTAAAAAATTTTTTAAA
* * *
7026758 AGGATATTAAGTCATTTGGTTGAACGAGAAAAATCAACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
7026823 GAATTTCCAAACGCAAAACATTGCCTTATTTAAAAAATTTTTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTATTTAAAAAATTTTTTAAA
7026869 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
* ****
7026934 GAATTTTCAAACGCAAAACATTGCCTTATTTTAAAAAAAAAATTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTA-TTTAAAAAATTTTTTAAA
7026981 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
*
7027046 GAATTTCCCAAACGCAAAGCATTGCCTTA
66 GAATTT-CCAAACGCAAAACATTGCCTTA
7027075 ATTGGAAATA
Statistics
Matches: 390, Mismatches: 29, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
107 25 0.06
109 46 0.12
110 91 0.23
111 123 0.32
112 85 0.22
113 20 0.05
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (111 bp):
AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTATTTAAAAAATTTTTTAAA
Found at i:7027609 original size:20 final size:20
Alignment explanation
Indices: 7027568--7027611 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7027558 TGTGTGTAAG
* *
7027568 TATATAAAAAAATATATGTA
1 TATATAAAAAAACATATATA
*
7027588 TATATAAAAAAACGTATATA
1 TATATAAAAAAACATATATA
7027608 TATA
1 TATA
7027612 AGGGCAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (20 bp):
TATATAAAAAAACATATATA
Found at i:7027629 original size:3 final size:3
Alignment explanation
Indices: 7027621--7027662 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
7027611 AAGGGCAATT
* *
7027621 ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7027663 TTATTATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:7032848 original size:41 final size:41
Alignment explanation
Indices: 7032803--7032887 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
7032793 ACTTAAATTT
7032803 TTTAATGTATTTAAGTGTTAATATTATTAGTTAATTATGAA
1 TTTAATGTATTTAAGTGTTAATATTATTAGTTAATTATGAA
7032844 TTTAATGTATTTAAGTGTTAATATTATTAGTTAATTATGAA
1 TTTAATGTATTTAAGTGTTAATATTATTAGTTAATTATGAA
7032885 TTT
1 TTT
7032888 TCATTAATCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (41 bp):
TTTAATGTATTTAAGTGTTAATATTATTAGTTAATTATGAA
Found at i:7033568 original size:29 final size:28
Alignment explanation
Indices: 7033491--7033571 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 28
7033481 TTAAGTAAAT
* *
7033491 AAAT-AAAGTACAAAGGACTAAAGTTACC
1 AAATAAAAGTACAGA-GACTAAAATTACC
* *
7033519 AATTTGAAAAGTACAGGGACTAAAATTGACC
1 AA-AT-AAAAGTACAGAGACTAAAATT-ACC
7033550 AAATAAAAGTACAGAGACTAAA
1 AAATAAAAGTACAGAGACTAAA
7033572 TCCACAACTT
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
28 2 0.05
29 18 0.42
30 10 0.23
31 13 0.30
ACGTcount: A:0.53, C:0.12, G:0.16, T:0.19
Consensus pattern (28 bp):
AAATAAAAGTACAGAGACTAAAATTACC
Found at i:7035986 original size:43 final size:43
Alignment explanation
Indices: 7035938--7036162 Score: 249
Period size: 43 Copynumber: 5.2 Consensus size: 43
7035928 CGCTATTGTC
7035938 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAAA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAAA
* *
7035981 AACGCCGCTATAGATTAGGACCTTTAGCGGCTCTTTTTACAAA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAAA
* * * * * *
7036024 AACGCTGCTATAAATCAGAACCTTTAGCGACGCATCTTT-CACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTTTACAAA
* * * *
7036067 AACGCCGCTATAGCTCAAGACCTTTAGCGGCGCTTTTTTCACA
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAAA
* * * **
7036110 AACGCCGCTATAGCTCAAGACATTTAGCAACGCTTTGATTAC--A
1 AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTT--TTACAAA
7036153 AACGCCGCTA
1 AACGCCGCTA
7036163 AAAGTACCAT
Statistics
Matches: 157, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
42 4 0.03
43 146 0.93
44 4 0.03
45 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (43 bp):
AACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAAA
Found at i:7040053 original size:7 final size:7
Alignment explanation
Indices: 7040018--7040052 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
7040008 ATCTGAAATG
7040018 AAATGAA
1 AAATGAA
7040025 AAATGAA
1 AAATGAA
7040032 AAATGAA
1 AAATGAA
*
7040039 AAAAGAA
1 AAATGAA
*
7040046 CAATGAA
1 AAATGAA
7040053 CTGGAGAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.71, C:0.03, G:0.14, T:0.11
Consensus pattern (7 bp):
AAATGAA
Found at i:7042378 original size:88 final size:85
Alignment explanation
Indices: 7042216--7042384 Score: 209
Period size: 86 Copynumber: 2.0 Consensus size: 85
7042206 CTAAAAAAAA
*
7042216 TCAATTCAATTCTCTTATAAATAGAAAAATTATAAAATAATATATATAGTAAAATTACACTTCAA
1 TCAATTCAATTCTCTTATAAATAAAAAAATTATAAAATAATATATATAGTAAAATTACACTTCAA
7042281 CCTCCAAAAA-GAAAATTTT
66 CCTCCAAAAATGAAAATTTT
* * * *
7042300 TCAATTCAGTTCTCTTATAAATAAATAAAGAAATTA-AAAATTA-ATATATAGTAAAATTGCCCT
1 TCAATTCAATTCTCTTATAAAT--A-AAA-AAATTATAAAATAATATATATAGTAAAATTACACT
*
7042363 TTAACTCTCCTAAAAATGAAAA
62 TCAAC-CTCC-AAAAATGAAAA
7042385 GGAAAAATTA
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
84 21 0.29
86 23 0.32
87 12 0.17
88 11 0.15
89 5 0.07
ACGTcount: A:0.49, C:0.13, G:0.05, T:0.33
Consensus pattern (85 bp):
TCAATTCAATTCTCTTATAAATAAAAAAATTATAAAATAATATATATAGTAAAATTACACTTCAA
CCTCCAAAAATGAAAATTTT
Found at i:7042815 original size:24 final size:25
Alignment explanation
Indices: 7042760--7042815 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 25
7042750 GTTATATGGC
*
7042760 CTAATTATATAGAATTTTAATAAATA
1 CTAAATATATAGAATTTT-ATAAATA
** *
7042786 AAAAATATATATAATTTT-TAAATA
1 CTAAATATATAGAATTTTATAAATA
7042810 CTAAAT
1 CTAAAT
7042816 TAAATATGGT
Statistics
Matches: 24, Mismatches: 6, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
24 10 0.42
26 14 0.58
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.41
Consensus pattern (25 bp):
CTAAATATATAGAATTTTATAAATA
Found at i:7044680 original size:3 final size:3
Alignment explanation
Indices: 7044672--7044701 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
7044662 TTCGAATTAT
7044672 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
7044702 TTTTTAATAT
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):
ATA
Found at i:7051789 original size:34 final size:33
Alignment explanation
Indices: 7051750--7051874 Score: 144
Period size: 34 Copynumber: 3.7 Consensus size: 33
7051740 ATAAACCAGA
*
7051750 GTTTAGAGTTTTTAAAAAAATTAATTAAACTAG
1 GTTTAGAGTTTTTAAAAAAATTAATTAAATTAG
*
7051783 GTTTTAG-GTGTTTTAAATAAATTAATTAAATTAAG
1 G-TTTAGAGT-TTTTAAAAAAATTAATTAAATT-AG
*
7051818 GTTTAGAGTTTTTAAGAAAATTAATTAAATTAG
1 GTTTAGAGTTTTTAAAAAAATTAATTAAATTAG
* **
7051851 GGTTAGTTTTTTTTAAAAATAATT
1 GTTTAG-AGTTTTTAAAAA-AATT
7051875 TTGTGTTTAG
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
33 10 0.13
34 59 0.76
35 9 0.12
ACGTcount: A:0.41, C:0.01, G:0.14, T:0.45
Consensus pattern (33 bp):
GTTTAGAGTTTTTAAAAAAATTAATTAAATTAG
Found at i:7052371 original size:126 final size:126
Alignment explanation
Indices: 7051928--7052447 Score: 715
Period size: 125 Copynumber: 4.2 Consensus size: 126
7051918 AAGATTTTGT
* * * * * ** * *
7051928 TTTTTTTACAGTAGTTTCAGAATAATTAATTTTGAGAAGACGACTCTGAAAAGATAATGTTAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATGTCAAAA
* * * ** *
7051993 ACGCTTCAAGCAGGATACACTATTATAAAAATTACTGAAAAAAACT-CCACGTGGACGCTA
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTC
* * *
7052053 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAAACTGTTCTG-AAAAATAATTTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATGTCAAAA
* * * *
7052117 ATGCTTCAAGTAGGATGCACTGTCAGTAAATTTACTGAAAAAAACTCCCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTC
* *
7052178 TTTTTCTACAGTAGTTCTTG-AAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATGTCAAAA
* * **
7052242 ACGCTTAAAGCAAGATGCACTGTCAGCAAAATTACTGAAAAAGGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTC
* *
7052303 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTAAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATGTCAAAA
**
7052368 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTG-AAAAAACTCCCACGTGGACTATC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTC
*
7052428 TTTTTCTACAATAGTTCCTG
1 TTTTTCTACAGTAGTTCCTG
7052448 TTTGGCCTTA
Statistics
Matches: 349, Mismatches: 43, Indels: 6
0.88 0.11 0.02
Matches are distributed among these distances:
124 76 0.22
125 195 0.56
126 78 0.22
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAACTCCCACGTGGACGCTC
Found at i:7053777 original size:15 final size:15
Alignment explanation
Indices: 7053757--7053796 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
7053747 TAATATTGTT
7053757 ATTACTTAATGTTGC
1 ATTACTTAATGTTGC
*
7053772 ATTACTTAACGTTGC
1 ATTACTTAATGTTGC
7053787 ATTACTTAAT
1 ATTACTTAAT
7053797 ATACTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.30, C:0.15, G:0.10, T:0.45
Consensus pattern (15 bp):
ATTACTTAATGTTGC
Found at i:7057581 original size:25 final size:24
Alignment explanation
Indices: 7057544--7057595 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
7057534 ACTGTTATAA
* *
7057544 AAAATTATAAAAT-AAAAACTAATT
1 AAAATTACAAAATGAAAAAAT-ATT
7057568 AAAATTACATAAATGAAAAAATATT
1 AAAATTACA-AAATGAAAAAATATT
7057593 AAA
1 AAA
7057596 TAATATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.33
25 10 0.42
26 6 0.25
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (24 bp):
AAAATTACAAAATGAAAAAATATT
Found at i:7057793 original size:12 final size:12
Alignment explanation
Indices: 7057776--7057800 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7057766 AGAGAGCTTT
7057776 GAGAAATTTAGG
1 GAGAAATTTAGG
7057788 GAGAAATTTAGG
1 GAGAAATTTAGG
7057800 G
1 G
7057801 GCTTTTTTGA
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:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (12 bp):
GAGAAATTTAGG
Found at i:7061273 original size:36 final size:37
Alignment explanation
Indices: 7061233--7061305 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
7061223 GAAAAGAAAA
7061233 TGAAATTTTAAG-AAAAAATATGAAAAATGAAAAAGG
1 TGAAATTTTAAGAAAAAAATATGAAAAATGAAAAAGG
7061269 TGAAATTTTAAGAAAAAAATATGAAAAATGAAAAAGG
1 TGAAATTTTAAGAAAAAAATATGAAAAATGAAAAAGG
7061306 ATTGAGAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 12 0.33
37 24 0.67
ACGTcount: A:0.62, C:0.00, G:0.16, T:0.22
Consensus pattern (37 bp):
TGAAATTTTAAGAAAAAAATATGAAAAATGAAAAAGG
Found at i:7070109 original size:21 final size:21
Alignment explanation
Indices: 7070085--7070147 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
7070075 TGGAATATAC
7070085 CTTGTCTTGCAAATTGATTGT
1 CTTGTCTTGCAAATTGATTGT
* **
7070106 CTTGT-TTG-GAA-T-A-TAC
1 CTTGTCTTGCAAATTGATTGT
7070122 CTTGTCTTGCAAATTGATTGT
1 CTTGTCTTGCAAATTGATTGT
7070143 CTTGT
1 CTTGT
7070148 TAGACTATTG
Statistics
Matches: 31, Mismatches: 6, Indels: 10
0.66 0.13 0.21
Matches are distributed among these distances:
16 6 0.19
17 4 0.13
18 3 0.10
19 3 0.10
20 4 0.13
21 11 0.35
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.48
Consensus pattern (21 bp):
CTTGTCTTGCAAATTGATTGT
Found at i:7070113 original size:37 final size:37
Alignment explanation
Indices: 7070065--7070148 Score: 159
Period size: 37 Copynumber: 2.3 Consensus size: 37
7070055 GCAAATTTCT
*
7070065 TTGTTTTGTTTGGAATATACCTTGTCTTGCAAATTGA
1 TTGTCTTGTTTGGAATATACCTTGTCTTGCAAATTGA
7070102 TTGTCTTGTTTGGAATATACCTTGTCTTGCAAATTGA
1 TTGTCTTGTTTGGAATATACCTTGTCTTGCAAATTGA
7070139 TTGTCTTGTT
1 TTGTCTTGTT
7070149 AGACTATTGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.19, C:0.12, G:0.19, T:0.50
Consensus pattern (37 bp):
TTGTCTTGTTTGGAATATACCTTGTCTTGCAAATTGA
Found at i:7075655 original size:45 final size:45
Alignment explanation
Indices: 7075605--7075690 Score: 118
Period size: 45 Copynumber: 1.9 Consensus size: 45
7075595 CAGACACGGG
* *
7075605 AACTTACCCAGCACATGGAAAGAGGTGGAAAACAAAAACTATGAT
1 AACTTACCCAGAACATGGAAAGAAGTGGAAAACAAAAACTATGAT
** * *
7075650 AACTTACTTATAACATGGAAAGAAGTGGAAAACAAAGACTA
1 AACTTACCCAGAACATGGAAAGAAGTGGAAAACAAAAACTA
7075691 ATGAAGACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 35 1.00
ACGTcount: A:0.49, C:0.15, G:0.19, T:0.17
Consensus pattern (45 bp):
AACTTACCCAGAACATGGAAAGAAGTGGAAAACAAAAACTATGAT
Found at i:7078613 original size:56 final size:56
Alignment explanation
Indices: 7078551--7078666 Score: 232
Period size: 56 Copynumber: 2.1 Consensus size: 56
7078541 GCAAACCATT
7078551 AAATGTTTTCTGTAGGATGTTATAAACTAAGGCACCAAATACAGAGATAAACCTAA
1 AAATGTTTTCTGTAGGATGTTATAAACTAAGGCACCAAATACAGAGATAAACCTAA
7078607 AAATGTTTTCTGTAGGATGTTATAAACTAAGGCACCAAATACAGAGATAAACCTAA
1 AAATGTTTTCTGTAGGATGTTATAAACTAAGGCACCAAATACAGAGATAAACCTAA
7078663 AAAT
1 AAAT
7078667 ATTTAAAAAG
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.44, C:0.14, G:0.16, T:0.27
Consensus pattern (56 bp):
AAATGTTTTCTGTAGGATGTTATAAACTAAGGCACCAAATACAGAGATAAACCTAA
Found at i:7080482 original size:71 final size:71
Alignment explanation
Indices: 7080307--7080520 Score: 288
Period size: 71 Copynumber: 3.0 Consensus size: 71
7080297 ACTTAAATCG
* * *
7080307 ACAATTCCAATCAGAATCAATAATTACAAGCACGAAATTGAATAACTCTACAACTAATTAACT--
1 ACAATTCCAATCAGAATCAATAATTACAAGCACTAAATTAAATAATTCTACAACTAATTAACTAC
7080370 TAACTA
66 TAACTA
* * * *
7080376 GCAATTGCAATCAGAATCAATAATTACAAGCACTAAACTAAATAATTCTACAACTAGTTAACTAC
1 ACAATTCCAATCAGAATCAATAATTACAAGCACTAAATTAAATAATTCTACAACTAATTAACTAC
7080441 TAACTA
66 TAACTA
* * * * * *
7080447 ACAATTCCAATAAGAATCCATAATTACAAGTACTAAATTATATAATTCTACCATTAATTAACTAC
1 ACAATTCCAATCAGAATCAATAATTACAAGCACTAAATTAAATAATTCTACAACTAATTAACTA-
7080512 CTAACTA
65 CTAACTA
7080519 AC
1 AC
7080521 CGGAACCCGA
Statistics
Matches: 125, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
69 56 0.45
71 60 0.48
72 9 0.07
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.28
Consensus pattern (71 bp):
ACAATTCCAATCAGAATCAATAATTACAAGCACTAAATTAAATAATTCTACAACTAATTAACTAC
TAACTA
Found at i:7080808 original size:18 final size:18
Alignment explanation
Indices: 7080774--7080808 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7080764 ATGATCAACG
* *
7080774 ATGAAAGTTAAAGAAAAC
1 ATGAAAATTAAAAAAAAC
7080792 ATGAAAATTAAAAAAAA
1 ATGAAAATTAAAAAAAA
7080809 AGAAAAAGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.03, G:0.11, T:0.17
Consensus pattern (18 bp):
ATGAAAATTAAAAAAAAC
Found at i:7083324 original size:13 final size:12
Alignment explanation
Indices: 7083289--7083331 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
7083279 TTCACTTTTC
*
7083289 AAAACGAAAAGAA
1 AAAAAGAAAA-AA
7083302 AAAAAGAAAAAA
1 AAAAAGAAAAAA
*
7083314 TAAAAGAAAAATA
1 AAAAAGAAAAA-A
7083327 AAAAA
1 AAAAA
7083332 ACAGAGAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 12 0.46
13 14 0.54
ACGTcount: A:0.84, C:0.02, G:0.09, T:0.05
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:7084722 original size:87 final size:87
Alignment explanation
Indices: 7084613--7085051 Score: 725
Period size: 87 Copynumber: 5.0 Consensus size: 87
7084603 TTGTAATCTC
* ** * * *
7084613 CGATCTGCTTCACTGTCGACGCAGGAGGGCAAGATCTGCTATCTTTAATCAGCTCCACTGCAACT
1 CGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACC
7084678 GATGGAGGCAAGGCTTTGTTTT
66 GATGGAGGCAAGGCTTTGTTTT
*
7084700 CGATCTGCTTCGCTGTTAACGCAGGAAGGTAAGATCTGCTATCTTTAACCAGCTCCACTGCAACC
1 CGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACC
7084765 GATGGAGGCAAGGCTTTGTTTT
66 GATGGAGGCAAGGCTTTGTTTT
*
7084787 TGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACC
1 CGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACC
7084852 GATGGAGGCAAGGCTTTGTTTT
66 GATGGAGGCAAGGCTTTGTTTT
* *
7084874 CGATCTGCTTCGCTGTTAACGCAGGAATGCAAGATTTGCTATCTTTAACCAGCTCCACTGCAACC
1 CGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACC
7084939 GATGGAGGCAAGGCTTTGTTTT
66 GATGGAGGCAAGGCTTTGTTTT
* * * * * *
7084961 CGATCTGCTTCGCTGTTAACGCAGAAAAGTAAGATCTGCTATCTTTAACTATCTCCACTACAACC
1 CGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACC
*
7085026 GATGGAGGCAAGGCTTTATTTT
66 GATGGAGGCAAGGCTTTGTTTT
7085048 CGAT
1 CGAT
7085052 TTTCACTGAT
Statistics
Matches: 332, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 332 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.29
Consensus pattern (87 bp):
CGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACC
GATGGAGGCAAGGCTTTGTTTT
Found at i:7086613 original size:13 final size:12
Alignment explanation
Indices: 7086578--7086620 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
7086568 TTCACTTTTC
*
7086578 AAAACGAAAAGAA
1 AAAAAGAAAA-AA
7086591 AAAAAGAAAAAA
1 AAAAAGAAAAAA
*
7086603 TAAAAGAAAAATA
1 AAAAAGAAAAA-A
7086616 AAAAA
1 AAAAA
7086621 CAGAGAGCTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
12 12 0.46
13 14 0.54
ACGTcount: A:0.84, C:0.02, G:0.09, T:0.05
Consensus pattern (12 bp):
AAAAAGAAAAAA
Found at i:7089903 original size:34 final size:33
Alignment explanation
Indices: 7089863--7089973 Score: 136
Period size: 34 Copynumber: 3.3 Consensus size: 33
7089853 GAAATTTTTT
7089863 AAAAATTAATTAAATTAGGTTTTAGGGGTTTTAA
1 AAAAATTAATTAAATTAGG-TTTAGGGGTTTTAA
** *
7089897 GTAAATTAATTAAATTAAGGTTTAGGGTTTTTAA
1 AAAAATTAATTAAATT-AGGTTTAGGGGTTTTAA
* *
7089931 AAAAATTAATTAAATTAGGGTTTA-TGTTTTTAA
1 AAAAATTAATTAAATTA-GGTTTAGGGGTTTTAA
7089964 AAAAA-TAATT
1 AAAAATTAATT
7089974 TTGTGTTTAG
Statistics
Matches: 69, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
32 5 0.07
33 14 0.20
34 47 0.68
35 3 0.04
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.42
Consensus pattern (33 bp):
AAAAATTAATTAAATTAGGTTTAGGGGTTTTAA
Found at i:7090290 original size:126 final size:124
Alignment explanation
Indices: 7090058--7090406 Score: 437
Period size: 126 Copynumber: 2.8 Consensus size: 124
7090048 TTTTGTTTTT
* * * *
7090058 TTTTTCTACAGTAGTTTCTGAAAAATTAATTTTGAGAAGACGGTTATGAAAAGATAATGTCAAAA
1 TTTTTCTACAGTAGTTTCTGAAAAA-TAATTTTGAGAAGACGGTTATAAAAAAATAGTGTAAAAA
* * * * * *
7090123 ATGCTTCGAGTAGGATGCACTGTTAGCAAAAGTACTGAAAAAAGCTCCCACATGGACGCTC
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAA-TACTAAAAAAAGCTCCCACATGGACACTC
* * *
7090184 TTTTTCTACAGTAGTTCCTGAAAATATAATTTTGAGAAGACGGTTATAAAAAAATAGTGTGAAAG
1 TTTTTCTACAGTAGTTTCTGAAAA-ATAATTTTGAGAAGACGGTTATAAAAAAATAGTGTAAAAA
** * * *
7090249 ACGCTTCAAGCAAAATGCACTATCAGCAAAATCACTAAAAAAAGCTCTCACGTGGACACTC
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAAT-ACTAAAAAAAGCTCCCACATGGACACTC
* * * * *
7090310 TTTTTCTACAGTAGTTTTTAAAAAAATAATTTTGAGAAAACGGTTCTAAAAAAATAGTATAAAAA
1 TTTTTCTACAGTAGTTTCT-GAAAAATAATTTTGAGAAGACGGTTATAAAAAAATAGTGTAAAAA
*
7090375 ACACTTCAAGCAGGATGCACTGTCAGCAAAAT
65 ACGCTTCAAGCAGGATGCACTGTCAGCAAAAT
7090407 TACTGAACCC
Statistics
Matches: 191, Mismatches: 29, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
125 1 0.01
126 185 0.97
127 5 0.03
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (124 bp):
TTTTTCTACAGTAGTTTCTGAAAAATAATTTTGAGAAGACGGTTATAAAAAAATAGTGTAAAAAA
CGCTTCAAGCAGGATGCACTGTCAGCAAAATACTAAAAAAAGCTCCCACATGGACACTC
Found at i:7093454 original size:18 final size:20
Alignment explanation
Indices: 7093401--7093465 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
7093391 CAGACTGTTA
* *
7093401 TAAAAAATA-AAAATAAAAT
1 TAAAAAATATTAAATAATAT
* *
7093420 TAATTAAA-ATTACATAA-A-
1 TAA-AAAATATTAAATAATAT
7093438 TAAAAAATATTAAATAATAT
1 TAAAAAATATTAAATAATAT
7093458 TAAAAAAT
1 TAAAAAAT
7093466 TGAAATTAAC
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
17 3 0.08
18 11 0.31
19 6 0.17
20 16 0.44
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAAAAATATTAAATAATAT
Found at i:7103018 original size:40 final size:40
Alignment explanation
Indices: 7102897--7103031 Score: 109
Period size: 40 Copynumber: 3.4 Consensus size: 40
7102887 GACTTCGAGT
* * * *
7102897 CGATGAGACACTGGGTTTCAATTTACTACTTTGGATTAATT
1 CGATGAGACACTAGGTGTCAATTTATTACTTT-GATTAATC
* * * * *
7102938 CGAGGAGGCACTAGGTGCCAA--T-TTACTTCGGTTCAA-C
1 CGATGAGACACTAGGTGTCAATTTATTACTTTGATT-AATC
7102975 CGATGAGACACTAGGTGTCAATTTATTACTTTGAATT-ATC
1 CGATGAGACACTAGGTGTCAATTTATTACTTTG-ATTAATC
* *
7103015 CGATGAGGCACTGGGTG
1 CGATGAGACACTAGGTG
7103032 CCAAACTGGT
Statistics
Matches: 72, Mismatches: 16, Indels: 13
0.71 0.16 0.13
Matches are distributed among these distances:
37 21 0.29
38 7 0.10
39 3 0.04
40 23 0.32
41 18 0.25
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (40 bp):
CGATGAGACACTAGGTGTCAATTTATTACTTTGATTAATC
Found at i:7103078 original size:6 final size:6
Alignment explanation
Indices: 7103067--7103093 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
7103057 CCGTGTATCC
7103067 GTCCGA GTCCGA GTCCGA GTCCGA GTC
1 GTCCGA GTCCGA GTCCGA GTCCGA GTC
7103094 GTGTTAATAG
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:0.15, C:0.33, G:0.33, T:0.19
Consensus pattern (6 bp):
GTCCGA
Found at i:7119631 original size:50 final size:51
Alignment explanation
Indices: 7119570--7119695 Score: 227
Period size: 51 Copynumber: 2.5 Consensus size: 51
7119560 ATCAATGACA
7119570 AGTGACAAGTGATAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATC
1 AGTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
7119620 AGTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
* *
7119671 AGTGACAAGAGATAAATGATAAGTG
1 AGTGACAAGTGATAAGTGATAAGTG
7119696 ATTCCGTGTA
Statistics
Matches: 73, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
50 30 0.41
51 43 0.59
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
Done.