Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
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: 8285662
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 32 of 35
Found at i:7441246 original size:20 final size:20
Alignment explanation
Indices: 7441221--7441267 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
7441211 AAATTCAGTA
*
7441221 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCGCG
*
7441241 TTGCGATAGTCAGATTCGCG
1 TTGCGATAGTCAGAATCGCG
7441261 TTGCGAT
1 TTGCGAT
7441268 TTACGTAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCGCG
Found at i:7441279 original size:20 final size:20
Alignment explanation
Indices: 7441256--7441331 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
7441246 ATAGTCAGAT
*
7441256 TCGCGTTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAA
* * **
7441276 TCGCATTACGATTTTCCAAA
1 TCGCATTGCGATTTACGTAA
* *
7441296 TTCGCGTTGCGATTTACGTAT
1 -TCGCATTGCGATTTACGTAA
7441317 TCGCATTGCGATTTA
1 TCGCATTGCGATTTA
7441332 GGAAAATCGC
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 29 0.67
21 14 0.33
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAA
Found at i:7444352 original size:20 final size:20
Alignment explanation
Indices: 7444327--7444371 Score: 90
Period size: 20 Copynumber: 2.2 Consensus size: 20
7444317 TGGTGTCTTT
7444327 AGCTCTATTGTAGTTTATGG
1 AGCTCTATTGTAGTTTATGG
7444347 AGCTCTATTGTAGTTTATGG
1 AGCTCTATTGTAGTTTATGG
7444367 AGCTC
1 AGCTC
7444372 GATTCACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.13, G:0.24, T:0.42
Consensus pattern (20 bp):
AGCTCTATTGTAGTTTATGG
Found at i:7445680 original size:17 final size:17
Alignment explanation
Indices: 7445658--7445700 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
7445648 TCTGTCTTCC
7445658 TTGTTCTTGCGCCAATT
1 TTGTTCTTGCGCCAATT
7445675 TTGTTCTTGCGCCAATT
1 TTGTTCTTGCGCCAATT
*
7445692 TTCTTCTTG
1 TTGTTCTTG
7445701 TAGAACAGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.09, C:0.23, G:0.16, T:0.51
Consensus pattern (17 bp):
TTGTTCTTGCGCCAATT
Found at i:7451253 original size:42 final size:41
Alignment explanation
Indices: 7451194--7451377 Score: 253
Period size: 42 Copynumber: 4.5 Consensus size: 41
7451184 ATGTAATACT
*
7451194 AACGCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGC
1 AACGCGAACTTGGACTATCGCAACGAATTT-GAAAAAATCGC
*
7451236 AACGCGAACTTGGACTATCGCAACGAATTTGGAATAAATCGC
1 AACGCGAACTTGGACTATCGCAACGAATTT-GAAAAAATCGC
* * *
7451278 AACGCAAACTTAGACTATTGCAACGAATTT-AAAAAATCGC
1 AACGCGAACTTGGACTATCGCAACGAATTTGAAAAAATCGC
* **
7451318 AACGCGAACTTGGACTATCGCAACGAAATTGAAAAAATTAC
1 AACGCGAACTTGGACTATCGCAACGAATTTGAAAAAATCGC
* *
7451359 AATGCGAACTTCGACTATC
1 AACGCGAACTTGGACTATC
7451378 ACCGCATTAC
Statistics
Matches: 129, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
40 35 0.27
41 25 0.19
42 69 0.53
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.22
Consensus pattern (41 bp):
AACGCGAACTTGGACTATCGCAACGAATTTGAAAAAATCGC
Found at i:7451337 original size:21 final size:21
Alignment explanation
Indices: 7451194--7451342 Score: 112
Period size: 21 Copynumber: 7.2 Consensus size: 21
7451184 ATGTAATACT
7451194 AACGCGAACTTGGACTATCGC
1 AACGCGAACTTGGACTATCGC
* *
7451215 AA--CGAATTTGGAATAAATCGC
1 AACGCGAACTTGGACT--ATCGC
7451236 AACGCGAACTTGGACTATCGC
1 AACGCGAACTTGGACTATCGC
* *
7451257 AA--CGAATTTGGAATAAATCGC
1 AACGCGAACTTGGACT--ATCGC
* * *
7451278 AACGCAAACTTAGACTATTGC
1 AACGCGAACTTGGACTATCGC
* ** **
7451299 AA--CGAATTTAAAAAATCGC
1 AACGCGAACTTGGACTATCGC
7451318 AACGCGAACTTGGACTATCGC
1 AACGCGAACTTGGACTATCGC
7451339 AACG
1 AACG
7451343 AAATTGAAAA
Statistics
Matches: 96, Mismatches: 22, Indels: 20
0.70 0.16 0.14
Matches are distributed among these distances:
19 33 0.34
21 45 0.47
23 18 0.19
ACGTcount: A:0.38, C:0.22, G:0.19, T:0.21
Consensus pattern (21 bp):
AACGCGAACTTGGACTATCGC
Found at i:7467746 original size:12 final size:12
Alignment explanation
Indices: 7467729--7467758 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7467719 TAGGGCCATT
7467729 AGTTTTACATCA
1 AGTTTTACATCA
*
7467741 AGTTTTACATTA
1 AGTTTTACATCA
7467753 AGTTTT
1 AGTTTT
7467759 CTTTATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (12 bp):
AGTTTTACATCA
Found at i:7473835 original size:28 final size:28
Alignment explanation
Indices: 7473792--7473846 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
7473782 CCATCGTTGC
* *
7473792 TTTCAAGCACTGGCTCGATGACATAATG
1 TTTCAAGCACTAGCTCGACGACATAATG
7473820 TTTCAAGCACTAGCTCGACGACATAAT
1 TTTCAAGCACTAGCTCGACGACATAAT
7473847 ATAAACGAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (28 bp):
TTTCAAGCACTAGCTCGACGACATAATG
Found at i:7474104 original size:60 final size:60
Alignment explanation
Indices: 7473998--7474110 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
7473988 ATAGTCGGGT
* * *
7473998 GACCATTTTATAACTTTTAATAGTCAAATGATTCAAAATAGTAATACCCTATAGTCAGAA
1 GACCATTTTATAACTTTTAACAGTCAAATGACTCAAAATAGCAATACCCTATAGTCAGAA
** *
7474058 GACCATTTTATAACTTTTAACAGTTGAATGGCTCAACAA-AGCAATACCCTATA
1 GACCATTTTATAACTTTTAACAGTCAAATGACTCAA-AATAGCAATACCCTATA
7474111 ATTTGAGACT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
60 44 0.96
61 2 0.04
ACGTcount: A:0.40, C:0.18, G:0.11, T:0.32
Consensus pattern (60 bp):
GACCATTTTATAACTTTTAACAGTCAAATGACTCAAAATAGCAATACCCTATAGTCAGAA
Found at i:7475935 original size:24 final size:23
Alignment explanation
Indices: 7475908--7475953 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
7475898 GACGAATGGA
7475908 TAAAATAAAATTAAAAAATAATAT
1 TAAAAT-AAATTAAAAAATAATAT
* *
7475932 TAAAATAGATTTAAAAATAATA
1 TAAAATAAATTAAAAAATAATA
7475954 ATAGTTAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (23 bp):
TAAAATAAATTAAAAAATAATAT
Found at i:7477815 original size:44 final size:44
Alignment explanation
Indices: 7477666--7477818 Score: 177
Period size: 44 Copynumber: 3.5 Consensus size: 44
7477656 GATTAGAAAG
* * * **
7477666 AAAGTGAGATTAAAAAAATTTAAGGGCCTCAATTATAAATTTTAA
1 AAAGTGAGATTGAAAAAACTTAGGGGCCTCAATTATAAA-GGTAA
*
7477711 AAAGTGAGATT-AAAAAA-TTTGGGGCCTCAATTATAAAGGTAA
1 AAAGTGAGATTGAAAAAACTTAGGGGCCTCAATTATAAAGGTAA
* * *
7477753 AAATTGATATTGAAAAAACTTAGGGGCCTCAATTGA-AAAGGTAG
1 AAAGTGAGATTGAAAAAACTTAGGGGCCTCAATT-ATAAAGGTAA
*
7477797 AAAGTGAAATTGAAAAAACTTA
1 AAAGTGAGATTGAAAAAACTTA
7477819 AAAACATCAA
Statistics
Matches: 95, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
42 12 0.13
43 24 0.25
44 47 0.49
45 12 0.13
ACGTcount: A:0.48, C:0.07, G:0.18, T:0.27
Consensus pattern (44 bp):
AAAGTGAGATTGAAAAAACTTAGGGGCCTCAATTATAAAGGTAA
Found at i:7477829 original size:44 final size:44
Alignment explanation
Indices: 7477737--7477832 Score: 104
Period size: 44 Copynumber: 2.2 Consensus size: 44
7477727 ATTTGGGGCC
* * **** *
7477737 TCAATTATAAAGGTAAAAATTGATATTGAAAAAACTTAGGGGCC
1 TCAATTATAAAGGTAAAAAGTGAAATTGAAAAAACTTAAAAACA
*
7477781 TCAATTGA-AAAGGTAGAAAGTGAAATTGAAAAAACTTAAAAACA
1 TCAATT-ATAAAGGTAAAAAGTGAAATTGAAAAAACTTAAAAACA
7477825 TCAATTAT
1 TCAATTAT
7477833 TACAAAATTA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
43 1 0.02
44 40 0.95
45 1 0.02
ACGTcount: A:0.50, C:0.08, G:0.16, T:0.26
Consensus pattern (44 bp):
TCAATTATAAAGGTAAAAAGTGAAATTGAAAAAACTTAAAAACA
Found at i:7477998 original size:43 final size:44
Alignment explanation
Indices: 7477895--7478003 Score: 111
Period size: 43 Copynumber: 2.5 Consensus size: 44
7477885 TAGAGAATTA
** *
7477895 AATTATAAAGA-TAAAAGGTAAGATTTAATAATATTAGGACATC
1 AATTATAAAGATTAAAAAATAAGATTTAATAATATTAGCACATC
* *
7477938 AATTATAAATG-TAAAAAAAATAAGATTTAA-AA-ATTAAGCACCT-
1 AATTATAAA-GAT-TAAAAAATAAGATTTAATAATATT-AGCACATC
7477981 AATTATAAAGATTAAAAAATAAG
1 AATTATAAAGATTAAAAAATAAG
7478004 GGCCGCAATT
Statistics
Matches: 55, Mismatches: 6, Indels: 11
0.76 0.08 0.15
Matches are distributed among these distances:
42 11 0.20
43 22 0.40
44 8 0.15
45 14 0.25
ACGTcount: A:0.57, C:0.05, G:0.10, T:0.28
Consensus pattern (44 bp):
AATTATAAAGATTAAAAAATAAGATTTAATAATATTAGCACATC
Found at i:7478757 original size:18 final size:17
Alignment explanation
Indices: 7478734--7478777 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
7478724 ATATACATAT
7478734 AATAATAATAATAAAATG
1 AATAATAATAAT-AAATG
*
7478752 AATAATAAAAATAAATG
1 AATAATAATAATAAATG
7478769 AATAA-AATA
1 AATAATAATA
7478778 TCCATATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 3 0.12
17 10 0.42
18 11 0.46
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (17 bp):
AATAATAATAATAAATG
Found at i:7479184 original size:37 final size:37
Alignment explanation
Indices: 7479134--7479238 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
7479124 GTGCTTGTGG
* * * *
7479134 ATCCTATCTTTAGGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
** * * *
7479171 ATCCTATTTTTAGGAGTTTGAATCCTAACAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
7479208 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
7479239 GATGAAAATG
Statistics
Matches: 56, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:7480080 original size:105 final size:105
Alignment explanation
Indices: 7479781--7480442 Score: 931
Period size: 105 Copynumber: 6.3 Consensus size: 105
7479771 GTATTGTTCT
* * * ** *
7479781 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTATG-GAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACA
* * * * * *
7479845 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTATCTC
64 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
7479887 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
7479947 CAGCGGTCCCTTCGTCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
7479987 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* *
7480052 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCTTTATCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
7480092 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
7480157 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
7480197 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
7480262 CAGCGATCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
7480302 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGATTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAA
* * * * *
7480367 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
7480408 GATTGTCACGATATCCTCCGTCGTGGAGTTGAAAT
1 GA--GTC-CAATATCCTTCGTTGTGAAGTTGAAAT
7480443 AGCGGATGTT
Statistics
Matches: 510, Mismatches: 36, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
100 83 0.16
101 1 0.00
102 7 0.01
104 5 0.01
105 306 0.60
106 82 0.16
108 3 0.01
109 23 0.05
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:7480658 original size:36 final size:36
Alignment explanation
Indices: 7480611--7480686 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
7480601 TGTTTGGAGA
* * *
7480611 GAAACTGTCTCAAGGGAGACAAAATTCGTTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
*
7480647 GAAACTATCTCAAGCGAGATAAAATTCATTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
7480683 GAAA
1 GAAA
7480687 TGTTTTCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.41, C:0.16, G:0.21, T:0.22
Consensus pattern (36 bp):
GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
Found at i:7480861 original size:39 final size:39
Alignment explanation
Indices: 7480807--7480881 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
7480797 TCAATGTTTA
* *
7480807 TGTTTCAAGAGAAACTGTCTCAAGG-GAGACAAAATTTTC
1 TGTTTCAAGAGAAACTATCTC-AGGAGAGAAAAAATTTTC
* *
7480846 TGTTTCGAGGGAAACTATCTCAGGAGAGAAAAAATT
1 TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATT
7480882 AATTTCAAGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 3 0.10
39 28 0.90
ACGTcount: A:0.37, C:0.13, G:0.23, T:0.27
Consensus pattern (39 bp):
TGTTTCAAGAGAAACTATCTCAGGAGAGAAAAAATTTTC
Found at i:7480920 original size:105 final size:104
Alignment explanation
Indices: 7480586--7480904 Score: 518
Period size: 105 Copynumber: 3.1 Consensus size: 104
7480576 TTCGTTAAAT
* ** *
7480586 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAA--TTC-GTTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
7480648 AAACTATCTCAAGCGAGATAAAATTCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
*
7480687 TGTTTTCAATGTTTATGTTTAAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
*
7480752 AAACTATCTCAAGAGAGAAAAAAAATCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAG-AAAAAATTCATTTCAAGGGAAA
7480792 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
7480857 AAACTATCTCAGGAGAGAAAAAATTAATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
7480896 TGTTTTCAA
1 TGTTTTCAA
7480905 GAGAAACTGT
Statistics
Matches: 203, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
101 46 0.23
103 3 0.01
104 54 0.27
105 100 0.49
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (104 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
Found at i:7481060 original size:36 final size:36
Alignment explanation
Indices: 7481027--7481134 Score: 119
Period size: 36 Copynumber: 3.0 Consensus size: 36
7481017 GTGAAAACGG
*
7481027 TCTCAAGCGAGACAAATCTTGTTTTAAGAAAAACAA
1 TCTCAAGTGAGACAAATCTTGTTTTAAGAAAAACAA
** * * * **
7481063 TCTTGAGTGAAATAAATCTTCTTTCGAGAAAAACAA
1 TCTCAAGTGAGACAAATCTTGTTTTAAGAAAAACAA
*
7481099 TCTCAAGTGAGACAAAGT-ATGTTTTAAGAAAAACAA
1 TCTCAAGTGAGACAAA-TCTTGTTTTAAGAAAAACAA
7481135 ATTTGAGTGA
Statistics
Matches: 55, Mismatches: 16, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
36 54 0.98
37 1 0.02
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (36 bp):
TCTCAAGTGAGACAAATCTTGTTTTAAGAAAAACAA
Found at i:7481113 original size:72 final size:75
Alignment explanation
Indices: 7480975--7481149 Score: 209
Period size: 72 Copynumber: 2.4 Consensus size: 75
7480965 TAAAATCTTC
** * **
7480975 TTAA-AAAAACAGCCTTGAGTGAAATGAAATGCTTTCTTTCGAGTGAAAACGGTCTCAAGCGAGA
1 TTAAGAAAAACAATCTTGAGTGAAAT-AAATGCTTTCTTTCGAGTAAAAACAATCTCAAGCGAGA
*
7481039 CAAA-TCTTGTT
65 CAAAGT-ATGTT
*
7481050 TTAAGAAAAACAATCTTGAGTGAAATAAAT-C-TTCTTTCGAG-AAAAACAATCTCAAGTGAGAC
1 TTAAGAAAAACAATCTTGAGTGAAATAAATGCTTTCTTTCGAGTAAAAACAATCTCAAGCGAGAC
7481112 AAAGTATGTT
66 AAAGTATGTT
*
7481122 TTAAGAAAAACAAAT-TTGAGTGAGATAA
1 TTAAGAAAAAC-AATCTTGAGTGAAATAA
7481150 TCATCTGCAT
Statistics
Matches: 89, Mismatches: 8, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
72 47 0.53
73 14 0.16
74 1 0.01
75 8 0.09
76 19 0.21
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (75 bp):
TTAAGAAAAACAATCTTGAGTGAAATAAATGCTTTCTTTCGAGTAAAAACAATCTCAAGCGAGAC
AAAGTATGTT
Found at i:7482598 original size:183 final size:183
Alignment explanation
Indices: 7482290--7482826 Score: 968
Period size: 183 Copynumber: 2.9 Consensus size: 183
7482280 ATCAGGTTTA
*
7482290 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* ** *
7482355 GCCAAGTGTCCGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCTAGGGCTTTCGAGT
66 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
*
7482419 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGGGGGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
7482473 ACTGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
7482538 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
*
7482603 TTCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
*
7482656 ACTGAAGGGTTCATCTCATCACAAGGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
7482721 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
*
7482786 TCCTCTATAATCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
7482827 CGGATTTAAT
Statistics
Matches: 341, Mismatches: 12, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
183 340 1.00
184 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:7486896 original size:18 final size:17
Alignment explanation
Indices: 7486875--7486917 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
7486865 ATATATACAT
7486875 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
7486893 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
7486910 ATAA-AATA
1 ATAATAATA
7486918 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:7495485 original size:41 final size:41
Alignment explanation
Indices: 7495404--7495485 Score: 112
Period size: 41 Copynumber: 2.0 Consensus size: 41
7495394 CGCAACCCAG
* **
7495404 TTTCTAATTTCGCAACGCGAATATGTAAATCACATTGCGAT
1 TTTCCAATTTCGCAACGCGAATATGTAAATCACAACGCGAT
*
7495445 TTTCCAATTTCGCAACGCGAATCTGTAAAT-AGCAACGCGAT
1 TTTCCAATTTCGCAACGCGAATATGTAAATCA-CAACGCGAT
7495486 AGTCAAATGC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
40 1 0.03
41 35 0.97
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (41 bp):
TTTCCAATTTCGCAACGCGAATATGTAAATCACAACGCGAT
Found at i:7495534 original size:20 final size:20
Alignment explanation
Indices: 7495476--7495679 Score: 184
Period size: 20 Copynumber: 10.2 Consensus size: 20
7495466 TCTGTAAATA
*
7495476 GCAACGCGATAGTCAAATGC
1 GCAACGCGATAGTCAAATTC
* * *
7495496 GCAGCAC-AAAGTCAAATTC
1 GCAACGCGATAGTCAAATTC
* *
7495515 GCAATGCGATAGTTAAATTC
1 GCAACGCGATAGTCAAATTC
7495535 GCAACGCGATAGTCAAATTC
1 GCAACGCGATAGTCAAATTC
7495555 GCAACGCGATAGTCAAATTC
1 GCAACGCGATAGTCAAATTC
* * *
7495575 GCAACACGATAGTTAAATAC
1 GCAACGCGATAGTCAAATTC
*
7495595 GCAACGCGAATTTGT-AAA-TC
1 GCAACGCG-A-TAGTCAAATTC
*
7495615 GCAACACAGA-AGTCAAATTC
1 GCAACGC-GATAGTCAAATTC
* *
7495635 GCAACAC-ATAAGCCAAATTC
1 GCAACGCGAT-AGTCAAATTC
* * *
7495655 GCAACACAAAAGTCAAATTC
1 GCAACGCGATAGTCAAATTC
*
7495675 ACAAC
1 GCAAC
7495680 TGAATTTCAA
Statistics
Matches: 152, Mismatches: 23, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
18 3 0.02
19 17 0.11
20 123 0.81
21 6 0.04
22 3 0.02
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.19
Consensus pattern (20 bp):
GCAACGCGATAGTCAAATTC
Found at i:7495552 original size:40 final size:40
Alignment explanation
Indices: 7495476--7495737 Score: 193
Period size: 40 Copynumber: 6.7 Consensus size: 40
7495466 TCTGTAAATA
* * * *
7495476 GCAACGCGATAGTCAAATGCGCAGCAC-AAAGTCAAATTC
1 GCAACGCGATAGTTAAATTCGCAACACGATAGTCAAATTC
* *
7495515 GCAATGCGATAGTTAAATTCGCAACGCGATAGTCAAATTC
1 GCAACGCGATAGTTAAATTCGCAACACGATAGTCAAATTC
* * *
7495555 GCAACGCGATAGTCAAATTCGCAACACGATAGTTAAATAC
1 GCAACGCGATAGTTAAATTCGCAACACGATAGTCAAATTC
*
7495595 GCAACGCGA-ATTTGTAAA-TCGCAACACAGA-AGTCAAATTC
1 GCAACGCGATA-GT-TAAATTCGCAACAC-GATAGTCAAATTC
* ** * *
7495635 GCAACAC-ATAAGCCAAATTCGCAACACAAAAGTCAAATTC
1 GCAACGCGAT-AGTTAAATTCGCAACACGATAGTCAAATTC
* * * * *
7495675 ACAAC-TGA-ATTTCAAATTCGCAAC-TGA-ATTTCAAATTC
1 GCAACGCGATAGTT-AAATTCGCAACACGATA-GTCAAATTC
* * *
7495713 GCAACACGA-ATTTAATTTCGCAACA
1 GCAACGCGATAGTTAAATTCGCAACA
7495738 GGTTTTAGTT
Statistics
Matches: 179, Mismatches: 31, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
37 1 0.01
38 24 0.13
39 45 0.25
40 103 0.58
41 6 0.03
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.21
Consensus pattern (40 bp):
GCAACGCGATAGTTAAATTCGCAACACGATAGTCAAATTC
Found at i:7495585 original size:60 final size:59
Alignment explanation
Indices: 7495476--7495698 Score: 220
Period size: 60 Copynumber: 3.7 Consensus size: 59
7495466 TCTGTAAATA
* * * **
7495476 GCAACGCGATAGTCAAATGCGCAGCACAAAGTCAAATTCGCAATGCGATAGTTAAATTC
1 GCAACGCGATAGTCAAATTCGCAACACGAAGTCAAATTCGCAACACGATAGTTAAATTC
* *
7495535 GCAACGCGATAGTCAAATTCGCAACGCGATAGTCAAATTCGCAACACGATAGTTAAATAC
1 GCAACGCGATAGTCAAATTCGCAACACGA-AGTCAAATTCGCAACACGATAGTTAAATTC
* **
7495595 GCAACGCGAATTTGT-AAA-TCGCAACACAGAAGTCAAATTCGCAACAC-ATAAGCCAAATTC
1 GCAACGCG-A-TAGTCAAATTCGCAACAC-GAAGTCAAATTCGCAACACGAT-AGTTAAATTC
* * * * * *
7495655 GCAACACAAAAGTCAAATTCACAAC-TGAATTTCAAATTCGCAAC
1 GCAACGCGATAGTCAAATTCGCAACACGAA-GTCAAATTCGCAAC
7495699 TGAATTTCAA
Statistics
Matches: 137, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
58 5 0.04
59 44 0.32
60 79 0.58
61 6 0.04
62 3 0.02
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.20
Consensus pattern (59 bp):
GCAACGCGATAGTCAAATTCGCAACACGAAGTCAAATTCGCAACACGATAGTTAAATTC
Found at i:7495691 original size:19 final size:19
Alignment explanation
Indices: 7495667--7495736 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
7495657 AACACAAAAG
*
7495667 TCAAATTCACAACTGAATT
1 TCAAATTCGCAACTGAATT
7495686 TCAAATTCGCAACTGAATT
1 TCAAATTCGCAACTGAATT
*
7495705 TCAAATTCGCAACACGAATT
1 TCAAATTCGCAAC-TGAATT
*
7495725 T-AATTTCGCAAC
1 TCAAATTCGCAAC
7495737 AGGTTTTAGT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
19 41 0.87
20 6 0.13
ACGTcount: A:0.39, C:0.23, G:0.09, T:0.30
Consensus pattern (19 bp):
TCAAATTCGCAACTGAATT
Found at i:7495737 original size:19 final size:20
Alignment explanation
Indices: 7495507--7495737 Score: 131
Period size: 20 Copynumber: 11.7 Consensus size: 20
7495497 CAGCACAAAG
** *
7495507 TCAAATTCGCAATGCGATAGT
1 TCAAATTCGCAACACGA-ATT
* *
7495528 T-AAATTCGCAACGCG-ATAG
1 TCAAATTCGCAACACGAAT-T
* *
7495547 TCAAATTCGCAACGCG-ATAG
1 TCAAATTCGCAACACGAAT-T
*
7495567 TCAAATTCGCAACACGATAGT
1 TCAAATTCGCAACACGA-ATT
* *
7495588 T-AAATACGCAACGCGAATT
1 TCAAATTCGCAACACGAATT
* *
7495607 TGTAAA-TCGCAACACAGAA-G
1 T-CAAATTCGCAACAC-GAATT
**
7495627 TCAAATTCGCAACAC-ATAAG
1 TCAAATTCGCAACACGA-ATT
* * **
7495647 CCAAATTCGCAACACAAAAG
1 TCAAATTCGCAACACGAATT
* *
7495667 TCAAATTCACAAC-TGAATT
1 TCAAATTCGCAACACGAATT
*
7495686 TCAAATTCGCAAC-TGAATT
1 TCAAATTCGCAACACGAATT
7495705 TCAAATTCGCAACACGAATT
1 TCAAATTCGCAACACGAATT
*
7495725 T-AATTTCGCAACA
1 TCAAATTCGCAACA
7495738 GGTTTTAGTT
Statistics
Matches: 175, Mismatches: 23, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
18 2 0.01
19 52 0.30
20 111 0.63
21 9 0.05
22 1 0.01
ACGTcount: A:0.40, C:0.23, G:0.14, T:0.23
Consensus pattern (20 bp):
TCAAATTCGCAACACGAATT
Found at i:7503778 original size:215 final size:215
Alignment explanation
Indices: 7503391--7503821 Score: 830
Period size: 215 Copynumber: 2.0 Consensus size: 215
7503381 GAATGTCGCC
7503391 CTTTAATATGGTATATGGAAAAGCCTGCCACCTCCCTGTTGAACTAGAGCACAAGGCGTACTGGG
1 CTTTAATATGGTATATGGAAAAGCCTGCCACCTCCCTGTTGAACTAGAGCACAAGGCGTACTGGG
7503456 CAATCAAAAGTTAAACTTTGACGAGCAAATTGCTGGGAGAAACAATTACTTGATCTAAATGAAAT
66 CAATCAAAAGTTAAACTTTGACGAGCAAATTGCTGGGAGAAACAATTACTTGATCTAAATGAAAT
7503521 AGAAGAGTTTCGAGTGCAAGCATATGAAAATGCCAAGCTCTACAAGG-AAAAACC-AAAAGTGGC
131 AGAAGAGTTTCGAGTGCAAGCATATGAAAATGCCAAGCTCTACAAGGAAAAAACCAAAAAGTGGC
7503584 ACGACAGAATGCTTTTGCCA
196 ACGACAGAATGCTTTTGCCA
7503604 CTTTAATATGGTATATGGAAAAGCCTGCCACCTCCCTGTTGAACTAGAGCACAAGGCGTACTGGG
1 CTTTAATATGGTATATGGAAAAGCCTGCCACCTCCCTGTTGAACTAGAGCACAAGGCGTACTGGG
7503669 CAATCAAAAAGTTAAACTTTGACGAGCAAATTGCTGGGGAGAAACAATTACTTGATCTAAATGAA
66 CAATC-AAAAGTTAAACTTTGACGAGCAAATTGCT-GGGAGAAACAATTACTTGATCTAAATGAA
7503734 ATAGAAGAGTTTCGAGTGCAAGCATATGAAAATGCCAAGCTCTACAAGGAAAAAACCAAAAAGTG
129 ATAGAAGAGTTTCGAGTGCAAGCATATGAAAATGCCAAGCTCTACAAGGAAAAAACCAAAAAGTG
7503799 GCACGACAGAATGCTTTTGCCA
194 GCACGACAGAATGCTTTTGCCA
7503821 C
1 C
7503822 GGCAATTTCA
Statistics
Matches: 214, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
213 70 0.33
214 29 0.14
215 78 0.36
216 7 0.03
217 30 0.14
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (215 bp):
CTTTAATATGGTATATGGAAAAGCCTGCCACCTCCCTGTTGAACTAGAGCACAAGGCGTACTGGG
CAATCAAAAGTTAAACTTTGACGAGCAAATTGCTGGGAGAAACAATTACTTGATCTAAATGAAAT
AGAAGAGTTTCGAGTGCAAGCATATGAAAATGCCAAGCTCTACAAGGAAAAAACCAAAAAGTGGC
ACGACAGAATGCTTTTGCCA
Found at i:7504420 original size:13 final size:13
Alignment explanation
Indices: 7504399--7504433 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
7504389 CCCACATACT
7504399 TTTCACTTTTCAC
1 TTTCACTTTTCAC
* *
7504412 TTTCTCTTTTTAC
1 TTTCACTTTTCAC
7504425 TTTCACTTT
1 TTTCACTTT
7504434 CTAGTTTCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTCACTTTTCAC
Found at i:7506961 original size:20 final size:20
Alignment explanation
Indices: 7506936--7506978 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
7506926 TATAAGAGCC
*
7506936 CATTTAGGACCATTTAGATG
1 CATTTAGGACCATATAGATG
* *
7506956 CATTTAGGAGCATATAGTTG
1 CATTTAGGACCATATAGATG
7506976 CAT
1 CAT
7506979 GTGGTGGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (20 bp):
CATTTAGGACCATATAGATG
Found at i:7509175 original size:12 final size:12
Alignment explanation
Indices: 7509158--7509194 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
7509148 ATATAACCCT
7509158 GAAGAAGAAAAA
1 GAAGAAGAAAAA
7509170 GAAGAAGAAAAA
1 GAAGAAGAAAAA
7509182 GAAGAAGAAAAA
1 GAAGAAGAAAAA
7509194 G
1 G
7509195 TCCCCGAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:7511280 original size:18 final size:18
Alignment explanation
Indices: 7511257--7511292 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
7511247 AAGCAAAATG
*
7511257 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
7511275 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
7511293 CATCCGGCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.56, C:0.25, G:0.03, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:7511654 original size:20 final size:20
Alignment explanation
Indices: 7511617--7511654 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7511607 ATCGCAAACT
* *
7511617 GAATTTGACTTTCGCGTTAC
1 GAATTTGACTATCACGTTAC
7511637 GAATTTGACTATCACGTT
1 GAATTTGACTATCACGTT
7511655 GTACATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (20 bp):
GAATTTGACTATCACGTTAC
Found at i:7512444 original size:39 final size:39
Alignment explanation
Indices: 7512401--7512487 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
7512391 TCCGATGCTC
*
7512401 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGATCATATGGTGCCAAGCAAAAGGAA
* *
7512440 ATCAAAATCCAAATATCATATGGTGCCAAGCAAAATGAA
1 ATCAAAATCCAAAGATCATATGGTGCCAAGCAAAAGGAA
7512479 ATCAAAATC
1 ATCAAAATC
7512488 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGATCATATGGTGCCAAGCAAAAGGAA
Found at i:7512774 original size:20 final size:20
Alignment explanation
Indices: 7512749--7512786 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7512739 AACTGAAAAC
*
7512749 CGCGTTGCGAATTTGACTTT
1 CGCGTTACGAATTTGACTTT
7512769 CGCGTTACGAATTTGACT
1 CGCGTTACGAATTTGACT
7512787 ATCACAACGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (20 bp):
CGCGTTACGAATTTGACTTT
Found at i:7512962 original size:14 final size:14
Alignment explanation
Indices: 7512943--7512979 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
7512933 ATCAAATTAA
7512943 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
7512957 ATAAATCAACTTTT
1 ACAAATCAACTTTT
7512971 ACAAATCAA
1 ACAAATCAA
7512980 GTAATCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:7513011 original size:75 final size:76
Alignment explanation
Indices: 7512879--7513029 Score: 207
Period size: 75 Copynumber: 2.0 Consensus size: 76
7512869 TATAAACAAC
* *
7512879 AAATCAACTTTTACAAATCAATTAAAAAAGCAAAAAAATAATTCTTATTTACACATCAAATTAAA
1 AAATCAACTTTTACAAATCAAGT---AAAGCAAAAAAATAAATCTTATTTACACATC-AATTAAA
7512944 CAAATCAACTTTTAT
62 CAAATCAACTTTTAT
* * *
7512959 AAATCAACTTTTACAAATCAAGT-AATC-AAAAAATAAATCTTATTTCCTCATCAATTAAACAAA
1 AAATCAACTTTTACAAATCAAGTAAAGCAAAAAAATAAATCTTATTTACACATCAATTAAACAAA
7513022 TCAACTTT
66 TCAACTTT
7513030 CAATGTAAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
74 19 0.29
75 22 0.33
76 3 0.05
80 22 0.33
ACGTcount: A:0.50, C:0.17, G:0.01, T:0.32
Consensus pattern (76 bp):
AAATCAACTTTTACAAATCAAGTAAAGCAAAAAAATAAATCTTATTTACACATCAATTAAACAAA
TCAACTTTTAT
Found at i:7514401 original size:21 final size:21
Alignment explanation
Indices: 7514377--7514449 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
7514367 GTGAATCGGG
* *
7514377 CTCTTGAACGGCGGGCGGGAC
1 CTCTTGAACGGAGGGCGGGGC
* *
7514398 CTCTTGAAC-GATGACAGGGGC
1 CTCTTGAACGGAGGGC-GGGGC
* *
7514419 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGGAGGGCGGGGC
7514440 CTCTTGAACG
1 CTCTTGAACG
7514450 ATAGGATATG
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
20 3 0.07
21 37 0.88
22 2 0.05
ACGTcount: A:0.18, C:0.25, G:0.38, T:0.19
Consensus pattern (21 bp):
CTCTTGAACGGAGGGCGGGGC
Found at i:7514903 original size:21 final size:21
Alignment explanation
Indices: 7514877--7514926 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
7514867 ACCATTATCT
*
7514877 TCACGTAAAGTACCAAACTCA
1 TCACGTAAAGCACCAAACTCA
* * *
7514898 TGACGTAAAGCACCGACCTCA
1 TCACGTAAAGCACCAAACTCA
7514919 TCACGTAA
1 TCACGTAA
7514927 TTCCCCTAAC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.30, G:0.14, T:0.18
Consensus pattern (21 bp):
TCACGTAAAGCACCAAACTCA
Found at i:7516685 original size:13 final size:13
Alignment explanation
Indices: 7516660--7516693 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
7516650 GGGTTTCTTC
*
7516660 AACAAAAAGACAA
1 AACAAAGAGACAA
*
7516673 AATAAAGAGACAA
1 AACAAAGAGACAA
7516686 AACAAAGA
1 AACAAAGA
7516694 CAAATACTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.74, C:0.12, G:0.12, T:0.03
Consensus pattern (13 bp):
AACAAAGAGACAA
Found at i:7517223 original size:40 final size:40
Alignment explanation
Indices: 7517179--7517310 Score: 155
Period size: 39 Copynumber: 3.3 Consensus size: 40
7517169 TGACTTTTGT
*
7517179 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACT-TCTGT
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTATC-GC
*
7517219 GTTGCG-ATTT-ACAAATTCGCGTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGAC-TA-TCGCGTTGCGAATTTGACTATCGC
* * *
7517259 GTTGCGAATTTGACT-TTGGGTTGCAAATTTGACTATCGC
1 GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTATCGC
*
7517298 GTTGTGAATTTGA
1 GTTGCGAATTTGA
7517311 TTTATGTGTT
Statistics
Matches: 80, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
38 2 0.03
39 38 0.47
40 32 0.40
41 6 0.08
42 2 0.03
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (40 bp):
GTTGCGAATTTGACTATCGCGTTGCGAATTTGACTATCGC
Found at i:7517287 original size:19 final size:20
Alignment explanation
Indices: 7517179--7517310 Score: 155
Period size: 20 Copynumber: 6.7 Consensus size: 20
7517169 TGACTTTTGT
7517179 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTATCGC
*
7517199 GTTGCGAATTTGACT-TCTGT
1 GTTGCGAATTTGACTATC-GC
*
7517219 GTTGCG-ATTT-ACAAATTCGC
1 GTTGCGAATTTGAC-TA-TCGC
7517239 GTTGCGAATTTGACTATCGC
1 GTTGCGAATTTGACTATCGC
* *
7517259 GTTGCGAATTTGACT-TTGG
1 GTTGCGAATTTGACTATCGC
*
7517278 GTTGCAAATTTGACTATCGC
1 GTTGCGAATTTGACTATCGC
*
7517298 GTTGTGAATTTGA
1 GTTGCGAATTTGA
7517311 TTTATGTGTT
Statistics
Matches: 94, Mismatches: 11, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
18 2 0.02
19 22 0.23
20 61 0.65
21 7 0.07
22 2 0.02
ACGTcount: A:0.20, C:0.16, G:0.25, T:0.39
Consensus pattern (20 bp):
GTTGCGAATTTGACTATCGC
Found at i:7517307 original size:99 final size:101
Alignment explanation
Indices: 7517168--7517351 Score: 282
Period size: 99 Copynumber: 1.8 Consensus size: 101
7517158 CAAATTCGCG
* * *
7517168 TTGACTTTTGTGTTGCGAATTTGACTATCGCGTTGCGAATTTGACTTCTGTGTTGCGATTTACAA
1 TTGACTTTTGGGTTGCAAATTTGACTATCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACAA
7517233 ATT-CGCGTTGCGAATTTGACTATCGCGTTGCGAAT
66 ATTCCGCGTTGCGAATTTGACTATCGCGTTGCGAAT
* * * *
7517268 TTGAC-TTTGGGTTGCAAATTTGACTATCGCGTTGTGAATTTGATTTATGTGTTGCGATTTATAT
1 TTGACTTTTGGGTTGCAAATTTGACTATCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACAA
7517332 ATTCGCGCGTTGCGAATTTG
66 ATTC-CGCGTTGCGAATTTG
7517352 TTGGTTATTT
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
99 55 0.73
100 5 0.07
101 15 0.20
ACGTcount: A:0.19, C:0.15, G:0.24, T:0.42
Consensus pattern (101 bp):
TTGACTTTTGGGTTGCAAATTTGACTATCGCGTTGCGAATTTGACTTATGTGTTGCGATTTACAA
ATTCCGCGTTGCGAATTTGACTATCGCGTTGCGAAT
Found at i:7520138 original size:12 final size:12
Alignment explanation
Indices: 7520121--7520150 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7520111 GGGAACTCAA
7520121 ATGTATATATAC
1 ATGTATATATAC
*
7520133 ATGTATATATGC
1 ATGTATATATAC
7520145 ATGTAT
1 ATGTAT
7520151 GTATTTGCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.37, C:0.07, G:0.13, T:0.43
Consensus pattern (12 bp):
ATGTATATATAC
Found at i:7520616 original size:22 final size:22
Alignment explanation
Indices: 7520601--7520642 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
7520591 TATTTTAAAT
7520601 ATTAAATAAAAATATTAAAAAG
1 ATTAAATAAAAATATTAAAAAG
* *
7520623 ATTTAATAAAAA-ATCAAAAA
1 ATTAAATAAAAATATTAAAAA
7520643 AAATTTAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (22 bp):
ATTAAATAAAAATATTAAAAAG
Found at i:7525102 original size:6 final size:6
Alignment explanation
Indices: 7525091--7525115 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7525081 AATTTATTAA
7525091 TAATAT TAATAT TAATAT TAATAT T
1 TAATAT TAATAT TAATAT TAATAT T
7525116 TATGTATTGA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TAATAT
Found at i:7526399 original size:31 final size:31
Alignment explanation
Indices: 7526329--7526403 Score: 116
Period size: 31 Copynumber: 2.4 Consensus size: 31
7526319 CTTTTAAAAC
**
7526329 TTGCAATACAGTCTCCCAACATTTAGTTCGT
1 TTGCAATATGGTCTCCCAACATTTAGTTCGT
7526360 TTGCAATATGGTCTCCCAACATTTAG-TCTGT
1 TTGCAATATGGTCTCCCAACATTTAGTTC-GT
7526391 TTGCAATATGGTC
1 TTGCAATATGGTC
7526404 CTTGACCGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
30 2 0.05
31 39 0.95
ACGTcount: A:0.24, C:0.23, G:0.16, T:0.37
Consensus pattern (31 bp):
TTGCAATATGGTCTCCCAACATTTAGTTCGT
Found at i:7528002 original size:10 final size:10
Alignment explanation
Indices: 7527985--7528019 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
7527975 GATTCTCTCG
7527985 TGATTCTTGT
1 TGATTCTTGT
7527995 TGATTCTTGT
1 TGATTCTTGT
* *
7528005 TTATTGTTGT
1 TGATTCTTGT
7528015 TGATT
1 TGATT
7528020 AATGGATTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.11, C:0.06, G:0.20, T:0.63
Consensus pattern (10 bp):
TGATTCTTGT
Found at i:7528897 original size:30 final size:32
Alignment explanation
Indices: 7528856--7528916 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 32
7528846 TATAGATAAG
7528856 TTCAAATCATCCAA-AAACAATA-TAAAACAAA
1 TTCAAATCATCCAACAAACAA-AGTAAAACAAA
*
7528887 TTCAAA-CATCCAACAACCAAAGTAAAACAA
1 TTCAAATCATCCAACAAACAAAGTAAAACAA
7528917 TCCAAAAGGA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 8 0.30
31 19 0.70
ACGTcount: A:0.59, C:0.23, G:0.02, T:0.16
Consensus pattern (32 bp):
TTCAAATCATCCAACAAACAAAGTAAAACAAA
Found at i:7530822 original size:23 final size:22
Alignment explanation
Indices: 7530773--7530851 Score: 90
Period size: 23 Copynumber: 3.6 Consensus size: 22
7530763 CCAACCCCAT
* * *
7530773 GGGGGTATCGATT-CCCTCCAA
1 GGGGGAATCGGTTCCCCTTCAA
*
7530794 -GGGGAATCAGTTCCCCTTCAAA
1 GGGGGAATCGGTTCCCCTTC-AA
7530816 GGGGGAATCGGTTCCCCTTCAA
1 GGGGGAATCGGTTCCCCTTCAA
*
7530838 GGGGGTATCGGTTC
1 GGGGGAATCGGTTC
7530852 TTCCTGCACC
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
20 9 0.18
21 5 0.10
22 17 0.35
23 18 0.37
ACGTcount: A:0.19, C:0.25, G:0.32, T:0.24
Consensus pattern (22 bp):
GGGGGAATCGGTTCCCCTTCAA
Found at i:7538516 original size:130 final size:129
Alignment explanation
Indices: 7538277--7538541 Score: 417
Period size: 130 Copynumber: 2.0 Consensus size: 129
7538267 ACGGTGGTAG
* *
7538277 GATTCGAATTTGACCTTATAAGCTCAAATTTTTGAATCCAACCACTTGTGTCAACACTCATCAAC
1 GATTCGAATTTGACCTTACAAGCTCAAATTCTTGAATCCAACCACTTGTGTCAACACTCATCAAC
*
7538342 GCTAATCTTATGTTTGAATTGGATTAAAGTAAGAGAATAAAAAGAAAGTAAACACCTTCCCCTT
66 GCTAATCTTATGTTTAAATTGGATTAAAGTAAGAGAATAAAAAGAAAGTAAACACCTTCCCCTT
*
7538406 GATTCGAAATTTGACCTTACAAGTTCAAATTCTTGAA-CTCAACCACTTGTG-CAAACACTCATC
1 GATTCG-AATTTGACCTTACAAGCTCAAATTCTTGAATC-CAACCACTTGTGTC-AACACTCATC
* * *
7538469 AGCGTTAATCTTATGTTTAAATTGGATTAAAGTAAGAGAATGAAAAGAAAGTAAACACCTTCCCC
63 AACGCTAATCTTATGTTTAAATTGGATTAAAGTAAGAGAATAAAAAGAAAGTAAACACCTTCCCC
7538534 TT
128 TT
*
7538536 GTTTCG
1 GATTCG
7538542 GTAATTTAAT
Statistics
Matches: 125, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
129 8 0.06
130 117 0.94
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.31
Consensus pattern (129 bp):
GATTCGAATTTGACCTTACAAGCTCAAATTCTTGAATCCAACCACTTGTGTCAACACTCATCAAC
GCTAATCTTATGTTTAAATTGGATTAAAGTAAGAGAATAAAAAGAAAGTAAACACCTTCCCCTT
Found at i:7547252 original size:40 final size:37
Alignment explanation
Indices: 7547197--7547280 Score: 114
Period size: 40 Copynumber: 2.2 Consensus size: 37
7547187 GTAATATTTG
* *
7547197 AAAAATATATATATATATATATATACATCAAAGTATTA
1 AAAAATAAATATATATATATATATACAACAAA-TATTA
*
7547235 ATAAAATAAATAATATATATATATATACAACAAATATTT
1 A-AAAATAAAT-ATATATATATATATACAACAAATATTA
7547274 AAAAATA
1 AAAAATA
7547281 GAAAAGTTAC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
38 7 0.17
39 13 0.32
40 21 0.51
ACGTcount: A:0.60, C:0.05, G:0.01, T:0.35
Consensus pattern (37 bp):
AAAAATAAATATATATATATATATACAACAAATATTA
Found at i:7547546 original size:2 final size:2
Alignment explanation
Indices: 7547500--7547530 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7547490 ATAAAAAATA
7547500 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7547531 AAGTTATAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7547674 original size:82 final size:76
Alignment explanation
Indices: 7547588--7547735 Score: 181
Period size: 82 Copynumber: 1.9 Consensus size: 76
7547578 AATTAAGAAT
* * *
7547588 ATATATATATTAATAATAG-GTATATAAATAAACTATTAAAAGTATAAAAATATATATATATAAC
1 ATATATATAGTAATAATAGACT-TATAAATAAAATATT-AAAG---AAAAATATATATATATAA-
7547652 TAGATAAAGATAAATACA
60 TA-ATAAAGATAAATACA
* *
7547670 ATATATATAGTAATAATAGACTTATAAGTAAAATATTAAAGAAATATATATATATATAATAATAA
1 ATATATATAGTAATAATAGACTTATAAATAAAATATTAAAGAAAAATATATATATATAATAATAA
7547735 A
66 A
7547736 ATATAGTAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
76 5 0.08
77 2 0.03
78 17 0.28
81 4 0.07
82 31 0.52
83 1 0.02
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.34
Consensus pattern (76 bp):
ATATATATAGTAATAATAGACTTATAAATAAAATATTAAAGAAAAATATATATATATAATAATAA
AGATAAATACA
Found at i:7548238 original size:35 final size:35
Alignment explanation
Indices: 7548199--7548268 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
7548189 CTAAAAAAAC
*
7548199 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCATAATCCAACT
*
7548234 CTATTTTAGATTAGTATTTGAGTCATAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCATAATCCAACT
7548269 ATTCTTTGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.30, C:0.17, G:0.11, T:0.41
Consensus pattern (35 bp):
CTATTTTAGACTAGTATTTGAGTCATAATCCAACT
Found at i:7549076 original size:106 final size:106
Alignment explanation
Indices: 7548891--7549353 Score: 644
Period size: 106 Copynumber: 4.5 Consensus size: 106
7548881 TGAAGTTGAA
* *
7548891 AAATTGGAAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTCGTCT
1 AAATTGGAAAATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTCGTCT
*
7548956 CGAGTTCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTG
66 CGAGTTCAATATCCTTCGATGTGAAGTTGAAATTGACTCTG
* * * * * *
7548997 AAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTAGTTGTGAAGTTCAACTTATGTTGTCT
1 AAATTGGAAAATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTCGTCT
*
7549062 CGAGTTCAATATCCTTCGATGTGAAGTTGAAATTGACCCTG
66 CGAGTTCAATATCCTTCGATGTGAAGTTGAAATTGACTCTG
* *
7549103 AAATTAGAAAATTATTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTCGTCT
1 AAATTGGAAAATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTCGTCT
* **
7549168 CGAGTCCAATATCCTTC---G-CCA-TTG-----G-CTCTG
66 CGAGTTCAATATCCTTCGATGTGAAGTTGAAATTGACTCTG
* * *
7549198 AAATTGGGAGATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
1 AAATTGGAAAATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTCGTCT
* *
7549263 CGA-TTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTG
66 CGAGTT-CAATATCCTTCGATGTGAAGTTGAAATTGACTCTG
*
7549304 AAATTGGAAAATTGTTTGTTGACAACCAGTCGTCCTTTCGTTGTGAAGTT
1 AAATTGGAAAATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTT
7549354 AAAACCGTGG
Statistics
Matches: 313, Mismatches: 32, Indels: 24
0.85 0.09 0.07
Matches are distributed among these distances:
94 1 0.00
95 77 0.25
96 1 0.00
98 1 0.00
99 1 0.00
100 3 0.01
101 3 0.01
102 1 0.00
103 1 0.00
105 1 0.00
106 223 0.71
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (106 bp):
AAATTGGAAAATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTCGTCT
CGAGTTCAATATCCTTCGATGTGAAGTTGAAATTGACTCTG
Found at i:7549222 original size:201 final size:201
Alignment explanation
Indices: 7548987--7549353 Score: 619
Period size: 201 Copynumber: 1.8 Consensus size: 201
7548977 TGAAGTTGAA
7548987 ATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTAGTTGTGAAGTTCAACT
1 ATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTAGTTGTGAAGTTCAACT
*
7549052 TATGTTGTCTCGAGTT-CAATATCCTTCGATGTGAAGTTGAAATTGACCCTGAAATTAGAAAATT
66 TATGTTGTCTCGA-TTCCAATATCATTCGATGTGAAGTTGAAATTGACCCTGAAATTAGAAAATT
7549116 ATTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTCGTCTCGAGTCCAATATC
130 ATTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTCGTCTCGAGTCCAATATC
7549181 CTTCGCC
195 CTTCGCC
* * * *
7549188 ATTGGCTCTGAAATTGGGAGATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACT
1 ATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTAGTTGTGAAGTTCAACT
* * * * *
7549253 TGTGTTGTCTCGATTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGAAAATTG
66 TATGTTGTCTCGATTCCAATATCATTCGATGTGAAGTTGAAATTGACCCTGAAATTAGAAAATTA
*
7549318 TTTGTTGACAACCAGTCGTCCTTTCGTTGTGAAGTT
131 TTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTT
7549354 AAAACCGTGG
Statistics
Matches: 154, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
200 2 0.01
201 152 0.99
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (201 bp):
ATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTAGTTGTGAAGTTCAACT
TATGTTGTCTCGATTCCAATATCATTCGATGTGAAGTTGAAATTGACCCTGAAATTAGAAAATTA
TTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTCGTCTCGAGTCCAATATCC
TTCGCC
Found at i:7549263 original size:95 final size:99
Alignment explanation
Indices: 7548790--7549353 Score: 502
Period size: 106 Copynumber: 5.6 Consensus size: 99
7548780 TTGAAATTGG
* ** * * *
7548790 CTCTAGAAA-TGGAAAATTGTTTGTTGACAGCCAACCGCCCCTTCGCTGTGAAGTTGAGCTTGTG
1 CTCT-GAAATTGGAAAATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTG
* * * *
7548854 -CTGTCTTGAGTCTAATATCCTT--CGATG-TGA-A
65 TC-GTCTCGAGTCCAATATCATTCGCGAAGTTGAGA
* * *
7548885 GT-TGAAAAATTGGAAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGT
1 CTCTG--AAATTGGAAAATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGT
* * * *
7548949 GTCGTCTCGAGTTCAATATCCTTCGATGTGAAGTTGAAATTGG
64 GTCGTCTCGAGTCCAATATCATTC---GCGAAGTTG--A--GA
* * * * *
7548992 CTCTGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTAGTTGTGAAGTTCAACTTATGT
1 CTCTGAAATTGGAAAATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGT
* * * *
7549057 TGTCTCGAGTTCAATATCCTTCGATGTGAAGTTGAAATTGA
66 CGTCTCGAGTCCAATATCATTC---GCGAAGTTG--A--GA
* * *
7549098 CCCTGAAATTAGAAAATTATTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGT
1 CTCTGAAATTGGAAAATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGT
* *
7549163 CGTCTCGAGTCCAATATCCTTCGC-CA-TTG-G-
66 CGTCTCGAGTCCAATATCATTCGCGAAGTTGAGA
* *
7549193 CTCTGAAATTGGGAGATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGT
1 CTCTGAAATTGGAAAATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGT
* *
7549258 TGTCTCGATTCCAATATCATTCGCTGTGAAGTTGAAATTGA
66 CGTCTCGAGTCCAATATCATTCGC---GAAGTTG--A--GA
*
7549299 CTCTGAAATTGGAAAATTGTTTGTTGACAACCAGTCGTCCTTTCGTTGTGAAGTT
1 CTCTGAAATTGGAAAATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTT
7549354 AAAACCGTGG
Statistics
Matches: 397, Mismatches: 45, Indels: 43
0.82 0.09 0.09
Matches are distributed among these distances:
93 1 0.00
94 1 0.00
95 85 0.21
96 67 0.17
97 1 0.00
99 1 0.00
100 3 0.01
101 6 0.02
102 3 0.01
103 1 0.00
104 1 0.00
105 1 0.00
106 223 0.56
107 1 0.00
108 2 0.01
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (99 bp):
CTCTGAAATTGGAAAATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGT
CGTCTCGAGTCCAATATCATTCGCGAAGTTGAGA
Found at i:7549318 original size:307 final size:306
Alignment explanation
Indices: 7548754--7549353 Score: 825
Period size: 307 Copynumber: 2.0 Consensus size: 306
7548744 TGTATTGTTC
* * * * *
7548754 CGAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTAGAAATGGAAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTCCGACGTGAAGTTGAAATTGACCCTAGAAATAGAAAATTATTTGTTGACA
* * * *
7548819 GCCAACCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGAGTCTAATATCCTTCGATGTGA
66 ACCAACCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCAATATCCTTCGATGTG-
7548884 AGTTGAAAAATTGGAAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGT
130 AGTTG-AAAATTGGAAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGT
* * *
7548949 GTCGTCTCGAGTTCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTT
194 GTCGTCTCGAGTTCAATATCATTCGATGTGAAGTTGAAATTGACTCTGAAATTGGAAAATTGTTT
7549014 GTTGACAACCAGCCGTCCCTTAGTTGTGAAGTTCAACTTATGTTGTCT
259 GTTGACAACCAGCCGTCCCTTAGTTGTGAAGTTCAACTTATGTTGTCT
* * *
7549062 CGAGTTCAATATCCTTCGATGTGAAGTTGAAATTGACCCT-GAAATTAGAAAATTATTTGTTGAC
1 CGAGTCCAATATCCTCCGACGTGAAGTTGAAATTGACCCTAGAAA-TAGAAAATTATTTGTTGAC
** * *
7549126 AACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTG-TCGTCTCGAGTCCAATATCCTTCGCCAT
65 AACCAACCGCCCCTTCGCTGTGAAGTTGAACTTGTGCT-GTCTCGAGTCCAATATCCTTCG--AT
* * * *
7549190 -TG-GCTCTG-AAATTGGGAGATTGTTTGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAAC
127 GTGAG-T-TGAAAATTGGAAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAAC
* *
7549252 TTGTGTTGTCTCGA-TTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGAAAAT
190 TTGTGTCGTCTCGAGTT-CAATATCATTCGATGTGAAGTTGAAATTGACTCTGAAATTGGAAAAT
* * *
7549316 TGTTTGTTGACAACCAGTCGTCCTTTCGTTGTGAAGTT
254 TGTTTGTTGACAACCAGCCGTCCCTTAGTTGTGAAGTT
7549354 AAAACCGTGG
Statistics
Matches: 257, Mismatches: 28, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
306 2 0.01
307 147 0.57
308 102 0.40
309 4 0.02
310 2 0.01
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (306 bp):
CGAGTCCAATATCCTCCGACGTGAAGTTGAAATTGACCCTAGAAATAGAAAATTATTTGTTGACA
ACCAACCGCCCCTTCGCTGTGAAGTTGAACTTGTGCTGTCTCGAGTCCAATATCCTTCGATGTGA
GTTGAAAATTGGAAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGT
CGTCTCGAGTTCAATATCATTCGATGTGAAGTTGAAATTGACTCTGAAATTGGAAAATTGTTTGT
TGACAACCAGCCGTCCCTTAGTTGTGAAGTTCAACTTATGTTGTCT
Found at i:7557951 original size:9 final size:9
Alignment explanation
Indices: 7557919--7557943 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
7557909 TAAAAGGGAA
7557919 AAATAAAAT
1 AAATAAAAT
7557928 AAATAAAAT
1 AAATAAAAT
7557937 AAATAAA
1 AAATAAA
7557944 TAAGATAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAATAAAAT
Found at i:7558277 original size:23 final size:23
Alignment explanation
Indices: 7558249--7558307 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
7558239 ACAAGATTTT
*
7558249 AAAAATATATATAATAATGAATA
1 AAAAATATATATAATAATAAATA
*
7558272 AAAAATGA-AAATAATAATAAATA
1 AAAAAT-ATATATAATAATAAATA
* *
7558295 ATATATATATATA
1 AAAAATATATATA
7558308 TAGTTATAAG
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
22 1 0.03
23 27 0.93
24 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (23 bp):
AAAAATATATATAATAATAAATA
Found at i:7558522 original size:2 final size:2
Alignment explanation
Indices: 7558487--7558511 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7558477 TATTAAAGAA
7558487 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7558512 ATAAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7558529 original size:12 final size:14
Alignment explanation
Indices: 7558407--7558522 Score: 53
Period size: 14 Copynumber: 8.1 Consensus size: 14
7558397 CTATTAAAAG
7558407 TATAA-AAAATATA
1 TATAATAAAATATA
* *
7558420 TATAACT-AGATAAA
1 TATAA-TAAAATATA
* *
7558434 GATAATTACAATATA
1 TATAA-TAAAATATA
* *
7558449 TATAGTAATAATAGA
1 TATAATAA-AATATA
7558464 CTTATAAGTAAAATAT-
1 --TATAA-TAAAATATA
*
7558480 TA-AA-GAAATATA
1 TATAATAAAATATA
*
7558492 TATATATATATATATA
1 TATA-ATA-AAATATA
7558508 TATAATAAAATATA
1 TATAATAAAATATA
7558522 T
1 T
7558523 TAAAAAAGCA
Statistics
Matches: 74, Mismatches: 17, Indels: 23
0.65 0.15 0.20
Matches are distributed among these distances:
11 6 0.08
12 2 0.03
13 8 0.11
14 22 0.30
15 15 0.20
16 10 0.14
17 8 0.11
18 3 0.04
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (14 bp):
TATAATAAAATATA
Found at i:7559006 original size:35 final size:35
Alignment explanation
Indices: 7558967--7559038 Score: 126
Period size: 35 Copynumber: 2.1 Consensus size: 35
7558957 ACTAAAAAAC
*
7558967 CTATTTTAGACTAGTATTTGAGTCTTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
*
7559002 CTATTTTAGATTAGTATTTGAGTCCTAATCCAACT
1 CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
7559037 CT
1 CT
7559039 TCTTTGTTGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.43
Consensus pattern (35 bp):
CTATTTTAGACTAGTATTTGAGTCCTAATCCAACT
Found at i:7568154 original size:3 final size:3
Alignment explanation
Indices: 7568146--7568177 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
7568136 TTATTGTATC
7568146 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7568178 ATCACAACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:7581681 original size:123 final size:125
Alignment explanation
Indices: 7581447--7581936 Score: 704
Period size: 123 Copynumber: 4.0 Consensus size: 125
7581437 AATGATCGAC
* * * * * * *
7581447 GATGAAGTTAGTTTAGAGGTATGTTTTTCGTCTTCTCGTAATAATGTTTTTCACCATTTAAATTG
1 GATGAAGCTAGTTTTGAGGTATGTTGTTCGTCTTCTCGAAATAATGTTTTTCACCGTTTAGATTT
* * * ** *
7581512 TTTAATAAACATCCAAAATCCC-GTAAATCTAATAAAGTATTTAAACATCTAAAAAATAA
66 TTTAACAAACATCCAAAATCCCAGTAAATGTAATAAAGTCTCCAAACATCTAAAAAATAG
* * *
7581571 GATGAAGCTAGTTTTGAGGTATGTTGTTCATCTTTTCGAAATCATGTTTTT-ACCGTTTAGATTT
1 GATGAAGCTAGTTTTGAGGTATGTTGTTCGTCTTCTCGAAATAATGTTTTTCACCGTTTAGATTT
* * *
7581635 TTTAACAAACATCCCAAAT-CTAGTAAATGTGATAAAGTCTCCAAACATCTAAAAAATAG
66 TTTAACAAACATCCAAAATCCCAGTAAATGTAATAAAGTCTCCAAACATCTAAAAAATAG
* * *
7581694 GATGAAGCTAGTTTTGAGGTATGTTGTTTGTTTTTTCGAAATAATGTTTTTCACCGTTTAGATTT
1 GATGAAGCTAGTTTTGAGGTATGTTGTTCGTCTTCTCGAAATAATGTTTTTCACCGTTTAGATTT
*
7581759 TTTAACAAACATCCCAAATCCCA-TAAATGTAATAAAGTCTCCAAACATCTAAAAAATAG
66 TTTAACAAACATCCAAAATCCCAGTAAATGTAATAAAGTCTCCAAACATCTAAAAAATAG
7581818 GATGAAGCTAGTTTTGAGGTATGTTGTTCGTCTTCTCGAAATAAT-TTTTTCACCGTTTAGATTT
1 GATGAAGCTAGTTTTGAGGTATGTTGTTCGTCTTCTCGAAATAATGTTTTTCACCGTTTAGATTT
* **
7581882 TTTAACAAACATCCAAAAT-CCTGTAAAAATAATAAAGTCTCCAAACATCTAAAAA
66 TTTAACAAACATCCAAAATCCCAGTAAATGTAATAAAGTCTCCAAACATCTAAAAA
7581937 TAGTATATTT
Statistics
Matches: 330, Mismatches: 32, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
122 3 0.01
123 172 0.52
124 153 0.46
125 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (125 bp):
GATGAAGCTAGTTTTGAGGTATGTTGTTCGTCTTCTCGAAATAATGTTTTTCACCGTTTAGATTT
TTTAACAAACATCCAAAATCCCAGTAAATGTAATAAAGTCTCCAAACATCTAAAAAATAG
Found at i:7581883 original size:247 final size:247
Alignment explanation
Indices: 7581447--7581936 Score: 725
Period size: 247 Copynumber: 2.0 Consensus size: 247
7581437 AATGATCGAC
* *
7581447 GATGAAGTTAGTTTAGAGGTATGTTTTTCGTCTTCTCGTAATAATGTTTTTCACCATTTAAATTG
1 GATGAAGCTAGTTTAGAGGTATGTTTTTCGTCTTCTCGAAATAATGTTTTTCACCATTTAAATTG
* * **
7581512 TTTAATAAACATCCAAAATCCCGTAAATCTAATAAAGTATTTAAACATCTAAAAAATAAGATGAA
66 TTTAACAAACATCCAAAATCCCATAAATCTAATAAAGTATCCAAACATCTAAAAAATAAGATGAA
* *
7581577 GCTAGTTTTGAGGTATGTTGTTCATCTTTTCGAAATCATGTTTTTACCGTTTAGATTTTTTAACA
131 GCTAGTTTTGAGGTATGTTGTTCATCTTCTCGAAATAATGTTTTTACCGTTTAGATTTTTTAACA
* ** *
7581642 AACATCCCAAAT-CTAGTAAATGTGATAAAGTCTCCAAACATCTAAAAAATAG
196 AACATCCAAAATCCT-GTAAAAATAATAAAGTCTCCAAACATCTAAAAAATAG
* * * * *
7581694 GATGAAGCTAGTTTTGAGGTATGTTGTTT-GTTTTTTCGAAATAATGTTTTTCACCGTTTAGATT
1 GATGAAGCTAGTTTAGAGGTATGTT-TTTCGTCTTCTCGAAATAATGTTTTTCACCATTTAAATT
* * * * *
7581758 TTTTAACAAACATCCCAAATCCCATAAATGTAATAAAGTCTCCAAACATCTAAAAAATAGGATGA
65 GTTTAACAAACATCCAAAATCCCATAAATCTAATAAAGTATCCAAACATCTAAAAAATAAGATGA
*
7581823 AGCTAGTTTTGAGGTATGTTGTTCGTCTTCTCGAAATAAT-TTTTTCACCGTTTAGATTTTTTAA
130 AGCTAGTTTTGAGGTATGTTGTTCATCTTCTCGAAATAATGTTTTT-ACCGTTTAGATTTTTTAA
7581887 CAAACATCCAAAATCCTGTAAAAATAATAAAGTCTCCAAACATCTAAAAA
194 CAAACATCCAAAATCCTGTAAAAATAATAAAGTCTCCAAACATCTAAAAA
7581937 TAGTATATTT
Statistics
Matches: 217, Mismatches: 23, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
246 5 0.02
247 207 0.95
248 5 0.02
ACGTcount: A:0.36, C:0.14, G:0.13, T:0.37
Consensus pattern (247 bp):
GATGAAGCTAGTTTAGAGGTATGTTTTTCGTCTTCTCGAAATAATGTTTTTCACCATTTAAATTG
TTTAACAAACATCCAAAATCCCATAAATCTAATAAAGTATCCAAACATCTAAAAAATAAGATGAA
GCTAGTTTTGAGGTATGTTGTTCATCTTCTCGAAATAATGTTTTTACCGTTTAGATTTTTTAACA
AACATCCAAAATCCTGTAAAAATAATAAAGTCTCCAAACATCTAAAAAATAG
Found at i:7584014 original size:25 final size:25
Alignment explanation
Indices: 7583986--7584058 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 25
7583976 AAGCAAAAGA
7583986 TATAAAATATAAAATTG-AAAAATAT
1 TATAAAATAT-AAATTGTAAAAATAT
* *
7584011 TATAAATTATAAATTGTAAATATAT
1 TATAAAATATAAATTGTAAAAATAT
*
7584036 TA-AATAA-ATAAATTCTAAAAATA
1 TATAA-AATATAAATTGTAAAAATA
7584059 ATCGTACACT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
24 22 0.54
25 19 0.46
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (25 bp):
TATAAAATATAAATTGTAAAAATAT
Found at i:7584254 original size:29 final size:31
Alignment explanation
Indices: 7584197--7584254 Score: 93
Period size: 29 Copynumber: 1.9 Consensus size: 31
7584187 TTTTTACACT
*
7584197 AAATATAGTAAAGGGAAAATTAAGAACAACA
1 AAATAAAGTAAAGGGAAAATTAAGAACAACA
7584228 AAATAAAGTAAA-GG-AAATTAAGAACAA
1 AAATAAAGTAAAGGGAAAATTAAGAACAA
7584255 TAAAGATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 13 0.50
30 2 0.08
31 11 0.42
ACGTcount: A:0.64, C:0.05, G:0.16, T:0.16
Consensus pattern (31 bp):
AAATAAAGTAAAGGGAAAATTAAGAACAACA
Found at i:7585565 original size:15 final size:15
Alignment explanation
Indices: 7585540--7585588 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 15
7585530 TTTTCCAATA
7585540 AAAAATATTATTATAT
1 AAAAAT-TTATTATAT
7585556 AAAAATTTATT-TCAT
1 AAAAATTTATTAT-AT
*
7585571 AAAATATTTATAATAT
1 AAAA-ATTTATTATAT
7585587 AA
1 AA
7585589 TCAATATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 1 0.03
15 11 0.38
16 16 0.55
17 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAAATTTATTATAT
Found at i:7590651 original size:84 final size:84
Alignment explanation
Indices: 7590554--7590729 Score: 282
Period size: 84 Copynumber: 2.1 Consensus size: 84
7590544 TGGTTCCCGA
* * *
7590554 GGTCGTGGACGTGGAGGATACAATGGACTTCAGGTTGATAGGCTGGAAGATGGAGGCTTCAATCA
1 GGTCGTGGACGTGGAGGATACAATGGACCTCAGGTTGAGAGGCTGGAAGATGGAGGCTACAA-CA
7590619 G-GAAGCCCCTCCCCAAGGC
65 GTGAAGCCCCTCCCCAAGGC
*
7590638 GGTCGTGGACGTGGAGGATACAATGGACCTCAGGTTGAGAGGCTGGAAGATGGAGGCTACAACTG
1 GGTCGTGGACGTGGAGGATACAATGGACCTCAGGTTGAGAGGCTGGAAGATGGAGGCTACAACAG
*
7590703 TGAAGCCCCTCCCCAAGGT
66 TGAAGCCCCTCCCCAAGGC
*
7590722 GGCCGTGG
1 GGTCGTGG
7590730 TGAGTTTTTT
Statistics
Matches: 85, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
83 2 0.02
84 83 0.98
ACGTcount: A:0.24, C:0.22, G:0.36, T:0.18
Consensus pattern (84 bp):
GGTCGTGGACGTGGAGGATACAATGGACCTCAGGTTGAGAGGCTGGAAGATGGAGGCTACAACAG
TGAAGCCCCTCCCCAAGGC
Found at i:7594380 original size:32 final size:31
Alignment explanation
Indices: 7594338--7594446 Score: 123
Period size: 31 Copynumber: 3.5 Consensus size: 31
7594328 AGAATCGATG
7594338 GTTTACCTATGTTCTACGGAATATATGGACAA
1 GTTTACCTATGTTCTACGGAATATATGGAC-A
* * *
7594370 TTTTACCTATG-TCTTTC-GAGACATATGGACA
1 GTTTACCTATGTTC-TACGGA-ATATATGGACA
* *
7594401 GTATACCTATGTTCTAAGGAATATATGGACA
1 GTTTACCTATGTTCTACGGAATATATGGACA
*
7594432 GTTTACCTAGGTTCT
1 GTTTACCTATGTTCT
7594447 TTGGGACCTA
Statistics
Matches: 63, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
31 38 0.60
32 25 0.40
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (31 bp):
GTTTACCTATGTTCTACGGAATATATGGACA
Found at i:7594448 original size:63 final size:62
Alignment explanation
Indices: 7594341--7594464 Score: 178
Period size: 63 Copynumber: 2.0 Consensus size: 62
7594331 ATCGATGGTT
* * *
7594341 TACCTATGTTCTACGGAATATATGGACAATTTTACCTATGTCTTTCGAGACATATGGACAGTA
1 TACCTATGTTCTAAGGAATATATGGACAAGTTTACCTAGGTCTTT-GAGACATATGGACAGTA
* *
7594404 TACCTATGTTCTAAGGAATATATGGAC-AGTTTACCTAGGTTCTTTGGGACCTATGGACAGT
1 TACCTATGTTCTAAGGAATATATGGACAAGTTTACCTAGG-TCTTTGAGACATATGGACAGT
7594465 TTCCGAGGTT
Statistics
Matches: 55, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
62 24 0.44
63 31 0.56
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (62 bp):
TACCTATGTTCTAAGGAATATATGGACAAGTTTACCTAGGTCTTTGAGACATATGGACAGTA
Found at i:7594465 original size:31 final size:31
Alignment explanation
Indices: 7594360--7594478 Score: 107
Period size: 31 Copynumber: 3.8 Consensus size: 31
7594350 TCTACGGAAT
* * *
7594360 ATATGGACAATTTTACCTATG-TCTTTCGAGAC
1 ATATGGAC-AGTTTACCTAGGTTCTTT-GGGAC
* * ** * *
7594392 ATATGGACAGTATACCTATGTTCTAAGGAAT
1 ATATGGACAGTTTACCTAGGTTCTTTGGGAC
7594423 ATATGGACAGTTTACCTAGGTTCTTTGGGAC
1 ATATGGACAGTTTACCTAGGTTCTTTGGGAC
* *
7594454 CTATGGACAGTTT-CCGAGGTTCTTT
1 ATATGGACAGTTTACCTAGGTTCTTT
7594479 ATGACCTCTG
Statistics
Matches: 71, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
30 11 0.15
31 49 0.69
32 11 0.15
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (31 bp):
ATATGGACAGTTTACCTAGGTTCTTTGGGAC
Found at i:7594485 original size:30 final size:31
Alignment explanation
Indices: 7594424--7594495 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 31
7594414 CTAAGGAATA
* *
7594424 TATGGACAGTTTACCTAGGTTCTTTGGGACC
1 TATGGACAGTTTACCGAGGTTCTTTAGGACC
*
7594455 TATGGACAGTTT-CCGAGGTTCTTTATGACC
1 TATGGACAGTTTACCGAGGTTCTTTAGGACC
* *
7594485 TCTGGATAGTT
1 TATGGACAGTT
7594496 ATCGGGGTCT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 24 0.67
31 12 0.33
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (31 bp):
TATGGACAGTTTACCGAGGTTCTTTAGGACC
Found at i:7594704 original size:30 final size:30
Alignment explanation
Indices: 7594668--7594725 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 30
7594658 ATATGTGTTT
7594668 TGTGTTA-TGAATTATATG-ATATGATATATG
1 TGTGTTAGTG-ATTAT-TGTATATGATATATG
7594698 TGTGTTAGTGATTATTGTATATGATATA
1 TGTGTTAGTGATTATTGTATATGATATA
7594726 AGATATATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
29 2 0.08
30 22 0.85
31 2 0.08
ACGTcount: A:0.31, C:0.00, G:0.21, T:0.48
Consensus pattern (30 bp):
TGTGTTAGTGATTATTGTATATGATATATG
Found at i:7597414 original size:63 final size:62
Alignment explanation
Indices: 7597337--7597493 Score: 206
Period size: 63 Copynumber: 2.5 Consensus size: 62
7597327 TTCAGTGTGT
* * * *
7597337 ATCGATGCACAAGGAGTGCATCGATGCACCCATTAAAATGGAAACATCAAATGCGATTGGTGC
1 ATCGATGCATAAGGAGTGCATCGATGCACCC-CTAAAATAGAAACATCAAATGCGATTGATGC
* * * *
7597400 ATCGATGCATAAGGAGTGCATCGATGCATCCCCTAAAATATAAACATCGAATGTGATTTATGC
1 ATCGATGCATAAGGAGTGCATCGATGCA-CCCCTAAAATAGAAACATCAAATGCGATTGATGC
**
7597463 ATCGATGCATAAATAGTGCATCGATGCACCC
1 ATCGATGCATAAGGAGTGCATCGATGCACCC
7597494 GTCTAGGGAT
Statistics
Matches: 83, Mismatches: 10, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
62 3 0.04
63 77 0.93
64 3 0.04
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (62 bp):
ATCGATGCATAAGGAGTGCATCGATGCACCCCTAAAATAGAAACATCAAATGCGATTGATGC
Found at i:7598315 original size:31 final size:31
Alignment explanation
Indices: 7598280--7598352 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 31
7598270 CTTTCGAGAT
*
7598280 ATATGGACAGTATACCTATGTTCTAAGGAAC
1 ATATGGACAGTATACCTAGGTTCTAAGGAAC
* * ** *
7598311 ATATGGATAGTTTACCTAGGTTCTTTGGGAC
1 ATATGGACAGTATACCTAGGTTCTAAGGAAC
*
7598342 TTATGGACAGT
1 ATATGGACAGT
7598353 TGCCGAGGTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (31 bp):
ATATGGACAGTATACCTAGGTTCTAAGGAAC
Found at i:7598336 original size:63 final size:62
Alignment explanation
Indices: 7598233--7598352 Score: 145
Period size: 63 Copynumber: 1.9 Consensus size: 62
7598223 AGGGTTTACT
* * *
7598233 TATGTTCTACGGAACATATAGACAGTTTTCCCTATGTCTTTCGAGA-TATATGGACAGTATACC
1 TATGTTCTAAGGAACATATAGACAGTTTTACCTAGGTCTTT-GAGACT-TATGGACAGTATACC
* * *
7598296 TATGTTCTAAGGAACATATGGATAG-TTTACCTAGGTTCTTTGGGACTTATGGACAGT
1 TATGTTCTAAGGAACATATAGACAGTTTTACCTAGG-TCTTTGAGACTTATGGACAGT
7598353 TGCCGAGGTT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
62 21 0.43
63 28 0.57
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.36
Consensus pattern (62 bp):
TATGTTCTAAGGAACATATAGACAGTTTTACCTAGGTCTTTGAGACTTATGGACAGTATACC
Found at i:7602104 original size:27 final size:28
Alignment explanation
Indices: 7602052--7602104 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
7602042 TTTTCTAGTT
* *
7602052 TATTTGTATTTTTTGTAAAGTGTTTTAC
1 TATTTGTATTTTTTGTAAAATATTTTAC
7602080 TATTTG-ATTTTTTGTAAAATATTTT
1 TATTTGTATTTTTTGTAAAATATTTT
7602105 CTTAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.62
Consensus pattern (28 bp):
TATTTGTATTTTTTGTAAAATATTTTAC
Found at i:7602274 original size:37 final size:36
Alignment explanation
Indices: 7602214--7602302 Score: 119
Period size: 37 Copynumber: 2.5 Consensus size: 36
7602204 ATTAAAATAT
* *
7602214 TTAAAATATATATA-ATATAATTTAGTAATATTATA
1 TTAATATATATATATATATAATTTAATAATATTATA
*
7602249 TTAATATATATATATATATATATTTAATTATATTATA
1 TTAATATATATATATATATA-ATTTAATAATATTATA
7602286 TTAATATA-ATACTATAT
1 TTAATATATATA-TATAT
7602303 TTTTAATTCA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
35 13 0.27
36 8 0.17
37 27 0.56
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (36 bp):
TTAATATATATATATATATAATTTAATAATATTATA
Found at i:7602643 original size:27 final size:26
Alignment explanation
Indices: 7602569--7602657 Score: 67
Period size: 27 Copynumber: 3.3 Consensus size: 26
7602559 AATATAATTA
** *
7602569 ATATTATTTAATATTTTTATAA-A-A
1 ATATTATTTAATATTAATATAATAGT
* *
7602593 ATATTATTAAATAACTAATA-AATAGTT
1 ATATTATTTAAT-ATTAATATAATAG-T
7602620 ATATTATTTAATATTAATATAATATGCT
1 ATATTATTTAATATTAATATAATA-G-T
7602648 AGTATTATTT
1 A-TATTATTT
7602658 CAATTAAGGT
Statistics
Matches: 50, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
24 13 0.26
25 5 0.10
26 6 0.12
27 15 0.30
28 3 0.06
29 8 0.16
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.49
Consensus pattern (26 bp):
ATATTATTTAATATTAATATAATAGT
Found at i:7606040 original size:12 final size:14
Alignment explanation
Indices: 7606012--7606044 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
7606002 TTATACATTT
7606012 AAATAAAAGTAAAA
1 AAATAAAAGTAAAA
7606026 AAATAAAA-T-AAA
1 AAATAAAAGTAAAA
7606038 AAATAAA
1 AAATAAA
7606045 GACATAGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 1 0.05
14 8 0.42
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (14 bp):
AAATAAAAGTAAAA
Found at i:7621234 original size:16 final size:16
Alignment explanation
Indices: 7621215--7621246 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
7621205 CAATAATACA
7621215 TTTTATAAATATTTATT
1 TTTTA-AAATATTTATT
7621232 TTTTAAAATATTTAT
1 TTTTAAAATATTTAT
7621247 AAATACGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTAAAATATTTATT
Found at i:7625856 original size:3 final size:3
Alignment explanation
Indices: 7625848--7625882 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
7625838 TCTGAGATGC
*
7625848 AAG AAG AAG AAG AAG AAG AGG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
7625883 ACTTGGCTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:7629899 original size:18 final size:18
Alignment explanation
Indices: 7629878--7629919 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
7629868 ATAGATTTCA
7629878 AAATAAAG-GACACTATAG
1 AAATAAAGAG-CACTATAG
*
7629896 AAATACAGATGCACTATAG
1 AAATAAAGA-GCACTATAG
7629915 AAATA
1 AAATA
7629920 CAGATGCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 7 0.33
19 13 0.62
20 1 0.05
ACGTcount: A:0.55, C:0.12, G:0.14, T:0.19
Consensus pattern (18 bp):
AAATAAAGAGCACTATAG
Found at i:7629912 original size:19 final size:19
Alignment explanation
Indices: 7629888--7629926 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
7629878 AAATAAAGGA
7629888 CACTATAGAAATACAGATG
1 CACTATAGAAATACAGATG
7629907 CACTATAGAAATACAGATG
1 CACTATAGAAATACAGATG
7629926 C
1 C
7629927 TCAACATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.46, C:0.18, G:0.15, T:0.21
Consensus pattern (19 bp):
CACTATAGAAATACAGATG
Found at i:7634121 original size:22 final size:22
Alignment explanation
Indices: 7634096--7634152 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 22
7634086 GACATATCAT
7634096 ACAAAATTAGGTACTTATCTCG
1 ACAAAATTAGGTACTTATCTCG
* * *
7634118 AC-AAA-TA--AATTTATCTTG
1 ACAAAATTAGGTACTTATCTCG
7634136 ACAAAATTAGGTACTTA
1 ACAAAATTAGGTACTTA
7634153 AAGTTGTAAC
Statistics
Matches: 26, Mismatches: 5, Indels: 8
0.67 0.13 0.21
Matches are distributed among these distances:
18 10 0.38
19 3 0.12
20 4 0.15
21 3 0.12
22 6 0.23
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (22 bp):
ACAAAATTAGGTACTTATCTCG
Found at i:7639896 original size:20 final size:20
Alignment explanation
Indices: 7639863--7639917 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
7639853 TGCATTATTT
*
7639863 AATTATTA-AAAATATAGTA
1 AATTATTATAAAATATAATA
7639882 AATTATTATAAAATATAATA
1 AATTATTATAAAATATAATA
**
7639902 AACGATTAT-AAATATA
1 AATTATTATAAAATATA
7639918 TTATTATAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (20 bp):
AATTATTATAAAATATAATA
Found at i:7639923 original size:14 final size:14
Alignment explanation
Indices: 7639906--7639946 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
7639896 ATAATAAACG
7639906 ATTATAAATATATT
1 ATTATAAATATATT
*
7639920 ATTATAAAATACATT
1 ATTAT-AAATATATT
7639935 ATT-TAAA-ATATT
1 ATTATAAATATATT
7639947 TAAAATATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 4 0.17
13 3 0.12
14 6 0.25
15 11 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (14 bp):
ATTATAAATATATT
Found at i:7639935 original size:15 final size:15
Alignment explanation
Indices: 7639906--7639944 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
7639896 ATAATAAACG
*
7639906 ATTAT-AAATATATT
1 ATTATAAAATACATT
7639920 ATTATAAAATACATT
1 ATTATAAAATACATT
7639935 ATT-TAAAATA
1 ATTATAAAATA
7639945 TTTAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (15 bp):
ATTATAAAATACATT
Found at i:7640431 original size:29 final size:29
Alignment explanation
Indices: 7640389--7640451 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
7640379 ATTCTACTGT
**
7640389 GACCTCGTAGGTCGCCATGGCATCCGGGC
1 GACCTCGTAGGTCGCCATGGCATCCAAGC
*
7640418 GACCTTGTAGGTCGCCATGGCATCCAAGC
1 GACCTCGTAGGTCGCCATGGCATCCAAGC
7640447 GACCT
1 GACCT
7640452 ATGTGGTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.17, C:0.33, G:0.30, T:0.19
Consensus pattern (29 bp):
GACCTCGTAGGTCGCCATGGCATCCAAGC
Found at i:7640540 original size:20 final size:20
Alignment explanation
Indices: 7640515--7640552 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7640505 TGGGGGAGTT
*
7640515 GTGGGAGCTGTGCATGGGAC
1 GTGGGAACTGTGCATGGGAC
7640535 GTGGGAACTGTGCATGGG
1 GTGGGAACTGTGCATGGG
7640553 GCATGGGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.13, G:0.50, T:0.21
Consensus pattern (20 bp):
GTGGGAACTGTGCATGGGAC
Found at i:7640559 original size:20 final size:20
Alignment explanation
Indices: 7640516--7640559 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
7640506 GGGGGAGTTG
* *
7640516 TGGGAGCTGTGCATGGGACG
1 TGGGAACTGTGCATGGGACA
*
7640536 TGGGAACTGTGCATGGGGCA
1 TGGGAACTGTGCATGGGACA
7640556 TGGG
1 TGGG
7640560 GGAGTTGTGG
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:0.16, C:0.14, G:0.50, T:0.20
Consensus pattern (20 bp):
TGGGAACTGTGCATGGGACA
Found at i:7640571 original size:51 final size:51
Alignment explanation
Indices: 7640502--7640608 Score: 214
Period size: 51 Copynumber: 2.1 Consensus size: 51
7640492 ATTAGAGCAT
7640502 GCATGGGGGAGTTGTGGGAGCTGTGCATGGGACGTGGGAACTGTGCATGGG
1 GCATGGGGGAGTTGTGGGAGCTGTGCATGGGACGTGGGAACTGTGCATGGG
7640553 GCATGGGGGAGTTGTGGGAGCTGTGCATGGGACGTGGGAACTGTGCATGGG
1 GCATGGGGGAGTTGTGGGAGCTGTGCATGGGACGTGGGAACTGTGCATGGG
7640604 GCATG
1 GCATG
7640609 CACGTCGAAC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 56 1.00
ACGTcount: A:0.16, C:0.12, G:0.50, T:0.21
Consensus pattern (51 bp):
GCATGGGGGAGTTGTGGGAGCTGTGCATGGGACGTGGGAACTGTGCATGGG
Found at i:7640591 original size:20 final size:20
Alignment explanation
Indices: 7640566--7640603 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
7640556 TGGGGGAGTT
*
7640566 GTGGGAGCTGTGCATGGGAC
1 GTGGGAACTGTGCATGGGAC
7640586 GTGGGAACTGTGCATGGG
1 GTGGGAACTGTGCATGGG
7640604 GCATGCACGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.16, C:0.13, G:0.50, T:0.21
Consensus pattern (20 bp):
GTGGGAACTGTGCATGGGAC
Found at i:7641144 original size:23 final size:21
Alignment explanation
Indices: 7641094--7641144 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 21
7641084 ACTAAAATCT
7641094 AGTTA-ATTAGTTTGTTAGTA
1 AGTTATATTAGTTTGTTAGTA
*
7641114 A-AT-TATTAGTTTGTTAGTTTA
1 AGTTATATTAGTTTGTTAG--TA
7641135 AGTTATATTA
1 AGTTATATTA
7641145 TATTAGTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
19 14 0.58
20 1 0.04
21 3 0.12
22 1 0.04
23 5 0.21
ACGTcount: A:0.31, C:0.00, G:0.16, T:0.53
Consensus pattern (21 bp):
AGTTATATTAGTTTGTTAGTA
Found at i:7641151 original size:28 final size:30
Alignment explanation
Indices: 7641117--7641179 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
7641107 GTTAGTAAAT
*
7641117 TATTAGTTTGTTAGTTTAAG-T-TATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
7641145 TATTAGTTTATTAGTTTAAGTTATATATTA
1 TATTAGTTTATTAGTTTAAGTTATATATTA
7641175 TATTA
1 TATTA
7641180 TATAAAAATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 19 0.59
29 1 0.03
30 12 0.38
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (30 bp):
TATTAGTTTATTAGTTTAAGTTATATATTA
Found at i:7643718 original size:146 final size:145
Alignment explanation
Indices: 7643526--7643816 Score: 548
Period size: 146 Copynumber: 2.0 Consensus size: 145
7643516 GCATTCGCCA
7643526 TTGTTGAGGGAGAGACAACAGAGGCTTGGGATTTCTTTCTGACCAATCTACGTCAATATGTCGTT
1 TTGTTGAGGGAGAGACAACAGAGGCTTGGGATTTCTTTCTGACCAATCTACGTC-A-ATGTCGTT
*
7643591 CGTGAAGATGGATTTTGCTTGATATCCGATAGAGGAACGGGTA-TTTGGCGGCAATTGAACGACC
64 CGTGAAGATGGAGTTTGCTTGATATCCGATAGAGGAACGGGTATTTTGGCGGCAATTGAACGACC
7643655 AGGAAGTCGTTGGATAC
129 AGGAAGTCGTTGGATAC
7643672 TTGTTGAGGGAGAGACAACAGAGGCTTGGGATTTCTTTCTGACCAATCTACGTCAATGTCGTTCG
1 TTGTTGAGGGAGAGACAACAGAGGCTTGGGATTTCTTTCTGACCAATCTACGTCAATGTCGTTCG
7643737 TGAAGATGGAGTTTGCTTGATATCCGATAGAGGAACGGGTATTTTGGCGGCAATTGAACGACCAG
66 TGAAGATGGAGTTTGCTTGATATCCGATAGAGGAACGGGTATTTTGGCGGCAATTGAACGACCAG
7643802 GAAGTCGTTGGATAC
131 GAAGTCGTTGGATAC
7643817 CTCCGTATGC
Statistics
Matches: 143, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
144 50 0.35
145 39 0.27
146 54 0.38
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.29
Consensus pattern (145 bp):
TTGTTGAGGGAGAGACAACAGAGGCTTGGGATTTCTTTCTGACCAATCTACGTCAATGTCGTTCG
TGAAGATGGAGTTTGCTTGATATCCGATAGAGGAACGGGTATTTTGGCGGCAATTGAACGACCAG
GAAGTCGTTGGATAC
Found at i:7644433 original size:26 final size:26
Alignment explanation
Indices: 7644404--7644576 Score: 135
Period size: 26 Copynumber: 7.2 Consensus size: 26
7644394 TTTGATGATT
7644404 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
7644430 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
*
7644456 TAATAATGATTT-AGT-ATAATCATTA
1 TAGTAATGATTTGA-TAATAATCATTA
** *
7644481 TAAAAATGATTAATGAT-TTAA--A-TA
1 TAGTAATGATT--TGATAATAATCATTA
*
7644505 T--TAATGATTTG---A---TGATT-
1 TAGTAATGATTTGATAATAATCATTA
7644522 TAGTAATGATTTGATAATAATCATTA
1 TAGTAATGATTTGATAATAATCATTA
* * *
7644548 TAATAATGATTTTATAATAATTATT-
1 TAGTAATGATTTGATAATAATCATTA
7644573 TAGT
1 TAGT
7644577 TATTATTTAG
Statistics
Matches: 121, Mismatches: 10, Indels: 33
0.74 0.06 0.20
Matches are distributed among these distances:
17 2 0.02
18 1 0.01
19 10 0.08
20 2 0.02
22 8 0.07
24 3 0.02
25 29 0.24
26 60 0.50
27 5 0.04
28 1 0.01
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (26 bp):
TAGTAATGATTTGATAATAATCATTA
Found at i:7644460 original size:12 final size:12
Alignment explanation
Indices: 7644417--7644483 Score: 64
Period size: 12 Copynumber: 5.3 Consensus size: 12
7644407 TAATGATTTG
7644417 ATAATAATCATT
1 ATAATAATCATT
* *
7644429 ATAGTAATGATTT
1 ATAATAATCA-TT
7644442 GATAATAATCATT
1 -ATAATAATCATT
*
7644455 ATAATAATGATT
1 ATAATAATCATT
7644467 -TAGTATAATCATT
1 ATA--ATAATCATT
7644480 ATAA
1 ATAA
7644484 AAATGATTAA
Statistics
Matches: 44, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
11 2 0.05
12 20 0.45
13 12 0.27
14 10 0.23
ACGTcount: A:0.46, C:0.04, G:0.07, T:0.42
Consensus pattern (12 bp):
ATAATAATCATT
Found at i:7644509 original size:15 final size:16
Alignment explanation
Indices: 7644484--7644514 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
7644474 ATCATTATAA
7644484 AAATGATTAATGATTT
1 AAATGATTAATGATTT
7644500 AAAT-ATTAATGATTT
1 AAATGATTAATGATTT
7644515 GATGATTTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (16 bp):
AAATGATTAATGATTT
Found at i:7644531 original size:118 final size:121
Alignment explanation
Indices: 7644324--7644568 Score: 374
Period size: 118 Copynumber: 2.0 Consensus size: 121
7644314 TCATCATTAG
* *
7644324 TAATCATATATATTTATGTATTTATTAATCATTATAAAAATGATTTAATAATAATTTAAATATTT
1 TAATCATATATAATAATGTATTTATTAATCATTATAAAAATGA-TT-ATAATAATTTAAATATTT
*
7644389 AATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAGTAATGATTTGATAA
64 AATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAATAATGATTTGATAA
*
7644447 TAATCAT-TATAATAATG-ATTTAGTATAATCATTATAAAAATGA-T-TAATGATTTAAATA-TT
1 TAATCATATATAATAATGTATTTA-T-TAATCATTATAAAAATGATTATAATAATTTAAATATTT
*
7644507 AATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAATAATGATTTTATAA
64 AATGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAATAATGATTTGATAA
7644565 TAAT
1 TAAT
7644569 TATTTAGTTA
Statistics
Matches: 115, Mismatches: 5, Indels: 9
0.89 0.04 0.07
Matches are distributed among these distances:
118 62 0.54
119 13 0.11
121 6 0.05
122 9 0.08
123 25 0.22
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.45
Consensus pattern (121 bp):
TAATCATATATAATAATGTATTTATTAATCATTATAAAAATGATTATAATAATTTAAATATTTAA
TGATTTGATGATTTAGTAATGATTTGATAATAATCATTATAATAATGATTTGATAA
Found at i:7644581 original size:11 final size:11
Alignment explanation
Indices: 7644565--7644600 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
7644555 GATTTTATAA
7644565 TAATTATTTAG
1 TAATTATTTAG
*
7644576 TTATTATTTAG
1 TAATTATTTAG
7644587 TAATTATTTA-
1 TAATTATTTAG
7644597 TAAT
1 TAAT
7644601 AATGATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (11 bp):
TAATTATTTAG
Found at i:7644619 original size:14 final size:14
Alignment explanation
Indices: 7644407--7644628 Score: 85
Period size: 14 Copynumber: 16.1 Consensus size: 14
7644397 GATGATTTAG
*
7644407 TAATGATTTGATAA
1 TAATGATTTAATAA
* *
7644421 TAATCA-TT-ATAG
1 TAATGATTTAATAA
*
7644433 TAATGATTTGATAA
1 TAATGATTTAATAA
*
7644447 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
7644459 TAATGATTTAGT-A
1 TAATGATTTAATAA
* *
7644472 TAATCATTATAAAAATGAT
1 TAATGATT-T---AAT-AA
*
7644491 TAATGATTTAAATAT
1 TAATGATTT-AATAA
*
7644506 TAATGATTTGATGATTTAG
1 TAATGATTT-A--A--TAA
*
7644525 TAATGATTTGATAA
1 TAATGATTTAATAA
*
7644539 TAATCA-TT-ATAA
1 TAATGATTTAATAA
*
7644551 TAATGATTTTATAA
1 TAATGATTTAATAA
* *
7644565 TAATTATTTAGT--
1 TAATGATTTAATAA
* *
7644577 T-ATTATTTAGTAA
1 TAATGATTTAATAA
7644590 T--T-ATTT-ATAA
1 TAATGATTTAATAA
*
7644600 TAATGATTTAATAC
1 TAATGATTTAATAA
7644614 TAATGATTTAATAA
1 TAATGATTTAATAA
7644628 T
1 T
7644629 TATTACTAAT
Statistics
Matches: 163, Mismatches: 23, Indels: 44
0.71 0.10 0.19
Matches are distributed among these distances:
10 4 0.02
11 14 0.09
12 29 0.18
13 25 0.15
14 52 0.32
15 12 0.07
16 5 0.03
17 3 0.02
18 1 0.01
19 18 0.11
ACGTcount: A:0.43, C:0.02, G:0.09, T:0.46
Consensus pattern (14 bp):
TAATGATTTAATAA
Found at i:7644651 original size:38 final size:38
Alignment explanation
Indices: 7644581--7644654 Score: 96
Period size: 38 Copynumber: 1.9 Consensus size: 38
7644571 TTTAGTTATT
* **
7644581 ATTTAGTAATTATTTATAATAATGATTTAATACTAATG
1 ATTTAATAATTATTTATAATAATGATAGAATACTAATG
*
7644619 ATTTAATAATTA-TTACTAATAATTATAGAATACTAA
1 ATTTAATAATTATTTA-TAATAATGATAGAATACTAA
7644655 CAAATGAGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.10
38 28 0.90
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (38 bp):
ATTTAATAATTATTTATAATAATGATAGAATACTAATG
Found at i:7644854 original size:17 final size:17
Alignment explanation
Indices: 7644834--7644866 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7644824 TTACTAAATT
*
7644834 TAATTATTTGATACTAG
1 TAATGATTTGATACTAG
7644851 TAATGATTTGATACTA
1 TAATGATTTGATACTA
7644867 AAAATCATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (17 bp):
TAATGATTTGATACTAG
Found at i:7647107 original size:32 final size:30
Alignment explanation
Indices: 7647066--7647140 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
7647056 ACTAACCCTT
*
7647066 AAAC-AACTAATAAAATATTTTTTATATACTA
1 AAACTAACTAATAAAATATTTTTCAT-TA-TA
*
7647097 AAACTAACTAATAAACTATTTTTCATTATA
1 AAACTAACTAATAAAATATTTTTCATTATA
*
7647127 ATACT-ACTAATAAA
1 AAACTAACTAATAAA
7647141 CTTACTAACT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
29 9 0.22
30 6 0.15
31 6 0.15
32 19 0.47
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (30 bp):
AAACTAACTAATAAAATATTTTTCATTATA
Found at i:7647234 original size:42 final size:42
Alignment explanation
Indices: 7647188--7647308 Score: 99
Period size: 42 Copynumber: 2.8 Consensus size: 42
7647178 AAATATAACT
7647188 TAACTATTTAACTACACAAACTAATTAAATAATTTTTT-TATA
1 TAACTATTTAAC-ACACAAACTAATTAAATAATTTTTTATATA
* *
7647230 TAACTAACTATTAACA-AAACAACTAATT-AATTATTTTTTAACTATA
1 TAACT-A-T-TTAACACACA-AACTAATTAAATAATTTTTT-A-TATA
* * *
7647276 TAACTA-TCAA-ACATATACTAATTAAATAATTTT
1 TAACTATTTAACACACAAACTAATTAAATAATTTT
7647309 AATTTATGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
41 8 0.12
42 18 0.28
43 13 0.20
44 10 0.16
45 6 0.09
46 9 0.14
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.40
Consensus pattern (42 bp):
TAACTATTTAACACACAAACTAATTAAATAATTTTTTATATA
Found at i:7647769 original size:29 final size:29
Alignment explanation
Indices: 7647710--7647840 Score: 194
Period size: 29 Copynumber: 4.6 Consensus size: 29
7647700 TCGTGAGCTA
7647710 GGACTACATGGCGACCT--AAGGTCGCCG
1 GGACTACATGGCGACCTACAAGGTCGCCG
7647737 GGACTACATGGCGACCTACAAGGTCGCCG
1 GGACTACATGGCGACCTACAAGGTCGCCG
7647766 GGACTACATGGCGACCTACAAGGTCGCCG
1 GGACTACATGGCGACCTACAAGGTCGCCG
* ** *
7647795 AGACTACATAACGACCTACAAGGTCGCCC
1 GGACTACATGGCGACCTACAAGGTCGCCG
* *
7647824 AGACTGCATGGCGACCT
1 GGACTACATGGCGACCT
7647841 CTCGATCTCT
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 17 0.18
29 78 0.82
ACGTcount: A:0.26, C:0.31, G:0.28, T:0.15
Consensus pattern (29 bp):
GGACTACATGGCGACCTACAAGGTCGCCG
Found at i:7647907 original size:21 final size:21
Alignment explanation
Indices: 7647881--7647927 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
7647871 TATATGCCTT
7647881 GTATGGCTCGTATGTCACCCC
1 GTATGGCTCGTATGTCACCCC
7647902 GTATGGCTCGTATGTCACCCC
1 GTATGGCTCGTATGTCACCCC
7647923 GTATG
1 GTATG
7647928 TCGCCTGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.15, C:0.30, G:0.26, T:0.30
Consensus pattern (21 bp):
GTATGGCTCGTATGTCACCCC
Found at i:7647970 original size:29 final size:29
Alignment explanation
Indices: 7647928--7647987 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
7647918 ACCCCGTATG
7647928 TCGCCTGGATTGCATGGCGTCCTACAAGA
1 TCGCCTGGATTGCATGGCGTCCTACAAGA
*
7647957 TCGCCTGGATTGCATGGCGTCCTACGAGA
1 TCGCCTGGATTGCATGGCGTCCTACAAGA
7647986 TC
1 TC
7647988 ACTGTAGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.18, C:0.28, G:0.28, T:0.25
Consensus pattern (29 bp):
TCGCCTGGATTGCATGGCGTCCTACAAGA
Found at i:7648624 original size:45 final size:45
Alignment explanation
Indices: 7648521--7648652 Score: 134
Period size: 45 Copynumber: 3.0 Consensus size: 45
7648511 TACATAAATT
*
7648521 AAAAATTATTTAATTAGTATATG-TTTG---ATAGTTA--TATAGTTA
1 AAAAATTATTTAATTAGT-T-TGTTTTGTTAATAGTTAGTTATA-TAA
*
7648563 AAAAA-TAATTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
1 AAAAATTATTTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
*
7648607 AAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAATTATTTAATTAGTTTGT-TTTGTT-AATAGTT-AGTTATAT
7648653 TTGTTTGTTG
Statistics
Matches: 76, Mismatches: 4, Indels: 14
0.81 0.04 0.15
Matches are distributed among these distances:
39 2 0.03
40 5 0.07
41 11 0.14
42 5 0.07
43 7 0.09
44 7 0.09
45 19 0.25
46 5 0.07
47 7 0.09
48 8 0.11
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (45 bp):
AAAAATTATTTAATTAGTTTGTTTTGTTAATAGTTAGTTATATAA
Found at i:7648842 original size:16 final size:16
Alignment explanation
Indices: 7648810--7648856 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
7648800 TTTTAAAAGT
*
7648810 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
7648826 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
7648842 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
7648857 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:7648851 original size:15 final size:14
Alignment explanation
Indices: 7648831--7648861 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
7648821 GTTTATTAGT
7648831 TTATTATATTATAAG
1 TTATTATATTA-AAG
7648846 TTATTATATTAAAG
1 TTATTATATTAAAG
7648860 TT
1 TT
7648862 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:7653536 original size:28 final size:30
Alignment explanation
Indices: 7653496--7653558 Score: 103
Period size: 28 Copynumber: 2.2 Consensus size: 30
7653486 ATTTTTTATA
*
7653496 TAATATAATATATAACTTAAACTAATAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
7653526 TAATAT-A-ATATAACTTAAACTAACAAAC
1 TAATATAATATATAACTTAAACTAACAAAC
7653554 TAATA
1 TAATA
7653559 ATTTATACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 25 0.78
29 1 0.03
30 6 0.19
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (30 bp):
TAATATAATATATAACTTAAACTAACAAAC
Found at i:7653565 original size:28 final size:28
Alignment explanation
Indices: 7653500--7653565 Score: 98
Period size: 28 Copynumber: 2.4 Consensus size: 28
7653490 TTTATATAAT
*
7653500 ATAATATATAACTTAAACTAATAAACTA
1 ATAATATATAACTTAAACTAACAAACTA
7653528 AT-ATAATATAACTTAAACTAACAAACTA
1 ATAAT-ATATAACTTAAACTAACAAACTA
*
7653556 ATAATTTATA
1 ATAATATATA
7653566 CTAACAAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 30 0.88
29 2 0.06
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (28 bp):
ATAATATATAACTTAAACTAACAAACTA
Found at i:7653568 original size:21 final size:21
Alignment explanation
Indices: 7653535--7653583 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
7653525 CTAATATAAT
7653535 ATAACTTAAACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
* *
7653556 ATAATTTATACTAACAAACTA
1 ATAACTTAAACTAACAAACTA
7653577 ATTAACT
1 A-TAACT
7653584 AGATTTAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.31
Consensus pattern (21 bp):
ATAACTTAAACTAACAAACTA
Done.