Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_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: 8859806
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 33 of 41
Found at i:6979595 original size:14 final size:14
Alignment explanation
Indices: 6979576--6979625 Score: 91
Period size: 14 Copynumber: 3.5 Consensus size: 14
6979566 TGGATTATAC
6979576 CTATGTTCCAAATG
1 CTATGTTCCAAATG
6979590 CTATGTTCCAAATG
1 CTATGTTCCAAATG
6979604 CTATGTTCCAAATG
1 CTATGTTCCAAATG
6979618 CTAGTGTT
1 CTA-TGTT
6979626 AGTACTCTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
14 31 0.89
15 4 0.11
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (14 bp):
CTATGTTCCAAATG
Found at i:6981128 original size:20 final size:20
Alignment explanation
Indices: 6981099--6981136 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
6981089 TTTCAAAGGA
6981099 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
6981119 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
6981137 GAATAAATTG
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:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:6981216 original size:65 final size:64
Alignment explanation
Indices: 6981147--6981288 Score: 207
Period size: 65 Copynumber: 2.2 Consensus size: 64
6981137 GAATAAATTG
* * * *
6981147 AACATCGAATGCATTTTATGCATCGATGCACACA-CCATGCATCGATGCACTCAG-GTTTTTATG
1 AACATCGAATGCATTTGATGCATCGATGCACA-AGACATGCATCGATGCACTCAGACTCTTT-TG
6981210 AA
64 -A
6981212 AACATCGAATGCATTTGATGCATCGATGCACAAGACATGCATCGATGCACTCAGACTCTTTTGA
1 AACATCGAATGCATTTGATGCATCGATGCACAAGACATGCATCGATGCACTCAGACTCTTTTGA
6981276 AACATCGAATGCA
1 AACATCGAATGCA
6981289 CTAAGGGTCC
Statistics
Matches: 71, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
64 15 0.21
65 52 0.73
66 4 0.06
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (64 bp):
AACATCGAATGCATTTGATGCATCGATGCACAAGACATGCATCGATGCACTCAGACTCTTTTGA
Found at i:6986227 original size:30 final size:30
Alignment explanation
Indices: 6986193--6986256 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
6986183 AAGAAGCAGA
6986193 GAAAGAAGTTGGTGCTTTATGGCTGAAAAT
1 GAAAGAAGTTGGTGCTTTATGGCTGAAAAT
6986223 GAAAGAAGTTGGTGCTTTATGGCTGAAAAT
1 GAAAGAAGTTGGTGCTTTATGGCTGAAAAT
6986253 GAAA
1 GAAA
6986257 CAAGAACAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.36, C:0.06, G:0.30, T:0.28
Consensus pattern (30 bp):
GAAAGAAGTTGGTGCTTTATGGCTGAAAAT
Found at i:7007483 original size:21 final size:21
Alignment explanation
Indices: 7007457--7007503 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
7007447 GTTTCCAGAT
*
7007457 TCGCAACGCAAACTTTGACTA
1 TCGCAACGCAAACTTCGACTA
* *
7007478 TCGCAATGCGAACTTCGACTA
1 TCGCAACGCAAACTTCGACTA
7007499 TCGCA
1 TCGCA
7007504 TTACATATTC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (21 bp):
TCGCAACGCAAACTTCGACTA
Found at i:7007652 original size:6 final size:6
Alignment explanation
Indices: 7007641--7007665 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7007631 GAAGACACGT
7007641 ATTACC ATTACC ATTACC ATTACC A
1 ATTACC ATTACC ATTACC ATTACC A
7007666 CGACCACGAC
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:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (6 bp):
ATTACC
Found at i:7007671 original size:6 final size:6
Alignment explanation
Indices: 7007662--7007699 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
7007652 CATTACCATT
7007662 ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
7007700 CGTGACGAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.32, C:0.53, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:7008342 original size:21 final size:21
Alignment explanation
Indices: 7008318--7008372 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
7008308 TTTGGAATAA
7008318 ATCGCAATGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
* * *
7008339 ATCGCAAAGTGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
*
7008360 ATCGCATTGCGAA
1 ATCGCAATGCGAA
7008373 TTATCGATCG
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.24
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:7016091 original size:20 final size:20
Alignment explanation
Indices: 7016063--7016101 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7016053 GCTTCAAGAA
7016063 TTATCTTTAGGAATTATCTC
1 TTATCTTTAGGAATTATCTC
*
7016083 TTATTTTTAGGAATTATCT
1 TTATCTTTAGGAATTATCT
7016102 TGTTGTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.10, G:0.10, T:0.54
Consensus pattern (20 bp):
TTATCTTTAGGAATTATCTC
Found at i:7023924 original size:15 final size:15
Alignment explanation
Indices: 7023881--7023925 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
7023871 ACAAAAAGGC
7023881 TGAAGAGAAGAAAGA
1 TGAAGAGAAGAAAGA
* *
7023896 TGCAG-GTAAAAAAGA
1 TGAAGAG-AAGAAAGA
7023911 TGAAGAGAAGAAAGA
1 TGAAGAGAAGAAAGA
7023926 CCCTAAGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 1 0.04
15 22 0.92
16 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.31, T:0.09
Consensus pattern (15 bp):
TGAAGAGAAGAAAGA
Found at i:7026106 original size:70 final size:68
Alignment explanation
Indices: 7025951--7026087 Score: 185
Period size: 70 Copynumber: 2.0 Consensus size: 68
7025941 TATCATTGGT
* *
7025951 AAATAAAAAAATTAAAAATCATACATCCAAAACCATTTTTATTAATTTTTATTTTATTTTGAGTA
1 AAATAAAAAAATTGAAAATCATACATCCAAAACCA--TTTATTAATTATTA-TTTATTTTGAGTA
7026016 AGTTTA
63 AGTTTA
7026022 AAAT-AAAAAATTGAAAATCATA-AGTCCAAAACCA-TTATT-ATTATTA-TTATTTTGAGTAAG
1 AAATAAAAAAATTGAAAATCATACA-TCCAAAACCATTTATTAATTATTATTTATTTTGAGTAAG
7026082 TTTA
65 TTTA
7026086 AA
1 AA
7026088 TTGACTCAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
64 20 0.32
66 6 0.10
67 5 0.08
69 1 0.02
70 27 0.43
71 4 0.06
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (68 bp):
AAATAAAAAAATTGAAAATCATACATCCAAAACCATTTATTAATTATTATTTATTTTGAGTAAGT
TTA
Found at i:7030768 original size:25 final size:25
Alignment explanation
Indices: 7030739--7030800 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
7030729 TGTTAGATAA
* *
7030739 ACAAGGTAAAGAAAACAAATAAGAT
1 ACAAGGAAAAAAAAACAAATAAGAT
* *
7030764 ACAAGGAAAAAAAAATAAGTAAGAT
1 ACAAGGAAAAAAAAACAAATAAGAT
7030789 --AA-GAAAAAAAAA
1 ACAAGGAAAAAAAAA
7030801 TAGTAAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
22 10 0.30
23 2 0.06
25 21 0.64
ACGTcount: A:0.71, C:0.05, G:0.15, T:0.10
Consensus pattern (25 bp):
ACAAGGAAAAAAAAACAAATAAGAT
Found at i:7030805 original size:21 final size:22
Alignment explanation
Indices: 7030769--7030811 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
7030759 AAGATACAAG
*
7030769 GAAAAAAAAATAAGTAAGATAA
1 GAAAAAAAAATAAGTAAAATAA
7030791 GAAAAAAAAAT-AGTAAAATAA
1 GAAAAAAAAATAAGTAAAATAA
7030812 TAATTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (22 bp):
GAAAAAAAAATAAGTAAAATAA
Found at i:7031399 original size:18 final size:17
Alignment explanation
Indices: 7031376--7031418 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
7031366 ATATATACAT
7031376 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
7031394 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
7031411 ATAA-AATA
1 ATAATAATA
7031419 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:7031825 original size:37 final size:37
Alignment explanation
Indices: 7031775--7031879 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
7031765 GTGCTTGTGG
* * * *
7031775 ATCCTATCTTTAGGAATTTAAATCTTAGTATAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTATAACTCT
* * * *
7031812 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTATAACTCT
7031849 ATCCTATTTTTAGGAGTTTGAATCCTAGTAT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAT
7031880 GACGAAAATG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.44
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTATAACTCT
Found at i:7032723 original size:105 final size:105
Alignment explanation
Indices: 7032422--7033053 Score: 864
Period size: 105 Copynumber: 6.0 Consensus size: 105
7032412 GCATTGTTCC
* ** ** *
7032422 GAGTCCAATATCCTCCGTCATGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACA
* * * * *
7032486 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
64 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
7032528 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTGTTAACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
7032588 CAGCGGTCCCTTCGTCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
7032628 GAGTCCAATATCCTTCGTTGTGAAGTTTAAATTGGCTCTGAGATTGGGAAGCTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
7032693 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
**
7032733 GAGTATAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
7032798 CAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
7032838 AAGTTCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
7032903 CAGCGGTCCCTTCGTCGTGAATTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
7032943 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTTTTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG--TTGTTGACA
* * * *
7033008 ACCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTACGTTGTCTC
64 AGCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
7033050 GAGT
1 GAGT
7033054 GTCACGATAT
Statistics
Matches: 475, Mismatches: 42, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
100 81 0.17
101 1 0.00
102 7 0.01
104 4 0.01
105 300 0.63
106 34 0.07
107 47 0.10
108 1 0.00
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:7033301 original size:36 final size:36
Alignment explanation
Indices: 7033252--7033327 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
7033242 TGTTTGGAGA
* * * *
7033252 GAAACTGTTTCAAGGGAGACAAAATTCGTTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
* *
7033288 GAAACTATCTCAAGCGAGATAAAATTTATTTCAAGG
1 GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
7033324 GAAA
1 GAAA
7033328 TGTTTTCAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (36 bp):
GAAACTATCTCAAGCGAGACAAAATTCATTTCAAGG
Found at i:7033453 original size:106 final size:104
Alignment explanation
Indices: 7033227--7033545 Score: 443
Period size: 106 Copynumber: 3.1 Consensus size: 104
7033217 TTCGTTAAAT
* * ** * *
7033227 TGTTTTAAAAGTTTATGTTTGGAGAGAAACTGTTTCAAGGGAGACAAAA--TTC-GTTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
7033289 AAACTATCTCAAGCGAG-ATAAAATTTATTTCAAGGGAAA
66 AAACTATCTCAAG-GAGAAAAAAATTAATTTCAAGGGAAA
7033328 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* * *
7033393 AAACTATCTCAAGAGAGAAAAAAAAATCATTTTAAGGGAAA
66 AAACTATCTCAAG-GAG-AAAAAAATTAATTTCAAGGGAAA
* *
7033434 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTTAA-GGAGACAAAATTTTCTATTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
7033498 AAACTATCTC-AGGAGAGAAAAAATTAATTTCAAGGGAAA
66 AAACTATCTCAAGGAGA-AAAAAATTAATTTCAAGGGAAA
7033537 TGTTTTCAA
1 TGTTTTCAA
7033546 GAGAAACTGT
Statistics
Matches: 196, Mismatches: 16, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
101 44 0.22
102 1 0.01
103 34 0.17
104 27 0.14
105 35 0.18
106 55 0.28
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (104 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAAGGAGAAAAAAATTAATTTCAAGGGAAA
Found at i:7033611 original size:39 final size:39
Alignment explanation
Indices: 7033540--7033616 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 39
7033530 AGGGAAATGT
* ** *
7033540 TTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTG
1 TTTCAAGAGAAACTATCTCAAGCAAGACAAAATCTTCTG
* *
7033579 TTTCGAGAGAAACTATCTCAAGCAAGATAAAATCTTCT
1 TTTCAAGAGAAACTATCTCAAGCAAGACAAAATCTTCT
7033617 TAAAAAAACA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.29
Consensus pattern (39 bp):
TTTCAAGAGAAACTATCTCAAGCAAGACAAAATCTTCTG
Found at i:7033721 original size:36 final size:36
Alignment explanation
Indices: 7033676--7033790 Score: 110
Period size: 36 Copynumber: 3.2 Consensus size: 36
7033666 GGTCTCAAGC
*
7033676 GAGACAAATCTTGTTTTAAGAAAAACAATCTTGAGT
1 GAGATAAATCTTGTTTTAAGAAAAACAATCTTGAGT
* * * **
7033712 GAAATAAATCTT-TTTTCGAGAAAAACAGTCTCAAGT
1 GAGATAAATCTTGTTTT-AAGAAAAACAATCTTGAGT
* *
7033748 GAGACAAAGT-ATGTTTTAAGAAAAACAAAT-TTGAGT
1 GAGATAAA-TCTTGTTTTAAGAAAAAC-AATCTTGAGT
7033784 GAGATAA
1 GAGATAA
7033791 TCATCTGCAT
Statistics
Matches: 61, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
35 4 0.07
36 50 0.82
37 7 0.11
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (36 bp):
GAGATAAATCTTGTTTTAAGAAAAACAATCTTGAGT
Found at i:7033763 original size:72 final size:74
Alignment explanation
Indices: 7033616--7033790 Score: 198
Period size: 72 Copynumber: 2.4 Consensus size: 74
7033606 TAAAATCTTC
** * **
7033616 TTAA-AAAAACAGCCTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAATGGTCTCAAGCGAGA
1 TTAAGAAAAACAATCTTGAGTGAAAT-AAAT-CCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGA
*
7033680 CAAATCTTGTT
64 CAAATCATGTT
* *
7033691 TTAAGAAAAACAATCTTGAGTGAAATAAAT-CTTTTTTCGAG-AAAAACAGTCTCAAGTGAGACA
1 TTAAGAAAAACAATCTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACA
7033754 AAGT-ATGTT
66 AA-TCATGTT
*
7033763 TTAAGAAAAACAAAT-TTGAGTGAGATAA
1 TTAAGAAAAAC-AATCTTGAGTGAAATAA
7033791 TCATCTGCAT
Statistics
Matches: 88, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
72 47 0.53
73 14 0.16
75 8 0.09
76 19 0.22
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (74 bp):
TTAAGAAAAACAATCTTGAGTGAAATAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGACA
AATCATGTT
Found at i:7035235 original size:183 final size:183
Alignment explanation
Indices: 7034914--7035450 Score: 941
Period size: 183 Copynumber: 2.9 Consensus size: 183
7034904 ATCAGGTTTA
* * * *
7034914 ACTGAAAGGTTCATCTCATCACAAAGTCTTTGACATGACAAAAGTAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* * **
7034979 GCCAAGTATCCGAGCAATGTCAT-GATTTGAATGTAATCTATTCATAAAGCCAGGGCTTTCGAGT
66 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
*
7035043 TTCCTCTATAACCAATTGACTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
* *
7035097 ACTGAAGGGTTCGTCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGTGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
*
7035162 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACAAAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
7035227 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
7035280 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
7035345 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
*
7035410 TCCTCTATAACCAATTGCCTTAGTAGAATAGCTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
7035451 CGGATTTAAT
Statistics
Matches: 337, Mismatches: 16, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
183 336 1.00
184 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAGAGGGACAAATC
Found at i:7040848 original size:20 final size:21
Alignment explanation
Indices: 7040809--7040848 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
7040799 AGGAAAAAAT
* *
7040809 AAAATAAATAAGTAAGATAAG
1 AAAAAAAATAAGTAAAATAAG
7040830 AAAAAAAAT-AGTAAAATAA
1 AAAAAAAATAAGTAAAATAA
7040849 TAATTATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (21 bp):
AAAAAAAATAAGTAAAATAAG
Found at i:7041435 original size:60 final size:57
Alignment explanation
Indices: 7041322--7041440 Score: 148
Period size: 58 Copynumber: 2.0 Consensus size: 57
7041312 ACTTATAAGT
* * *
7041322 AAAATATTAAATAAATATATATATATATATAATAAAAATATAGTAAAAAAATAAATG
1 AAAATATTAAATAAATATATATACATATATAATAAAAACATAATAAAAAAATAAATG
* * * *
7041379 AAAATAATTTAATATATATATATACATATAATAATAATAACATGAATAATAAAATAAATG
1 AAAAT-ATTAAATAAATATATATACATAT-ATAATAAAAACAT-AATAAAAAAATAAATG
7041439 AA
1 AA
7041441 TAAAATATCC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 5 0.10
58 20 0.38
59 11 0.21
60 16 0.31
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (57 bp):
AAAATATTAAATAAATATATATACATATATAATAAAAACATAATAAAAAAATAAATG
Found at i:7041594 original size:14 final size:14
Alignment explanation
Indices: 7041575--7041603 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
7041565 CGAAACCCCA
7041575 CCCATTTTGGTCAT
1 CCCATTTTGGTCAT
7041589 CCCATTTTGGTCAT
1 CCCATTTTGGTCAT
7041603 C
1 C
7041604 GGCGCAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.31, G:0.14, T:0.41
Consensus pattern (14 bp):
CCCATTTTGGTCAT
Found at i:7041868 original size:37 final size:37
Alignment explanation
Indices: 7041818--7041922 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
7041808 GTGCTTGTGG
* * * *
7041818 ATCCTATCTTTAGGAATTTAAATCTTAGTATAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTATAACTCT
* * *
7041855 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTATAACTCT
7041892 ATCCTATTTTTAGGAGTTTGAATCCTAGTAT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAT
7041923 GACGAAAATG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTATAACTCT
Found at i:7043505 original size:87 final size:87
Alignment explanation
Indices: 7043359--7043536 Score: 329
Period size: 87 Copynumber: 2.0 Consensus size: 87
7043349 AAACTCAAGT
7043359 TTTAGGATATTATTTTAAATATTATATTTTATCTTATCTTTGTTTTAGATATTTTAGTTTAAATA
1 TTTAGGATATTATTTTAAATATTATATTTTATCTTATCTTTGTTTTAGATATTTTAGTTTAAATA
7043424 GTTTTAAGTATTTTAATTAGAA
66 GTTTTAAGTATTTTAATTAGAA
* *
7043446 TTTAGGATATTATTTTAAATATTATATTTTATCTTATTTTTGTTTTAGGTATTTTAGTTTAAATA
1 TTTAGGATATTATTTTAAATATTATATTTTATCTTATCTTTGTTTTAGATATTTTAGTTTAAATA
*
7043511 GTTTTAAGTATTTTAATTAGGA
66 GTTTTAAGTATTTTAATTAGAA
7043533 TTTA
1 TTTA
7043537 TTTTCTTTAT
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 88 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (87 bp):
TTTAGGATATTATTTTAAATATTATATTTTATCTTATCTTTGTTTTAGATATTTTAGTTTAAATA
GTTTTAAGTATTTTAATTAGAA
Found at i:7061596 original size:25 final size:24
Alignment explanation
Indices: 7061568--7061627 Score: 74
Period size: 20 Copynumber: 2.6 Consensus size: 24
7061558 CTTTAAAAAT
7061568 AAAAATAAAAACAAAGAAAACTTCG
1 AAAAATAAAAA-AAAGAAAACTTCG
7061593 AAAAAT----AAAAGAAAACTTCG
1 AAAAATAAAAAAAAGAAAACTTCG
7061613 AAAAATAAAAGAAAA
1 AAAAATAAAA-AAAA
7061628 CTTTTATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
20 19 0.63
21 1 0.03
25 10 0.33
ACGTcount: A:0.72, C:0.08, G:0.08, T:0.12
Consensus pattern (24 bp):
AAAAATAAAAAAAAGAAAACTTCG
Found at i:7061603 original size:20 final size:20
Alignment explanation
Indices: 7061580--7061630 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
7061570 AAATAAAAAC
7061580 AAAGAAAACTTCGAAAAATA
1 AAAGAAAACTTCGAAAAATA
7061600 AAAGAAAACTTCGAAAAATA
1 AAAGAAAACTTCGAAAAATA
7061620 AAAGAAAACTT
1 AAAGAAAACTT
7061631 TTATAAAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.65, C:0.10, G:0.10, T:0.16
Consensus pattern (20 bp):
AAAGAAAACTTCGAAAAATA
Found at i:7061758 original size:20 final size:20
Alignment explanation
Indices: 7061733--7061771 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7061723 AATAATGAAA
*
7061733 AGATAATTCTTAAAAATAAG
1 AGATAATTCCTAAAAATAAG
7061753 AGATAATTCCTAAAAATAA
1 AGATAATTCCTAAAAATAA
7061772 TTCTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (20 bp):
AGATAATTCCTAAAAATAAG
Found at i:7061931 original size:12 final size:12
Alignment explanation
Indices: 7061914--7061945 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
7061904 CGTCAGATGC
7061914 GTCATGCCCAGA
1 GTCATGCCCAGA
7061926 GTCATGCCCAGA
1 GTCATGCCCAGA
7061938 GTCATGCC
1 GTCATGCC
7061946 TACTAATCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.22, C:0.34, G:0.25, T:0.19
Consensus pattern (12 bp):
GTCATGCCCAGA
Found at i:7062372 original size:10 final size:10
Alignment explanation
Indices: 7062352--7062386 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
7062342 ACATGACTCA
7062352 ATATCTCACAC
1 ATAT-TCACAC
7062363 ATATTCACAC
1 ATATTCACAC
*
7062373 AGATTCACAC
1 ATATTCACAC
7062383 ATAT
1 ATAT
7062387 CCGCTCAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.40, C:0.29, G:0.03, T:0.29
Consensus pattern (10 bp):
ATATTCACAC
Found at i:7064172 original size:20 final size:20
Alignment explanation
Indices: 7064147--7064184 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7064137 TAATGAAAAG
*
7064147 ATAATTCTTAAAAATAATAA
1 ATAATTCCTAAAAATAATAA
*
7064167 ATAATTCCTAAAAGTAAT
1 ATAATTCCTAAAAATAAT
7064185 TCTTAAAATA
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:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
ATAATTCCTAAAAATAATAA
Found at i:7081542 original size:20 final size:19
Alignment explanation
Indices: 7081498--7081543 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
7081488 CATGAATTGA
7081498 TTTTTTTTAATAAAATATT
1 TTTTTTTTAATAAAATATT
7081517 TGTTTTTTTAATAAAATATAT
1 T-TTTTTTTAATAAAATAT-T
7081538 TTTTTT
1 TTTTTT
7081544 AATTTAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 22 0.88
21 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTTTTTAATAAAATATT
Found at i:7082365 original size:33 final size:34
Alignment explanation
Indices: 7082290--7082373 Score: 109
Period size: 33 Copynumber: 2.5 Consensus size: 34
7082280 ATTTTGGTAT
*
7082290 TCGGGTCGGATTTTTTT-TAAAAAACTTTCAGGA
1 TCGGGTCGGATTTTTTTATAAAAAACATTCAGGA
** * *
7082323 TCGATTCGGATTTTTTTATAAAAAA-ATTCGGGC
1 TCGGGTCGGATTTTTTTATAAAAAACATTCAGGA
7082356 TCGGGTCGGATTTTTTTA
1 TCGGGTCGGATTTTTTTA
7082374 AGTTTGATAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
33 36 0.84
34 7 0.16
ACGTcount: A:0.25, C:0.12, G:0.21, T:0.42
Consensus pattern (34 bp):
TCGGGTCGGATTTTTTTATAAAAAACATTCAGGA
Found at i:7082393 original size:39 final size:36
Alignment explanation
Indices: 7082350--7082538 Score: 129
Period size: 37 Copynumber: 5.2 Consensus size: 36
7082340 ATAAAAAAAT
*
7082350 TCGGGCTCGGGTCGGATTTTTTTAAGTTTGATATTCGGG
1 TCGGG-TC-GGTCGG-TTTTTTTAAGTGTGATATTCGGG
** *** * *
7082389 TCGGGTCATTCAGGTTTTTTTAA--AAAAT-TTCAAGA
1 TCGGGTCGGTC-GGTTTTTTTAAGTGTGATATTC-GGG
* *
7082424 TCGGGTC-G--GGTTTTTTTAAATTTGATATTCGGG
1 TCGGGTCGGTCGGTTTTTTTAAGTGTGATATTCGGG
* *
7082457 TCGGGTCAGTTAGGTTTTTTTAAGTGTGATATTCGGG
1 TCGGGTC-GGTCGGTTTTTTTAAGTGTGATATTCGGG
*
7082494 TCGGGGTCGGGCCGAGTTTTTTTAAGTGTGATATTCGGG
1 TC-GGGTC-GGTCG-GTTTTTTTAAGTGTGATATTCGGG
*
7082533 TAGGGT
1 TCGGGT
7082539 TCGAGTTTAG
Statistics
Matches: 118, Mismatches: 21, Indels: 23
0.73 0.13 0.14
Matches are distributed among these distances:
31 11 0.09
33 10 0.08
34 6 0.05
35 10 0.08
37 36 0.31
38 15 0.13
39 30 0.25
ACGTcount: A:0.17, C:0.11, G:0.31, T:0.41
Consensus pattern (36 bp):
TCGGGTCGGTCGGTTTTTTTAAGTGTGATATTCGGG
Found at i:7103174 original size:16 final size:16
Alignment explanation
Indices: 7103153--7103184 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
7103143 TTGGGTTTGA
7103153 AAAAATATTTTAAAAT
1 AAAAATATTTTAAAAT
*
7103169 AAAAATATTTTGAAAT
1 AAAAATATTTTAAAAT
7103185 TATATTAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (16 bp):
AAAAATATTTTAAAAT
Found at i:7111722 original size:27 final size:27
Alignment explanation
Indices: 7111691--7111785 Score: 176
Period size: 27 Copynumber: 3.6 Consensus size: 27
7111681 TCTATTTACA
7111691 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
7111718 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
7111745 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGGTAAC
7111772 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
7111786 ATTCCTACAC
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
25 9 0.13
27 59 0.87
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.31
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGGTAAC
Found at i:7114408 original size:64 final size:65
Alignment explanation
Indices: 7114262--7114416 Score: 158
Period size: 64 Copynumber: 2.4 Consensus size: 65
7114252 GAAGGTGTAT
* *** *
7114262 CGATGCATTAGTAGTGCATCGATGCA-CTCTTTTAAAATAAATACATCGAATACAATTAGTGCAT
1 CGATGCATAAGTAGTGCATCGATGCATCTCCAGTAAAATAAATACATCGAATACAATTAGTGCAC
* * *
7114326 CGATGCATAAGGCA-TGCATCGATGCATC-CCAGTAATAATACA-ACATCGAATACATTTTA-TG
1 CGATGCATAA-GTAGTGCATCGATGCATCTCCAGTAA-AATAAATACATCGAATACA-ATTAGTG
7114387 CAC
63 CAC
* *
7114390 CGATGCATCAGTAGTGCATCAATGCAT
1 CGATGCATAAGTAGTGCATCGATGCAT
7114417 ACCTTCATTA
Statistics
Matches: 75, Mismatches: 11, Indels: 10
0.78 0.11 0.10
Matches are distributed among these distances:
63 2 0.03
64 62 0.83
65 11 0.15
ACGTcount: A:0.35, C:0.21, G:0.17, T:0.28
Consensus pattern (65 bp):
CGATGCATAAGTAGTGCATCGATGCATCTCCAGTAAAATAAATACATCGAATACAATTAGTGCAC
Found at i:7115111 original size:31 final size:31
Alignment explanation
Indices: 7115073--7115197 Score: 200
Period size: 31 Copynumber: 4.0 Consensus size: 31
7115063 AGGGTCGAGG
7115073 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
7115104 GTTTACCTATGTTCTTCGGGATATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
7115135 ATTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
7115166 GTTTACCTA-GATTCTTCGGGATC-TATGGACT
1 GTTTACCTATG-TTCTTCGGGA-CATATGGACT
7115197 G
1 G
7115198 GTCCTTCGGG
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
30 1 0.01
31 86 0.98
32 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.39
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:7115171 original size:62 final size:62
Alignment explanation
Indices: 7115074--7115196 Score: 221
Period size: 62 Copynumber: 2.0 Consensus size: 62
7115064 GGGTCGAGGG
7115074 TTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTATG-TTCTTCGGGATATATGGACTA
1 TTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTA-GATTCTTCGGGATATATGGACTA
*
7115136 TTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTAGATTCTTCGGGATCTATGGACT
1 TTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTAGATTCTTCGGGATATATGGACT
7115197 GGTCCTTCGG
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
61 1 0.02
62 58 0.98
ACGTcount: A:0.20, C:0.19, G:0.21, T:0.40
Consensus pattern (62 bp):
TTTACCTATGTTCTTCGGGACATATGGACTGTTTACCTAGATTCTTCGGGATATATGGACTA
Found at i:7118230 original size:27 final size:27
Alignment explanation
Indices: 7118199--7118266 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
7118189 TATATTTACA
*
7118199 AAATCATATCTCTATAGGAATGGTAAC
1 AAATCATATCTCTATAGGAATGATAAC
7118226 AAATCATATCTCTATAGGAATGATAAC
1 AAATCATATCTCTATAGGAATGATAAC
7118253 AAATC--ATCTCTATA
1 AAATCATATCTCTATA
7118267 ATTCCTACAC
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
25 9 0.22
27 31 0.77
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (27 bp):
AAATCATATCTCTATAGGAATGATAAC
Found at i:7124975 original size:16 final size:16
Alignment explanation
Indices: 7124954--7124986 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7124944 CACGTGAGGA
7124954 TTATTT-TCTTCTTATT
1 TTATTTATCTT-TTATT
7124970 TTATTTATCTTTTATT
1 TTATTTATCTTTTATT
7124986 T
1 T
7124987 ATTGTTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTATCTTTTATT
Found at i:7125666 original size:18 final size:17
Alignment explanation
Indices: 7125645--7125687 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
7125635 ATATATACAT
7125645 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
7125663 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
7125680 ATAA-AATA
1 ATAATAATA
7125688 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:7126979 original size:105 final size:105
Alignment explanation
Indices: 7126680--7127310 Score: 844
Period size: 105 Copynumber: 6.0 Consensus size: 105
7126670 GCATTGTTCC
* * ** *
7126680 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACA
* * * * *
7126744 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
64 AGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * ** * *
7126786 GAGACTAATATCCTTCACTGTGAAGTTGAAATTGACTCTGA-A-T--GAAATT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
*
7126846 CAGCGGTCCCTTCGTCGTGGAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
7126886 GAGTCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* *
7126951 CAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTTTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
7126991 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
* *
7127056 CAGCAGTCCCTTCGTCGTGAAGTTGAACTTTCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
7127096 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
** *
7127161 CAGCGGTCCCTTCGTTATGAAGTTGAACTTGTGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
7127201 GAGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTAACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAA
* * * *
7127266 CCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
65 GCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
7127307 GAGT
1 GAGT
7127311 GTCACGATAT
Statistics
Matches: 472, Mismatches: 45, Indels: 16
0.89 0.08 0.03
Matches are distributed among these distances:
100 80 0.17
101 1 0.00
102 7 0.01
104 5 0.01
105 296 0.63
106 82 0.17
107 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:7127570 original size:36 final size:36
Alignment explanation
Indices: 7127514--7127584 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
7127504 TGGAGAGAAA
* *
7127514 CTGTCTCAAGGGAGACAAAATTCGTTTCAAGGGAAG
1 CTGTCTCAAGCGAGACAAAATTCATTTCAAGGGAAG
*
7127550 CTGTCTCAAGCGAGATAAAATTCATTTCAAGGGAA
1 CTGTCTCAAGCGAGACAAAATTCATTTCAAGGGAA
7127585 ATGTTTTCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (36 bp):
CTGTCTCAAGCGAGACAAAATTCATTTCAAGGGAAG
Found at i:7127706 original size:105 final size:104
Alignment explanation
Indices: 7127485--7127803 Score: 500
Period size: 105 Copynumber: 3.1 Consensus size: 104
7127475 TTCGTTAAAT
* ** *
7127485 TGTTTTCAAAGTTTATGTTTGGAGAGAAACTGTCTCAAGGGAGACAAAA--TTC-GTTTCAAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* * * *
7127547 AAGCTGTCTCAAGCGAGATAAAATTCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
7127586 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
*
7127651 AAACTATCTCAAGAGAGAAAAAAAATCATTTCAAGGGAAA
66 AAACTATCTCAAGAGAG-AAAAAATTCATTTCAAGGGAAA
*
7127691 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTATGTTTCGAGGG
1 TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
* *
7127756 AAACTATCTCATGAGAGAAAAAATTAATTTCAAGGGAAA
66 AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
7127795 TGTTTTCAA
1 TGTTTTCAA
7127804 GAGAAATTGT
Statistics
Matches: 201, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
101 46 0.23
103 3 0.01
104 52 0.26
105 100 0.50
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (104 bp):
TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTTCTGTTTCGAGGG
AAACTATCTCAAGAGAGAAAAAATTCATTTCAAGGGAAA
Found at i:7127759 original size:39 final size:39
Alignment explanation
Indices: 7127702--7127780 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
7127692 GTTTTCAATG
* * *
7127702 TTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT
1 TTTATGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAAT
* * *
7127741 TTTATGTTTCGAGGGAAACTATCTCATGAGAGAAAAAAT
1 TTTATGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAAT
7127780 T
1 T
7127781 AATTTCAAGG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.30
Consensus pattern (39 bp):
TTTATGTTTCAAGAGAAACTATCTCAAGAGAGAAAAAAT
Found at i:7128026 original size:72 final size:75
Alignment explanation
Indices: 7127874--7128044 Score: 190
Period size: 72 Copynumber: 2.3 Consensus size: 75
7127864 TAAAATCTTC
* ** * * *
7127874 TTAAAAAAAATAGCCTTGAGTGAAATGAAATGCCTTCTTTCGAGTGAAAACGGTCTTAAGCGAGA
1 TTAAGAAAAATAATCTTGAGTGAAATGAAAT-CCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGA
*
7127939 CAAATCTTGTT
65 CAAATCATGTT
* *
7127950 TTAAGAAAAATAATCTTGAGTGAAATG-AAT-CTTCTTTCGAG-AAAAACATTCTCAAGTGAGAC
1 TTAAGAAAAATAATCTTGAGTGAAATGAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGAC
7128012 AAAGT-ATGTT
66 AAA-TCATGTT
*
7128022 TTAAGAAAAACAAAT-TTGAGTGA
1 TTAAGAAAAA-TAATCTTGAGTGA
7128045 GATAATCATC
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
72 41 0.49
73 15 0.18
75 3 0.04
76 24 0.29
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (75 bp):
TTAAGAAAAATAATCTTGAGTGAAATGAAATCCTTCTTTCGAGTAAAAACAGTCTCAAGCGAGAC
AAATCATGTT
Found at i:7129505 original size:183 final size:183
Alignment explanation
Indices: 7129190--7129726 Score: 950
Period size: 183 Copynumber: 2.9 Consensus size: 183
7129180 ATCAGGTTTA
* *
7129190 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGACCTGACAAAAGTAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* ** * *
7129255 GCCAAGTGTCCGAGCAATGTCAT-GATTTGAATGTAATATATTCATAAAGCCATGGCTTTCGAGT
66 GCCAAGTGTCCGAGCAGTGTCATAG-TTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGT
7129319 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAAAGGGACAAATC
130 TTCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAAAGGGACAAATC
7129373 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
* *
7129438 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGTCAGGGCTTTCTAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
* *
7129503 TCCTCTATAACCAATTGCCTTAGTGGAATAGCACAGCTTTAGAGGGACAAATC
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAAAGGGACAAATC
7129556 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
1 ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
*
7129621 GCCATGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
66 GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
7129686 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
131 TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTA
7129727 CGGATTTAAT
Statistics
Matches: 338, Mismatches: 15, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
183 337 1.00
184 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (183 bp):
ACTGAAGGGTTCATCTCATCACAAAGTCTTTGGCCTGACAAAAGCAGTGGAGCAAACACCGAATT
GCCAAGTGTCCGAGCAGTGTCATAGTTTGAACATAATCTATTCATAAAGCCAGGGCTTTCGAGTT
TCCTCTATAACCAATTGCCTTAGTGGAATAGCTCAGCTTTAAAGGGACAAATC
Found at i:7134013 original size:18 final size:17
Alignment explanation
Indices: 7133992--7134034 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
7133982 ATATATACAT
7133992 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
7134010 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
7134027 ATAA-AATA
1 ATAATAATA
7134035 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:7134020 original size:57 final size:55
Alignment explanation
Indices: 7133917--7134022 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
7133907 TATTAAAGAA
* *
7133917 ATATATATATATATATAATAAAATATAGTAAAAAAATAAATGAAAATAATTTAAT
1 ATATATATATATATATAATAAAATATAATAAAAAAATAAATAAAAATAATTTAAT
* **
7133972 ATATATATATATATATACATATAATAATAATAACATGAAT-AATAAAAATAA
1 ATATATATATATATATA-ATAAAAT-ATAATAA-AAAAATAAATAAAAATAA
7134023 ATGAATAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
55 17 0.40
56 6 0.14
57 16 0.37
58 4 0.09
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (55 bp):
ATATATATATATATATAATAAAATATAATAAAAAAATAAATAAAAATAATTTAAT
Found at i:7134457 original size:37 final size:37
Alignment explanation
Indices: 7134391--7134494 Score: 136
Period size: 37 Copynumber: 2.8 Consensus size: 37
7134381 GTGCTTGTAG
* * * * *
7134391 ATCCTATCTTTAAGAATTTAAATCTTAGTAGAACTCT
1 ATCCTATTTTTAAGAGTTTGAATCCTAGTAAAACTCT
* * *
7134428 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAATTTT
1 ATCCTATTTTTAAGAGTTTGAATCCTAGTAAAACTCT
7134465 ATCCTATTTTTAAGAGTTTGAATCCTAGTA
1 ATCCTATTTTTAAGAGTTTGAATCCTAGTA
7134495 TGACGAAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (37 bp):
ATCCTATTTTTAAGAGTTTGAATCCTAGTAAAACTCT
Found at i:7138903 original size:19 final size:18
Alignment explanation
Indices: 7138879--7138916 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
7138869 AGACATTATC
*
7138879 AACCTAAAATGTTATGTTT
1 AACCTAAAATATTAT-TTT
7138898 AACCTAAAATATTATTTT
1 AACCTAAAATATTATTTT
7138916 A
1 A
7138917 TCTAACTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.42, C:0.11, G:0.05, T:0.42
Consensus pattern (18 bp):
AACCTAAAATATTATTTT
Found at i:7140976 original size:12 final size:12
Alignment explanation
Indices: 7140944--7140977 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
7140934 TGTCAGGTGA
7140944 GTTTTAGTGGGG
1 GTTTTAGTGGGG
* *
7140956 GATTAAGTGGGG
1 GTTTTAGTGGGG
7140968 GTTTTAGTGG
1 GTTTTAGTGG
7140978 ATTAGGTGGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.15, C:0.00, G:0.47, T:0.38
Consensus pattern (12 bp):
GTTTTAGTGGGG
Found at i:7166328 original size:18 final size:18
Alignment explanation
Indices: 7166305--7166340 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
7166295 CAGTATGCTT
7166305 GGGATGATCTTGTCCAAG
1 GGGATGATCTTGTCCAAG
7166323 GGGATGATCTTGTCCAAG
1 GGGATGATCTTGTCCAAG
7166341 AGGTACATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.33, T:0.28
Consensus pattern (18 bp):
GGGATGATCTTGTCCAAG
Found at i:7170744 original size:20 final size:20
Alignment explanation
Indices: 7170719--7170763 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
7170709 TTATCCGGAA
7170719 AAAAATCCGATCTGGGGTTT
1 AAAAATCCGATCTGGGGTTT
* * *
7170739 AAAAATCCGGTTTGGTGTTT
1 AAAAATCCGATCTGGGGTTT
7170759 AAAAA
1 AAAAA
7170764 ATTGGATAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (20 bp):
AAAAATCCGATCTGGGGTTT
Found at i:7177846 original size:24 final size:26
Alignment explanation
Indices: 7177813--7177882 Score: 72
Period size: 27 Copynumber: 2.7 Consensus size: 26
7177803 AATAATTGTA
* * *
7177813 TAATATTTTTATATTATTTTTTAA-T
1 TAATAATTTTATATTATTTATAAAGT
* *
7177838 TAA-AATTTTATTTTATTAAATAAAGT
1 TAATAATTTTATATTATT-TATAAAGT
7177864 TAATAATTTTATATTATTT
1 TAATAATTTTATATTATTT
7177883 GAGATAAGAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
24 12 0.34
25 6 0.17
26 4 0.11
27 13 0.37
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (26 bp):
TAATAATTTTATATTATTTATAAAGT
Found at i:7182313 original size:21 final size:21
Alignment explanation
Indices: 7182287--7182328 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
7182277 CCAGAATGGG
*
7182287 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
*
7182308 GGGAATCGATATCCCTTCATA
1 GGGAATCGATACCCCTTCATA
7182329 ATATTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:7182462 original size:15 final size:15
Alignment explanation
Indices: 7182442--7182497 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
7182432 AACCATGCAG
7182442 GGGGAATCTGTACCC
1 GGGGAATCTGTACCC
7182457 GGGGAATC-GATACCC
1 GGGGAATCTG-TACCC
* *
7182472 TTGGGGGAATCTGTTCTC
1 ---GGGGAATCTGTACCC
7182490 GGGGAATC
1 GGGGAATC
7182498 GATACCCCCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 1 0.03
15 21 0.62
18 11 0.32
19 1 0.03
ACGTcount: A:0.20, C:0.21, G:0.36, T:0.23
Consensus pattern (15 bp):
GGGGAATCTGTACCC
Found at i:7182514 original size:19 final size:19
Alignment explanation
Indices: 7182490--7182548 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 19
7182480 ATCTGTTCTC
7182490 GGGGAATC-GATACCCCCTG
1 GGGGAATCTG-TACCCCCTG
*
7182509 GGGGAATCTGTTCCCCCTAG
1 GGGGAATCTGTACCCCCT-G
*
7182529 GGAGAATCTGTACCCCCTG
1 GGGGAATCTGTACCCCCTG
7182548 G
1 G
7182549 ACAATCTGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.19, C:0.31, G:0.31, T:0.20
Consensus pattern (19 bp):
GGGGAATCTGTACCCCCTG
Found at i:7182516 original size:34 final size:33
Alignment explanation
Indices: 7182441--7182523 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
7182431 AAACCATGCA
* *
7182441 GGGGGAATCTGTACCCGGGGAATCGATACCCTT
1 GGGGGAATCTGTTCCCGGGGAATCGATACCCCT
*
7182474 GGGGGAATCTGTTCTCGGGGAATCGATACCCCCT
1 GGGGGAATCTGTTCCCGGGGAATCGATA-CCCCT
7182508 GGGGGAATCTGTTCCC
1 GGGGGAATCTGTTCCC
7182524 CCTAGGGAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 26 0.58
34 19 0.42
ACGTcount: A:0.18, C:0.25, G:0.34, T:0.23
Consensus pattern (33 bp):
GGGGGAATCTGTTCCCGGGGAATCGATACCCCT
Found at i:7182556 original size:18 final size:19
Alignment explanation
Indices: 7182513--7182556 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
7182503 CCCCTGGGGG
* *
7182513 AATCTGTTCCCCCTAGGGAG
1 AATCTGTACCCCCTA-GGAC
7182533 AATCTGTACCCCCT-GGAC
1 AATCTGTACCCCCTAGGAC
7182551 AATCTG
1 AATCTG
7182557 ATTTTTCTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
20 13 0.59
ACGTcount: A:0.23, C:0.32, G:0.20, T:0.25
Consensus pattern (19 bp):
AATCTGTACCCCCTAGGAC
Found at i:7184021 original size:19 final size:20
Alignment explanation
Indices: 7183978--7184025 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
7183968 TCTAAATCCT
*
7183978 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
7183998 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
7184017 TTTTCAAAA
1 TTTTCAAAA
7184026 GAAAATCGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:7185269 original size:21 final size:21
Alignment explanation
Indices: 7185243--7185284 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
7185233 TCAGAATGGG
7185243 GGGAATCTG-TACCCCTTCATA
1 GGGAATC-GATACCCCTTCATA
7185264 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
7185285 ATATTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:7185449 original size:34 final size:35
Alignment explanation
Indices: 7185396--7185480 Score: 106
Period size: 34 Copynumber: 2.5 Consensus size: 35
7185386 CAAACCATGC
*
7185396 AGGGGGAATATG-TACCCGGGGAATC-GATACCCCT
1 AGGGGGAATCTGTTACCCGGGGAATCTG-TACCCCT
*
7185430 AGGGGGAATCTGTTA-CCGGGGAATCTGTTCCCCT
1 AGGGGGAATCTGTTACCCGGGGAATCTGTACCCCT
*
7185464 GGGGGGAATCTG-TACCC
1 AGGGGGAATCTGTTACCC
7185481 CTTGGACAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
33 2 0.04
34 40 0.89
35 3 0.07
ACGTcount: A:0.21, C:0.24, G:0.34, T:0.21
Consensus pattern (35 bp):
AGGGGGAATCTGTTACCCGGGGAATCTGTACCCCT
Found at i:7191150 original size:20 final size:20
Alignment explanation
Indices: 7191121--7191181 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 20
7191111 TCATCATGCT
*
7191121 CGAAATACTTACTGATGGCC
1 CGAAAGACTTACTGATGGCC
* *
7191141 CGAAAGACTTCATCATCAT-GCT
1 CGAAAGACTT-A-C-TGATGGCC
7191163 CGAAAGACTTACTGATGGC
1 CGAAAGACTTACTGATGGC
7191182 ACTTACTGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
19 3 0.09
20 12 0.36
21 2 0.06
22 13 0.39
23 3 0.09
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.25
Consensus pattern (20 bp):
CGAAAGACTTACTGATGGCC
Found at i:7191159 original size:122 final size:123
Alignment explanation
Indices: 7190951--7191315 Score: 371
Period size: 135 Copynumber: 2.9 Consensus size: 123
7190941 TTGCTCTAAC
* ** * * * **
7190951 ACTCTTCCGAGAAGGCTTA-AAATGGCCCGAAGGACTT-ATCATCTTGCTCGAAAGACTTACAAA
1 ACTCTTCCGGGAAGGCTTACAAATTACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGA
* *
7191014 TGACCCGAATGATTTAAAT-ATCATGCTCGAAAGACTTACTGATGGA-TTTGCTTCACT
66 TGGCCCGAAAGATTT-AATCATCATGCTCGAAAGACTTACTGATGGAGTTTGCTTCACT
* * *
7191071 ACTCTT-CGGTGAATGCTTACAAATTATCCAAAGGATTTAATCATCATGCTCGAAATACTTACTG
1 ACTCTTCCGG-GAAGGCTTACAAATTACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTG
* *
7191135 ATGGCCCGAAAGACTTCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGGTTTGC
65 ATGGCCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGAT-G--------GA---GTTTGC
7191200 TTCACT
118 TTCACT
* * *
7191206 ACTCTTCCGGGAAGGCTTATAAATTACCCTAAGGATTTAATTATCATGCTCGAAAGACTTACTGA
1 ACTCTTCCGGGAAGGCTTACAAATTACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGA
* * * *
7191271 TAGCCCTAAAGATTTAAGCATCATGCTCGAAAGACTTATTGATGG
66 TGGCCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGG
7191316 CCCGAAGGAC
Statistics
Matches: 200, Mismatches: 27, Indels: 30
0.78 0.11 0.12
Matches are distributed among these distances:
119 2 0.01
120 14 0.07
121 15 0.08
122 58 0.29
123 1 0.00
126 1 0.00
131 2 0.01
134 1 0.00
135 103 0.51
136 3 0.01
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (123 bp):
ACTCTTCCGGGAAGGCTTACAAATTACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGA
TGGCCCGAAAGATTTAATCATCATGCTCGAAAGACTTACTGATGGAGTTTGCTTCACT
Found at i:7191166 original size:22 final size:21
Alignment explanation
Indices: 7191110--7191173 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
7191100 AAAGGATTTA
*
7191110 ATCATCATGCTCGAAATACTT
1 ATCATCATGCTCGAAAGACTT
* *
7191131 A-C-TGATGGCCCGAAAGACTT
1 ATCATCAT-GCTCGAAAGACTT
7191151 CATCATCATGCTCGAAAGACTT
1 -ATCATCATGCTCGAAAGACTT
7191173 A
1 A
7191174 CTGATGGCAC
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
19 3 0.09
20 12 0.35
21 3 0.09
22 13 0.38
23 3 0.09
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (21 bp):
ATCATCATGCTCGAAAGACTT
Found at i:7191187 original size:13 final size:13
Alignment explanation
Indices: 7191169--7191193 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7191159 TGCTCGAAAG
7191169 ACTTACTGATGGC
1 ACTTACTGATGGC
7191182 ACTTACTGATGG
1 ACTTACTGATGG
7191194 GTTTGCTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:7191293 original size:135 final size:135
Alignment explanation
Indices: 7191047--7191316 Score: 407
Period size: 135 Copynumber: 2.0 Consensus size: 135
7191037 TGCTCGAAAG
* *
7191047 ACTTACTGATGGATTTGCTTCACTACTCTTCGGTGAATGCTTACAAATTATCCAAAGGATTTAAT
1 ACTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTACAAATTACCCAAAGGATTTAAT
* * * *
7191112 CATCATGCTCGAAATACTTACTGATGGCCCGAAAGACTTCATCATCATGCTCGAAAGACTTACTG
66 CATCATGCTCGAAAGACTTACTGATAGCCCGAAAGACTTAAGCATCATGCTCGAAAGACTTACTG
7191177 ATGGC
131 ATGGC
* * *
7191182 ACTTACTGATGGGTTTGCTTCACTACTCTTCCGG-GAAGGCTTATAAATTACCCTAAGGATTTAA
1 ACTTACTGATGGATTTGCTTCACTACTCTT-CGGTGAAGGCTTACAAATTACCCAAAGGATTTAA
* * * *
7191246 TTATCATGCTCGAAAGACTTACTGATAGCCCTAAAGATTTAAGCATCATGCTCGAAAGACTTATT
65 TCATCATGCTCGAAAGACTTACTGATAGCCCGAAAGACTTAAGCATCATGCTCGAAAGACTTACT
7191311 GATGGC
130 GATGGC
7191317 CCGAAGGACT
Statistics
Matches: 121, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
135 118 0.98
136 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (135 bp):
ACTTACTGATGGATTTGCTTCACTACTCTTCGGTGAAGGCTTACAAATTACCCAAAGGATTTAAT
CATCATGCTCGAAAGACTTACTGATAGCCCGAAAGACTTAAGCATCATGCTCGAAAGACTTACTG
ATGGC
Found at i:7191294 original size:42 final size:42
Alignment explanation
Indices: 7191232--7191318 Score: 129
Period size: 42 Copynumber: 2.1 Consensus size: 42
7191222 TTATAAATTA
* **
7191232 CCCTAAGGATTTAATTATCATGCTCGAAAGACTTACTGATAG
1 CCCTAAAGATTTAAGCATCATGCTCGAAAGACTTACTGATAG
* *
7191274 CCCTAAAGATTTAAGCATCATGCTCGAAAGACTTATTGATGG
1 CCCTAAAGATTTAAGCATCATGCTCGAAAGACTTACTGATAG
7191316 CCC
1 CCC
7191319 GAAGGACTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (42 bp):
CCCTAAAGATTTAAGCATCATGCTCGAAAGACTTACTGATAG
Found at i:7191510 original size:42 final size:41
Alignment explanation
Indices: 7191454--7191546 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 41
7191444 ATGGATGGAT
* ** *
7191454 GAAGGACTTATCATCTTGCTTTAAAGGCTTA-TAGATGACCC
1 GAAGGACTTATCATCATGCTCGAAAGACTTACT-GATGACCC
* *
7191495 GAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGGCCC
1 GAAGGACTT-ATCATCATGCTCGAAAGACTTACTGATGACCC
7191537 GAAGGACTTA
1 GAAGGACTTA
7191547 AATTATTTAC
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
41 9 0.21
42 33 0.77
43 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (41 bp):
GAAGGACTTATCATCATGCTCGAAAGACTTACTGATGACCC
Found at i:7200532 original size:26 final size:26
Alignment explanation
Indices: 7200503--7200563 Score: 122
Period size: 26 Copynumber: 2.3 Consensus size: 26
7200493 AGAGGCACCG
7200503 TTCTCTCCTTCCTCTCAACCCTCTCA
1 TTCTCTCCTTCCTCTCAACCCTCTCA
7200529 TTCTCTCCTTCCTCTCAACCCTCTCA
1 TTCTCTCCTTCCTCTCAACCCTCTCA
7200555 TTCTCTCCT
1 TTCTCTCCT
7200564 CAATAGCCTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.10, C:0.49, G:0.00, T:0.41
Consensus pattern (26 bp):
TTCTCTCCTTCCTCTCAACCCTCTCA
Found at i:7216693 original size:201 final size:202
Alignment explanation
Indices: 7216348--7217087 Score: 1227
Period size: 201 Copynumber: 3.7 Consensus size: 202
7216338 TATTTAAATT
* * * * *
7216348 AGTATCGACACAAAATAAAAAAATTGTCTATACATGTTGTAGACCTATTCTCTCATAAAACTGGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
* * *
7216413 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGGTTTC-GATGTTTCT
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGGATGCATATGTTTCT
* * * * * *
7216477 GGGATCGATACTTTTTGAAAATATATCGACACTTTTTGCATTCACCCTTTTTAGCATTCATTGTG
131 GGGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTGTG
7216542 GACCAAA
196 GACCAAA
*
7216549 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTTATAAAACCGGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
7216614 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTAT-GGATGCATATGTTTCT
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGGATGCATATGTTTCT
*
7216678 GGGATCGACACTTTTTAAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTGTG
131 GGGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTGTG
7216743 GACCAAA
196 GACCAAA
* * * *
7216750 AGTATCGATACAAAATTAAACAAGTGTCGATACATATTGTAGACATATTTTCTCATAAAACCGGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
* * * *
7216815 ATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATACTTATGGGTTTCA-ATTTTTCT
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGGATGCATATGTTTCT
*
7216879 GGGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCATCCTTTTTGGCATCCATTGTG
131 GGGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTGTG
7216944 GACCAAA
196 GACCAAA
7216951 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
1 AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
7217016 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTAT-GGATGCATATGTTTCT
66 ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGGATGCATATGTTTCT
7217080 GGGATCGA
131 GGGATCGA
7217088 TAAATTTTAC
Statistics
Matches: 501, Mismatches: 35, Indels: 6
0.92 0.06 0.01
Matches are distributed among these distances:
200 9 0.02
201 487 0.97
202 5 0.01
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.37
Consensus pattern (202 bp):
AGTATCGACACAAAATTAAACAAGTGTCGATACATGTTGTAGACCTATTCTCTCATAAAACCGGT
ATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATACTTATGGGATGCATATGTTTCT
GGGATCGACACTTTTTGAAAATGTATCGACACTTTATGCGTTCACCCTTTTTGGCATCCATTGTG
GACCAAA
Found at i:7219204 original size:33 final size:33
Alignment explanation
Indices: 7219167--7219232 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
7219157 CATCTTAAGA
*
7219167 TCACCCCTTAACACCTCAACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
*
7219200 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCTCAACTTCTTTCACCACT
7219233 CCATATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.47, G:0.00, T:0.30
Consensus pattern (33 bp):
TCACCCCTCAACACCTCAACTTCTTTCACCACT
Found at i:7219292 original size:21 final size:21
Alignment explanation
Indices: 7219267--7219310 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
7219257 CCCCTTATGC
7219267 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
7219288 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
7219309 CT
1 CT
7219311 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:7221587 original size:20 final size:19
Alignment explanation
Indices: 7221542--7221587 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 19
7221532 CCGGTAGCGC
7221542 TTTACCGGTTTTATCATTT
1 TTTACCGGTTTTATCATTT
*
7221561 TGATACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCAT-TT
7221582 TTTACC
1 TTTACC
7221588 TATTATATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.04
20 19 0.83
21 3 0.13
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.52
Consensus pattern (19 bp):
TTTACCGGTTTTATCATTT
Found at i:7222397 original size:23 final size:23
Alignment explanation
Indices: 7222370--7222418 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
7222360 AGGGCTGATG
*
7222370 ATCTTCAAGTGGTGCCTGATCCT
1 ATCTTCAAGTAGTGCCTGATCCT
* *
7222393 ATCTTCAAGTAGTGTCTGATCTT
1 ATCTTCAAGTAGTGCCTGATCCT
7222416 ATC
1 ATC
7222419 CGTGACTATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.20, C:0.22, G:0.18, T:0.39
Consensus pattern (23 bp):
ATCTTCAAGTAGTGCCTGATCCT
Found at i:7226323 original size:13 final size:13
Alignment explanation
Indices: 7226305--7226330 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7226295 TTCTACACAC
7226305 AAAATAAAATTTA
1 AAAATAAAATTTA
7226318 AAAATAAAATTTA
1 AAAATAAAATTTA
7226331 TATTAGTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATAAAATTTA
Found at i:7238046 original size:35 final size:35
Alignment explanation
Indices: 7238000--7238086 Score: 102
Period size: 35 Copynumber: 2.5 Consensus size: 35
7237990 ATTTACGCCT
7238000 GATAACTGTAAACATTTGAAAACTAAAAATAATCG
1 GATAACTGTAAACATTTGAAAACTAAAAATAATCG
* ** * * * * *
7238035 GATAACTGTAAATATCGGATAATTGAAAATCATCT
1 GATAACTGTAAACATTTGAAAACTAAAAATAATCG
7238070 GATAACTGTAAACATTT
1 GATAACTGTAAACATTT
7238087 AGAATTAATC
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 41 1.00
ACGTcount: A:0.46, C:0.11, G:0.13, T:0.30
Consensus pattern (35 bp):
GATAACTGTAAACATTTGAAAACTAAAAATAATCG
Found at i:7238053 original size:17 final size:18
Alignment explanation
Indices: 7238026--7238081 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 18
7238016 TGAAAACTAA
7238026 AAATAATCGGATAACTGT
1 AAATAATCGGATAACTGT
* *
7238044 AAAT-ATCGGATAATTGA
1 AAATAATCGGATAACTGT
* *
7238061 AAATCATCTGATAACTGT
1 AAATAATCGGATAACTGT
7238079 AAA
1 AAA
7238082 CATTTAGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
17 15 0.47
18 17 0.53
ACGTcount: A:0.46, C:0.11, G:0.14, T:0.29
Consensus pattern (18 bp):
AAATAATCGGATAACTGT
Found at i:7238966 original size:23 final size:23
Alignment explanation
Indices: 7238907--7238997 Score: 110
Period size: 23 Copynumber: 4.0 Consensus size: 23
7238897 CACTACAGCT
* * * *
7238907 CGTATAAATGCACCGAAATGCCA
1 CGTAGAAATGCACCGTAGTGCCG
* *
7238930 CGTAGAATTACACCGTAGTGCCG
1 CGTAGAAATGCACCGTAGTGCCG
*
7238953 CGTAGAAATGCACCGTTGTGCCG
1 CGTAGAAATGCACCGTAGTGCCG
*
7238976 CGTAGAAATTCACCGTAGTGCC
1 CGTAGAAATGCACCGTAGTGCC
7238998 ATATAAGATT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 57 1.00
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (23 bp):
CGTAGAAATGCACCGTAGTGCCG
Found at i:7240331 original size:24 final size:20
Alignment explanation
Indices: 7240274--7240331 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 20
7240264 TTCCCCTTGA
*
7240274 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
7240294 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
7240317 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
7240332 CTACCCATGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 14 0.45
21 1 0.03
22 1 0.03
23 3 0.10
24 12 0.39
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:7241115 original size:15 final size:15
Alignment explanation
Indices: 7241095--7241126 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7241085 TTTGTAAATC
*
7241095 ATATTGGATAATAAA
1 ATATTGGAAAATAAA
7241110 ATATTGGAAAATAAA
1 ATATTGGAAAATAAA
7241125 AT
1 AT
7241127 GAGGTTAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.31
Consensus pattern (15 bp):
ATATTGGAAAATAAA
Found at i:7245786 original size:13 final size:13
Alignment explanation
Indices: 7245763--7245802 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
7245753 CTATATAAAC
7245763 ATTTAATCAAATCA
1 ATTT-ATCAAATCA
7245777 ATTTATCAAATCA
1 ATTTATCAAATCA
* *
7245790 ACTAATCAAATCA
1 ATTTATCAAATCA
7245803 GTTGGTCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (13 bp):
ATTTATCAAATCA
Found at i:7245827 original size:27 final size:27
Alignment explanation
Indices: 7245766--7245859 Score: 127
Period size: 27 Copynumber: 3.5 Consensus size: 27
7245756 TATAAACATT
* ** *
7245766 TAATCAAATCAATTTATCAAATC-AAC
1 TAATCAAATCAGTTGGTCAAAACTAAC
7245792 TAATCAAATCAGTTGGTCAAAACTAAC
1 TAATCAAATCAGTTGGTCAAAACTAAC
7245819 TAATCAAATCAGTTGGTCAAAACTAAC
1 TAATCAAATCAGTTGGTCAAAACTAAC
* *
7245846 TACTGAAATCAGTT
1 TAATCAAATCAGTT
7245860 ATTAACTATC
Statistics
Matches: 61, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
26 19 0.31
27 42 0.69
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.29
Consensus pattern (27 bp):
TAATCAAATCAGTTGGTCAAAACTAAC
Found at i:7248528 original size:21 final size:22
Alignment explanation
Indices: 7248502--7248545 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7248492 TACGGAAGTA
*
7248502 CTGTAGCA-GGGTATCGATTCC
1 CTGTAGCATGGGAATCGATTCC
*
7248523 CTGTAGCATGGGAATCGGTTCC
1 CTGTAGCATGGGAATCGATTCC
7248545 C
1 C
7248546 CTCTGACATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.18, C:0.25, G:0.30, T:0.27
Consensus pattern (22 bp):
CTGTAGCATGGGAATCGATTCC
Found at i:7248637 original size:21 final size:19
Alignment explanation
Indices: 7248598--7248649 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 19
7248588 GTACTGTTCA
7248598 TTATTGTTCATACAATATT
1 TTATTGTTCATACAATATT
**
7248617 GTTCATTGTTCATACCGTATT
1 -TT-ATTGTTCATACAATATT
*
7248638 TTACTGTTCATA
1 TTATTGTTCATA
7248650 AAACATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 9 0.32
20 4 0.14
21 15 0.54
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (19 bp):
TTATTGTTCATACAATATT
Found at i:7249018 original size:15 final size:16
Alignment explanation
Indices: 7248983--7249018 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
7248973 ATATGGATCA
7248983 AAAATTATAAGGACTT
1 AAAATTATAAGGACTT
7248999 AAAATTATAAGGAC-T
1 AAAATTATAAGGACTT
7249014 AAAAT
1 AAAAT
7249019 GAAATTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.28
Consensus pattern (16 bp):
AAAATTATAAGGACTT
Found at i:7249115 original size:12 final size:13
Alignment explanation
Indices: 7249071--7249115 Score: 58
Period size: 12 Copynumber: 3.6 Consensus size: 13
7249061 TTCGTTCTTA
*
7249071 TATAATATATATT
1 TATATTATATATT
*
7249084 TATATTATA-AAT
1 TATATTATATATT
7249096 TATATTATATATT
1 TATATTATATATT
7249109 TAT-TTAT
1 TATATTAT
7249116 TTACATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 15 0.54
13 13 0.46
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TATATTATATATT
Found at i:7250293 original size:2 final size:2
Alignment explanation
Indices: 7250286--7250334 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
7250276 TCGAACATTT
7250286 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7250328 TA TA TA T
1 TA TA TA T
7250335 TAATCGTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7254543 original size:183 final size:183
Alignment explanation
Indices: 7254235--7254584 Score: 612
Period size: 183 Copynumber: 1.9 Consensus size: 183
7254225 ATTAAATCCG
* *
7254235 TAAAGCTGAGCTATTCCACTAAGGTAATTGGTTATAGAGGAAACTCGAAAGCCCTGGGTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
*
7254300 ATAGATTACATTCAAACCATGACACTGCTCGGACACTTGGCAATTCGGTGTTTGCTCCACTGCTT
66 ATAGATTACATTCAAACCATGACACTGCTCGGAAACTTGGCAATTCGGTGTTTGCTCCACTGCTT
*
7254365 TTGTCAGGCCAAAGACTTTGTGATGAGATGAACCCTTAAGTGATTTGTCCCTC
131 TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTAAGTGATTTGTCCCTC
7254418 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
1 TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
* *
7254483 ATAGATTACATTCAAACCATGACATTGCTC-GAAAGCTTGGCAATTTGGTGTTTGCTCCACTGCT
66 ATAGATTACATTCAAACCATGACACTGCTCGGAAA-CTTGGCAATTCGGTGTTTGCTCCACTGCT
**
7254547 TTTGTCAGGCTGAAGACTTTGTGATGAGACGAACCCTT
130 TTTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTT
7254585 CAGTTAAACC
Statistics
Matches: 158, Mismatches: 8, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
182 3 0.02
183 155 0.98
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (183 bp):
TAAAGCTGAGCTATTCCACTAAGGCAATTGGTTATAGAGGAAACTCGAAAGCCCTGGCTTTATGA
ATAGATTACATTCAAACCATGACACTGCTCGGAAACTTGGCAATTCGGTGTTTGCTCCACTGCTT
TTGTCAGGCCAAAGACTTTGTGATGAGACGAACCCTTAAGTGATTTGTCCCTC
Found at i:7255827 original size:52 final size:52
Alignment explanation
Indices: 7255760--7255863 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
7255750 GTTTTTCTTA
*
7255760 AAACATACTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATTTC
1 AAACAGACTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATTTC
*
7255812 AAACAGACTTTGTCTCACTTGAGACTGTTTTACTCGGAAGAAGATTTATTTC
1 AAACAGACTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATTTC
7255864 TCAAGATTGT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (52 bp):
AAACAGACTTTGTCTCACTTGAGACTGTTTTACTCGAAAGAAGATTTATTTC
Found at i:7256001 original size:21 final size:21
Alignment explanation
Indices: 7255976--7256025 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
7255966 TGAGATAGTT
7255976 TCTCTTGAAACAAATCTCGTC
1 TCTCTTGAAACAAATCTCGTC
*
7255997 TCTCTTGAAACAAATTTCGTC
1 TCTCTTGAAACAAATCTCGTC
*
7256018 TCCCTTGA
1 TCTCTTGA
7256026 GACATTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.26, C:0.28, G:0.10, T:0.36
Consensus pattern (21 bp):
TCTCTTGAAACAAATCTCGTC
Found at i:7256157 original size:37 final size:37
Alignment explanation
Indices: 7256082--7256168 Score: 95
Period size: 37 Copynumber: 2.4 Consensus size: 37
7256072 ATTGAAAACA
** * * *
7256082 TTTCCCTTGAAA-TGAATTTTATCTCGCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTATCTCCCTTAAGACAG
*
7256118 TTTCCCTTGAAACAAAATTTTGTCTCCCTTAAGACAG
1 TTTCCCTTGAAACAAAATTTTATCTCCCTTAAGACAG
**
7256155 TTTATCTTGAAACA
1 TTTCCCTTGAAACA
7256169 TAAACAGTGA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 12 0.29
37 30 0.71
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTATCTCCCTTAAGACAG
Found at i:7256168 original size:102 final size:101
Alignment explanation
Indices: 7256055--7256462 Score: 523
Period size: 102 Copynumber: 4.0 Consensus size: 101
7256045 AAGTTTCGTC
* *
7256055 TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAGTT
1 TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAAT-AATTTTGTCTCTCTTGAGATAGTT
*
7256120 TCCCTTGAAACAAAATTTTGTCTCCCTTAAGACAGTT
65 TCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTT
* *
7256157 TATCTTGAAACATAAACAGTGAAAACATTTCCCTTGAAATAAATTTTGTCTCTCTTGAGATAGTT
1 TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAAT-AATTTTGTCTCTCTTGAGATAGTT
*
7256222 TCCCTCGAAACAAAATTTTGTCTCCCTTGAGACAGTT
65 TCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTT
* *
7256259 TCTCTTGAAACTTAAACATTGAAAACATTTCCCTTGAAATAAGTTTCGTCTCTCTTGAGATAGTT
1 TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAA-TTTTGTCTCTCTTGAGATAGTT
*
7256324 TCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTT
65 TCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTT
* ** * ** * * * * *
7256360 TCCCTTGAAACA-AAATGTTTGAATATGTTTTCTTTGAAACAAATTTTGTCTCCCTTGAGACAGT
1 TCTCTTGAAACATAAA-CATTGAAAACATTTCCCTTGAAA-TAATTTTGTCTCTCTTGAGATAGT
** * * * *
7256424 TTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAGTT
64 TTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTT
7256462 T
1 T
7256463 ATTTCCCCCA
Statistics
Matches: 272, Mismatches: 30, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
100 3 0.01
101 79 0.29
102 190 0.70
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (101 bp):
TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATAATTTTGTCTCTCTTGAGATAGTTT
CCCTTGAAACAAAATTTTGTCTCCCTTGAGACAGTT
Found at i:7256240 original size:37 final size:37
Alignment explanation
Indices: 7256184--7256269 Score: 120
Period size: 37 Copynumber: 2.4 Consensus size: 37
7256174 AGTGAAAACA
* * *
7256184 TTTCCCTTGAAA-TAAATTTTGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
7256220 TTTCCCTCGAAACAAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
*
7256257 TTTCTCTTGAAAC
1 TTTCCCTTGAAAC
7256270 TTAAACATTG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 11 0.26
37 32 0.74
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.40
Consensus pattern (37 bp):
TTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACAG
Found at i:7256333 original size:36 final size:36
Alignment explanation
Indices: 7256286--7256462 Score: 145
Period size: 36 Copynumber: 5.1 Consensus size: 36
7256276 ATTGAAAACA
* * *
7256286 TTTCCCTTGAAATAAGTTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
*
7256322 TTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* *
7256358 TTTCCCTTGAAACAAA-AT-G----T-TTGA-ATATG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACA-G
* * * *
7256387 TTTTCTTTGAAACAAATTTTGTCTCCCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
** * * *
7256423 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
7256460 TTT
1 TTT
7256463 ATTTCCCCCA
Statistics
Matches: 115, Mismatches: 16, Indels: 19
0.77 0.11 0.13
Matches are distributed among these distances:
28 2 0.02
29 19 0.17
30 2 0.02
31 1 0.01
34 1 0.01
35 1 0.01
36 63 0.55
37 26 0.23
ACGTcount: A:0.24, C:0.18, G:0.15, T:0.42
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:7256456 original size:203 final size:204
Alignment explanation
Indices: 7256055--7256462 Score: 545
Period size: 203 Copynumber: 2.0 Consensus size: 204
7256045 AAGTTTCGTC
*
7256055 TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTTATCTCGCTTGAGATAGTT
1 TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCATCTCGCTTGAGATAGTT
*
7256120 TCCCTTGAAACAAAATTTTGTCTCCCTTAAGACAGTTTATCTTGAAACATAAACAGTGAAAACAT
66 TCCCTTGAAACAAAATTTTGTCTCCCTTAAGACAGTTTACCTTGAAACATAAACAGTGAAAACAT
* * *
7256185 TTCCCTTGAAATAAATTTTGTCTCTCTTGAGATAGTTTCCCTCGAAACAAAATTTTGTCTCCCTT
131 TTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAAAATTTTGTCTCCCTT
7256250 GAGACAGTT
196 GAGACAGTT
* * *
7256259 TCTCTTGAAACTTAAACATTGAAAACATTTCCCTTGAAAT-AAGTTTCGTCTCTCTTGAGATAGT
1 TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAA-TTTCATCTCGCTTGAGATAGT
* * * * *
7256323 TTCCCTTGAAAC-AAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACA-AAA-TGTTTGAATA
65 TTCCCTTGAAACAAAATTTTGTCTCCCTTAAGACAGTTTACCTTGAAACATAAACAG--TGAAAA
** * * ** * * * * *
7256385 TGTTTTCTTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTTGTCTCT
128 CATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAAAATTTTGTCTCC
7256450 CTTGAGACAGTT
193 CTTGAGACAGTT
7256462 T
1 T
7256463 ATTTCCCCCA
Statistics
Matches: 177, Mismatches: 24, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
201 1 0.01
202 3 0.02
203 104 0.59
204 69 0.39
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (204 bp):
TCTCTTGAAACATAAACATTGAAAACATTTCCCTTGAAATGAATTTCATCTCGCTTGAGATAGTT
TCCCTTGAAACAAAATTTTGTCTCCCTTAAGACAGTTTACCTTGAAACATAAACAGTGAAAACAT
TTCCCTTGAAACAAATTTTGTCTCCCTTGAGACAGTTTCCCTCGAAACAAAATTTTGTCTCCCTT
GAGACAGTT
Found at i:7256570 original size:67 final size:69
Alignment explanation
Indices: 7256460--7256591 Score: 178
Period size: 67 Copynumber: 1.9 Consensus size: 69
7256450 CTTGAGACAG
** * * *
7256460 TTTATTTCCCCCAAAACAAATTTTGTATCCCTTGAGACTGTTTCTCTTGAAAC-ACAAA-ATCTT
1 TTTATTTCCCCCAAAACAAATTTTGTATCCCTCAAGACCGTTTCGCATGAAACAACAAATATCTT
7256523 CAAA
66 CAAA
** *
7256527 TTTATTTCCCTTAAAACAAATTTTGTTTCCCTCAAGACCGTTTCGCATGAAACAACAAATATCTT
1 TTTATTTCCCCCAAAACAAATTTTGTATCCCTCAAGACCGTTTCGCATGAAACAACAAATATCTT
7256592 TGAGATCGTT
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
67 45 0.82
68 5 0.09
69 5 0.09
ACGTcount: A:0.33, C:0.23, G:0.08, T:0.36
Consensus pattern (69 bp):
TTTATTTCCCCCAAAACAAATTTTGTATCCCTCAAGACCGTTTCGCATGAAACAACAAATATCTT
CAAA
Found at i:7258504 original size:2 final size:2
Alignment explanation
Indices: 7258497--7258561 Score: 130
Period size: 2 Copynumber: 32.5 Consensus size: 2
7258487 TCGAACATTT
7258497 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7258539 TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
7258562 TAATCATAAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 63 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7261785 original size:2 final size:2
Alignment explanation
Indices: 7261778--7261805 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7261768 ACCTAAATCA
7261778 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7261806 CTAACAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7264803 original size:2 final size:2
Alignment explanation
Indices: 7264798--7264824 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
7264788 TATATCTCAC
7264798 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
7264825 TAATAAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7271359 original size:36 final size:35
Alignment explanation
Indices: 7271308--7271442 Score: 126
Period size: 37 Copynumber: 3.6 Consensus size: 35
7271298 TATATATATA
** **
7271308 TATATATATATTATAGTTTGCAAATGATTTTTGTAAAT
1 TATATA-ATA-TATAGTTTG-AAAACATTTTTAAAAAT
7271346 TATATAATATATAGTTTTTGAAAACATTTTTAAAAAT
1 TATATAATATATAG--TTTGAAAACATTTTTAAAAAT
* *
7271383 TATATAATATATAGTTTTAAAAACATTTTGAAAATAAT
1 TATATAATATATAG-TTTGAAAACATTTT-TAAA-AAT
* *
7271421 TATATATTATATAGTTTAAAAA
1 TATATAATATATAGTTTGAAAA
7271443 AAACATGTTT
Statistics
Matches: 86, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
36 19 0.22
37 41 0.48
38 26 0.30
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (35 bp):
TATATAATATATAGTTTGAAAACATTTTTAAAAAT
Found at i:7271384 original size:37 final size:38
Alignment explanation
Indices: 7271342--7271465 Score: 146
Period size: 37 Copynumber: 3.3 Consensus size: 38
7271332 TGATTTTTGT
* *
7271342 AAATTATATAATATATAGTTTTTGAAAACATTTT-TAA
1 AAATTATATAATATATAGTTTTTAAAAACATTTTGAAA
7271379 AAATTATATAATATATAG-TTTTAAAAACATTTTGAAA
1 AAATTATATAATATATAGTTTTTAAAAACATTTTGAAA
* **
7271416 ATAATTATATATTATATAGTTTAAAAAAAACATGTTTGAAA
1 A-AATTATATAATATATAGTTT-TTAAAAACAT-TTTGAAA
*
7271457 ATA-TATATA
1 AAATTATATA
7271466 GTTTTAAAAT
Statistics
Matches: 76, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
36 14 0.18
37 21 0.28
38 16 0.21
39 8 0.11
40 9 0.12
41 8 0.11
ACGTcount: A:0.50, C:0.02, G:0.06, T:0.42
Consensus pattern (38 bp):
AAATTATATAATATATAGTTTTTAAAAACATTTTGAAA
Found at i:7271541 original size:108 final size:107
Alignment explanation
Indices: 7271352--7271553 Score: 248
Period size: 108 Copynumber: 1.9 Consensus size: 107
7271342 AAATTATATA
7271352 ATATATAGTTTTTGAAAACATTTTTAAAAATTATATAATATATAGTTTTAAAAACATTTTGAAAA
1 ATATATAGTTTTTGAAAACATTTTTAAAAATTATATAATATATAGTTTTAAAAACATTTTGAAAA
** *
7271417 TAATTATATATTATATAGTTTAAAAAAAACATGTTTGAAAAT
66 TAATTATATAAAATATAATTTAAAAAAAACATGTTTGAAAAT
* * * * * *
7271459 ATATATAG-TTTT-AAAATATTTTTTGAAAATATATTATATTATATGGTTTTGAAAATCATTTTT
1 ATATATAGTTTTTGAAAACA-TTTTTAAAAAT-TA-TATAATATATAGTTTT-AAAAACATTTTG
* *
7271522 AAAATCA-TATATAAAATATAATTTTAAAAAAA
62 AAAATAATTATATAAAATATAATTTAAAAAAAA
7271554 TATTTTATTT
Statistics
Matches: 80, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
105 5 0.06
106 14 0.17
107 10 0.12
108 35 0.44
109 16 0.20
ACGTcount: A:0.48, C:0.02, G:0.06, T:0.44
Consensus pattern (107 bp):
ATATATAGTTTTTGAAAACATTTTTAAAAATTATATAATATATAGTTTTAAAAACATTTTGAAAA
TAATTATATAAAATATAATTTAAAAAAAACATGTTTGAAAAT
Found at i:7272799 original size:20 final size:20
Alignment explanation
Indices: 7272789--7272831 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
7272779 TTTTCATTTC
7272789 TTTTATATTTTATTTATTAT
1 TTTTATATTTTATTTATTAT
**
7272809 TTTTATATTTCGTTTATTAT
1 TTTTATATTTTATTTATTAT
7272829 TTT
1 TTT
7272832 CTTTTATTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTATATTTTATTTATTAT
Found at i:7272888 original size:12 final size:11
Alignment explanation
Indices: 7272862--7272913 Score: 54
Period size: 12 Copynumber: 4.6 Consensus size: 11
7272852 ATCATTTCTA
7272862 TTATTTT-A-T
1 TTATTTTGATT
7272871 TTATTTTGATT
1 TTATTTTGATT
7272882 TTGATTTTGATT
1 TT-ATTTTGATT
*
7272894 TTAGTTTTAATT
1 TTA-TTTTGATT
7272906 TTAATTTT
1 TT-ATTTT
7272914 CTTTTAACAT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
9 7 0.19
10 1 0.03
11 4 0.11
12 24 0.65
13 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.71
Consensus pattern (11 bp):
TTATTTTGATT
Found at i:7273123 original size:16 final size:15
Alignment explanation
Indices: 7273091--7273123 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
7273081 TTTTAGTTCA
7273091 TTTGATTATTACATT
1 TTTGATTATTACATT
7273106 TTTGATTCATTAC-TT
1 TTTGATT-ATTACATT
7273121 TTT
1 TTT
7273124 ATTTAACATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.21, C:0.09, G:0.06, T:0.64
Consensus pattern (15 bp):
TTTGATTATTACATT
Found at i:7278743 original size:164 final size:163
Alignment explanation
Indices: 7278325--7279729 Score: 1205
Period size: 164 Copynumber: 8.5 Consensus size: 163
7278315 GTTGTCTGTT
* * * *
7278325 AGCC-AAGACCTTCGAGTTCGACTACGCTCAACTCTAAGGCACATCATTTACAGCATAACTCAAG
1 AGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAG
* * *
7278389 GCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCA
66 TCGAGAAGGGTTATCTG---CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA
*
7278454 TTTGCAGCATAGCTTAAGTCGT-GAAGGGCTATC-T-
128 TTTGCAGCATAACTTAAGTC-TAGAAGGGCTATCTTC
* * * * * * * * * * *
7278488 -GCCAAAGA-CTCCCGAGTTCGATTACACTCAGCTTCGAGGGCATATAATTTACAACATAACTCA
1 AGCCAAAGACCT-TCGAGTTCGACTACGCTCAGC-TCTAAGGCACATCATTTGCAGCATAGCTTA
* * * * * *
7278551 AGGCTAGAAGAGTTATATGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACATAT
64 AGTCGAGAAGGGTTATCTG---CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACAT
* * * * *
7278616 CATTTGTAGAACAACTTAAGTCTAGAAGGGTTGTCTTCC
126 CATTTGCAGCATAACTTAAGTCTAGAAGGGCTATCTT-C
* * *
7278655 AGCAAAAGACCTTTGAGTTCGACTACGCTCAGCT-TAACGACACATCATTTGCAGCATAGCTTAA
1 AGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAA-GGCACATCATTTGCAGCATAGCTTAA
* * * *
7278719 GTCGAGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGATTACGCTCAGCTCCAAGGCATATCATT
65 GTCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * *
7278784 TGCAGCACAACTTAAGT-TGAGAAGGGTTATCTACC
130 TGCAGCATAACTTAAGTCT-AGAAGGGCTATCT-TC
* * * *
7278819 AACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAG
1 AGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAG
* * * * * * *
7278884 TCGAGAAGGGCTATCTGCCAAATACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATT
66 TCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATT
* * * *
7278949 TACAGCATAACTCAAGGCTAGAAGGGTTATCTGTC
130 TGCAGCATAACTTAAGTCTAGAAGGGCTATCT-TC
* * *
7278984 A-CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCACAACTTAAG
1 AGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAG
* * * * *
7279048 TCTAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACACTCAACT-CAACGGCACAT
66 TCGAGAAGGGTTATCTG-C--C-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACAT
* *
7279112 CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC-T-
126 CATTTGCAGCATAACTTAAGTCTAGAAGGGCTATCTTC
* * *
7279148 -GCCAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAG
1 AGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAG
** * * *
7279212 TCGAGAAGGACTATCTGCCAACCGAAGACCTTTGAGTTCGATTACGCTCAGCTCCAAGGCATATC
66 TCGAGAAGGGTTATCTGCC-A---AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * *
7279277 ATTTGCAGCATAGCTTAAGTCGAGAAGGACTATCTACC
127 ATTTGCAGCATAACTTAAGTCTAGAAGGGCTATCT-TC
* * * * * * * ** * * *
7279315 AACCGAAGACCTTCGAGTTTGATTACACTCAGCTTCGAGGGCACATCATTTATAGTATAACTCAA
1 AGCCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCTAAGGCACATCATTTGCAGCATAGCTTAA
* * * * *
7279380 GCCTAGAAGGGTTATTTGTTACCAAAGTCCTTTC-AGTTCGACTACGCTCAGCT-CAACGACACA
65 GTCGAGAAGGGTTATCTG---CCAAAGACC-TTCGAGTTCGACTACGCTCAGCTCCAA-GGCACA
* * ** *
7279443 TCATTTGTAGCATAGCTTAAGTCGGGAAGGACTATC-T-
125 TCATTTGCAGCATAACTTAAGTCTAGAAGGGCTATCTTC
* * * * * *
7279480 -GCCAAAGATCC-TCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAGCTTA
1 AGCCAAAGA-CCTTCGAGTTCGACTACGCTCAGC-TCTAAGGCACATCATTTGCAGCATAGCTTA
** * * * * * *
7279543 AGTCGAGAAAAGCTATCTGCCAAAGGACCTT-GAGTTCGATTACACTCAACGTCGAGGGCACATC
64 AGTCGAGAAGGGTTATCTGCCAAA-GACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * * * *
7279607 ATTTACAACATTACTCAAGGCTAGAAGGGTTATCTGTT
127 ATTTGCAGCATAACTTAAGTCTAGAAGGGCTATCT-TC
* * * *
7279645 A-CCAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCACATCATTTGCAGTATAGCTTTAG
1 AGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAG
* *
7279709 TTGAGAAGGGTTATATGCCAA
66 TCGAGAAGGGTTATCTGCCAA
7279730 CCAAAGACCT
Statistics
Matches: 1026, Mismatches: 171, Indels: 89
0.80 0.13 0.07
Matches are distributed among these distances:
161 25 0.02
162 39 0.04
163 25 0.02
164 603 0.59
165 75 0.07
166 3 0.00
167 74 0.07
168 137 0.13
169 42 0.04
171 1 0.00
172 2 0.00
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.26
Consensus pattern (163 bp):
AGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAGCTTAAG
TCGAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
GCAGCATAACTTAAGTCTAGAAGGGCTATCTTC
Found at i:7278768 original size:248 final size:245
Alignment explanation
Indices: 7278329--7279729 Score: 1385
Period size: 248 Copynumber: 5.7 Consensus size: 245
7278319 TCTGTTAGCC
* * * * *
7278329 AAGACCTTCGAGTTCGACTACGCTCAACTCTAAGGCACATCATTTACAGCATAACTCAAGGCTAG
1 AAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGCAGAATAACTCAAGTCTAG
*
7278394 AAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTGC
66 AAGGGTTATCT-T-ACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGC
* * *
7278459 AGCATAGCTTAAGTCGTGAAGGGCTATCTGCCAAAGA-CTCCCGAGTTCGATTACACTCAGCTTC
129 AGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCT-TCGAGTTCGATTACGCTCAGC-TC
* * * * * * * * *
7278523 GAGGGCATATAATTTACAACATAACTCAAGGCTAGAAGAGTTATATGTC-ACCA
192 CAAGGCATATCATTTGCAGCATAACTTAAGTCTAGAAGAGTTATCTGCCAACCA
* * * * * * *
7278576 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGACATATCATTTGTAGAACAACTTAAGTCTAG
1 AAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGCAGAATAACTCAAGTCTAG
* * * * *
7278641 AAGGGTTGTCTTCCAGCAAAAGACCTTTGAGTTCGACTACGCTCAGCT-TAACGACACATCATTT
66 AAGGGTTATCTT--A-CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATTT
*
7278705 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTTGAGTTCGATTACGCTCAGCTC
127 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACGCTCAGCTC
* * *
7278770 CAAGGCATATCATTTGCAGCACAACTTAAGT-TGAGAAGGGTTATCTACCAACCA
192 CAAGGCATATCATTTGCAGCATAACTTAAGTCT-AGAAGAGTTATCTGCCAACCA
* * * * * * *
7278824 AAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGCAGAATAACTCAAGTCTAG
* * * * * * * * *
7278889 AAGGGCTATC-TGCCAAATACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACA
66 AAGGGTTATCTTACCAAAGACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCA
* * * * * *
7278953 GCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCAGCTC
130 GCATAGCTTAAGTCGAGAAGGGCTATCTG---CCAAAGACCTTCGAGTTCGATTACGCTCAGCTC
* * * * *
7279018 TAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCTGCCAACAA
192 CAAGGCATATCATTTGCAGCATAACTTAAGTCTAGAAGAGTTATCTGCCAACCA
* * * * *
7279072 AAGACCTTTGAGTTCGACTACACTCAACT-CAACGGCACATCATTTGCAGCATAGCTTAAGTCGA
1 AAGACCTTCGAGTTCGACTACACTCAACTCCAA-GGCACATCATTTGCAGAATAACTCAAGTCTA
* * *
7279136 GAAGGGCTATC-TGCCAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATTTGCA
65 GAAGGGTTATCTTACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCA
* * *
7279200 GTATAGCTTAAGTCGAGAAGGACTATCTGCCAACCGAAGACCTTTGAGTTCGATTACGCTCAGCT
130 GCATAGCTTAAGTCGAGAAGGGCTATCTGCC-A---AAGACCTTCGAGTTCGATTACGCTCAGCT
* * * * *
7279265 CCAAGGCATATCATTTGCAGCATAGCTTAAGTCGAGAAG-GACTATCTACCAACCG
191 CCAAGGCATATCATTTGCAGCATAACTTAAGTCTAGAAGAG-TTATCTGCCAACCA
* * * * * ** * *
7279320 AAGACCTTCGAGTTTGATTACACTCAGCTTCGAGGGCACATCATTTATAGTATAACTCAAGCCTA
1 AAGACCTTCGAGTTCGACTACACTCAAC-TCCAAGGCACATCATTTGCAGAATAACTCAAGTCTA
* * *
7279385 GAAGGGTTATTTGTTACCAAAGTCCTTTC-AGTTCGACTACGCTCAGCT-CAACGACACATCATT
65 GAAGGGTTA--TCTTACCAAAGACC-TTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCATT
* * * * *
7279448 TGTAGCATAGCTTAAGTCGGGAAGGACTATCTGCCAAAGATCC-TCAAGTTCGATTACACTCAGC
126 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA-CCTTCGAGTTCGATTACGCTCAGC
* * * * * * * *
7279512 TTCGAGGGCACATCATTTACAGCATAGCTTAAGTCGAGAAAAGCTATCTGCC-A--A
190 -TCCAAGGCATATCATTTGCAGCATAACTTAAGTCTAGAAGAGTTATCTGCCAACCA
* * * * * * *
7279566 AGGACCTT-GAGTTCGATTACACTCAACGTCGAGGGCACATCATTTACA-ACATTACTCAAGGCT
1 AAGACCTTCGAGTTCGACTACACTCAAC-TCCAAGGCACATCATTTGCAGA-ATAACTCAAGTCT
*
7279629 AGAAGGGTTATCTGTTACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCACATCATTT
64 AGAAGGGTTATC--TTACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* * * * *
7279694 GCAGTATAGCTTTAGTTGAGAAGGGTTATATGCCAA
127 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
7279730 CCAAAGACCT
Statistics
Matches: 978, Mismatches: 143, Indels: 68
0.82 0.12 0.06
Matches are distributed among these distances:
243 1 0.00
244 30 0.03
245 164 0.17
246 13 0.01
247 150 0.15
248 460 0.47
249 81 0.08
250 2 0.00
251 5 0.01
252 69 0.07
253 3 0.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (245 bp):
AAGACCTTCGAGTTCGACTACACTCAACTCCAAGGCACATCATTTGCAGAATAACTCAAGTCTAG
AAGGGTTATCTTACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAG
CATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACGCTCAGCTCCAAG
GCATATCATTTGCAGCATAACTTAAGTCTAGAAGAGTTATCTGCCAACCA
Found at i:7279172 original size:412 final size:410
Alignment explanation
Indices: 7278329--7279814 Score: 1864
Period size: 412 Copynumber: 3.6 Consensus size: 410
7278319 TCTGTTAGCC
* *
7278329 AAGACCTTCGAGTTCGACTACGCTCAACTCTAAGGCACATCATTTACAGCATAACTCAAGGCTAG
1 AAGACCTTCGAGTTCGATTACGCTCAACTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAG
* *
7278394 AAGGGTTATCTGTC-ACCAAAGACCTTCGAGTTCGACTACGTTCAGCTCCAAGGCACATCATTTG
66 AAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
*
7278458 CAGCATAGCTTAAGTCGTGAAGGGCTATCTGCCAAAGACTCC-CGAGTTCGATTACACTCAGCTT
131 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGAC-CCTCGAGTTCGATTACACTCAGCTT
* * * * *
7278522 CGAGGGCATATAATTTACAACATAACTCAAGGCTAGAAGAGTTATATGTCACCAAAGACCTTCGA
195 CGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGA
*
7278587 GTTCGACTACGCTCAGCTCCAAGACATATCATTTGTAGAACAACTTAAGTCTAGAAGGGTTGTCT
260 GTTCGACTACGCTCAGCT-CAAGACATATCATTTGTAGCACAACTTAAGTCTAGAAGGGTTGTCT
* * * *
7278652 TCCAGCAAAAGACCTTTGAGTTCGACTACGCTCAGCTTAACGACACATCATTTGCAGCATAGCTT
324 GCCA-CAAAAGACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGCATAGCTT
7278717 AAGTCGAGAAGGGCTATCTGCCA
388 AAGTCGAGAAGGGCTATCTGCCA
* * * * * * *
7278740 AAGACCTTTGAGTTCGATTACGCTCAGCTCCAAGGCATATCATTTGCAGCACAACTTAA-GTTGA
1 AAGACCTTCGAGTTCGATTACGCTCAACTCCAAGGCACATCATTTACAGCATAACTCAAGGCT-A
* *
7278804 GAAGGGTTATCTACCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
65 GAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* *
7278869 GCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAATACCCTCGAGTTCGATTACACTCAGCTT
130 GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTT
7278934 CGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGA
195 CGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGA
* *
7278999 GTTCGACTACGCTCAGCTCTAAGGCATATCATTTGCAGCACAACTTAAGTCTAGAAGGGTTGTCT
260 GTTCGACTACGCTCAGCTC-AAGACATATCATTTGTAGCACAACTTAAGTCTAGAAGGGTTGTCT
*
7279064 GCCAACAAAAGACCTTTGAGTTCGACTACACTCAACTCAACGGCACATCATTTGCAGCATAGCTT
324 GCC-ACAAAAGACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGCATAGCTT
7279129 AAGTCGAGAAGGGCTATCTGCCA
388 AAGTCGAGAAGGGCTATCTGCCA
* * * * * * *
7279152 AAGACCTTCGAGTTCGATTACGCTCAGCTCCAAGGCACATCATTTGCAGTATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGATTACGCTCAACTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAG
** * * * *
7279217 AAGGACTATCTGCCAACCGAAGACCTTTGAGTTCGATTACGCTCAGCTCCAAGGCATATCATTTG
66 AAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
* * * *
7279282 CAGCATAGCTTAAGTCGAGAAGGACTATCTACCAACCGAAGACCTTCGAGTTTGATTACACTCAG
131 CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC-A---AAGACCCTCGAGTTCGATTACACTCAG
* * * * * *
7279347 CTTCGAGGGCACATCATTTATAGTATAACTCAAGCCTAGAAGGGTTATTTGTTACCAAAGTCCTT
192 CTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACC-T
* * * ** **
7279412 TC-AGTTCGACTACGCTCAGCTCAACGACACATCATTTGTAGCATAGCTTAAGTCGGGAAGGACT
256 TCGAGTTCGACTACGCTCAGCTCAA-GACATATCATTTGTAGCACAACTTAAGTCTAGAAGGGTT
* ** * * * *
7279476 ATCTG-C-C-AAAGATCC-TCAAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAGCAT
320 GTCTGCCACAAAAGA-CCTTTGAGTTCGACTACACTCAGC-TCAACGGCACATCATTTGCAGCAT
**
7279537 AGCTTAAGTCGAGAAAAGCTATCTGCCA
383 AGCTTAAGTCGAGAAGGGCTATCTGCCA
* * * * *
7279565 AAGGACCTT-GAGTTCGATTACACTCAACGTCGAGGGCACATCATTTACAACATTACTCAAGGCT
1 AA-GACCTTCGAGTTCGATTACGCTCAAC-TCCAAGGCACATCATTTACAGCATAACTCAAGGCT
** *
7279629 AGAAGGGTTATCTG-TTACCAAAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCACATCATT
64 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * * * * * * *
7279693 TGCAGTATAGCTTTAGTTGAGAAGGGTTATATGCCAACCAAAGA-CCTCCGAGTTCAATTAAATT
129 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG----CCAAAGACCCT-CGAGTTCGATTACACT
* * * * *
7279757 CAGC-TC-AGAGGCAAACCAAATTTACAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCA
189 CAGCTTCGAG-GGCACATC--ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCA
7279815 ATAAAATCGT
Statistics
Matches: 934, Mismatches: 117, Indels: 45
0.85 0.11 0.04
Matches are distributed among these distances:
410 2 0.00
411 70 0.07
412 484 0.52
413 160 0.17
414 74 0.08
415 3 0.00
416 136 0.15
417 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.25
Consensus pattern (410 bp):
AAGACCTTCGAGTTCGATTACGCTCAACTCCAAGGCACATCATTTACAGCATAACTCAAGGCTAG
AAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
CAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATTACACTCAGCTTC
GAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAG
TTCGACTACGCTCAGCTCAAGACATATCATTTGTAGCACAACTTAAGTCTAGAAGGGTTGTCTGC
CACAAAAGACCTTTGAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGCATAGCTTAAG
TCGAGAAGGGCTATCTGCCA
Found at i:7280354 original size:2 final size:2
Alignment explanation
Indices: 7280344--7280410 Score: 118
Period size: 2 Copynumber: 34.0 Consensus size: 2
7280334 TATAATTTTT
*
7280344 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7280386 TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7280411 GTTTGCAAAT
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 61 0.98
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:7280506 original size:37 final size:37
Alignment explanation
Indices: 7280430--7280568 Score: 185
Period size: 36 Copynumber: 3.8 Consensus size: 37
7280420 TGGTTTTTGG
*
7280430 AAATTATATAATATATAGCTTTT-AAAACA-TTTTAGA
1 AAATTATATAATATATAGTTTTTGAAAACATTTTTA-A
7280466 AAATTATATAATATATAGTTTTTGAAAACATTTTTAA
1 AAATTATATAATATATAGTTTTTGAAAACATTTTTAA
*
7280503 AAATTATATAATATATAG-TTTTGAAAACATTTTGAAA
1 AAATTATATAATATATAGTTTTTGAAAACATTTT-TAA
* * *
7280540 ACAATTATATATTTTATAGTTTTTAAAAA
1 A-AATTATATAATATATAGTTTTTGAAAA
7280569 AAACATGTTT
Statistics
Matches: 93, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
36 37 0.40
37 28 0.30
38 20 0.22
39 8 0.09
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.44
Consensus pattern (37 bp):
AAATTATATAATATATAGTTTTTGAAAACATTTTTAA
Found at i:7280510 original size:73 final size:75
Alignment explanation
Indices: 7280430--7280568 Score: 212
Period size: 73 Copynumber: 1.9 Consensus size: 75
7280420 TGGTTTTTGG
* *
7280430 AAATTATATAATATATAGCTTTT-AAAACATTTT-AGAA-AATTATATAATATATAGTTTTTGAA
1 AAATTATATAATATATAG-TTTTGAAAACATTTTGAAAACAATTATATAATATATAGTTTTTAAA
7280492 AACATTTTTAA
65 AACATTTTTAA
* *
7280503 AAATTATATAATATATAGTTTTGAAAACATTTTGAAAACAATTATATATTTTATAGTTTTTAAAA
1 AAATTATATAATATATAGTTTTGAAAACATTTTGAAAACAATTATATAATATATAGTTTTTAAAA
7280568 A
66 A
7280569 AAACATGTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
72 4 0.07
73 28 0.47
74 3 0.05
75 24 0.41
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.44
Consensus pattern (75 bp):
AAATTATATAATATATAGTTTTGAAAACATTTTGAAAACAATTATATAATATATAGTTTTTAAAA
ACATTTTTAA
Found at i:7280646 original size:12 final size:12
Alignment explanation
Indices: 7280631--7280655 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
7280621 TATTATATGG
7280631 TTTTGAAAATCA
1 TTTTGAAAATCA
7280643 TTTTGAAAATCA
1 TTTTGAAAATCA
7280655 T
1 T
7280656 ATATAAAATA
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:0.08, G:0.08, T:0.44
Consensus pattern (12 bp):
TTTTGAAAATCA
Found at i:7280678 original size:110 final size:109
Alignment explanation
Indices: 7280476--7280679 Score: 254
Period size: 110 Copynumber: 1.9 Consensus size: 109
7280466 AAATTATATA
7280476 ATATATAGTTTTTGAAAACATTTTTAAAAATTATATAATATATAGTTTTGAAAACATTTTGAAAA
1 ATATATAGTTTTTGAAAACATTTTTAAAAATTATATAATATATAGTTTTGAAAACATTTTGAAAA
*** * *
7280541 CAATTATATATTTTATAGTTTTTAAAAAAAACATGTTTGAAAAT
66 CAATTATATAAAATATAATTTTAAAAAAAAACATGTTTGAAAAT
* * * *
7280585 ATATATAG-TTTT-AAAATATTTTTTGAAAATATATTATATTATATGGTTTTGAAAATCATTTTG
1 ATATATAGTTTTTGAAAACA-TTTTTAAAAAT-TA-TATAATATATAGTTTTGAAAA-CATTTTG
7280648 AAAATC-A-TATATAAAATATAATTTTAAAAAAA
62 AAAA-CAATTATATAAAATATAATTTTAAAAAAA
7280680 TATTTTATTT
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
107 5 0.06
108 14 0.17
109 10 0.12
110 39 0.48
111 12 0.15
112 1 0.01
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.44
Consensus pattern (109 bp):
ATATATAGTTTTTGAAAACATTTTTAAAAATTATATAATATATAGTTTTGAAAACATTTTGAAAA
CAATTATATAAAATATAATTTTAAAAAAAAACATGTTTGAAAAT
Found at i:7281915 original size:20 final size:20
Alignment explanation
Indices: 7281890--7281932 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
7281880 TTTTCATTTC
*
7281890 TTTTATATTTTATTTATTAT
1 TTTTATATTTCATTTATTAT
*
7281910 TTTTATATTTCGTTTATTAT
1 TTTTATATTTCATTTATTAT
7281930 TTT
1 TTT
7281933 CTTTTCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTATATTTCATTTATTAT
Found at i:7281943 original size:18 final size:19
Alignment explanation
Indices: 7281890--7281950 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 19
7281880 TTTTCATTTC
**
7281890 TTTTATATTTTATTTATTA
1 TTTTATATTTCGTTTATTA
7281909 TTTTTATATTTCGTTTATTA
1 -TTTTATATTTCGTTTATTA
* * *
7281929 TTTTCT-TTTCTTTTATTC
1 TTTTATATTTCGTTTATTA
7281947 TTTT
1 TTTT
7281951 TGGAATTATC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
18 14 0.39
19 5 0.14
20 17 0.47
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (19 bp):
TTTTATATTTCGTTTATTA
Done.