Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 37 of 64
Found at i:7456966 original size:14 final size:14
Alignment explanation
Indices: 7456906--7456966 Score: 68
Period size: 14 Copynumber: 4.4 Consensus size: 14
7456896 TAGTTTATAG
* *
7456906 AAACCCTAAATCAT
1 AAACCTTAAACCAT
* *
7456920 AAACATTAAACCTT
1 AAACCTTAAACCAT
*
7456934 AAACTTTAAACCAT
1 AAACCTTAAACCAT
*
7456948 AAACCTTAAACCCT
1 AAACCTTAAACCAT
7456962 AAACC
1 AAACC
7456967 CTAATATAAA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 39 1.00
ACGTcount: A:0.49, C:0.28, G:0.00, T:0.23
Consensus pattern (14 bp):
AAACCTTAAACCAT
Found at i:7456970 original size:7 final size:7
Alignment explanation
Indices: 7456919--7456966 Score: 60
Period size: 7 Copynumber: 6.9 Consensus size: 7
7456909 CCCTAAATCA
*
7456919 TAAACAT
1 TAAACCT
7456926 TAAACCT
1 TAAACCT
*
7456933 TAAACTT
1 TAAACCT
*
7456940 TAAACCA
1 TAAACCT
7456947 TAAACCT
1 TAAACCT
*
7456954 TAAACCC
1 TAAACCT
7456961 TAAACC
1 TAAACC
7456967 CTAATATAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.25
Consensus pattern (7 bp):
TAAACCT
Found at i:7457034 original size:13 final size:13
Alignment explanation
Indices: 7457016--7457040 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7457006 AATAAAAGAG
7457016 TGGGCTTATGTAT
1 TGGGCTTATGTAT
7457029 TGGGCTTATGTA
1 TGGGCTTATGTA
7457041 AATTAATGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.08, G:0.32, T:0.44
Consensus pattern (13 bp):
TGGGCTTATGTAT
Found at i:7457289 original size:16 final size:16
Alignment explanation
Indices: 7457260--7457291 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
7457250 ATTAATCATG
7457260 TTTTATATAATTTATA
1 TTTTATATAATTTATA
7457276 TTTTA-ATAATTT-TA
1 TTTTATATAATTTATA
7457290 TT
1 TT
7457292 AAATAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 7 0.44
16 5 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTATATAATTTATA
Found at i:7457356 original size:19 final size:20
Alignment explanation
Indices: 7457301--7457397 Score: 87
Period size: 19 Copynumber: 5.0 Consensus size: 20
7457291 TAAATAATTT
*
7457301 TATATAATATGTATGTATAAAC
1 TATAT-ATA-GTATATATAAAC
* *
7457323 CATGTATAGTATATATAAAC
1 TATATATAGTATATATAAAC
7457343 TATATATA-TATATATAAAC
1 TATATATAGTATATATAAAC
* *
7457362 TATATAAAGTA-A-AT-TAC
1 TATATATAGTATATATAAAC
*
7457379 T-TATATAGTTTATATAAAC
1 TATATATAGTATATATAAAC
7457398 ACTATGCATA
Statistics
Matches: 61, Mismatches: 10, Indels: 11
0.74 0.12 0.13
Matches are distributed among these distances:
16 7 0.11
17 4 0.07
18 4 0.07
19 21 0.34
20 19 0.31
21 3 0.05
22 3 0.05
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.40
Consensus pattern (20 bp):
TATATATAGTATATATAAAC
Found at i:7457459 original size:49 final size:49
Alignment explanation
Indices: 7457356--7457452 Score: 124
Period size: 48 Copynumber: 2.0 Consensus size: 49
7457346 ATATATATAT
* ** * **
7457356 ATAAACTATATAAAGTAAATTACTTATATAGTTTATATAAACACTATGC
1 ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAAAAACACTAAAC
*
7457405 ATAAACTATATAAAGT-AATAAAGTATATAGTTTATAAAAACCCTAAAC
1 ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAAAAACACTAAAC
7457453 TTTAAACCAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
48 25 0.61
49 16 0.39
ACGTcount: A:0.51, C:0.10, G:0.06, T:0.33
Consensus pattern (49 bp):
ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAAAAACACTAAAC
Found at i:7457926 original size:21 final size:21
Alignment explanation
Indices: 7457900--7458007 Score: 89
Period size: 21 Copynumber: 5.1 Consensus size: 21
7457890 AGTTTTATAG
7457900 AAATCCTAAACCTTAAATTC-T
1 AAATCCTAAACCTTAAA-TCAT
7457921 AAATCCTAAACCTTAAATCAT
1 AAATCCTAAACCTTAAATCAT
* * *
7457942 AAACCCTAAACTTTAAACCAT
1 AAATCCTAAACCTTAAATCAT
*
7457963 AAA-CACTAAATAC-TAAA-CTAT
1 AAATC-CTAAA-CCTTAAATC-AT
* * *
7457984 AAACCCTAAACTTTAAACCAT
1 AAATCCTAAACCTTAAATCAT
7458005 AAA
1 AAA
7458008 CATTAAACAC
Statistics
Matches: 73, Mismatches: 7, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
20 4 0.05
21 67 0.92
22 2 0.03
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (21 bp):
AAATCCTAAACCTTAAATCAT
Found at i:7457952 original size:7 final size:7
Alignment explanation
Indices: 7457904--7458034 Score: 73
Period size: 7 Copynumber: 18.7 Consensus size: 7
7457894 TTATAGAAAT
7457904 CCTAAAC
1 CCTAAAC
* *
7457911 CTTAAAT
1 CCTAAAC
* *
7457918 TCTAAAT
1 CCTAAAC
7457925 CCTAAAC
1 CCTAAAC
* *
7457932 CTTAAAT
1 CCTAAAC
*
7457939 CATAAAC
1 CCTAAAC
7457946 CCTAAAC
1 CCTAAAC
**
7457953 TTTAAAC
1 CCTAAAC
*
7457960 CATAAAC
1 CCTAAAC
* *
7457967 ACTAAAT
1 CCTAAAC
*
7457974 ACTAAAC
1 CCTAAAC
**
7457981 TATAAAC
1 CCTAAAC
7457988 CCTAAAC
1 CCTAAAC
**
7457995 TTTAAAC
1 CCTAAAC
*
7458002 CATAAAC
1 CCTAAAC
**
7458009 ATTAAAC
1 CCTAAAC
*
7458016 ACTAAAC
1 CCTAAAC
7458023 CCTAAAC
1 CCTAAAC
7458030 CCTAA
1 CCTAA
7458035 TGTAAATAGA
Statistics
Matches: 93, Mismatches: 31, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
7 93 1.00
ACGTcount: A:0.49, C:0.27, G:0.00, T:0.24
Consensus pattern (7 bp):
CCTAAAC
Found at i:7458008 original size:21 final size:21
Alignment explanation
Indices: 7457920--7458034 Score: 115
Period size: 21 Copynumber: 5.5 Consensus size: 21
7457910 CCTTAAATTC
* * *
7457920 TAAATCCTAAACCTTAAATCA
1 TAAACCCTAAACTTTAAACCA
7457941 TAAACCCTAAACTTTAAACCA
1 TAAACCCTAAACTTTAAACCA
* * *
7457962 TAAACACTAAA-TACTAAACTA
1 TAAACCCTAAACT-TTAAACCA
7457983 TAAACCCTAAACTTTAAACCA
1 TAAACCCTAAACTTTAAACCA
** ** *
7458004 TAAACATTAAACACTAAACCC
1 TAAACCCTAAACTTTAAACCA
7458025 TAAACCCTAA
1 TAAACCCTAA
7458035 TGTAAATAGA
Statistics
Matches: 76, Mismatches: 16, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
20 1 0.01
21 74 0.97
22 1 0.01
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.23
Consensus pattern (21 bp):
TAAACCCTAAACTTTAAACCA
Found at i:7458471 original size:48 final size:49
Alignment explanation
Indices: 7458377--7458471 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 49
7458367 ATATAATATG
* * ** *
7458377 TATGTATAAACTATATAAAGTAAATTACTTATATTGTTTATAGAAACAC
1 TATGCATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
*
7458426 TATGCATAAATTATATAAAGT-AATAAAATATATAGTTTATAGAAAC
1 TATGCATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAAC
7458472 CCTAAACCTT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 21 0.52
49 19 0.47
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.37
Consensus pattern (49 bp):
TATGCATAAACTATATAAAGTAAATAAAATATATAGTTTATAGAAACAC
Found at i:7458478 original size:7 final size:7
Alignment explanation
Indices: 7458468--7458514 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
7458458 TAGTTTATAG
*
7458468 AAACCCT
1 AAACCAT
*
7458475 AAACCTT
1 AAACCAT
7458482 AAACCAT
1 AAACCAT
7458489 AAA-CACT
1 AAACCA-T
*
7458496 AAACAAT
1 AAACCAT
7458503 AAACCAT
1 AAACCAT
7458510 AAACC
1 AAACC
7458515 CTAATGTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
6 2 0.06
7 31 0.91
8 1 0.03
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.15
Consensus pattern (7 bp):
AAACCAT
Found at i:7458497 original size:21 final size:21
Alignment explanation
Indices: 7458468--7458518 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
7458458 TAGTTTATAG
**
7458468 AAACCCTAAACCTTAAACCAT
1 AAACCCTAAACAATAAACCAT
*
7458489 AAACACTAAACAATAAACCAT
1 AAACCCTAAACAATAAACCAT
7458510 AAACCCTAA
1 AAACCCTAA
7458519 TGTAAATGGA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.55, C:0.29, G:0.00, T:0.16
Consensus pattern (21 bp):
AAACCCTAAACAATAAACCAT
Found at i:7458704 original size:14 final size:14
Alignment explanation
Indices: 7458685--7458731 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
7458675 ATTTTTTCTT
7458685 TATATAAATTAAAC
1 TATATAAATTAAAC
7458699 TATAT-AATT----
1 TATATAAATTAAAC
7458708 TATATAAATTAAAC
1 TATATAAATTAAAC
*
7458722 TATATTAATT
1 TATATAAATT
7458732 TTCATTGTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 5 0.19
10 4 0.15
13 4 0.15
14 14 0.52
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (14 bp):
TATATAAATTAAAC
Found at i:7458710 original size:23 final size:24
Alignment explanation
Indices: 7458683--7458732 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
7458673 TAATTTTTTC
7458683 TTTATATAAATTAAACTATA-TAA
1 TTTATATAAATTAAACTATATTAA
7458706 TTTATATAAATTAAACTATATTAA
1 TTTATATAAATTAAACTATATTAA
7458730 TTT
1 TTT
7458733 TCATTGTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATATAAATTAAACTATATTAA
Found at i:7459022 original size:16 final size:16
Alignment explanation
Indices: 7459001--7459071 Score: 124
Period size: 16 Copynumber: 4.4 Consensus size: 16
7458991 CGGATCATTT
7459001 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
7459017 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
*
7459033 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTAAAA
*
7459049 ACAGGTCAGGTTGAAA
1 ACAGGTCAGGTTAAAA
7459065 ACAGGTC
1 ACAGGTC
7459072 GGGTAATACC
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
16 54 1.00
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.18
Consensus pattern (16 bp):
ACAGGTCAGGTTAAAA
Found at i:7460289 original size:27 final size:27
Alignment explanation
Indices: 7460251--7460307 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
7460241 GACTAGTTGT
7460251 TGGTAATCCCACATAGAATGCGAGGAA
1 TGGTAATCCCACATAGAATGCGAGGAA
7460278 TGGTAATCCCACATAGAATGCGAGGAA
1 TGGTAATCCCACATAGAATGCGAGGAA
7460305 TGG
1 TGG
7460308 ATATTTAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (27 bp):
TGGTAATCCCACATAGAATGCGAGGAA
Found at i:7461351 original size:2 final size:2
Alignment explanation
Indices: 7461338--7461372 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
7461328 AAAATAGGAA
*
7461338 AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7461373 ATAACACTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:7461400 original size:29 final size:29
Alignment explanation
Indices: 7461362--7461435 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
7461352 ATATATATAT
* *
7461362 ATATATATATAATAACACTAATAAAAAG-C
1 ATATACATAT-ATAACACTAATAAAAAGTA
* * *
7461391 ATATACATATATAAAATTAATAGAAAGTA
1 ATATACATATATAACACTAATAAAAAGTA
*
7461420 ATATGCATATATAACA
1 ATATACATATATAACA
7461436 AGAATAATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
28 14 0.38
29 23 0.62
ACGTcount: A:0.57, C:0.08, G:0.05, T:0.30
Consensus pattern (29 bp):
ATATACATATATAACACTAATAAAAAGTA
Found at i:7461855 original size:37 final size:36
Alignment explanation
Indices: 7461812--7461913 Score: 154
Period size: 34 Copynumber: 2.9 Consensus size: 36
7461802 ATAGTAGAAC
7461812 TCTATCCTATTTTTAGGAGTTTGAATCCTAGCAAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG-AAAAT
* *
7461849 TTTATCCCATTTTTAGGAGTTTGAATCCT--AAAAT
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
*
7461883 TCTATCATATTTTTAGGAGTTTGAATCCTAG
1 TCTATCCTATTTTTAGGAGTTTGAATCCTAG
7461914 TAGGACAAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
34 31 0.53
37 27 0.47
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.43
Consensus pattern (36 bp):
TCTATCCTATTTTTAGGAGTTTGAATCCTAGAAAAT
Found at i:7462768 original size:105 final size:104
Alignment explanation
Indices: 7462461--7463184 Score: 1014
Period size: 105 Copynumber: 7.0 Consensus size: 104
7462451 CATTATTCCA
* * * * ** * * *
7462461 AGTCCAATATCCTCCGTCGTGAAGTTAAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AAGT-TTTGTTGACAAG
* * *
7462526 CAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
64 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* **
7462567 AGTCCAATATCCTTCGTTATGAAGTTGAAATTGAATCTG-AA-TGA-AA-TTTTGTTGACAAGCA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTTTGTTGACAAGCA
7462628 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
7462667 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTATTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT-TTGTTGACAAGC
* *
7462732 AGCGGTCCCTTCATCGTGAAGTTGAACTTGCATTGTCTGG
65 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * *
7462772 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTATTGATAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT-TTGTTGACAAGC
*
7462837 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
65 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
7462877 AGTCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAGAAG--TTGTTGACAGGCA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTTTGTTGACAAGCA
* *
7462940 GCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGA
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
7462979 AGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT-TTGTTGACAAGC
7463044 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
7463084 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG-T-TTTGTTGACAAG
* *
7463149 CAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
64 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
7463185 CCTCGAGTGC
Statistics
Matches: 565, Mismatches: 41, Indels: 24
0.90 0.07 0.04
Matches are distributed among these distances:
99 1 0.00
100 83 0.15
101 2 0.00
102 100 0.18
103 2 0.00
104 3 0.01
105 297 0.53
106 75 0.13
107 2 0.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (104 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTTTGTTGACAAGCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:7463012 original size:207 final size:205
Alignment explanation
Indices: 7462460--7463184 Score: 985
Period size: 207 Copynumber: 3.5 Consensus size: 205
7462450 GCATTATTCC
* * * * ** *
7462460 AAGTCCAATATCCTCCGTCGTGAAGTTAAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAA
1 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG-AA--GTTTGTTGACAA
* * * * *
7462525 CCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTATGA
63 GCAG-CGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT-GAGTCCAATATCCTTCGTTGTGA
** *
7462589 AGTTGAAATTGAATCTGAA-T-GAAATT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
126 AGTTGAAATTGGCTCTGAATTGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
7462651 AACTTGCGTTGTCTG
191 AACTTGCGTTGTCTG
* * *
7462666 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTATTGTTGACAAG
1 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG-T-TTGTTGACAAG
*
7462731 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
64 CAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCT-GAGTCCAATATCCTTCGTTGTGAAG
* *
7462796 TTGAAATTGGCTCTGAGATTGGGAAGTTGTTATTGATAAGCAGCGGTCCCTTCGTCGTGAAGTTG
128 TTGAAATTGGCTCTGA-ATT-GGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
7462861 AACTTGCGTTGTCTG
191 AACTTGCGTTGTCTG
* *
7462876 AAGTCCAATATCCTTCGTTGTAAAGTTGAAATTGGCTCTGAAATTGAGAAG-TTGTTGACAGGCA
1 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTTGTTGACAAGCA
*
7462940 GCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTT
66 GCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG-AGTCCAATATCCTTCGTTGTGAAGTT
*
7463005 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAA
130 GAAATTGGCTCTG-AATTG-GAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
7463070 CTTGCGTTGTCTG
193 CTTGCGTTGTCTG
*
7463083 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA---GTTTGTTGACAA
* * * *
7463148 CCAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
63 GCAG-CGGTCCCTTCATCGTGAAGTTGAACTTGCGTTG
7463185 CCTCGAGTGC
Statistics
Matches: 466, Mismatches: 37, Indels: 27
0.88 0.07 0.05
Matches are distributed among these distances:
203 1 0.00
204 2 0.00
205 83 0.18
206 43 0.09
207 193 0.41
208 1 0.00
209 5 0.01
210 97 0.21
211 40 0.09
212 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (205 bp):
AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTTGTTGACAAGCA
GCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGAGTCCAATATCCTTCGTTGTGAAGTTG
AAATTGGCTCTGAATTGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
GCGTTGTCTG
Found at i:7463038 original size:312 final size:311
Alignment explanation
Indices: 7462461--7463192 Score: 1114
Period size: 312 Copynumber: 2.4 Consensus size: 311
7462451 CATTATTCCA
* * * ** *
7462461 AGTCCAATATCCTCCGTCGTGAAGTTAAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTGTTTGTTGACAA
*
7462525 CCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTATGAA
65 CCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTATAAA
* *
7462590 GTTGAAATTGAATCTGAATGAAATTTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
130 GTTGAAATTGAATCTGAATGAAATGTTGTTGACAAGCAGCGGTCCCTTCATCGTGAAGTTGAACT
* * * *
7462655 TGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTA
195 TGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTA
7462720 TTGTTGACAAGCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCATTGTCTGG
260 TTGTTGACAAGCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCATTGTCTGG
* * *
7462772 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTATTGATAAG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTTGTTGACAAC
* * *
7462836 CAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCT-GAAGTCCAATATCCTTCGTTGTAA
66 CAGTC-GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG-AGTCCAATATCCTTCGTTATAA
** *
7462899 AGTTGAAATTGGCTCTGAAATTGAGAA-GTTGTTGACAGGCAGCGGTCCCTTCATCGTGAAGTTG
129 AGTTGAAATTGAATCTG-AA-TGA-AATGTTGTTGACAAGCAGCGGTCCCTTCATCGTGAAGTTG
7462963 AACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA
191 AACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA
* * * *
7463028 GTTGTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
256 GTTATTGTTGACAAGCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCATTGTCTGG
* *
7463084 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTTGTTGACAAC
*
7463149 CAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGCCTCGAGT
66 CAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT
7463193 GCCACGATAT
Statistics
Matches: 378, Mismatches: 34, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
309 2 0.01
310 78 0.21
311 47 0.12
312 202 0.53
313 47 0.12
314 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (311 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTTGTTGACAAC
CAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTATAAAG
TTGAAATTGAATCTGAATGAAATGTTGTTGACAAGCAGCGGTCCCTTCATCGTGAAGTTGAACTT
GCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTAT
TGTTGACAAGCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCATTGTCTGG
Found at i:7464189 original size:99 final size:99
Alignment explanation
Indices: 7464041--7464271 Score: 320
Period size: 99 Copynumber: 2.3 Consensus size: 99
7464031 GAGTTTCAAG
*
7464041 AGAAACTGTCTCAAGATAGACAAAACTTAGTTTCAAGGAAACTGTCTCAAGAGAGACAAAATTTG
1 AGAAACTGTCTCAAGAGAGACAAAACTTAGTTTCAAGGAAACTGTCTCAAGAGAGACAAAATTTG
7464106 TTTCAAAGAAACTGTCTCAAGATATTTTGTTTCA
66 TTTCAAAGAAACTGTCTCAAGATATTTTGTTTCA
* * *
7464140 AGAAACTGT-TCAAGAGAGACAAAATTTATTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTT
1 AGAAACTGTCTCAAGAGAGACAAAACTTAGTTTCAA-GGAAACTGTCTCAAGAGAGACAAAATTT
* * *
7464204 GTTTCAAGGAAACTGTCTCAAGAGACAAAACTTTGTTTCA
65 GTTTCAAAGAAACTGTCTC-A-AG---ATATTTTGTTTCA
7464244 AGTGAAACTGTCTCAAGAGAGACAAAAC
1 A--GAAACTGTCTCAAGAGAGACAAAAC
7464272 AAGGGAAACT
Statistics
Matches: 115, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
98 23 0.20
99 54 0.47
100 1 0.01
101 2 0.02
104 12 0.10
106 8 0.07
107 15 0.13
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.26
Consensus pattern (99 bp):
AGAAACTGTCTCAAGAGAGACAAAACTTAGTTTCAAGGAAACTGTCTCAAGAGAGACAAAATTTG
TTTCAAAGAAACTGTCTCAAGATATTTTGTTTCA
Found at i:7464192 original size:37 final size:36
Alignment explanation
Indices: 7464033--7464270 Score: 270
Period size: 35 Copynumber: 6.9 Consensus size: 36
7464023 TTCTCAAGGA
* * *
7464033 GTTTCAAGAGAAACTGTCTCAAGATAGACAAAACTTA
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTT
7464070 GTTTCAA-GGAAACTGTCTCAAGAGAGACAAAATTT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* * *
7464105 GTTTCAA-AGAAACTGTCTC---A-AG--ATATTTT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
7464134 GTTTCAA--GAAACTGT-TCAAGAGAGACAAAATTT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
* *
7464167 ATTTTCAAGGGAAACTGTCTCAAGAGAGACGAAATTT
1 -GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
7464204 GTTTCAA-GGAAACTGTCTC-A-AGAGACAAAACTTT
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTT
*
7464238 GTTTCAAGTGAAACTGTCTCAAGAGAGACAAAA
1 GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
7464271 CAAGGGAAAC
Statistics
Matches: 174, Mismatches: 13, Indels: 28
0.81 0.06 0.13
Matches are distributed among these distances:
27 2 0.01
28 8 0.05
29 12 0.07
30 1 0.01
31 4 0.02
32 1 0.01
33 14 0.08
34 17 0.10
35 43 0.25
36 38 0.22
37 34 0.20
ACGTcount: A:0.40, C:0.15, G:0.18, T:0.27
Consensus pattern (36 bp):
GTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTT
Found at i:7464297 original size:134 final size:135
Alignment explanation
Indices: 7464034--7464292 Score: 328
Period size: 134 Copynumber: 1.9 Consensus size: 135
7464024 TCTCAAGGAG
*
7464034 TTTCAAGAGAAACTGTCTCAAGATAGACAAAACTTAGTTTCAAGGAAACTGTCTCAAGAGAGACA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTTCAAGGAAACTGTCTCAAGAGAGACA
* *******
7464099 AAATTTGTTTCAAAGAAACTGTCTCAAGATATTTTGTTTCAAGAAACTGTTCAAGAGAGACAAAA
66 AAATTTGTTTCAAAGAAACTGTCTCAAGAGATGACAAAACAAGAAACTGTTCAAGAGAGACAAAA
7464164 TTTAT
131 TTTAT
* * *
7464169 TTTCAAGGGAAACTGTCTCAAGAGAGACGAAA-TTTGTTTCAAGGAAACTGTCTC-A-AGAGACA
1 TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTTCAAGGAAACTGTCTCAAGAGAGACA
*
7464231 AAACTTTGTTTCAAGTGAAACTGTCTCAAGAGA-GACAAAACAAGGGAAACTGTCTCAAGAGA
66 AAA-TTTGTTTCAA-AGAAACTGTCTCAAGAGATGACAAAACAA--GAAACTGT-TCAAGAGA
7464293 CAAAACTCTT
Statistics
Matches: 106, Mismatches: 13, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
132 10 0.09
133 14 0.13
134 37 0.35
135 37 0.35
136 8 0.08
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (135 bp):
TTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTTCAAGGAAACTGTCTCAAGAGAGACA
AAATTTGTTTCAAAGAAACTGTCTCAAGAGATGACAAAACAAGAAACTGTTCAAGAGAGACAAAA
TTTAT
Found at i:7464799 original size:18 final size:18
Alignment explanation
Indices: 7464772--7464807 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7464762 TGTTGAATCC
* *
7464772 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
7464790 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
7464808 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:7465239 original size:22 final size:22
Alignment explanation
Indices: 7465213--7465280 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
7465203 TTGTGTTTGG
*
7465213 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
7465235 TCAAAGGTTTGACA-TT--TGC
1 TCAAAGGTTTGACATTTGATGC
* *
7465254 TCAAAGGTTTGTCATTGGATGC
1 TCAAAGGTTTGACATTTGATGC
7465276 TCAAA
1 TCAAA
7465281 AGATTGATGG
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 16 0.40
20 1 0.03
21 2 0.05
22 21 0.52
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (22 bp):
TCAAAGGTTTGACATTTGATGC
Found at i:7465256 original size:19 final size:19
Alignment explanation
Indices: 7465208--7465269 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
7465198 GGTTATTGTG
* *
7465208 TTTGGTCAAAGGTTTGGCA
1 TTTGCTCAAAGGTTTGACA
7465227 TTTGATGCTCAAAGGTTTGACA
1 -TT--TGCTCAAAGGTTTGACA
*
7465249 TTTGCTCAAAGGTTTGTCA
1 TTTGCTCAAAGGTTTGACA
7465268 TT
1 TT
7465270 GGATGCTCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 18 0.49
20 2 0.05
21 2 0.05
22 15 0.41
ACGTcount: A:0.23, C:0.13, G:0.24, T:0.40
Consensus pattern (19 bp):
TTTGCTCAAAGGTTTGACA
Found at i:7465782 original size:11 final size:12
Alignment explanation
Indices: 7465764--7465792 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
7465754 TGCTCATATG
7465764 TGTTTCTCTGGA
1 TGTTTCTCTGGA
7465776 T-TTTCTCTGGA
1 TGTTTCTCTGGA
7465787 TGTTTC
1 TGTTTC
7465793 CATGATCTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.07, C:0.17, G:0.21, T:0.55
Consensus pattern (12 bp):
TGTTTCTCTGGA
Found at i:7466003 original size:9 final size:8
Alignment explanation
Indices: 7465933--7466004 Score: 51
Period size: 8 Copynumber: 9.1 Consensus size: 8
7465923 ATTTTTGCTC
7465933 TTTTTTCT
1 TTTTTTCT
*
7465941 TTTGTTC-
1 TTTTTTCT
*
7465948 TTGTTTCT
1 TTTTTTCT
* *
7465956 CTTGTT-T
1 TTTTTTCT
7465963 TTTTTT-T
1 TTTTTTCT
*
7465970 TTTTTGCT
1 TTTTTTCT
7465978 TTTTTTGCT
1 TTTTTT-CT
*
7465987 TCTTTTCT
1 TTTTTTCT
7465995 TTTTGTTCT
1 TTTT-TTCT
7466004 T
1 T
7466005 GATTGGATCT
Statistics
Matches: 48, Mismatches: 12, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
7 16 0.33
8 20 0.42
9 12 0.25
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.79
Consensus pattern (8 bp):
TTTTTTCT
Found at i:7469100 original size:17 final size:18
Alignment explanation
Indices: 7469074--7469111 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
7469064 AAATAGATAA
*
7469074 ATAAATAAGTAAAAT-AT
1 ATAAAAAAGTAAAATCAT
7469091 ATAAAAAAGTAAAATCAT
1 ATAAAAAAGTAAAATCAT
7469109 ATA
1 ATA
7469112 TATATATAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 14 0.74
18 5 0.26
ACGTcount: A:0.66, C:0.03, G:0.05, T:0.26
Consensus pattern (18 bp):
ATAAAAAAGTAAAATCAT
Found at i:7469115 original size:22 final size:22
Alignment explanation
Indices: 7469087--7469142 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
7469077 AATAAGTAAA
*
7469087 ATATATAAAAAAGTAAAATCAT
1 ATATATAAAAAAGTAAAATAAT
* *
7469109 ATATATATATAAGTAAAATAAT
1 ATATATAAAAAAGTAAAATAAT
7469131 A-ATAATAAAAAA
1 ATAT-ATAAAAAA
7469143 AGAAATCAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.29
Consensus pattern (22 bp):
ATATATAAAAAAGTAAAATAAT
Found at i:7469160 original size:43 final size:38
Alignment explanation
Indices: 7469073--7469160 Score: 86
Period size: 39 Copynumber: 2.2 Consensus size: 38
7469063 TAAATAGATA
* ** *
7469073 AATAAATAAGTAAAATATATAAAAAAGTAAAATCATAT
1 AATATATAAGTAAAATATATAAAAAAAAAAAATCAAAT
7469111 ATATATATAAGTAAAATAATAATAATAAAAAAAGAAATCAAAGT
1 A-ATATATAAGTAAAAT-AT-ATAA-AAAAAAA-AAATCAAA-T
7469155 AATATA
1 AATATA
7469161 CGTATATATA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
38 1 0.03
39 14 0.35
40 2 0.05
41 4 0.10
42 5 0.12
43 12 0.30
44 2 0.05
ACGTcount: A:0.66, C:0.02, G:0.06, T:0.26
Consensus pattern (38 bp):
AATATATAAGTAAAATATATAAAAAAAAAAAATCAAAT
Found at i:7469189 original size:2 final size:2
Alignment explanation
Indices: 7469184--7469222 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
7469174 GCAAATAAGA
*
7469184 AT AT AT AA AT -T AT AT A- AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7469223 ACACTAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 31 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:7469222 original size:32 final size:29
Alignment explanation
Indices: 7469184--7469259 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 29
7469174 GCAAATAAGA
* *
7469184 ATATATAAATTATATAATATATATATATATAT
1 ATATATAAATTA-ATAA-A-AAACATATATAT
*
7469216 ATATATAACACTAATAAAAAACATATATAT
1 ATATATAA-ATTAATAAAAAACATATATAT
7469246 ATA-ATAAATTAATA
1 ATATATAAATTAATA
7469260 GAAAGTAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
28 6 0.15
29 4 0.10
30 13 0.33
31 1 0.03
32 12 0.31
33 3 0.08
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (29 bp):
ATATATAAATTAATAAAAAACATATATAT
Found at i:7469662 original size:37 final size:35
Alignment explanation
Indices: 7469621--7469747 Score: 130
Period size: 37 Copynumber: 3.5 Consensus size: 35
7469611 GGATCCTATC
** *
7469621 TTTAGGAATTTAAATAATAGTAGAACTCTATCATATT
1 TTTAGGAATTTAAATCCTAG-A-AATTCTATCATATT
* * *
7469658 TTTAGGAGTTTAAATCCTAGCAAAATTTTATCCTATT
1 TTTAGGAATTTAAATCCTAG--AAATTCTATCATATT
* *
7469695 TTTAGGAGTTTGAATCCTA-AAATTCTATCATATT
1 TTTAGGAATTTAAATCCTAGAAATTCTATCATATT
*
7469729 TTTAGGAATTTGAATCCTA
1 TTTAGGAATTTAAATCCTA
7469748 ATAGGACGAA
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
34 31 0.40
37 46 0.59
38 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.43
Consensus pattern (35 bp):
TTTAGGAATTTAAATCCTAGAAATTCTATCATATT
Found at i:7469729 original size:34 final size:34
Alignment explanation
Indices: 7469647--7469748 Score: 141
Period size: 34 Copynumber: 2.9 Consensus size: 34
7469637 ATAGTAGAAC
*
7469647 TCTATCATATTTTTAGGAGTTTAAATCCTAGCAAAAT
1 TCTATCATATTTTTAGGAGTTTGAATCCT---AAAAT
* *
7469684 TTTATCCTATTTTTAGGAGTTTGAATCCTAAAAT
1 TCTATCATATTTTTAGGAGTTTGAATCCTAAAAT
*
7469718 TCTATCATATTTTTAGGAATTTGAATCCTAA
1 TCTATCATATTTTTAGGAGTTTGAATCCTAA
7469749 TAGGACGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
34 33 0.56
37 26 0.44
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (34 bp):
TCTATCATATTTTTAGGAGTTTGAATCCTAAAAT
Found at i:7475804 original size:32 final size:31
Alignment explanation
Indices: 7475763--7475871 Score: 96
Period size: 32 Copynumber: 3.5 Consensus size: 31
7475753 GAGTCGAGGG
*
7475763 TTTACCTATGTTCTACGGAACATATGGACAAT
1 TTTACCTATGTTCTACGGAACATATGGA-AAA
* *
7475795 TTTACCTATG-TCTTTC-GAGACATATGTATAAA
1 TTTACCTATGTTC-TACGGA-ACATATGGA-AAA
* * * *
7475827 TATACCTATGTTCTAAGGAACATATGGATAG
1 TTTACCTATGTTCTACGGAACATATGGAAAA
*
7475858 TTTACCTAGGTTCT
1 TTTACCTATGTTCT
7475872 TTGGGACCTA
Statistics
Matches: 61, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
31 17 0.28
32 40 0.66
33 4 0.07
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTACCTATGTTCTACGGAACATATGGAAAA
Found at i:7480897 original size:31 final size:31
Alignment explanation
Indices: 7480812--7480919 Score: 137
Period size: 31 Copynumber: 3.5 Consensus size: 31
7480802 GAGTCGAGGG
7480812 TTTACCTATGTTCTACGGAACATATGGACAA
1 TTTACCTATGTTCTACGGAACATATGGACAA
* * *
7480843 TTTTACCTATG-TCTTTCGAAACATATGTACAA
1 -TTTACCTATGTTC-TACGGAACATATGGACAA
* *
7480875 TATACCTATGTTCTAAGGAACATATGGACAA
1 TTTACCTATGTTCTACGGAACATATGGACAA
*
7480906 TTTACCTAGGTTCT
1 TTTACCTATGTTCT
7480920 TTGGGACCTA
Statistics
Matches: 64, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
31 37 0.58
32 27 0.42
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (31 bp):
TTTACCTATGTTCTACGGAACATATGGACAA
Found at i:7480932 original size:31 final size:31
Alignment explanation
Indices: 7480812--7480935 Score: 133
Period size: 31 Copynumber: 4.0 Consensus size: 31
7480802 GAGTCGAGGG
**
7480812 TTTACCTATGTTCTACGGAACATATGGACAA
1 TTTACCTATGTTCTTTGGAACATATGGACAA
* *
7480843 TTTTACCTATG-TCTTTCGAAACATATGTACAA
1 -TTTACCTATGTTCTTT-GGAACATATGGACAA
* **
7480875 TATACCTATGTTCTAAGGAACATATGGACAA
1 TTTACCTATGTTCTTTGGAACATATGGACAA
* * *
7480906 TTTACCTAGGTTCTTTGGGACCTATGGACA
1 TTTACCTATGTTCTTTGGAACATATGGACA
7480936 GTTGTCGAGG
Statistics
Matches: 75, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
31 49 0.65
32 26 0.35
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.35
Consensus pattern (31 bp):
TTTACCTATGTTCTTTGGAACATATGGACAA
Found at i:7497397 original size:14 final size:14
Alignment explanation
Indices: 7497380--7497417 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
7497370 TACCTTTCAA
7497380 CTTTTCTCTCTCCC
1 CTTTTCTCTCTCCC
7497394 CTTTTCTCTCTCCC
1 CTTTTCTCTCTCCC
* *
7497408 ATTCTCTCTC
1 CTTTTCTCTC
7497418 CCGTCATGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.03, C:0.47, G:0.00, T:0.50
Consensus pattern (14 bp):
CTTTTCTCTCTCCC
Found at i:7498528 original size:18 final size:19
Alignment explanation
Indices: 7498488--7498547 Score: 113
Period size: 19 Copynumber: 3.2 Consensus size: 19
7498478 AAGATGATGG
7498488 TGTCTTTATGCGATGATTA
1 TGTCTTTATGCGATGATTA
7498507 TGTCTTTATGCGATGA-TA
1 TGTCTTTATGCGATGATTA
7498525 TGTCTTTATGCGATGATTA
1 TGTCTTTATGCGATGATTA
7498544 TGTC
1 TGTC
7498548 AATTTTCTGC
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
18 18 0.45
19 22 0.55
ACGTcount: A:0.20, C:0.12, G:0.22, T:0.47
Consensus pattern (19 bp):
TGTCTTTATGCGATGATTA
Found at i:7508090 original size:24 final size:24
Alignment explanation
Indices: 7508063--7508134 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
7508053 GCAAGTGTAT
7508063 TGGTAAAATAAGCTTACGAGCTTA
1 TGGTAAAATAAGCTTACGAGCTTA
* * *
7508087 TGGTACAAAT--G-GTA--AGTATTT
1 TGGTA-AAATAAGCTTACGAG-CTTA
7508108 TGGTAAAATAAGCTTACGAGCTTA
1 TGGTAAAATAAGCTTACGAGCTTA
7508132 TGG
1 TGG
7508135 GATAAATGGT
Statistics
Matches: 35, Mismatches: 6, Indels: 14
0.64 0.11 0.25
Matches are distributed among these distances:
20 6 0.17
21 7 0.20
22 3 0.09
23 3 0.09
24 10 0.29
25 6 0.17
ACGTcount: A:0.35, C:0.10, G:0.24, T:0.32
Consensus pattern (24 bp):
TGGTAAAATAAGCTTACGAGCTTA
Found at i:7508144 original size:45 final size:45
Alignment explanation
Indices: 7508040--7508146 Score: 153
Period size: 45 Copynumber: 2.4 Consensus size: 45
7508030 TGGTAAATGG
* *
7508040 TTAT-GGAAAAATGGCAAGTGTATTGGTAAAATAAGCTTACGAGC
1 TTATGGGAAAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* * *
7508084 TTATGGTACAAATGGTAAGTATTTTGGTAAAATAAGCTTACGAGC
1 TTATGGGAAAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
7508129 TTATGGGATAAATGGTAA
1 TTATGGGAAAAATGGTAA
7508147 AAGATTTTGT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 4 0.07
45 51 0.93
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.31
Consensus pattern (45 bp):
TTATGGGAAAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:7511379 original size:74 final size:74
Alignment explanation
Indices: 7511108--7511629 Score: 406
Period size: 75 Copynumber: 7.0 Consensus size: 74
7511098 TTTTAATACG
* * *
7511108 AAGATTTATCTCACTTGAGATTGATTTTCTTAAAACAAA-TTTTATCTCGCTTGAGATAATTTCA
1 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAA-AAAGATTTATCTCGCTTGAGATAGTTTCA
* *
7511172 CTCGAAATGAG
65 CTCGAAA-CAA
* * ** * * * *
7511183 AAGATTCATTTCAC-TGAAGATCATTTTTCTTAAAACAAGATTTATCTCACTCGAGATAGTTTAA
1 AAGATTTATCTCACTTG-AGATTGTTTTTCTTAAAAAAAGATTTATCTCGCTTGAGATAGTTTCA
*
7511247 CTTGAAACAA
65 CTCGAAACAA
* * * *** * * * *
7511257 GACATTTCATTTCACTCCCGATTGTTTTTCTTAAAAATATATTCATCTCGCCTGAGATAGTTTCA
1 AAGATTT-ATCTCACTTGAGATTGTTTTTCTTAAAAAAAGATTTATCTCGCTTGAGATAGTTTCA
*
7511322 TTCGAAACAA
65 CTCGAAACAA
** *
7511332 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAGATTTATCTCGCTTGAGATATTTTCAC
1 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAAAAGATTTATCTCGCTTGAGATAGTTTCAC
7511397 TCGAAACAA
66 TCGAAACAA
** * ** * *
7511406 AAGATTTTATCTTGCTTGAGATAGTTTCACTCGAAATAAAAGATTTATCTCACTTGAGATTA-TT
1 AAGA-TTTATCTCACTTGAGATTGTTTTTCT-TAAA-AAAAGATTTATCTCGCTTGAGA-TAGTT
** * *
7511470 TTTCT-TAAA-AC
62 TCACTCGAAACAA
* * * * ** * **
7511481 AAGATTCACCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTTATCTTTCTTGAGATAGTTT
1 AAGATTTATCTCACTTGAGATTGTTTTTCT-TAAA-AAAAGA-TTTATCTCGCTTGAGATAGTTT
*
7511546 CACTCGAAACAG
63 CACTCGAAACAA
* * * * ** *
7511558 AAGATTTATCTGAATTGAGATTGTTTTTCTTAAAACAAGATTCATCTAACTTGAGATAGTTTTAC
1 AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAAAAGATTTATCTCGCTTGAGATAGTTTCAC
7511623 TCGAAAC
66 TCGAAAC
7511630 TGTAACATCT
Statistics
Matches: 353, Mismatches: 82, Indels: 25
0.77 0.18 0.05
Matches are distributed among these distances:
74 133 0.38
75 159 0.45
76 12 0.03
77 47 0.13
78 2 0.01
ACGTcount: A:0.33, C:0.16, G:0.13, T:0.38
Consensus pattern (74 bp):
AAGATTTATCTCACTTGAGATTGTTTTTCTTAAAAAAAGATTTATCTCGCTTGAGATAGTTTCAC
TCGAAACAA
Found at i:7511426 original size:39 final size:38
Alignment explanation
Indices: 7511301--7511629 Score: 278
Period size: 36 Copynumber: 8.8 Consensus size: 38
7511291 AAATATATTC
* *
7511301 ATCTCGCCTGAGATAGTTTCATTCGAAACAAAAGATTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTT
* * ** * **
7511339 ATCTCACTTGAGATTGTTTTTCT-TAAA-ACCAGATTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTT
*
7511375 ATCTCGCTTGAGATATTTTCACTCGAAACAAAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGA-TTT
* *
7511414 ATCTTGCTTGAGATAGTTTCACTCGAAATAAAAGATTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTT
* ** * * *
7511452 ATCTCACTTGAGATTA-TTTTTCT-TAAA-ACAAGATTC
1 ATCTCGCTTGAGA-TAGTTTCACTCGAAACAAAAGATTT
*
7511488 ACCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGA-TTT
** *
7511527 ATCTTTCTTGAGATAGTTTCACTCGAAACAGAAGATTT
1 ATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTT
* * ** * * *
7511565 ATCT-GAATTGAGATTGTTTTTCT-TAAA-ACAAGATTC
1 ATCTCG-CTTGAGATAGTTTCACTCGAAACAAAAGATTT
** *
7511601 ATCTAACTTGAGATAGTTTTACTCGAAAC
1 ATCTCGCTTGAGATAGTTTCACTCGAAAC
7511630 TGTAACATCT
Statistics
Matches: 228, Mismatches: 51, Indels: 24
0.75 0.17 0.08
Matches are distributed among these distances:
35 2 0.01
36 73 0.32
37 18 0.08
38 65 0.29
39 70 0.31
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (38 bp):
ATCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTT
Found at i:7511440 original size:113 final size:113
Alignment explanation
Indices: 7511309--7511629 Score: 509
Period size: 113 Copynumber: 2.8 Consensus size: 113
7511299 TCATCTCGCC
* *
7511309 TGAGATAGTTTCATTCGAAACAAAAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACCAGATT
1 TGAGATAGTTTCACTCGAAACAAAAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATT
*
7511374 TATCTCGCTTGAGATATTTTCACTCGAAACAAAAGATTTTATCTTGCT
66 CATCTCGCTTGAGATATTTTCACTCGAAACAAAAGATTTTATCTTGCT
* *
7511422 TGAGATAGTTTCACTCGAAATAAAAGATTTATCTCACTTGAGATTATTTTTCTTAAAACAAGATT
1 TGAGATAGTTTCACTCGAAACAAAAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATT
* * *
7511487 CACCTCGCTTGAGATAGTTTCACTCGAAACAAAAGATTTTATCTTTCT
66 CATCTCGCTTGAGATATTTTCACTCGAAACAAAAGATTTTATCTTGCT
* * *
7511535 TGAGATAGTTTCACTCGAAACAGAAGATTTATCTGAATTGAGATTGTTTTTCTTAAAACAAGATT
1 TGAGATAGTTTCACTCGAAACAAAAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATT
**
7511600 CATCTAACTTGAGATAGTTTT-ACTCGAAAC
66 CATCTCGCTTGAGATA-TTTTCACTCGAAAC
7511630 TGTAACATCT
Statistics
Matches: 190, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
113 187 0.98
114 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (113 bp):
TGAGATAGTTTCACTCGAAACAAAAGATTTATCTCACTTGAGATTGTTTTTCTTAAAACAAGATT
CATCTCGCTTGAGATATTTTCACTCGAAACAAAAGATTTTATCTTGCT
Found at i:7512376 original size:21 final size:21
Alignment explanation
Indices: 7512350--7512405 Score: 103
Period size: 21 Copynumber: 2.7 Consensus size: 21
7512340 ATTGACATGT
7512350 GCATCGATGCACTATGAAAGG
1 GCATCGATGCACTATGAAAGG
*
7512371 GCATCGGTGCACTATGAAAGG
1 GCATCGATGCACTATGAAAGG
7512392 GCATCGATGCACTA
1 GCATCGATGCACTA
7512406 AGACCAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (21 bp):
GCATCGATGCACTATGAAAGG
Found at i:7512910 original size:30 final size:31
Alignment explanation
Indices: 7512855--7512917 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
7512845 TTATATGAGT
7512855 TATGTGATAAAGGTATGGAAAATGATATGTC
1 TATGTGATAAAGGTATGGAAAATGATATGTC
* *
7512886 TATGTGATAAATGTATGG-AAATGATATTTC
1 TATGTGATAAAGGTATGGAAAATGATATGTC
7512916 TA
1 TA
7512918 CGCGATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 13 0.43
31 17 0.57
ACGTcount: A:0.38, C:0.03, G:0.22, T:0.37
Consensus pattern (31 bp):
TATGTGATAAAGGTATGGAAAATGATATGTC
Found at i:7513204 original size:23 final size:23
Alignment explanation
Indices: 7513173--7513244 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
7513163 ACTACAGTGA
*
7513173 AATTGTACGTGGCACTTTGGTGC
1 AATTCTACGTGGCACTTTGGTGC
* *
7513196 ATTTCTACGTGGTCA-TTCGG-GAC
1 AATTCTACGTGG-CACTTTGGTG-C
7513219 AAATTCTACGTGGCACTTTGGTGC
1 -AATTCTACGTGGCACTTTGGTGC
7513243 AA
1 AA
7513245 ATTTATACGA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
22 1 0.03
23 19 0.49
24 18 0.46
25 1 0.03
ACGTcount: A:0.21, C:0.19, G:0.26, T:0.33
Consensus pattern (23 bp):
AATTCTACGTGGCACTTTGGTGC
Found at i:7513245 original size:24 final size:24
Alignment explanation
Indices: 7513172--7513247 Score: 86
Period size: 24 Copynumber: 3.2 Consensus size: 24
7513162 CACTACAGTG
*
7513172 AAATTGTACGTGGCACTTTGGTGC
1 AAATTCTACGTGGCACTTTGGTGC
* *
7513196 -ATTTCTACGTGGTCA-TTCGG-GAC
1 AAATTCTACGTGG-CACTTTGGTG-C
7513219 AAATTCTACGTGGCACTTTGGTGC
1 AAATTCTACGTGGCACTTTGGTGC
7513243 AAATT
1 AAATT
7513248 TATACGAGCT
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
22 1 0.02
23 17 0.40
24 23 0.55
25 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.25, T:0.34
Consensus pattern (24 bp):
AAATTCTACGTGGCACTTTGGTGC
Found at i:7516319 original size:21 final size:21
Alignment explanation
Indices: 7516293--7516333 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
7516283 AAAATTTTTG
7516293 TGCATCGATGCACTGTAGCAA
1 TGCATCGATGCACTGTAGCAA
7516314 TGCATCGATGCACTGTAGCA
1 TGCATCGATGCACTGTAGCA
7516334 CTGTTCATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.24
Consensus pattern (21 bp):
TGCATCGATGCACTGTAGCAA
Found at i:7516747 original size:54 final size:56
Alignment explanation
Indices: 7516627--7516752 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 56
7516617 AAAACAAACT
* ** *
7516627 ACGCCTCACTTGAGGGATTAACATTTCCTTTTCTCAATTCACAACACTTTGATTCAGCA
1 ACGCCTCACTTGAGGGATCAACATTTCC---TCTCAATTCACAACACTTCAAATCAGCA
* * * *
7516686 ACACCTCACTTGAGGGATCAACATTT-C-CTCGATTCACAATACTTCAAATCAGCG
1 ACGCCTCACTTGAGGGATCAACATTTCCTCTCAATTCACAACACTTCAAATCAGCA
7516740 ACGCCTCACTTGA
1 ACGCCTCACTTGA
7516753 TGAACCAATA
Statistics
Matches: 58, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
54 33 0.57
58 1 0.02
59 24 0.41
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.29
Consensus pattern (56 bp):
ACGCCTCACTTGAGGGATCAACATTTCCTCTCAATTCACAACACTTCAAATCAGCA
Found at i:7518342 original size:11 final size:11
Alignment explanation
Indices: 7518322--7518351 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
7518312 GGTCCCTGTA
7518322 TTTATGTTTAT
1 TTTATGTTTAT
*
7518333 TTTATTTTTAT
1 TTTATGTTTAT
7518344 TTTATGTT
1 TTTATGTT
7518352 GTTTTCACTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (11 bp):
TTTATGTTTAT
Found at i:7520762 original size:11 final size:11
Alignment explanation
Indices: 7520748--7520783 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
7520738 AAATATATAA
*
7520748 TATATATAGTT
1 TATATGTAGTT
7520759 TATATGTAGTT
1 TATATGTAGTT
*
7520770 TACATGTAGTT
1 TATATGTAGTT
7520781 TAT
1 TAT
7520784 TAATAAACTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.53
Consensus pattern (11 bp):
TATATGTAGTT
Found at i:7520878 original size:2 final size:2
Alignment explanation
Indices: 7520702--7520863 Score: 68
Period size: 2 Copynumber: 81.5 Consensus size: 2
7520692 TTGAGAAAAT
* * * *
7520702 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA AA GA CA AA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
7520743 TA TA -A TA TA TA TA GTT TA TA TG TA GTT TA CA TG TA GTT TA T-
1 TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA -TA TA TA
* * * *
7520784 TA -A TA AA CTA TG TA -A TT TA TA TA TA TA TA TA AA TA TA TA -A
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
7520824 TA TA TA -A TA TT TA TG TA TA TA GTT TA TA TA TA TA GTA TA T
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA T
7520864 TAAGTACATA
Statistics
Matches: 116, Mismatches: 31, Indels: 26
0.67 0.18 0.15
Matches are distributed among these distances:
1 7 0.06
2 102 0.88
3 7 0.06
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (2 bp):
TA
Found at i:7520974 original size:9 final size:9
Alignment explanation
Indices: 7520960--7520992 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
7520950 GTGTAAACAA
*
7520960 TATATAAAC
1 TATATAAAG
7520969 TATATAAAG
1 TATATAAAG
7520978 TAT-TAAAG
1 TATATAAAG
7520986 TATATAA
1 TATATAA
7520993 TTTATATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 8 0.36
9 14 0.64
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (9 bp):
TATATAAAG
Found at i:7521050 original size:20 final size:19
Alignment explanation
Indices: 7521020--7521071 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
7521010 TAAGTATGTA
*
7521020 TATAAACTATATTTA-TAT
1 TATAAACTATATATATTAT
7521038 TATAAACTATATA-ATTAT
1 TATAAACTATATATATTAT
*
7521056 TATAATCTATATATAT
1 TATAAACTATATATAT
7521072 AAATTATGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 1 0.03
18 27 0.90
19 2 0.07
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.48
Consensus pattern (19 bp):
TATAAACTATATATATTAT
Found at i:7521077 original size:20 final size:18
Alignment explanation
Indices: 7521020--7521078 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
7521010 TAAGTATGTA
*
7521020 TATAAACTATAT-TTATAT
1 TATAAACTATATAATA-AT
*
7521038 TATAAACTATATAATTAT
1 TATAAACTATATAATAAT
*
7521056 TATAATCTATATATATAAAT
1 TATAAACTATATA-AT-AAT
7521076 TAT
1 TAT
7521079 GGTTATATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 26 0.76
19 3 0.09
20 5 0.15
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATAAACTATATAATAAT
Found at i:7521102 original size:28 final size:26
Alignment explanation
Indices: 7521056--7521134 Score: 86
Period size: 28 Copynumber: 2.9 Consensus size: 26
7521046 ATATAATTAT
* *
7521056 TATAATCTATATATATAAATTATGGTTA
1 TATAAACTATATATATAAACTAT-G-TA
*
7521084 TATGAACTATATATATAAACTATGTA
1 TATAAACTATATATATAAACTATGTA
*
7521110 TATAAATTATATATTTATAAACTAT
1 TATAAACTATATA--TATAAACTAT
7521135 AAAAAGTACG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
26 13 0.30
27 1 0.02
28 30 0.68
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (26 bp):
TATAAACTATATATATAAACTATGTA
Found at i:7521122 original size:11 final size:13
Alignment explanation
Indices: 7521033--7521135 Score: 73
Period size: 13 Copynumber: 7.3 Consensus size: 13
7521023 AAACTATATT
7521033 TATAT-TATAAAC
1 TATATATATAAAC
7521045 TATATAATTATTATAATC
1 TATAT-A-TA-TA-AA-C
*
7521063 TATATATATAAAT
1 TATATATATAAAC
* *
7521076 TATGGTTATATGAAC
1 TAT--ATATATAAAC
7521091 TATATATATAAAC
1 TATATATATAAAC
* *
7521104 TATGTATATAAAT
1 TATATATATAAAC
7521117 TATATATTTATAAAC
1 TATATA--TATAAAC
7521132 TATA
1 TATA
7521136 AAAAGTACGT
Statistics
Matches: 71, Mismatches: 10, Indels: 17
0.72 0.10 0.17
Matches are distributed among these distances:
12 5 0.07
13 27 0.38
14 2 0.03
15 24 0.34
16 4 0.06
17 3 0.04
18 6 0.08
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.45
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:7521199 original size:78 final size:79
Alignment explanation
Indices: 7521091--7521281 Score: 233
Period size: 78 Copynumber: 2.4 Consensus size: 79
7521081 TTATATGAAC
* * *
7521091 TATATATATAAACTATGTATATAAATTATATATTTATAAACTATAAAAAGTACGTAGTTTATAAA
1 TATATATAT--ACTATGTA--TAAACTATATATGTATAAACTATAAAAAGTACATAGTTTATAAA
7521156 CTATAATTTATATTAATA
62 CTATAATTTATATTAATA
** * *
7521174 TATATATATA-TATGTATAAACTATATATGTATAAACTATGTAAAGTATATAGTTTATAAATTAT
1 TATATATATACTATGTATAAACTATATATGTATAAACTATAAAAAGTACATAGTTTATAAACTAT
7521238 AATTTATATTAATA
66 AATTTATATTAATA
*
7521252 TAGTATATATATGTATGTAT-AACTAATATA
1 TA-TATATATA-CTATGTATAAACT-ATATA
7521282 AGTAATCTAT
Statistics
Matches: 97, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
78 57 0.59
79 8 0.08
80 10 0.10
81 13 0.13
83 9 0.09
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (79 bp):
TATATATATACTATGTATAAACTATATATGTATAAACTATAAAAAGTACATAGTTTATAAACTAT
AATTTATATTAATA
Found at i:7521200 original size:15 final size:15
Alignment explanation
Indices: 7521180--7521212 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
7521170 AATATATATA
7521180 TATATATGTATAAAC
1 TATATATGTATAAAC
7521195 TATATATGTATAAAC
1 TATATATGTATAAAC
7521210 TAT
1 TAT
7521213 GTAAAGTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.42
Consensus pattern (15 bp):
TATATATGTATAAAC
Found at i:7521398 original size:14 final size:15
Alignment explanation
Indices: 7521376--7521414 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
7521366 TAGTTTATAC
7521376 AAACCCTAAACT-AT
1 AAACCCTAAACTCAT
*
7521390 AAGCCCTAAA-TCAT
1 AAACCCTAAACTCAT
7521404 AAACCCTAAAC
1 AAACCCTAAAC
7521415 CTAAACAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 1 0.05
14 20 0.95
ACGTcount: A:0.49, C:0.31, G:0.03, T:0.18
Consensus pattern (15 bp):
AAACCCTAAACTCAT
Found at i:7524374 original size:22 final size:22
Alignment explanation
Indices: 7524356--7524400 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
7524346 GAAAGTTTGT
7524356 TAGTT-GTTAACAATTAGTTAG
1 TAGTTAGTTAACAATTAGTTAG
*
7524377 TAGTTAGTTAGCAATTAGTTAG
1 TAGTTAGTTAACAATTAGTTAG
7524399 TA
1 TA
7524401 AATTAGTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.33, C:0.04, G:0.20, T:0.42
Consensus pattern (22 bp):
TAGTTAGTTAACAATTAGTTAG
Found at i:7524383 original size:11 final size:11
Alignment explanation
Indices: 7524367--7524408 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
7524357 AGTTGTTAAC
7524367 AATTAGTTAGT
1 AATTAGTTAGT
* *
7524378 AGTTAGTTAGC
1 AATTAGTTAGT
7524389 AATTAGTTAGT
1 AATTAGTTAGT
7524400 AAATTAGTT
1 -AATTAGTT
7524409 GGTGTAATTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 18 0.69
12 8 0.31
ACGTcount: A:0.36, C:0.02, G:0.19, T:0.43
Consensus pattern (11 bp):
AATTAGTTAGT
Found at i:7526842 original size:132 final size:132
Alignment explanation
Indices: 7526637--7526896 Score: 375
Period size: 132 Copynumber: 2.0 Consensus size: 132
7526627 CCCTGTATAA
*
7526637 TGATATAAGAAGAGATTAACTAATACTAATTTATTTGTGCAGTTATCAGATGTAAAGAGAAGCAA
1 TGATATAAGAAGAGATTAACTAATACTAACTTATTTGTGCAGTTATCAGATGTAAAGAGAAGCAA
* * * * *
7526702 ATGTATTTCTAATTTCCAATCACCTGTGACCCTGTGCCGGTTTGATCCCCTTCTTG-TTGTTTCT
66 ATGTATTTCCAAGTTCCAATCACC--CGACCCTGTGCCGCTTTGATCCCCTT-GTGCTTGTTTCT
7526766 GCATC
128 GCATC
* *
7526771 TGATATAATAAGAGATTAACT-A-A-TAACTTATTTGTGCAGTTATCAGATGTGATAGAGAAGCA
1 TGATATAAGAAGAGATTAACTAATACTAACTTATTTGTGCAGTTATCAGATGT-AAAGAGAAGCA
*
7526833 AATGTATTTCCAAGTTCCAATCACCCGACCCTGTGCCGCTTTGATCTCCTTGTGCTTGTTTCTG
65 AATGTATTTCCAAGTTCCAATCACCCGACCCTGTGCCGCTTTGATCCCCTTGTGCTTGTTTCTG
7526897 TAGCTGAATG
Statistics
Matches: 115, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
129 2 0.02
130 32 0.28
131 26 0.23
132 34 0.30
133 1 0.01
134 20 0.17
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (132 bp):
TGATATAAGAAGAGATTAACTAATACTAACTTATTTGTGCAGTTATCAGATGTAAAGAGAAGCAA
ATGTATTTCCAAGTTCCAATCACCCGACCCTGTGCCGCTTTGATCCCCTTGTGCTTGTTTCTGCA
TC
Found at i:7528154 original size:21 final size:22
Alignment explanation
Indices: 7528130--7528188 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
7528120 AATAATTGTA
*
7528130 TTACTTGTAAGCATTATC-TAT
1 TTACTTGTAAGCATTAACATAT
*
7528151 TTACTT-TAGTCGCA-TAACATAT
1 TTACTTGTA--AGCATTAACATAT
7528173 TTACTTGTAAGCATTA
1 TTACTTGTAAGCATTA
7528189 GATTAGGGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 9
0.71 0.07 0.21
Matches are distributed among these distances:
20 2 0.07
21 12 0.40
22 14 0.47
23 2 0.07
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (22 bp):
TTACTTGTAAGCATTAACATAT
Found at i:7537645 original size:20 final size:20
Alignment explanation
Indices: 7537620--7537658 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
7537610 GGTAATTAGC
7537620 GTTGCGAATTTGAAAATCGT
1 GTTGCGAATTTGAAAATCGT
7537640 GTTGCGAATTTGAAAATCG
1 GTTGCGAATTTGAAAATCG
7537659 CATTGCGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.10, G:0.26, T:0.33
Consensus pattern (20 bp):
GTTGCGAATTTGAAAATCGT
Found at i:7537664 original size:20 final size:20
Alignment explanation
Indices: 7537621--7537666 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
7537611 GTAATTAGCG
**
7537621 TTGCGAATTTGAAAATCGTG
1 TTGCGAATTTGAAAATCGCA
7537641 TTGCGAATTTGAAAATCGCA
1 TTGCGAATTTGAAAATCGCA
7537661 TTGCGA
1 TTGCGA
7537667 TAGTATTGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (20 bp):
TTGCGAATTTGAAAATCGCA
Found at i:7537706 original size:57 final size:56
Alignment explanation
Indices: 7537640--7537781 Score: 230
Period size: 57 Copynumber: 2.5 Consensus size: 56
7537630 TGAAAATCGT
* *
7537640 GTTGCGAATTTGAAAATCGCATTGCGATAGTATTGTTTACCTATATCGATAATTAGC
1 GTTGCGAATTTGAAAATCGCATTGCGATAGTACTG-TTAACTATATCGATAATTAGC
*
7537697 GTTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTAACTATATCGGTAATTAGC
1 GTTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTAACTATATCGATAATTAGC
*
7537753 GTTGCGAATTTGGAAAATCGCGTTGCGAT
1 GTTGCGAATTT-GAAAATCGCATTGCGAT
7537782 TTTCGAAACT
Statistics
Matches: 80, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
56 30 0.38
57 50 0.62
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.35
Consensus pattern (56 bp):
GTTGCGAATTTGAAAATCGCATTGCGATAGTACTGTTAACTATATCGATAATTAGC
Found at i:7537777 original size:21 final size:20
Alignment explanation
Indices: 7537751--7537845 Score: 93
Period size: 20 Copynumber: 4.7 Consensus size: 20
7537741 TCGGTAATTA
*
7537751 GCGTTGCGAATTTGGAAAAT
1 GCGTTGCGAATTTGGAAACT
* *
7537771 CGCGTTGCGATTTTCGAAACT
1 -GCGTTGCGAATTTGGAAACT
*
7537792 GAGTTGCGAATTTGGAAACT
1 GCGTTGCGAATTTGGAAACT
* * **
7537812 GTGTTGCGAAATTGG-AGTT
1 GCGTTGCGAATTTGGAAACT
7537831 CGCGTTGCGAATTTG
1 -GCGTTGCGAATTTG
7537846 TTGGTTATTT
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
19 2 0.03
20 42 0.69
21 17 0.28
ACGTcount: A:0.23, C:0.14, G:0.31, T:0.33
Consensus pattern (20 bp):
GCGTTGCGAATTTGGAAACT
Found at i:7543156 original size:19 final size:21
Alignment explanation
Indices: 7543132--7543174 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
7543122 AATATCATCT
*
7543132 AAAATATT-TATA-AAATAAA
1 AAAATATTATAAACAAATAAA
7543151 AAAATATTATAAACAAATAAA
1 AAAATATTATAAACAAATAAA
7543172 AAA
1 AAA
7543175 TAATTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 3 0.14
21 10 0.48
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
AAAATATTATAAACAAATAAA
Found at i:7543180 original size:21 final size:19
Alignment explanation
Indices: 7543132--7543180 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
7543122 AATATCATCT
* *
7543132 AAAATATTTATAAAATAAA
1 AAAATAATTATAAAAAAAA
7543151 AAAAT-ATTATAAACAAATAA
1 AAAATAATTATAAA-AAA-AA
7543171 AAAATAATTA
1 AAAATAATTA
7543181 AATTTATGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 7 0.28
19 7 0.28
20 7 0.28
21 4 0.16
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATAATTATAAAAAAAA
Found at i:7553283 original size:53 final size:53
Alignment explanation
Indices: 7553220--7553327 Score: 216
Period size: 53 Copynumber: 2.0 Consensus size: 53
7553210 GAGAATTAGG
7553220 TTTAACCAACCTACCTTGATTTTGTGTTTAAAATAATTTAGCACTTTTAATGA
1 TTTAACCAACCTACCTTGATTTTGTGTTTAAAATAATTTAGCACTTTTAATGA
7553273 TTTAACCAACCTACCTTGATTTTGTGTTTAAAATAATTTAGCACTTTTAATGA
1 TTTAACCAACCTACCTTGATTTTGTGTTTAAAATAATTTAGCACTTTTAATGA
7553326 TT
1 TT
7553328 AAGGAAACAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 55 1.00
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.44
Consensus pattern (53 bp):
TTTAACCAACCTACCTTGATTTTGTGTTTAAAATAATTTAGCACTTTTAATGA
Found at i:7553303 original size:26 final size:26
Alignment explanation
Indices: 7553219--7553303 Score: 70
Period size: 26 Copynumber: 3.2 Consensus size: 26
7553209 AGAGAATTAG
7553219 GTTTAACCAACCTACCTTGATTTTGT
1 GTTTAACCAACCTACCTTGATTTTGT
** *
7553245 GTTTAA--AA--TAATTTAGCACTTTTAAT
1 GTTTAACCAACCTACCTT-G-A-TTTT-GT
7553271 GATTTAACCAACCTACCTTGATTTTGT
1 G-TTTAACCAACCTACCTTGATTTTGT
7553298 GTTTAA
1 GTTTAA
7553304 AATAATTTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
22 4 0.09
23 1 0.02
24 3 0.07
25 4 0.09
26 13 0.30
27 7 0.16
28 4 0.09
29 3 0.07
30 1 0.02
31 4 0.09
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.44
Consensus pattern (26 bp):
GTTTAACCAACCTACCTTGATTTTGT
Found at i:7556114 original size:24 final size:19
Alignment explanation
Indices: 7556054--7556113 Score: 93
Period size: 19 Copynumber: 3.2 Consensus size: 19
7556044 TGTTAAGTAA
* *
7556054 ATTTAAGATTTTATATTCG
1 ATTTAAAATATTATATTCG
7556073 ATTTAAAATATTATATTCG
1 ATTTAAAATATTATATTCG
*
7556092 ATTTAAAATATCATATTCG
1 ATTTAAAATATTATATTCG
7556111 ATT
1 ATT
7556114 CAATTGTTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 38 1.00
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (19 bp):
ATTTAAAATATTATATTCG
Found at i:7565180 original size:21 final size:21
Alignment explanation
Indices: 7565138--7565181 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
7565128 TCAACATTTT
* *
7565138 TTGCATTCTGCATTTGCATCA
1 TTGCATTATGCATTGGCATCA
7565159 TTGCATTATGCA-TGGCATTCA
1 TTGCATTATGCATTGGCA-TCA
7565180 TT
1 TT
7565182 TAAGCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.20, C:0.20, G:0.16, T:0.43
Consensus pattern (21 bp):
TTGCATTATGCATTGGCATCA
Found at i:7568792 original size:35 final size:35
Alignment explanation
Indices: 7568701--7568813 Score: 131
Period size: 34 Copynumber: 3.2 Consensus size: 35
7568691 GAAATTCTTA
*
7568701 AAAACAAAGTTTTGTCTCGCTTGAGACAGTTTTCTCT
1 AAAACAAA--TTTGTCTCGCTTGAGACAATTTTCTCT
*
7568738 AAAA-AAAATTGTCTCGCTTGAGACAA-TTTCTCT
1 AAAACAAATTTGTCTCGCTTGAGACAATTTTCTCT
* * *
7568771 CAAAACAAATTTGTCTCGCTTGAAACATTTTTTCTTT
1 -AAAACAAATTTGTCTCGCTTGAGACA-ATTTTCTCT
7568808 AAAACA
1 AAAACA
7568814 CAAATTCTGA
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
33 7 0.11
34 21 0.32
35 19 0.29
36 9 0.14
37 10 0.15
ACGTcount: A:0.34, C:0.19, G:0.12, T:0.36
Consensus pattern (35 bp):
AAAACAAATTTGTCTCGCTTGAGACAATTTTCTCT
Found at i:7568968 original size:66 final size:65
Alignment explanation
Indices: 7568869--7569045 Score: 259
Period size: 66 Copynumber: 2.7 Consensus size: 65
7568859 AGTATATTTT
* *
7568869 CCTTGAAAC-AATTTTGTCTCCCTTGAGATAGTTTCTCATGAAACACCCAT-ATTTGAGATCGTT
1 CCTTGAAACGAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA--CATCATTTGAGATCGTT
7568932 TC
64 TC
* * *
7568934 CCTTGAAACGAATTATGTCTCCCTTGAGACAGTTTCTCTTGAAACACATGCCTTTGAGATTGTTT
1 CCTTGAAACGAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACAT-CATTTGAGATCGTTT
7568999 C
65 C
*
7569000 CCTTGAAACGAATTTTGTCTCCCTTGAGACAGTTACTCTTGAAACA
1 CCTTGAAACGAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACA
7569046 AATCCCTAAT
Statistics
Matches: 102, Mismatches: 7, Indels: 5
0.89 0.06 0.04
Matches are distributed among these distances:
64 3 0.03
65 9 0.09
66 90 0.88
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (65 bp):
CCTTGAAACGAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACACATCATTTGAGATCGTTTC
Found at i:7568969 original size:36 final size:36
Alignment explanation
Indices: 7568921--7569044 Score: 118
Period size: 36 Copynumber: 3.6 Consensus size: 36
7568911 ACACCCATAT
7568921 TTGAGATC-GTTTCCCTTGAAACGAATTATGTCTCCC
1 TTGAGA-CAGTTTCCCTTGAAACGAATTATGTCTCCC
* * *
7568957 TTGAGACAGTTTCTCTTGAAAC--A-CATG---CCT
1 TTGAGACAGTTTCCCTTGAAACGAATTATGTCTCCC
** *
7568987 TTGAGATTGTTTCCCTTGAAACGAATTTTGTCTCCC
1 TTGAGACAGTTTCCCTTGAAACGAATTATGTCTCCC
* *
7569023 TTGAGACAGTTACTCTTGAAAC
1 TTGAGACAGTTTCCCTTGAAAC
7569045 AAATCCCTAA
Statistics
Matches: 68, Mismatches: 13, Indels: 14
0.72 0.14 0.15
Matches are distributed among these distances:
30 21 0.31
32 1 0.01
33 5 0.07
34 1 0.01
35 1 0.01
36 39 0.57
ACGTcount: A:0.24, C:0.23, G:0.17, T:0.36
Consensus pattern (36 bp):
TTGAGACAGTTTCCCTTGAAACGAATTATGTCTCCC
Found at i:7570917 original size:13 final size:12
Alignment explanation
Indices: 7570895--7570921 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7570885 TTCTTTTCAA
7570895 AAATCATTTTTG
1 AAATCATTTTTG
7570907 AAATCATTTTTG
1 AAATCATTTTTG
7570919 AAA
1 AAA
7570922 AATTACTCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.44
Consensus pattern (12 bp):
AAATCATTTTTG
Found at i:7570924 original size:14 final size:14
Alignment explanation
Indices: 7570888--7570924 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
7570878 TAAGATTTTC
*
7570888 TTTTCAAAAATCAT
1 TTTTGAAAAATCAT
7570902 TTTTG--AAATCAT
1 TTTTGAAAAATCAT
7570914 TTTTGAAAAAT
1 TTTTGAAAAAT
7570925 TACTCCTACT
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
12 12 0.60
14 8 0.40
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.46
Consensus pattern (14 bp):
TTTTGAAAAATCAT
Found at i:7572605 original size:14 final size:14
Alignment explanation
Indices: 7572581--7572625 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
7572571 CTAATGGGTA
7572581 ATTTTTG-AAAACT
1 ATTTTTGAAAAACT
7572594 ATTTTTGAAAAACT
1 ATTTTTGAAAAACT
** *
7572608 AAGTTTGAAAAATT
1 ATTTTTGAAAAACT
7572622 ATTT
1 ATTT
7572626 GTATATAGTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
13 7 0.27
14 19 0.73
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (14 bp):
ATTTTTGAAAAACT
Found at i:7576127 original size:16 final size:17
Alignment explanation
Indices: 7576099--7576135 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
7576089 CCTTGTCCCC
7576099 TTAGGTATCCATT-TAT
1 TTAGGTATCCATTATAT
7576115 TTAGGATAT-CATTATAT
1 TTAGG-TATCCATTATAT
7576132 TTAG
1 TTAG
7576136 TAGTATTGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (17 bp):
TTAGGTATCCATTATAT
Found at i:7578534 original size:21 final size:21
Alignment explanation
Indices: 7578510--7578585 Score: 152
Period size: 21 Copynumber: 3.6 Consensus size: 21
7578500 CAACACTAGG
7578510 GGTATCGGTACCTTTGGAATA
1 GGTATCGGTACCTTTGGAATA
7578531 GGTATCGGTACCTTTGGAATA
1 GGTATCGGTACCTTTGGAATA
7578552 GGTATCGGTACCTTTGGAATA
1 GGTATCGGTACCTTTGGAATA
7578573 GGTATCGGTACCT
1 GGTATCGGTACCT
7578586 CTTTGCATAG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (21 bp):
GGTATCGGTACCTTTGGAATA
Found at i:7580789 original size:40 final size:40
Alignment explanation
Indices: 7580745--7580824 Score: 133
Period size: 40 Copynumber: 2.0 Consensus size: 40
7580735 ATGTTAGATC
**
7580745 CATTTACATTCTTTTATATTCGTATTTTTCTATCTATTTT
1 CATTTACATTCTTTTATATTCACATTTTTCTATCTATTTT
*
7580785 CATTTACATTCTTTTATATTCACATTTTTGTATCTATTTT
1 CATTTACATTCTTTTATATTCACATTTTTCTATCTATTTT
7580825 ATAACCATCT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.21, C:0.15, G:0.03, T:0.61
Consensus pattern (40 bp):
CATTTACATTCTTTTATATTCACATTTTTCTATCTATTTT
Found at i:7581655 original size:13 final size:13
Alignment explanation
Indices: 7581637--7581668 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
7581627 ATAATTGATT
7581637 TTTTAAAATAATA
1 TTTTAAAATAATA
7581650 TTTTAAAATAATA
1 TTTTAAAATAATA
7581663 TTTTAA
1 TTTTAA
7581669 TTGTTTTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTTAAAATAATA
Found at i:7585394 original size:15 final size:15
Alignment explanation
Indices: 7585371--7585436 Score: 87
Period size: 15 Copynumber: 4.4 Consensus size: 15
7585361 TGCCCCGCAT
*
7585371 CCGCACCGCATCCAC
1 CCGCCCCGCATCCAC
*
7585386 CCGCCCCGCATCCGC
1 CCGCCCCGCATCCAC
**
7585401 CCGTACCGCATCCAC
1 CCGCCCCGCATCCAC
*
7585416 CCGCCCCACATCCAC
1 CCGCCCCGCATCCAC
7585431 CCGCCC
1 CCGCCC
7585437 AACTAAATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 43 1.00
ACGTcount: A:0.15, C:0.64, G:0.14, T:0.08
Consensus pattern (15 bp):
CCGCCCCGCATCCAC
Found at i:7585398 original size:26 final size:28
Alignment explanation
Indices: 7585362--7585428 Score: 93
Period size: 30 Copynumber: 2.4 Consensus size: 28
7585352 GACCTTACCT
7585362 GCCCCGCATCCG-C-ACCGCATCCACCC
1 GCCCCGCATCCGCCGACCGCATCCACCC
7585388 GCCCCGCATCCGCCCGTACCGCATCCACCC
1 GCCCCGCATCCG-CCG-ACCGCATCCACCC
*
7585418 GCCCCACATCC
1 GCCCCGCATCC
7585429 ACCCGCCCAA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 12 0.33
28 1 0.03
30 23 0.64
ACGTcount: A:0.15, C:0.61, G:0.15, T:0.09
Consensus pattern (28 bp):
GCCCCGCATCCGCCGACCGCATCCACCC
Found at i:7585411 original size:30 final size:30
Alignment explanation
Indices: 7585375--7585433 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
7585365 CCGCATCCGC
* *
7585375 ACCGCATCCACCCGCCCCGCATCCGCCCGT
1 ACCGCATCCACCCGCCCCACATCCACCCGT
7585405 ACCGCATCCACCCGCCCCACATCCACCCG
1 ACCGCATCCACCCGCCCCACATCCACCCG
7585434 CCCAACTAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.17, C:0.61, G:0.14, T:0.08
Consensus pattern (30 bp):
ACCGCATCCACCCGCCCCACATCCACCCGT
Found at i:7591808 original size:3 final size:3
Alignment explanation
Indices: 7591800--7591845 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
7591790 TATTAGGAAA
*
7591800 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
7591846 TATATATATA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:7591850 original size:2 final size:2
Alignment explanation
Indices: 7591843--7591898 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
7591833 AATAATAACA
7591843 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7591885 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
7591899 GAAATACGAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7591984 original size:3 final size:3
Alignment explanation
Indices: 7591935--7591965 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
7591925 ATAAGGGGAA
7591935 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7591966 AAAAAAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:7602372 original size:21 final size:22
Alignment explanation
Indices: 7602316--7602373 Score: 59
Period size: 21 Copynumber: 2.7 Consensus size: 22
7602306 TCTGTTAGTT
*
7602316 AATATGAATGTAAAAACATGGAA
1 AATATAAATG-AAAAACATGGAA
*
7602339 AATATATAT-AAAAACAT-G-A
1 AATATAAATGAAAAACATGGAA
7602358 AATATAAAATGAAAAA
1 AATAT-AAATGAAAAA
7602374 TCTGTAATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 6 0.20
20 4 0.13
21 13 0.43
23 7 0.23
ACGTcount: A:0.64, C:0.03, G:0.10, T:0.22
Consensus pattern (22 bp):
AATATAAATGAAAAACATGGAA
Found at i:7611594 original size:7 final size:7
Alignment explanation
Indices: 7611575--7611607 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
7611565 ATATTAGGAA
7611575 AAATAAT
1 AAATAAT
7611582 -AATAAT
1 AAATAAT
7611588 AAATAAT
1 AAATAAT
7611595 AAATAAT
1 AAATAAT
7611602 AAATAA
1 AAATAA
7611608 CAATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.24
7 19 0.76
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATAAT
Found at i:7611601 original size:14 final size:13
Alignment explanation
Indices: 7611575--7611612 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
7611565 ATATTAGGAA
7611575 AAATAATAATAAT
1 AAATAATAATAAT
7611588 AAATAATAAATAAT
1 AAATAAT-AATAAT
*
7611602 AAATAACAATA
1 AAATAATAATA
7611613 TATATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (13 bp):
AAATAATAATAAT
Found at i:7611617 original size:2 final size:2
Alignment explanation
Indices: 7611610--7611643 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7611600 ATAAATAACA
7611610 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7611644 GAAATACGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7611710 original size:23 final size:22
Alignment explanation
Indices: 7611679--7611765 Score: 72
Period size: 23 Copynumber: 3.9 Consensus size: 22
7611669 AATAAGGGGC
*
7611679 AAAATAAAATAAATAATAATAAT
1 AAAACAAAATAAATAAT-ATAAT
7611702 AAAACAAAA-AATATAATTATAAT
1 AAAACAAAATAA-ATAA-TATAAT
**
7611725 AAAA-GGAATAAATAATA-AAT
1 AAAACAAAATAAATAATATAAT
* *
7611745 GAAACAAAACAAATATATATA
1 AAAACAAAATAAATA-ATATA
7611766 TATATATATA
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
20 6 0.12
21 9 0.18
22 11 0.22
23 24 0.47
24 1 0.02
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.23
Consensus pattern (22 bp):
AAAACAAAATAAATAATATAAT
Found at i:7611764 original size:2 final size:2
Alignment explanation
Indices: 7611757--7611790 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
7611747 AACAAAACAA
*
7611757 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7611791 TAAAAAGGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:7613672 original size:2 final size:2
Alignment explanation
Indices: 7613665--7613690 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7613655 TTAATTAATA
7613665 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
7613691 TCTTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7626131 original size:23 final size:23
Alignment explanation
Indices: 7626101--7626146 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
7626091 TAACAATTTA
7626101 TTCATTTGACACTTCTTCACGCT
1 TTCATTTGACACTTCTTCACGCT
7626124 TTCATTTGACACTTCTTCACGCT
1 TTCATTTGACACTTCTTCACGCT
7626147 GTGCAATACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.17, C:0.30, G:0.09, T:0.43
Consensus pattern (23 bp):
TTCATTTGACACTTCTTCACGCT
Found at i:7630174 original size:23 final size:23
Alignment explanation
Indices: 7630146--7630237 Score: 112
Period size: 23 Copynumber: 3.8 Consensus size: 23
7630136 TATTAATTTT
7630146 AATATTAATTTTTAAATAAATTA
1 AATATTAATTTTTAAATAAATTA
*
7630169 AATATTAATTTTTTAATATTATATTA
1 AATATTAA-TTTTTAA-A-TAAATTA
*
7630195 TAGATATTATTTTTTAAATAAATTA
1 -A-ATATTAATTTTTAAATAAATTA
*
7630220 AATATTAATTTTTTAATA
1 AATATTAATTTTTAAATA
7630238 TTATATTATA
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
23 23 0.39
24 8 0.14
25 7 0.12
26 7 0.12
27 8 0.14
28 6 0.10
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (23 bp):
AATATTAATTTTTAAATAAATTA
Found at i:7630188 original size:14 final size:14
Alignment explanation
Indices: 7630142--7630277 Score: 75
Period size: 14 Copynumber: 10.6 Consensus size: 14
7630132 TAGATATTAA
7630142 TTTTAATATTAA-T
1 TTTTAATATTAATT
7630155 TTTTAA-A-TAA--
1 TTTTAATATTAATT
* *
7630165 ATTAAATATTAATT
1 TTTTAATATTAATT
*
7630179 TTTTAATATT-ATA
1 TTTTAATATTAATT
*
7630192 TTATAGATATT-ATT
1 TTTTA-ATATTAATT
7630206 TTTTAA-A-TAA--
1 TTTTAATATTAATT
* *
7630216 ATTAAATATTAATT
1 TTTTAATATTAATT
*
7630230 TTTTAATATT-ATA
1 TTTTAATATTAATT
*
7630243 TTATATATATTAA--
1 TTTTA-ATATTAATT
7630256 TTTTAATATTAATT
1 TTTTAATATTAATT
*
7630270 TTTAAATA
1 TTTTAATA
7630278 AATTAAATAT
Statistics
Matches: 93, Mismatches: 16, Indels: 27
0.68 0.12 0.20
Matches are distributed among these distances:
10 8 0.09
11 6 0.06
12 16 0.17
13 23 0.25
14 39 0.42
15 1 0.01
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (14 bp):
TTTTAATATTAATT
Found at i:7630207 original size:26 final size:26
Alignment explanation
Indices: 7630112--7630266 Score: 130
Period size: 26 Copynumber: 6.1 Consensus size: 26
7630102 CAAAGAGGTT
* * *
7630112 TTATATT-TAATTTTATATTATAGATA
1 TTATATTATAATATTATTTTTTA-ATA
* *
7630138 TTA-ATTTTAATATTAATTTTTAA-A
1 TTATATTATAATATTATTTTTTAATA
*
7630162 -TAAATTA-AATATTAATTTTTTAATA
1 TTATATTATAATATT-ATTTTTTAATA
7630187 TTATATTATAGATATTATTTTTTAA-A
1 TTATATTATA-ATATTATTTTTTAATA
*
7630213 -TAAATTA-AATATTAATTTTTTAATA
1 TTATATTATAATATT-ATTTTTTAATA
*
7630238 TTATATTATATATATTA-ATTTTAATA
1 TTATATTATA-ATATTATTTTTTAATA
7630264 TTA
1 TTA
7630267 ATTTTTAAAT
Statistics
Matches: 107, Mismatches: 10, Indels: 24
0.76 0.07 0.17
Matches are distributed among these distances:
23 13 0.12
24 22 0.21
25 12 0.11
26 38 0.36
27 12 0.11
28 10 0.09
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (26 bp):
TTATATTATAATATTATTTTTTAATA
Found at i:7630209 original size:51 final size:53
Alignment explanation
Indices: 7630148--7630316 Score: 207
Period size: 51 Copynumber: 3.0 Consensus size: 53
7630138 TTAATTTTAA
7630148 TATTAATTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATAT
1 TATT-ATTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATAT
*
7630202 TA-T-TTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATATATATTAATTTT
1 TATTATTTTTAAATAAATTAAATATTAATTTTTTAATATTATA-T-TATAGA-T-A---T
*
7630260 AATATTAATTTTTAAATAAATTAAATATTAATATTTTAATATTATATTATAGATAT
1 --TATT-ATTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATAT
7630316 T
1 T
7630317 TAATTTTATA
Statistics
Matches: 100, Mismatches: 3, Indels: 24
0.79 0.02 0.19
Matches are distributed among these distances:
51 38 0.38
52 1 0.01
53 6 0.06
54 4 0.04
55 1 0.01
56 1 0.01
58 1 0.01
59 1 0.01
60 3 0.03
61 6 0.06
62 1 0.01
63 37 0.37
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.54
Consensus pattern (53 bp):
TATTATTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAGATAT
Found at i:7630265 original size:63 final size:64
Alignment explanation
Indices: 7630184--7630324 Score: 221
Period size: 63 Copynumber: 2.2 Consensus size: 64
7630174 TAATTTTTTA
* * * *
7630184 ATATTATATTATAGATATTATTTTTTAAATAAATTAAATATTAATTTTTTAATATTATATTATAT
1 ATATTA-ATTTTAGATATTAATTTTTAAATAAATTAAATATTAATATTTTAATATTATATTATAG
7630249 ATATTAATTTTA-ATATTAATTTTTAAATAAATTAAATATTAATATTTTAATATTATATTATAG
1 ATATTAATTTTAGATATTAATTTTTAAATAAATTAAATATTAATATTTTAATATTATATTATAG
7630312 ATATTTAATTTTA
1 ATA-TTAATTTTA
7630325 TATCATATTA
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
63 51 0.72
64 14 0.20
65 6 0.08
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (64 bp):
ATATTAATTTTAGATATTAATTTTTAAATAAATTAAATATTAATATTTTAATATTATATTATAG
Found at i:7630324 original size:114 final size:114
Alignment explanation
Indices: 7630117--7630324 Score: 364
Period size: 114 Copynumber: 1.8 Consensus size: 114
7630107 AGGTTTTATA
* *
7630117 TTTAATTTTATATTATAGATATTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATTTTT
1 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATATTT
*
7630182 TAATATTATATTATAGATATTATTTTTTAAATAAATTAAATATTAATTT
66 TAATATTATATTATAGATATTATATTTTAAATAAATTAAATATTAATTT
*
7630231 TTTAATATTATATTATATATATTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATATTT
1 TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATATTT
7630296 TAATATTATATTATAGATATT-TAATTTTA
66 TAATATTATATTATAGATATTAT-ATTTTA
7630325 TATCATATTA
Statistics
Matches: 89, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
113 1 0.01
114 88 0.99
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (114 bp):
TTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATATTT
TAATATTATATTATAGATATTATATTTTAAATAAATTAAATATTAATTT
Found at i:7630334 original size:31 final size:33
Alignment explanation
Indices: 7630298--7630360 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 33
7630288 TAATATTTTA
*
7630298 ATATTATATTATAGA-TATT-TAATTTTATATC
1 ATATTATATTATAGATTATTAAAATTTTATATC
* *
7630329 ATATTATTTTATATATTATTAAAATTTTATAT
1 ATATTATATTATAGATTATTAAAATTTTATAT
7630361 TTATTTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 13 0.48
32 4 0.15
33 10 0.37
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (33 bp):
ATATTATATTATAGATTATTAAAATTTTATATC
Found at i:7630370 original size:114 final size:112
Alignment explanation
Indices: 7630120--7630371 Score: 319
Period size: 114 Copynumber: 2.2 Consensus size: 112
7630110 TTTTATATTT
*
7630120 AATTTTATATTATAGATATTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATTTTTTAA
1 AATTTTATATT-T--ATATTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATATTTTAA
* *
7630185 TATTATATTATAGATATTATTTTTTAAATAAATTAAATATTAATTTTTTAA
63 TATTATATTATAGATATTATATTTTAAATAAATT-AATATTAATTTATTAA
* * *
7630236 TATTATATTATATATATTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATATTTTAATA
1 AATTTTA-TATTTATATTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATATTTTAATA
* * *
7630301 TTATATTATAGATATT-TAATTTTATATCATATT-ATTTTATATATTATTAA
65 TTATATTATAGATATTAT-ATTTTAAAT-AAATTAATATTA-AT-TTATTAA
*
7630351 AATTTTATATTTATTTTAATT
1 AATTTTATATTTATATTAATT
7630372 ATTTTGATTT
Statistics
Matches: 118, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
113 6 0.05
114 88 0.75
115 15 0.13
116 6 0.05
117 3 0.03
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (112 bp):
AATTTTATATTTATATTAATTTTAATATTAATTTTTAAATAAATTAAATATTAATATTTTAATAT
TATATTATAGATATTATATTTTAAATAAATTAATATTAATTTATTAA
Found at i:7631028 original size:31 final size:31
Alignment explanation
Indices: 7630991--7631050 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
7630981 TAGTTGTATG
*
7630991 AATTATTTAAATTTCAGTATTGTAAAACTAA
1 AATTATTTAAATTTCAGTATTGCAAAACTAA
7631022 AATTATTTAAATTTCAGTATTGCAAAACT
1 AATTATTTAAATTTCAGTATTGCAAAACT
7631051 CTTTTAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.43, C:0.08, G:0.07, T:0.42
Consensus pattern (31 bp):
AATTATTTAAATTTCAGTATTGCAAAACTAA
Found at i:7633847 original size:51 final size:51
Alignment explanation
Indices: 7633748--7633854 Score: 137
Period size: 51 Copynumber: 2.1 Consensus size: 51
7633738 AAAGCGCACT
* * **
7633748 CCCTCCCCCGCGCTATATGCTGATTTGGCGTCACGTGGGGTATAGCGCGCC
1 CCCTGCCCCGCGCTATACGCTGACATGGCGTCACGTGGGGTATAGCGCGCC
*
7633799 CCCTGCCCCGCGCTATACGCTGACATGG-GTTACACGT-GGGTATAGCGCGGC
1 CCCTGCCCCGCGCTATACGCTGACATGGCG-T-CACGTGGGGTATAGCGCGCC
7633850 CCCTG
1 CCCTG
7633855 ATCCATGCTA
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
50 1 0.02
51 43 0.88
52 5 0.10
ACGTcount: A:0.13, C:0.36, G:0.30, T:0.21
Consensus pattern (51 bp):
CCCTGCCCCGCGCTATACGCTGACATGGCGTCACGTGGGGTATAGCGCGCC
Found at i:7634139 original size:17 final size:18
Alignment explanation
Indices: 7634101--7634141 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
7634091 ATATTATGTA
* *
7634101 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAG
7634119 TTTACTTTATTTAA-TAG
1 TTTACTTTATTTAAGTAG
7634136 TTTACT
1 TTTACT
7634142 AATATAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAG
Found at i:7648071 original size:16 final size:16
Alignment explanation
Indices: 7648027--7648062 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
7648017 GCGGTCGTTC
7648027 CCTAAATCTTTTAATT
1 CCTAAATCTTTTAATT
7648043 CCTAAATCTTTTAATT
1 CCTAAATCTTTTAATT
7648059 CCTA
1 CCTA
7648063 TATGTTTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.31, C:0.22, G:0.00, T:0.47
Consensus pattern (16 bp):
CCTAAATCTTTTAATT
Found at i:7648199 original size:27 final size:27
Alignment explanation
Indices: 7648160--7648216 Score: 89
Period size: 27 Copynumber: 2.1 Consensus size: 27
7648150 ATCGGAGTCA
7648160 GGTGGAGGATATATATTTTTCAGGTCG
1 GGTGGAGGATATATATTTTTCAGGTCG
*
7648187 GGTGGAAGG-TATATATTTTTCTGGTCG
1 GGTGG-AGGATATATATTTTTCAGGTCG
7648214 GGT
1 GGT
7648217 TGACCAAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 25 0.89
28 3 0.11
ACGTcount: A:0.19, C:0.07, G:0.35, T:0.39
Consensus pattern (27 bp):
GGTGGAGGATATATATTTTTCAGGTCG
Found at i:7649182 original size:167 final size:171
Alignment explanation
Indices: 7648981--7649298 Score: 599
Period size: 167 Copynumber: 1.9 Consensus size: 171
7648971 ATATTATAAT
7648981 TTAAAATTTTTAAGATGCGATTTTGCGTTCATCTCTAACTAGAATCGTATATAATATCAAAATCA
1 TTAAAATTTTTAAGATGCGATTTTGCGTTCATCTCTAACTAGAATCGTATATAATATCAAAATCA
7649046 TATATTTGTCAAAGTTCAACTCGTTACAAATATAATTCTCAAGTTTTATCATA-TTTACTTATGT
66 TATATTTGTCAAAGTTCAACTCGTTACAAATATAATTCTCAAGTTTTATCATATTTTACTTATGT
7649110 TTATAAAT-AGGGTAAACTATATATTAAAACTAAATTTAAA
131 TTATAAATAAGGGTAAACTATATATTAAAACTAAATTTAAA
*
7649150 TTAAAATTTTTAAGGT-CG-TTTTGCGTTCATCTCTAACTAGAATCGTATATAATATCAAAATCA
1 TTAAAATTTTTAAGATGCGATTTTGCGTTCATCTCTAACTAGAATCGTATATAATATCAAAATCA
7649213 TATATTTGTCAAAGTTCAACTCGTTACAAATATAATTCTCAAGTTTTATCATATTTTACTTATGT
66 TATATTTGTCAAAGTTCAACTCGTTACAAATATAATTCTCAAGTTTTATCATATTTTACTTATGT
7649278 TTATAAATAAGGGTAAACTAT
131 TTATAAATAAGGGTAAACTAT
7649299 GCGAATAGTC
Statistics
Matches: 146, Mismatches: 1, Indels: 4
0.97 0.01 0.03
Matches are distributed among these distances:
167 98 0.67
168 21 0.14
169 27 0.18
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.41
Consensus pattern (171 bp):
TTAAAATTTTTAAGATGCGATTTTGCGTTCATCTCTAACTAGAATCGTATATAATATCAAAATCA
TATATTTGTCAAAGTTCAACTCGTTACAAATATAATTCTCAAGTTTTATCATATTTTACTTATGT
TTATAAATAAGGGTAAACTATATATTAAAACTAAATTTAAA
Found at i:7656418 original size:44 final size:44
Alignment explanation
Indices: 7656364--7656452 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
7656354 TATGGGATAA
7656364 TAGAGTAGTTTTTCATATAAATTTTTGAATAATTACAATAATAT
1 TAGAGTAGTTTTTCATATAAATTTTTGAATAATTACAATAATAT
7656408 TAGAGTAGTTTTTCATATAAATTTTTGAATAATTACAATAATAT
1 TAGAGTAGTTTTTCATATAAATTTTTGAATAATTACAATAATAT
7656452 T
1 T
7656453 TTTTATAGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.46
Consensus pattern (44 bp):
TAGAGTAGTTTTTCATATAAATTTTTGAATAATTACAATAATAT
Found at i:7680009 original size:95 final size:95
Alignment explanation
Indices: 7679846--7680038 Score: 350
Period size: 95 Copynumber: 2.0 Consensus size: 95
7679836 GTTGCTACAA
* *
7679846 CAATACTACTCCGAGTGAACTACAACCCTTGGTTTGTCAAACTGTTGTTGTGGCAATATCCCTCA
1 CAATACTACTCCGAGTGAACTACAACCCTTGGTTTGTCAAACTGTTATTGTGGCAATACCCCTCA
7679911 GCGTAAACTGCAGTCTTTGCCTATCCTACT
66 GCGTAAACTGCAGTCTTTGCCTATCCTACT
* *
7679941 CAATACTACTCTGCGTGAACTACAACCCTTGGTTTGTCAAACTGTTATTGTGGCAATACCCCTCA
1 CAATACTACTCCGAGTGAACTACAACCCTTGGTTTGTCAAACTGTTATTGTGGCAATACCCCTCA
7680006 GCGTAAACTGCAGTCTTTGCCTATCCTACT
66 GCGTAAACTGCAGTCTTTGCCTATCCTACT
7680036 CAA
1 CAA
7680039 GTAGCTACCC
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
95 94 1.00
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (95 bp):
CAATACTACTCCGAGTGAACTACAACCCTTGGTTTGTCAAACTGTTATTGTGGCAATACCCCTCA
GCGTAAACTGCAGTCTTTGCCTATCCTACT
Found at i:7690110 original size:2 final size:2
Alignment explanation
Indices: 7690099--7690128 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7690089 TAATTTTAAA
7690099 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7690129 ATTATTTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7696929 original size:17 final size:17
Alignment explanation
Indices: 7696907--7696945 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
7696897 TTATCAATAG
7696907 AAAATATAAAAAAATCT
1 AAAATATAAAAAAATCT
* * *
7696924 AAAATATATAATAATTT
1 AAAATATAAAAAAATCT
7696941 AAAAT
1 AAAAT
7696946 TTTTAAGGGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATATAAAAAAATCT
Done.