Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 197 of 343
Found at i:65279859 original size:3 final size:3
Alignment explanation
Indices: 65279853--65279877 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
65279843 CATCATCATC
65279853 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
65279878 AATTTTCTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:65282664 original size:65 final size:65
Alignment explanation
Indices: 65282556--65282702 Score: 231
Period size: 65 Copynumber: 2.3 Consensus size: 65
65282546 GATACATGGA
* * *
65282556 TCTCCAACATACCAAATGACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAGAGCTAATAC
1 TCTCCAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAACAC
* * * *
65282621 TCTCCAACACACCAATTGACTCATAGAGTTGAACATATTCCAAAAGTGAAGCATAAAGTTAACAC
1 TCTCCAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAACAC
65282686 TCTCCAACACACCAAAT
1 TCTCCAACACACCAAAT
65282703 ATGTCCTGTT
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
65 74 1.00
ACGTcount: A:0.41, C:0.26, G:0.12, T:0.21
Consensus pattern (65 bp):
TCTCCAACACACCAAATGACTCATAGAGTCGAACATATCCCAAAAGTGAAGCATAAAGCTAACAC
Found at i:65286700 original size:15 final size:15
Alignment explanation
Indices: 65286680--65286713 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
65286670 TCCACAACGT
65286680 ATAAAAACTAATAGC
1 ATAAAAACTAATAGC
65286695 ATAAAAACTAATAGC
1 ATAAAAACTAATAGC
65286710 ATAA
1 ATAA
65286714 TTTAACCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.62, C:0.12, G:0.06, T:0.21
Consensus pattern (15 bp):
ATAAAAACTAATAGC
Found at i:65289013 original size:27 final size:27
Alignment explanation
Indices: 65288975--65289032 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
65288965 CATTTTGAGC
* *
65288975 TTCTCTAACTCCAGTCTCAGCTTCTCA
1 TTCTCTAACTCCAATCTCAGCCTCTCA
65289002 TTCTCTAACTCCAATCTCAGCCTCTCA
1 TTCTCTAACTCCAATCTCAGCCTCTCA
65289029 TTCT
1 TTCT
65289033 GGTGCAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.19, C:0.38, G:0.05, T:0.38
Consensus pattern (27 bp):
TTCTCTAACTCCAATCTCAGCCTCTCA
Found at i:65290772 original size:3 final size:3
Alignment explanation
Indices: 65290766--65290796 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
65290756 GTTGGTGGTT
*
65290766 TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
65290797 AGTTTATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:65294940 original size:26 final size:26
Alignment explanation
Indices: 65294911--65294960 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
65294901 GGTCATTGAG
*
65294911 CACTAAGTGTG-AAAGTTGGTTTTAAA
1 CACTAAGTGTGCAAA-TTGGATTTAAA
65294937 CACTAAGTGTGCAAATTGGATTTA
1 CACTAAGTGTGCAAATTGGATTTA
65294961 CGATTACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 19 0.86
27 3 0.14
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (26 bp):
CACTAAGTGTGCAAATTGGATTTAAA
Found at i:65296338 original size:18 final size:17
Alignment explanation
Indices: 65296296--65296353 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
65296286 TAAATAAGTG
65296296 AATAAA-TAATGATAA-
1 AATAAAGTAATGATAAT
65296311 AAT-AAG-AATGATAGAT
1 AATAAAGTAATGATA-AT
*
65296327 AATAAAGTAATGACAAT
1 AATAAAGTAATGATAAT
65296344 AATAGAAGTA
1 AATA-AAGTA
65296354 TAAATAACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
14 9 0.25
15 4 0.11
16 3 0.08
17 9 0.25
18 11 0.31
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.24
Consensus pattern (17 bp):
AATAAAGTAATGATAAT
Found at i:65297409 original size:13 final size:13
Alignment explanation
Indices: 65297388--65297442 Score: 69
Period size: 13 Copynumber: 4.3 Consensus size: 13
65297378 GATTTATGAC
* *
65297388 AAAAGATAAATAT
1 AAAATATAAAAAT
65297401 AAAATATAAAAAT
1 AAAATATAAAAAT
65297414 AAAA-ATAAAAAT
1 AAAATATAAAAAT
65297426 AAAATATAGAAAA-
1 AAAATATA-AAAAT
65297439 AAAA
1 AAAA
65297443 AAACAAAAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
12 12 0.32
13 22 0.58
14 4 0.11
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (13 bp):
AAAATATAAAAAT
Found at i:65297423 original size:5 final size:6
Alignment explanation
Indices: 65297388--65297443 Score: 60
Period size: 6 Copynumber: 8.8 Consensus size: 6
65297378 GATTTATGAC
*
65297388 AAAAGAT AAATAT AAAATAT AAAAAT AAAAAT AAAAAT AAAATAT AGAAAA-
1 AAAA-AT AAAAAT AAAA-AT AAAAAT AAAAAT AAAAAT AAAA-AT A-AAAAT
65297439 AAAAA
1 AAAAA
65297444 AACAAAAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
5 4 0.09
6 24 0.55
7 13 0.30
8 3 0.07
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (6 bp):
AAAAAT
Found at i:65297445 original size:27 final size:25
Alignment explanation
Indices: 65297388--65297444 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 25
65297378 GATTTATGAC
* *
65297388 AAAAGATAAATATAAAATATAAAAA
1 AAAAAATAAAAATAAAATATAAAAA
*
65297413 TAAAAATAAAAATAAAATATAGAAAA
1 AAAAAATAAAAATAAAATATA-AAAA
65297439 AAAAAA
1 AAAAAA
65297445 ACAAAAAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
25 18 0.67
26 9 0.33
ACGTcount: A:0.79, C:0.00, G:0.04, T:0.18
Consensus pattern (25 bp):
AAAAAATAAAAATAAAATATAAAAA
Found at i:65297450 original size:27 final size:25
Alignment explanation
Indices: 65297399--65297456 Score: 71
Period size: 27 Copynumber: 2.2 Consensus size: 25
65297389 AAAGATAAAT
* *
65297399 ATAAAATATAAAAATAAAAATAAAA
1 ATAAAATATAAAAAAAAAAACAAAA
65297424 ATAAAATATAGAAAAAAAAAAACAAAA
1 ATAAAATAT--AAAAAAAAAAACAAAA
*
65297451 AGAAAA
1 ATAAAA
65297457 CGAAATGTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 9 0.32
27 19 0.68
ACGTcount: A:0.81, C:0.02, G:0.03, T:0.14
Consensus pattern (25 bp):
ATAAAATATAAAAAAAAAAACAAAA
Found at i:65297638 original size:18 final size:19
Alignment explanation
Indices: 65297607--65297644 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
65297597 TGCCTATGCC
* *
65297607 TTTTGTTTTCTTGCTTTGT
1 TTTTGCTTTCTTGCTCTGT
65297626 TTTTGCTTT-TTGCTCTGT
1 TTTTGCTTTCTTGCTCTGT
65297644 T
1 T
65297645 GTCTTGTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.13, G:0.16, T:0.71
Consensus pattern (19 bp):
TTTTGCTTTCTTGCTCTGT
Found at i:65303020 original size:4 final size:4
Alignment explanation
Indices: 65303007--65303071 Score: 50
Period size: 4 Copynumber: 17.0 Consensus size: 4
65302997 ATAAAACACC
* *
65303007 TAAA -AAA TAAA TAAA T-AA TAAA T-AA TAAA T-AA TAAA TTAA TAAGGT
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA--A
*
65303053 TAAA -AAT TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA
65303072 AATAAAAACC
Statistics
Matches: 48, Mismatches: 6, Indels: 14
0.71 0.09 0.21
Matches are distributed among these distances:
3 14 0.29
4 31 0.65
6 3 0.06
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:65303021 original size:11 final size:11
Alignment explanation
Indices: 65303007--65303079 Score: 51
Period size: 11 Copynumber: 6.5 Consensus size: 11
65302997 ATAAAACACC
65303007 TAAAAAATAAA
1 TAAAAAATAAA
*
65303018 TAAATAATAAA
1 TAAAAAATAAA
*
65303029 TAATAAAT-AA
1 TAAAAAATAAA
* *
65303039 TAAATTAATAAGGT
1 TAAA-AAATAA--A
*
65303053 TAAAAATTAAA
1 TAAAAAATAAA
*
65303064 TAAATAA-AAA
1 TAAAAAATAAA
65303074 TAAAAA
1 TAAAAA
65303080 CCAAGCTGTA
Statistics
Matches: 46, Mismatches: 12, Indels: 9
0.69 0.18 0.13
Matches are distributed among these distances:
10 13 0.28
11 24 0.52
12 1 0.02
13 4 0.09
14 4 0.09
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (11 bp):
TAAAAAATAAA
Found at i:65303026 original size:7 final size:7
Alignment explanation
Indices: 65303011--65303049 Score: 60
Period size: 7 Copynumber: 5.3 Consensus size: 7
65303001 AACACCTAAA
65303011 AAATAAAT
1 AAAT-AAT
65303019 AAATAAT
1 AAATAAT
65303026 AAATAAT
1 AAATAAT
65303033 AAATAAT
1 AAATAAT
65303040 AAATTAAT
1 AAA-TAAT
65303048 AA
1 AA
65303050 GGTTAAAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 20 0.67
8 10 0.33
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATAAT
Found at i:65307938 original size:77 final size:77
Alignment explanation
Indices: 65307811--65307966 Score: 294
Period size: 77 Copynumber: 2.0 Consensus size: 77
65307801 CACTTAGGAT
* *
65307811 ATTTTCGAAGCCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
1 ATTTTCCAAACCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
65307876 GACATCATTTTA
66 GACATCATTTTA
65307888 ATTTTCCAAACCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
1 ATTTTCCAAACCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
65307953 GACATCATTTTA
66 GACATCATTTTA
65307965 AT
1 AT
65307967 GATTTAGCAC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.38
Consensus pattern (77 bp):
ATTTTCCAAACCTTTATGTTACCCTTAATCCTTCACATCTTTATACACCCTGAGACACATATCAT
GACATCATTTTA
Found at i:65309579 original size:49 final size:48
Alignment explanation
Indices: 65309466--65309776 Score: 196
Period size: 46 Copynumber: 6.5 Consensus size: 48
65309456 ATGCTGATGT
* * * *
65309466 CATGTGCCAAACATGGTCTTACACTGACTCAT-AC-ATCAAGTCGATGC
1 CATGTCCCAGACATGGTCTTACACTGACT-ATCACAATCAAGCCCATGC
*
65309513 CATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGCCCACT-C
1 CATGTCCCAGACATGGTCTTACACTGACTATCACAATC-AAGCCCA-TGC
* * ** * *
65309562 CATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCCGTGACGATGC
1 CATGTCCCAGACATGGTCTTACACTGACTATCACA-AT-CAAGCCCATGC
* * * *
65309612 CATGTCCTAAACATGGTCTTACACT-A--A-CACATCTCATAGCCGATGC
1 CATGTCCCAGACATGGTCTTACACTGACTATCACA-ATCA-AGCCCATGC
** * * *
65309658 CATGTCCCAGACATGGTCTTACACT-AGCCCTCGTC--TCCATGCCAATGC
1 CATGTCCCAGACATGGTCTTACACTGA-CTATC-ACAAT-CAAGCCCATGC
* * * * *** *
65309706 CATGTCCCAGACATGGTCTTACACTGGCTCTTATAATGTGGCCGATG-
1 CATGTCCCAGACATGGTCTTACACTGACTATCACAATCAAGCCCATGC
65309753 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
65309777 AGCACACATG
Statistics
Matches: 213, Mismatches: 34, Indels: 35
0.76 0.12 0.12
Matches are distributed among these distances:
45 1 0.00
46 49 0.23
47 43 0.20
48 45 0.21
49 42 0.20
50 31 0.15
51 2 0.01
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGACTATCACAATCAAGCCCATGC
Found at i:65309636 original size:50 final size:49
Alignment explanation
Indices: 65309461--65309776 Score: 203
Period size: 47 Copynumber: 6.6 Consensus size: 49
65309451 GTAGGATGCT
* * * * *
65309461 GATGTCATGTGCCAAACATGGTCTTACACTGACTCAT-AC-ATC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCACAATCGAGGAC
*
65309508 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGAC
* * * *
65309557 CACT-CCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCCG-TGAC
1 GA-TGCCATGTCCCAGACATGGTCTTACACTGACTATCACA-AT-CGAGGAC
* * * * * *
65309607 GATGCCATGTCCTAAACATGGTCTTACACTAACACATCTC-AT--A-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGAC-TATCACAATCGAGGAC
** * * * *
65309653 GATGCCATGTCCCAGACATGGTCTTACACT-AGCCCTCGTC--TCCATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGA-CTATC-ACAATCGAGGAC
* * * * * * *
65309701 AATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGAC
65309749 GATG-CATGTCCCAGACAT-GTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
65309777 AGCACACATG
Statistics
Matches: 220, Mismatches: 32, Indels: 35
0.77 0.11 0.12
Matches are distributed among these distances:
45 5 0.02
46 45 0.20
47 48 0.22
48 44 0.20
49 42 0.19
50 31 0.14
51 5 0.02
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGAC
Found at i:65309717 original size:48 final size:48
Alignment explanation
Indices: 65309507--65309785 Score: 209
Period size: 46 Copynumber: 5.8 Consensus size: 48
65309497 TACATCAAGT
* * * *
65309507 CGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCACA-ATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAG-C--CCACATCTCCATGC
* * * * *
65309556 CCACT-CCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCCGTGA
1 CGA-TGCCATGTCCCAGACATGGTCTTACACTAGC-C-CACATCTCCATGC
* * *
65309606 CGATGCCATGTCCTAAACATGGTCTTACACTA--ACACATCT-CATAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCCCACATCTCCAT-GC
* *
65309652 CGATGCCATGTCCCAGACATGGTCTTACACTAGCCCTCGTCTCCATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCCCACATCTCCATGC
* * * ** * *
65309700 CAATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATAAT--GTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCCCACAT-CTCCAT-GC
*
65309748 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACACAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCCCACAT
65309786 GTCACCCAAA
Statistics
Matches: 187, Mismatches: 32, Indels: 25
0.77 0.13 0.10
Matches are distributed among these distances:
45 2 0.01
46 52 0.28
47 15 0.08
48 48 0.26
49 38 0.20
50 32 0.17
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.25
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCCCACATCTCCATGC
Found at i:65309730 original size:94 final size:95
Alignment explanation
Indices: 65309509--65309779 Score: 264
Period size: 94 Copynumber: 2.8 Consensus size: 95
65309499 CATCAAGTCG
* * *
65309509 ATGCCATGTCCCAGACATGGTCTTACACTGACTATCACAATCGAGGCCCACT-CCATGTCCCAGA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACCATCTC-AT--A-GCCGA-TGCCATGTCCCAGA
* * *
65309573 CATGGTCTTACACTGGCTCTCACATATCCGTGACG
61 CATGGTCTTACACTAGCTCTCACATATCCATGACA
* * *
65309608 ATGCCATGTCCTAAACATGGTCTTACACTAACACATCTCATAGCCGATGCCATGTCCCAGACATG
1 ATGCCATGTCCCAGACATGGTCTTACACTGAC-CATCTCATAGCCGATGCCATGTCCCAGACATG
* * * *
65309673 GTCTTACACTAGC-C-CTCGTCTCCATGCCA
65 GTCTTACACTAGCTCTCACATATCCATGACA
* * * * *
65309702 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTTATAATGTGGCCGATG-CATGTCCCAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGAC-CATCTCA--TAGCCGATGCCATGTCCCAGACA
65309766 T-GTCTTACACTAGC
63 TGGTCTTACACTAGC
65309780 ACACATGTCA
Statistics
Matches: 146, Mismatches: 22, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
94 54 0.37
95 16 0.11
96 40 0.27
97 1 0.01
99 31 0.21
100 4 0.03
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (95 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACCATCTCATAGCCGATGCCATGTCCCAGACATGG
TCTTACACTAGCTCTCACATATCCATGACA
Found at i:65309735 original size:144 final size:145
Alignment explanation
Indices: 65309461--65309736 Score: 366
Period size: 144 Copynumber: 1.9 Consensus size: 145
65309451 GTAGGATGCT
* * * *
65309461 GATGTCATGTGCCAAACATGGTCTTACACTGACTCATACATCAAGTCGATGCCATGTCCCAGACA
1 GATGCCATGTGCCAAACATGGTCTTACACTAACACATACATCAAGCCGATGCCATGTCCCAGACA
* * *
65309526 TGGTCTTACACTGACTATCACAATCGAGGCCCACTCCATGTCCCAGACATGGTCTTACACTGGCT
66 TGGTCTTACACTGACCATCAC-ATCCAGGCCCAATCCATGTCCCAGACATGGTCTTACACTGGCT
65309591 CTCACATATCCGTGAC
130 CTCACATATCCGTGAC
65309607 GATGCCATGT-CCTAAACATGGTCTTACACTAACACAT-C-TCATAGCCGATGCCATGTCCCAGA
1 GATGCCATGTGCC-AAACATGGTCTTACACTAACACATACATCA-AGCCGATGCCATGTCCCAGA
* * *
65309669 CATGGTCTTACACT-AGCCCTCGTC-TCCATG-CCAATGCCATGTCCCAGACATGGTCTTACACT
64 CATGGTCTTACACTGA-CCATC-ACATCCAGGCCCAAT-CCATGTCCCAGACATGGTCTTACACT
65309731 GGCTCT
126 GGCTCT
65309737 TATAATGTGG
Statistics
Matches: 115, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
143 4 0.03
144 40 0.35
145 39 0.34
146 32 0.28
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (145 bp):
GATGCCATGTGCCAAACATGGTCTTACACTAACACATACATCAAGCCGATGCCATGTCCCAGACA
TGGTCTTACACTGACCATCACATCCAGGCCCAATCCATGTCCCAGACATGGTCTTACACTGGCTC
TCACATATCCGTGAC
Found at i:65315110 original size:27 final size:27
Alignment explanation
Indices: 65315070--65315123 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
65315060 AGGTACAACC
* *
65315070 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
65315097 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
65315124 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:65320061 original size:17 final size:17
Alignment explanation
Indices: 65320041--65320073 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
65320031 GGATAGACTA
*
65320041 ATTATTAGGAGAGATTG
1 ATTACTAGGAGAGATTG
65320058 ATTACTAGGAGAGATT
1 ATTACTAGGAGAGATT
65320074 ACTTAATACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.03, G:0.27, T:0.33
Consensus pattern (17 bp):
ATTACTAGGAGAGATTG
Found at i:65320805 original size:21 final size:21
Alignment explanation
Indices: 65320779--65320828 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
65320769 GTGCATTTGG
65320779 AGCTTCTC-TAACTCCAATCTC
1 AGCTTCTCGT-ACTCCAATCTC
*
65320800 AGCTTCTCGTTCTCCAATCTC
1 AGCTTCTCGTACTCCAATCTC
*
65320821 AGCCTCTC
1 AGCTTCTC
65320829 ATTCTGGTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.18, C:0.40, G:0.08, T:0.34
Consensus pattern (21 bp):
AGCTTCTCGTACTCCAATCTC
Found at i:65320833 original size:21 final size:21
Alignment explanation
Indices: 65320790--65320833 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
65320780 GCTTCTCTAA
* *
65320790 CTCCAATCTCAGCTTCTCGTT
1 CTCCAATCTCAGCCTCTCATT
65320811 CTCCAATCTCAGCCTCTCATT
1 CTCCAATCTCAGCCTCTCATT
65320832 CT
1 CT
65320834 GGTGCAACAA
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:0.41, G:0.07, T:0.36
Consensus pattern (21 bp):
CTCCAATCTCAGCCTCTCATT
Found at i:65322482 original size:3 final size:3
Alignment explanation
Indices: 65322474--65322498 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
65322464 GAAATTAAAT
65322474 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
65322499 AGTTGATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:65324355 original size:96 final size:96
Alignment explanation
Indices: 65324191--65324380 Score: 308
Period size: 96 Copynumber: 2.0 Consensus size: 96
65324181 TCGCTTCTTT
* *
65324191 TTGCTCCTCTTTTCCCTCTTGGCTTCGAATTTTCCCTTACTCGAATCAAGCTTCTTGGGCTCCTT
1 TTGCTCCTCTTTGCCCTCTTGGCTTCGAATTTTCCCTTACTCGAACCAAGCTTCTTGGGCTCCTT
* *
65324256 GTCTGCTCCATCGTTCCCTTCGATGACAGAC
66 GTCTACTCCATCGTTCCCATCGATGACAGAC
** * *
65324287 TTGCTCCTCTTTGCCCTCTTGGCTTCGGTTTTTCCCTTGCTCGAACCAAGTTTCTTGGGCTCCTT
1 TTGCTCCTCTTTGCCCTCTTGGCTTCGAATTTTCCCTTACTCGAACCAAGCTTCTTGGGCTCCTT
65324352 GTCTACTCCATCGTTCCCATCGATGACAG
66 GTCTACTCCATCGTTCCCATCGATGACAG
65324381 GCTTCCTCGG
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.12, C:0.33, G:0.17, T:0.38
Consensus pattern (96 bp):
TTGCTCCTCTTTGCCCTCTTGGCTTCGAATTTTCCCTTACTCGAACCAAGCTTCTTGGGCTCCTT
GTCTACTCCATCGTTCCCATCGATGACAGAC
Found at i:65326522 original size:12 final size:12
Alignment explanation
Indices: 65326505--65326530 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
65326495 CATTCATTCT
65326505 TACATATATATA
1 TACATATATATA
65326517 TACATATATATA
1 TACATATATATA
65326529 TA
1 TA
65326531 TTTCTTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (12 bp):
TACATATATATA
Found at i:65327843 original size:19 final size:19
Alignment explanation
Indices: 65327819--65327855 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
65327809 AAAAATCTAT
65327819 TAAAAATAATTCGGAAAAA
1 TAAAAATAATTCGGAAAAA
* *
65327838 TAAAAATATTTTGGAAAA
1 TAAAAATAATTCGGAAAA
65327856 TTAATTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.59, C:0.03, G:0.11, T:0.27
Consensus pattern (19 bp):
TAAAAATAATTCGGAAAAA
Found at i:65327994 original size:27 final size:27
Alignment explanation
Indices: 65327938--65327996 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
65327928 ATTGGGGGTT
* **
65327938 AATTTGAGTTAATTTAAATATTAATTA
1 AATTTGAGTTAATTTAAATATAAAGGA
*
65327965 AATTTGATTTAATTGTAAA-ATAAAGGA
1 AATTTGAGTTAATT-TAAATATAAAGGA
65327992 AATTT
1 AATTT
65327997 TGGAGTATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (27 bp):
AATTTGAGTTAATTTAAATATAAAGGA
Found at i:65329628 original size:6 final size:6
Alignment explanation
Indices: 65329617--65329646 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
65329607 CAATCCGGGA
65329617 CTGATT CTGATT CTGATT CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT
65329647 GGGAGTAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.50
Consensus pattern (6 bp):
CTGATT
Found at i:65334128 original size:22 final size:22
Alignment explanation
Indices: 65334078--65334133 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
65334068 ACGCTAACAT
65334078 TTAATTAATTTTTTATAATTTAA
1 TTAA-TAATTTTTTATAATTTAA
** *
65334101 AAAATAAATTTTTTATAATTT-C
1 TTAAT-AATTTTTTATAATTTAA
65334123 TTAATAATTTT
1 TTAATAATTTT
65334134 AATGAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
21 6 0.22
22 4 0.15
23 17 0.63
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAATAATTTTTTATAATTTAA
Found at i:65340833 original size:17 final size:17
Alignment explanation
Indices: 65340811--65340855 Score: 90
Period size: 17 Copynumber: 2.6 Consensus size: 17
65340801 GTTGACACAT
65340811 AGCATCTGGCCTGAACC
1 AGCATCTGGCCTGAACC
65340828 AGCATCTGGCCTGAACC
1 AGCATCTGGCCTGAACC
65340845 AGCATCTGGCC
1 AGCATCTGGCC
65340856 GCTGGATGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.22, C:0.36, G:0.24, T:0.18
Consensus pattern (17 bp):
AGCATCTGGCCTGAACC
Found at i:65347089 original size:28 final size:26
Alignment explanation
Indices: 65347038--65347101 Score: 67
Period size: 28 Copynumber: 2.3 Consensus size: 26
65347028 AAAATTATGG
* *
65347038 AAAAAGAATAAAAGATCTTTAAATTT
1 AAAAAAAATAAAAGATCTTTAAATAT
65347064 AAAAAAAATAAAAATGAT-TTTGAAATAT
1 AAAAAAAAT-AAAA-GATCTTT-AAATAT
65347092 AAATAAAAAT
1 AAA-AAAAAT
65347102 TGGAAATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 8 0.25
27 7 0.22
28 11 0.34
29 6 0.19
ACGTcount: A:0.64, C:0.02, G:0.06, T:0.28
Consensus pattern (26 bp):
AAAAAAAATAAAAGATCTTTAAATAT
Found at i:65348156 original size:28 final size:28
Alignment explanation
Indices: 65348122--65348185 Score: 87
Period size: 28 Copynumber: 2.3 Consensus size: 28
65348112 GTGTTTTGTT
65348122 AAAATAATTTAGGGTTTAAGAATT-TTAA
1 AAAATAATTTAGGGTTT-AGAATTGTTAA
* *
65348150 AAAATAAATTAGGGTTTAGAGTTGTTAA
1 AAAATAATTTAGGGTTTAGAATTGTTAA
65348178 AAAA-AATT
1 AAAATAATT
65348186 AATTAAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 8 0.25
28 24 0.75
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (28 bp):
AAAATAATTTAGGGTTTAGAATTGTTAA
Found at i:65348220 original size:34 final size:33
Alignment explanation
Indices: 65348154--65348285 Score: 158
Period size: 34 Copynumber: 3.8 Consensus size: 33
65348144 TTTTAAAAAA
*
65348154 TAAATTAGGGTTTAGAGTTGTTAAAAAAAATTAAT
1 TAAATTAGGGTTTAGAGTT-TT-AAAATAATTAAT
* *
65348189 TAAATTAGGTTTTAGGAGTTTTAAATTAATTAAT
1 TAAATTAGGGTTTA-GAGTTTTAAAATAATTAAT
65348223 TAAATTAGGGTTTAGAGTTTTTAAGAAT-ATTAAT
1 TAAATTAGGGTTTAGAG-TTTTAA-AATAATTAAT
**
65348257 TAAATTAGGGTTTAGTTTTTTTAAAATAA
1 TAAATTAGGGTTTAG-AGTTTTAAAATAA
65348286 ATTTGTGTTT
Statistics
Matches: 85, Mismatches: 7, Indels: 11
0.83 0.07 0.11
Matches are distributed among these distances:
33 6 0.07
34 57 0.67
35 17 0.20
36 5 0.06
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (33 bp):
TAAATTAGGGTTTAGAGTTTTAAAATAATTAAT
Found at i:65348592 original size:125 final size:126
Alignment explanation
Indices: 65348379--65348764 Score: 472
Period size: 125 Copynumber: 3.1 Consensus size: 126
65348369 TTTTTTTATG
* * * * *** *
65348379 GTAGTTTCAGAAAAATTAATTTTGGGAAGACAATTCTGAAAAGATAATGTCAAAAACGCTTCAAG
1 GTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTCAAAAACGCTTCAAG
** * * *
65348444 CAAGATGCACCATCAGCAAAATTACTGAAAAAAGCTTCTACGTGAACGCCCTTTTTCTACA
66 CAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACA
* * *
65348505 ATAGTTCCTGAAAAAATAATTTTGAG-AGATGGTTCTGAAAAAATATTGTCAAAAATGCTTCAAG
1 GTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTCAAAAACGCTTCAAG
* ** * * *
65348569 CAAAATGTGCTGTCAGCAAAATTACTGAAAAAA-CTCCAACGTGGACGTTTTTTTTCTACA
66 CAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACA
* * *
65348629 GTAGTTCCTAAAAAAATAATTTTGAGAAGATGGTTCT-AAAAAATAGTGTCAAAAAACACTTCAA
1 GTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTC-AAAAACGCTTCAA
** * * *
65348693 GCCGGATGCACTGTTAACAAAATTACTAAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACA
65 GCAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACA
65348755 GTAGTTCCTG
1 GTAGTTCCTG
65348765 CTTGGCCTTA
Statistics
Matches: 218, Mismatches: 39, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
124 57 0.26
125 107 0.49
126 54 0.25
ACGTcount: A:0.39, C:0.17, G:0.16, T:0.28
Consensus pattern (126 bp):
GTAGTTCCTGAAAAAATAATTTTGAGAAGATGGTTCTGAAAAAATAATGTCAAAAACGCTTCAAG
CAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCTACGTGGACGCTCTTTTTCTACA
Found at i:65350788 original size:27 final size:27
Alignment explanation
Indices: 65350747--65350853 Score: 160
Period size: 27 Copynumber: 4.0 Consensus size: 27
65350737 TGAACATCTT
* *
65350747 TAACTCTAATATCAGCTTCTCATTCTC
1 TAACTCCAATCTCAGCTTCTCATTCTC
*
65350774 TAACTCCAATCTCAGCTTTTCATTCTC
1 TAACTCCAATCTCAGCTTCTCATTCTC
*
65350801 TAACTCCCATCTCAGCTTCTCATTCTC
1 TAACTCCAATCTCAGCTTCTCATTCTC
* *
65350828 CAACTCCAATCTCAGCCTCTCATTCT
1 TAACTCCAATCTCAGCTTCTCATTCT
65350854 GGTGCAACAA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 72 1.00
ACGTcount: A:0.22, C:0.36, G:0.04, T:0.37
Consensus pattern (27 bp):
TAACTCCAATCTCAGCTTCTCATTCTC
Found at i:65350988 original size:93 final size:93
Alignment explanation
Indices: 65350829--65351038 Score: 287
Period size: 93 Copynumber: 2.3 Consensus size: 93
65350819 CTCATTCTCC
* ** * * *
65350829 AACTCCAATCTCAGCCTCT-CATTCTGGTGCAACAATTGTTCTTTTTCGTTGATCACTTGAATCA
1 AACTCCAATCTCAGCCT-TGCATTCCGGTGCAACAATTGACCTTCTACATTGATCACTTGAATCA
* *
65350893 ATTCCAAGTTCTGTTCCCTTTGACGCTCA
65 ATTCCAAATTCTGTTCCCTTTCACGCTCA
*
65350922 AACTCCAATCTCAGCCTTGCATTCCGGTGCAATAATTGACCTTCTACATTGATCACTTGAATCAA
1 AACTCCAATCTCAGCCTTGCATTCCGGTGCAACAATTGACCTTCTACATTGATCACTTGAATCAA
* * *
65350987 TTTCAAATTCTGTTCCGTTTCACGCTCT
66 TTCCAAATTCTGTTCCCTTTCACGCTCA
*
65351015 AACTCCAATCTCAGCCTCGCATTC
1 AACTCCAATCTCAGCCTTGCATTC
65351039 TCCTTCTCCA
Statistics
Matches: 103, Mismatches: 13, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
92 1 0.01
93 102 0.99
ACGTcount: A:0.23, C:0.30, G:0.12, T:0.35
Consensus pattern (93 bp):
AACTCCAATCTCAGCCTTGCATTCCGGTGCAACAATTGACCTTCTACATTGATCACTTGAATCAA
TTCCAAATTCTGTTCCCTTTCACGCTCA
Found at i:65355389 original size:41 final size:41
Alignment explanation
Indices: 65355344--65355553 Score: 203
Period size: 41 Copynumber: 5.1 Consensus size: 41
65355334 AGGGCTTTAA
* * * *
65355344 CGGCGTTTTAACTAAAAAAGCTGCT-AAAAATAGAGTAATAG
1 CGGCGTTTT-ACTAAAAATGCCGCTAAAAAACAGAGCAATAG
**
65355385 CGGCGTTTATGGT-AAAATGCCGCTAAAAAACAGAGCAATAG
1 CGGCGTTT-TACTAAAAATGCCGCTAAAAAACAGAGCAATAG
* *
65355426 CGGCGTTTTACCAAAAATGCTGCTAAAAAACAGAGCAATAG
1 CGGCGTTTTACTAAAAATGCCGCTAAAAAACAGAGCAATAG
* * * *
65355467 CAGCGTTTTACCAAAAACGCCGCT-AAAAACTAGAACAATAG
1 CGGCGTTTTACTAAAAATGCCGCTAAAAAAC-AGAGCAATAG
** * * *
65355508 CATCGTTTTACTAAAAACGCCGC-AAAAAACGAAAGCATTAG
1 CGGCGTTTTACTAAAAATGCCGCTAAAAAAC-AGAGCAATAG
65355549 CGGCG
1 CGGCG
65355554 CTTTCAGTAA
Statistics
Matches: 142, Mismatches: 22, Indels: 10
0.82 0.13 0.06
Matches are distributed among these distances:
40 16 0.11
41 125 0.88
42 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (41 bp):
CGGCGTTTTACTAAAAATGCCGCTAAAAAACAGAGCAATAG
Found at i:65355610 original size:40 final size:40
Alignment explanation
Indices: 65355521--65355616 Score: 106
Period size: 41 Copynumber: 2.4 Consensus size: 40
65355511 CGTTTTACTA
* *
65355521 AAAACGCCGCAAAAAACGAAAGCATTAGCGGCGCTTTCAGT
1 AAAACGCCGC-TAAAACCAAAGCATTAGCGGCGCTTTCAGT
* * *
65355562 AAAGCGCCGCTTAAAACCAGAGCATTA-CGGCGCTTT-TGAT
1 AAAACGCCGC-TAAAACCAAAGCATTAGCGGCGCTTTCAG-T
65355602 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
65355617 GTCATATAAC
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
39 6 0.13
40 19 0.40
41 22 0.47
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.17
Consensus pattern (40 bp):
AAAACGCCGCTAAAACCAAAGCATTAGCGGCGCTTTCAGT
Found at i:65356684 original size:8 final size:8
Alignment explanation
Indices: 65356645--65356718 Score: 62
Period size: 8 Copynumber: 8.9 Consensus size: 8
65356635 TTTATATGAT
65356645 AATTTAAA
1 AATTTAAA
65356653 AATTATAAA
1 AATT-TAAA
65356662 AATCTTCAAAAA
1 AAT-TT---AAA
65356674 AATTTAAA
1 AATTTAAA
65356682 AA-TTAAA
1 AATTTAAA
65356689 AA-TTAAA
1 AATTTAAA
*
65356696 AATTAAAA
1 AATTTAAA
*
65356704 AACTTAAA
1 AATTTAAA
*
65356712 TATTTAA
1 AATTTAA
65356719 TATTTAATAT
Statistics
Matches: 55, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
7 14 0.25
8 24 0.44
9 8 0.15
10 1 0.02
11 2 0.04
12 6 0.11
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (8 bp):
AATTTAAA
Found at i:65356696 original size:6 final size:7
Alignment explanation
Indices: 65356671--65356704 Score: 59
Period size: 7 Copynumber: 4.7 Consensus size: 7
65356661 AAATCTTCAA
65356671 AAAAATTT
1 AAAAA-TT
65356679 AAAAATT
1 AAAAATT
65356686 AAAAATT
1 AAAAATT
65356693 AAAAATT
1 AAAAATT
65356700 AAAAA
1 AAAAA
65356705 ACTTAAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 21 0.81
8 5 0.19
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (7 bp):
AAAAATT
Found at i:65356712 original size:21 final size:21
Alignment explanation
Indices: 65356648--65356712 Score: 55
Period size: 22 Copynumber: 3.0 Consensus size: 21
65356638 ATATGATAAT
*
65356648 TTAAAAATTATAAAAATCTTCAA
1 TTAAAAATTA-AAAAA-CTTAAA
*
65356671 --AAAAATTTAAAAA-TTAAAAA
1 TTAAAAATTAAAAAACTT--AAA
65356691 TTAAAAATTAAAAAACTTAAA
1 TTAAAAATTAAAAAACTTAAA
65356712 T
1 T
65356713 ATTTAATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
18 2 0.06
20 7 0.21
21 11 0.32
22 12 0.35
23 2 0.06
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.31
Consensus pattern (21 bp):
TTAAAAATTAAAAAACTTAAA
Found at i:65361206 original size:45 final size:45
Alignment explanation
Indices: 65361142--65361227 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
65361132 TGTTGCTGGA
65361142 GTGTTGGTCCTGATGAATTTAGGAGGAATCAATGCACTTACTAGG
1 GTGTTGGTCCTGATGAATTTAGGAGGAATCAATGCACTTACTAGG
*
65361187 GTGTTGGTCCTGATGAATTTGGGAGGAATCAATGCACTTAC
1 GTGTTGGTCCTGATGAATTTAGGAGGAATCAATGCACTTAC
65361228 ATATTATTCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (45 bp):
GTGTTGGTCCTGATGAATTTAGGAGGAATCAATGCACTTACTAGG
Found at i:65362347 original size:42 final size:43
Alignment explanation
Indices: 65362220--65362366 Score: 190
Period size: 43 Copynumber: 3.4 Consensus size: 43
65362210 AAGTTTATAT
* *
65362220 TCTTTAGCGGCG-TTTTTAGAAAATGCGACGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTTTTGGAAAA-GCGCCGCTAAAGGTCATGG
* *
65362263 TCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGG
1 TCTTTAGCGGCGTTTTTTGGAAAAGCGCCGCTAAAGGTCATGG
* * * *
65362306 TCTTTAACGGCGTTTTTTTGCAAA-CGCCGCTAAAAGTCATGG
1 TCTTTAGCGGCGTTTTTTGGAAAAGCGCCGCTAAAGGTCATGG
*
65362348 TCTTTTGCGGCGTTTTTTG
1 TCTTTAGCGGCGTTTTTTG
65362367 CGGCCTTGTG
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
42 33 0.37
43 49 0.54
44 8 0.09
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.33
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTTTTGGAAAAGCGCCGCTAAAGGTCATGG
Found at i:65367900 original size:23 final size:23
Alignment explanation
Indices: 65367859--65367910 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
65367849 AGTAATATAC
* * *
65367859 AAAATAATATATATTAATTCAAA
1 AAAATAATATACATAAATTAAAA
* *
65367882 TAAATAATATACCTAAATTAAAA
1 AAAATAATATACATAAATTAAAA
65367905 AAAATA
1 AAAATA
65367911 GTGTAATGTA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAATAATATACATAAATTAAAA
Found at i:65368683 original size:10 final size:10
Alignment explanation
Indices: 65368668--65368692 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
65368658 TTCATAACTC
65368668 AAAAATAAAA
1 AAAAATAAAA
65368678 AAAAATAAAA
1 AAAAATAAAA
65368688 AAAAA
1 AAAAA
65368693 CCTAGAATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:65369421 original size:5 final size:5
Alignment explanation
Indices: 65369411--65369436 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
65369401 TTGCACTTTA
65369411 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
65369437 TGTTTATAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:65369958 original size:15 final size:15
Alignment explanation
Indices: 65369938--65369977 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
65369928 ATTCTATTTA
65369938 TATTTTATTTCAT-AT
1 TATTTTATTT-ATAAT
65369953 TATTTTATTTATAAT
1 TATTTTATTTATAAT
*
65369968 TAATTTATTT
1 TATTTTATTT
65369978 TGTTTGCTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 2 0.09
15 21 0.91
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTTTATTTATAAT
Found at i:65370498 original size:76 final size:75
Alignment explanation
Indices: 65370372--65370670 Score: 253
Period size: 76 Copynumber: 3.8 Consensus size: 75
65370362 TTTTGGGATT
* * *
65370372 GATTCTCGCCGTTTAACGATTTTATTTCAAAATTGTTTTATTTCCAAAAACGAGTTAAATAAAAT
1 GATTCTCG-CATTTAACGATTTTA-TTCCAAATTTTTTTATTTCCAAAAACGAGTTAAATAAAAT
*
65370437 CATTTCGGGACC
64 CATTTCAGGACC
* * *
65370449 GATTTCTAC-CATTTAATGATTTTATTCCAAATTTTTTTATTTTCAAAAACGAGTAAAATAAAAT
1 GA-TTCT-CGCATTTAACGATTTTATTCCAAATTTTTTTATTTCCAAAAACGAGTTAAATAAAAT
* *
65370513 CGTTTCAGGATC
64 CATTTCAGGACC
* * * *
65370525 GATTCTCGTCGTTCAACGATTTTATTCCAATTTTGTTTTATTTCCAAAAACAAG-TAACATAAAA
1 GATTCTCG-CATTTAACGATTTTATTCCAAATTT-TTTTATTTCCAAAAACGAGTTAA-AT-AAA
* **
65370589 ATC-TTTCTGGGATT
62 ATCATTTC-AGGACC
* * * * * *
65370603 GATTCCCGTCGTTCAACGATTTCATTCCAAATTTGGTTTATTTCCAGAAACGAGAAATTAAATAA
1 GATTCTCG-CATTTAACGATTTTATTCCAAATTT-TTTTATTTCCAAAAACGAG---TTAAATAA
65370668 AAT
61 AAT
65370671 AAAATATGCT
Statistics
Matches: 186, Mismatches: 24, Indels: 21
0.81 0.10 0.09
Matches are distributed among these distances:
74 1 0.01
75 4 0.02
76 70 0.38
77 38 0.20
78 62 0.33
79 1 0.01
80 5 0.03
81 2 0.01
82 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (75 bp):
GATTCTCGCATTTAACGATTTTATTCCAAATTTTTTTATTTCCAAAAACGAGTTAAATAAAATCA
TTTCAGGACC
Found at i:65370623 original size:78 final size:77
Alignment explanation
Indices: 65370345--65370653 Score: 325
Period size: 77 Copynumber: 4.0 Consensus size: 77
65370335 GGGAAATTAA
* * * * * *
65370345 AAGTAAAATAAAAATCGTTTTGGGATTGATTCTCGCCGTTTAACGATTTTATTTCAAAATTGTTT
1 AAGTAAAAT-AAAATCGTTTCGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTT
65370410 TATTTCCAAAAAC
65 TATTTCCAAAAAC
* * * * * ** * * *
65370423 GAGTTAAATAAAATCATTTCGGGACCGATTTCTACCATTTAATGATTTTATTCCAAATTT-TTTT
1 AAGTAAAATAAAATCGTTTCGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
*
65370487 ATTTTCAAAAAC
66 ATTTCCAAAAAC
* * * * *
65370499 GAGTAAAATAAAATCGTTTCAGGATCGATTCTCGTCGTTCAACGATTTTATTCCAATTTTGTTTT
1 AAGTAAAATAAAATCGTTTCGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
65370564 ATTTCCAAAAAC
66 ATTTCCAAAAAC
* * * * *
65370576 AAGTAACATAAAAATC-TTTCTGGGATTGATTCCCGTCGTTCAACGATTTCATTCCAAATTTGGT
1 AAGTAAAAT-AAAATCGTTTC-GGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTT
*
65370640 TTATTTCCAGAAAC
64 TTATTTCCAAAAAC
65370654 GAGAAATTAA
Statistics
Matches: 190, Mismatches: 38, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
76 62 0.33
77 65 0.34
78 63 0.33
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (77 bp):
AAGTAAAATAAAATCGTTTCGGGATCGATTCCCGCCGTTCAACGATTTTATTCCAAATTTGTTTT
ATTTCCAAAAAC
Found at i:65370824 original size:84 final size:83
Alignment explanation
Indices: 65370736--65370889 Score: 218
Period size: 84 Copynumber: 1.8 Consensus size: 83
65370726 ATTAGAATAG
* * * *
65370736 AATTAAATAAAATCTGTTTCGAGATTTATTCTTGCCATTTAACAAGATTTTATTTGATTTTATTT
1 AATTAAATAAAATATGTTTCGAGATTTATTCCTGCCATTTAACAAGATTTTA-TCGATATTATTT
65370801 TGTTTCTTAATTCAAATTA
65 TGTTTCTTAATTCAAATTA
* * * * *
65370820 AATTAAATAAAATATGTTTTGGGATTTATTCCTGTCGTTTAACAAGATTTTATCGATATTGTTTT
1 AATTAAATAAAATATGTTTCGAGATTTATTCCTGCCATTTAACAAGATTTTATCGATATTATTTT
65370885 GTTTC
66 GTTTC
65370890 CAAACAAAGA
Statistics
Matches: 61, Mismatches: 9, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
83 15 0.25
84 46 0.75
ACGTcount: A:0.31, C:0.09, G:0.11, T:0.49
Consensus pattern (83 bp):
AATTAAATAAAATATGTTTCGAGATTTATTCCTGCCATTTAACAAGATTTTATCGATATTATTTT
GTTTCTTAATTCAAATTA
Found at i:65370976 original size:19 final size:20
Alignment explanation
Indices: 65370938--65370976 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
65370928 TATTCTTGTC
* *
65370938 ATTTAATAGATTTTATTTTG
1 ATTTAATAGATATAATTTTG
65370958 ATTTAAT-GATATAATTTTG
1 ATTTAATAGATATAATTTTG
65370977 TTTTGAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.56
Consensus pattern (20 bp):
ATTTAATAGATATAATTTTG
Found at i:65374493 original size:21 final size:21
Alignment explanation
Indices: 65374468--65374532 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
65374458 TAGCCTTCGG
65374468 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* ** *
65374489 GCTTCAG-TTAGC-C-TCCGG
1 GCTTCCGTTTAGCACTTATGT
65374507 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
65374528 GCTTC
1 GCTTC
65374533 AGCTAGATTT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 8 0.24
19 6 0.18
20 6 0.18
21 13 0.39
ACGTcount: A:0.12, C:0.28, G:0.22, T:0.38
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:65374496 original size:39 final size:39
Alignment explanation
Indices: 65374450--65374550 Score: 166
Period size: 39 Copynumber: 2.6 Consensus size: 39
65374440 GCTCTGATGA
65374450 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
*
65374489 GCTTCAGTTAGCCTCCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* **
65374528 GCTTCAGCTAGATTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
65374551 AGATCACGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.13, C:0.27, G:0.24, T:0.37
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:65375445 original size:20 final size:20
Alignment explanation
Indices: 65375420--65375460 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
65375410 TAATAAAAGT
65375420 AAAAAAAATCACTTTATCTA
1 AAAAAAAATCACTTTATCTA
65375440 AAAAAAAATCACTTTATCTA
1 AAAAAAAATCACTTTATCTA
65375460 A
1 A
65375461 TACATAGCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAAAAATCACTTTATCTA
Found at i:65378905 original size:12 final size:12
Alignment explanation
Indices: 65378876--65378910 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
65378866 GAATTAGTCC
*
65378876 TATTATTATTAT
1 TATTACTATTAT
65378888 TATTACTATTAT
1 TATTACTATTAT
65378900 TATTACCTATT
1 TATTA-CTATT
65378911 TATTTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTACTATTAT
Found at i:65391617 original size:44 final size:42
Alignment explanation
Indices: 65391555--65392066 Score: 308
Period size: 44 Copynumber: 11.9 Consensus size: 42
65391545 CAAAGAATTG
* *
65391555 CAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATA
1 CAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGA
* * *
65391597 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT-AA-A
1 CAG--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGA
* * * * * *
65391639 -GGATCTTATCTCTCTGA-AGTTACAGTAGAGCAGATCGCA-C
1 CAGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGA
* * * * *
65391679 CAGGTCTTATTTCCCTGAGATTACAGTGGAACAGACTAAAGAA
1 CAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-A
* * *
65391722 TTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAGGC
1 ---CAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGA
*
65391767 CAGAAATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGA
1 CAG--ATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGA
* * * * *
65391811 CACTATCCTATCTCCCTGA-AGTTACAGTGGAGCGGATTAAAATA
1 CA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT-GAAGA
* * * * * * *
65391855 AAGGATCTTATTTCCCTGA-AGTTACAGTAGAGTAGATCGCA-T
1 CA-GATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTGAAGA
* **
65391897 CAGGTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAA
1 CAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAG-A
* * *
65391940 TTTCAAATCTTATCTCTCTGAGATTACAGCGGAGCAGATTGAAG-
1 ---CAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGA
* * * * *
65391984 CTAGTAATCCTATCTCTCTGA-AGTTACAGTGGAGCGGATTAAAATAA
1 C-AG--ATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATT-GAA-GA
* * *
65392031 AAGATCTTATCTCTCTGA-AGTTACAGTAGAGCAGAT
1 CAGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT
65392067 CACATTAGAT
Statistics
Matches: 364, Mismatches: 77, Indels: 56
0.73 0.15 0.11
Matches are distributed among these distances:
38 1 0.00
39 27 0.07
40 1 0.00
41 59 0.16
42 11 0.03
43 33 0.09
44 159 0.44
45 2 0.01
46 71 0.20
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (42 bp):
CAGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTGAAGA
Found at i:65391823 original size:87 final size:87
Alignment explanation
Indices: 65391557--65392066 Score: 313
Period size: 87 Copynumber: 5.9 Consensus size: 87
65391547 AAGAATTGCA
* * * * *
65391557 GATCTTATCTCCCTG-AGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAGATT
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGACAGAAATCTTATCTCCCTGAGATT
* *
65391621 ACAGTGGAGCGGATT--A-A-AG
65 ACAGTGGAGCAGATTGAAGACAC
* * * * * * *
65391640 GATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCA-CCAG--GTCTTATTTCCCTGAGATTA
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAGAAATCTTATCTCCCTGAGATTA
* * *
65391702 CAGTGGAACAGACTAAAGA-ATTTC
66 CAGTGGAGCAGATTGAAGACA---C
* * *
65391726 AGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAGGCCAGAAATCTTATCTCCCTGAGATT
1 -GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAGAAATCTTATCTCCCTGAGATT
*
65391791 ACAGCGGAGCAGATTGAAGACAC
65 ACAGTGGAGCAGATTGAAGACAC
* * * * * *
65391814 TATCCTATCTCCCTGAAGTTACAGTGGAGCGGATT-AAAATA-AAGGATCTTATTTCCCTGA-AG
1 GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAGAA--ATCTTATCTCCCTGAGA-
* * * * *
65391876 TTACAGTAGAGTAGATCGCA-TCA-
63 TTACAGTGGAGCAGATTGAAGACAC
* ** * *
65391899 GGTCTTATCTCCCTG-AGATTACAGTGGAGCAGACCGAAGA-ATTTCAAATCTTATCTCTCTGAG
1 GATCTTATCTCCCTGAAG-TTACAGTGGAGCAGATTGAAGACA---GAAATCTTATCTCCCTGAG
*
65391962 ATTACAGCGGAGCAGATTGAAG-CTA-
62 ATTACAGTGGAGCAGATTGAAGAC-AC
* * * * * * *
65391987 GTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATT-AAAATAAAAGATCTTATCTCTCTGA-A
1 G--ATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAGAA-ATCTTATCTCCCTGAGA
*
65392050 GTTACAGTAGAGCAGAT
63 -TTACAGTGGAGCAGAT
65392067 CACATTAGAT
Statistics
Matches: 332, Mismatches: 65, Indels: 55
0.73 0.14 0.12
Matches are distributed among these distances:
80 28 0.08
82 3 0.01
83 32 0.10
84 4 0.01
85 29 0.09
86 8 0.02
87 124 0.37
88 37 0.11
89 5 0.02
90 59 0.18
91 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.28
Consensus pattern (87 bp):
GATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGACAGAAATCTTATCTCCCTGAGATTA
CAGTGGAGCAGATTGAAGACAC
Found at i:65391941 original size:218 final size:214
Alignment explanation
Indices: 65391558--65392023 Score: 650
Period size: 218 Copynumber: 2.2 Consensus size: 214
65391548 AGAATTGCAG
* * *
65391558 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAATATAGTAATCCTATCTCCCTGAGATTAC
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAGATTAC
*
65391623 AGTGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTA
66 AGTGGAGCGGATTAAAGGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTA
* * * * *
65391688 TTTCCCTGAGATTACAGTGGAACAGACTAAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTG
131 TCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAAATCTTATCTCCCTGAGATTACAGCG
*
65391753 GAGCAGATTGAGGCCAGAA
196 GAGCAGATTGAAGCCAGAA
65391772 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACT-ATCCTATCTCCCTGA-AGTTA
1 ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAGA-TTA
* * *
65391835 CAGTGGAGCGGATTAAAATAAAGGATCTTATTTCCCTGAAGTTACAGTAGAGTAGATCGCATCAG
65 CAGTGGAGCGGA-T----TAAAGGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCACCAG
* * *
65391900 GTCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTTCAAATCTTATCTCTCTGAGATT
125 GTCTTATCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAAATCTTATCTCCCTGAGATT
* *
65391965 ACAGCGGAGCAGATTGAAGCTAGTA
190 ACAGCGGAGCAGATTGAAGCCAGAA
* * * *
65391990 ATCCTATCTCTCTGA-AGTTACAGTGGAGCGGATT
1 ATCTTATCTCCCTGAGA-TTACAGCGGAGCAGATT
65392024 AAAATAAAAG
Statistics
Matches: 223, Mismatches: 22, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
212 1 0.00
213 30 0.13
214 41 0.18
217 1 0.00
218 150 0.67
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (214 bp):
ATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGACACTAATCCTATCTCCCTGAGATTAC
AGTGGAGCGGATTAAAGGATCTTATCTCCCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTA
TCTCCCTGAGATTACAGTGGAACAGACCAAAGAATTTCAAATCTTATCTCCCTGAGATTACAGCG
GAGCAGATTGAAGCCAGAA
Found at i:65392152 original size:98 final size:98
Alignment explanation
Indices: 65391975--65392165 Score: 289
Period size: 98 Copynumber: 1.9 Consensus size: 98
65391965 ACAGCGGAGC
*
65391975 AGATTGAAGCTAGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAAGATCTTA
1 AGATTGAAGATAGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAAGATCTTA
65392040 TCTCTCTGAAGTTACAGTAGAGCAGATCACATT
66 TCTCTCTGAAGTTACAGTAGAGCAGATCACATT
* *
65392073 AGATTGAAGATAGTAATCCTATCTGC-CTG-AGATTATAGTGGAGTGGATTAAAATAAAAGATCT
1 AGATTGAAGATAGTAATCCTATCT-CTCTGAAG-TTACAGTGGAGCGGATTAAAATAAAAGATCT
* *
65392136 TATCTCT-TTAAGGTTACAGTAGAGGAGATC
64 TATCTCTCTGAA-GTTACAGTAGAGCAGATC
65392166 GTGTCAGGTC
Statistics
Matches: 85, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
97 5 0.06
98 79 0.93
99 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (98 bp):
AGATTGAAGATAGTAATCCTATCTCTCTGAAGTTACAGTGGAGCGGATTAAAATAAAAGATCTTA
TCTCTCTGAAGTTACAGTAGAGCAGATCACATT
Found at i:65392890 original size:10 final size:10
Alignment explanation
Indices: 65392875--65392899 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
65392865 GTTTCCTATC
65392875 TTTTTTTTAT
1 TTTTTTTTAT
65392885 TTTTTTTTAT
1 TTTTTTTTAT
65392895 TTTTT
1 TTTTT
65392900 ATTTTACACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.00, T:0.92
Consensus pattern (10 bp):
TTTTTTTTAT
Found at i:65393662 original size:12 final size:12
Alignment explanation
Indices: 65393633--65393667 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
65393623 GAATTAGTCC
*
65393633 TATTATTATTAT
1 TATTACTATTAT
65393645 TATTACTATTAT
1 TATTACTATTAT
65393657 TATTACCTATT
1 TATTA-CTATT
65393668 TATTTATATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 16 0.76
13 5 0.24
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTACTATTAT
Found at i:65399599 original size:21 final size:20
Alignment explanation
Indices: 65399575--65399625 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
65399565 ACAAATGTGG
65399575 TTATTTGAAAATCATAAAATA
1 TTATTT-AAAATCATAAAATA
* *
65399596 TTATCTAGAAATTATAAAATA
1 TTATTTA-AAATCATAAAATA
65399617 TT-TTTAAAA
1 TTATTTAAAA
65399626 AAATTATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 3 0.12
20 4 0.15
21 19 0.73
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (20 bp):
TTATTTAAAATCATAAAATA
Found at i:65399647 original size:22 final size:22
Alignment explanation
Indices: 65399582--65399647 Score: 55
Period size: 21 Copynumber: 3.0 Consensus size: 22
65399572 TGGTTATTTG
* **
65399582 AAAATCATAAAATATTAT-CTA
1 AAAATTATAAAATATTATAAAA
* * *
65399603 GAAATTATAAAATATTTTTAAA
1 AAAATTATAAAATATTATAAAA
65399625 AAAATTATAAAA-ATTAATAAAA
1 AAAATTATAAAATATT-ATAAAA
65399647 A
1 A
65399648 GCAATATATA
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
21 18 0.51
22 17 0.49
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATTATAAAATATTATAAAA
Found at i:65400109 original size:21 final size:21
Alignment explanation
Indices: 65400085--65400128 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
65400075 TTTTAATAAA
65400085 TTGTAAATAAATTTTATAATT
1 TTGTAAATAAATTTTATAATT
* * *
65400106 TTGTAATTTAATTTTATTATT
1 TTGTAAATAAATTTTATAATT
65400127 TT
1 TT
65400129 AATAATTTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (21 bp):
TTGTAAATAAATTTTATAATT
Found at i:65400137 original size:22 final size:21
Alignment explanation
Indices: 65400094--65400143 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
65400084 ATTGTAAATA
*
65400094 AATTTTATAATTTTGTAATTT
1 AATTTTATAATTTTATAATTT
*
65400115 AATTTTATTATTTTAATAATTT
1 AATTTTATAATTTT-ATAATTT
65400137 ATATTTT
1 A-ATTTT
65400144 TGGAATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 13 0.52
22 7 0.28
23 5 0.20
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (21 bp):
AATTTTATAATTTTATAATTT
Found at i:65400194 original size:19 final size:21
Alignment explanation
Indices: 65400170--65400208 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
65400160 TTTTATAATT
65400170 ATTTT-AAA-AATATTTTAAA
1 ATTTTAAAATAATATTTTAAA
65400189 ATTTTAAAATAATATTTTAA
1 ATTTTAAAATAATATTTTAA
65400209 TGATTTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 3 0.17
21 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTTAAAATAATATTTTAAA
Found at i:65404818 original size:222 final size:220
Alignment explanation
Indices: 65404432--65404894 Score: 736
Period size: 222 Copynumber: 2.1 Consensus size: 220
65404422 TGCAAACTTT
* * * *
65404432 TCTTCCACACCCAATTTGGTACGGCCCCGCTTATTTGGTTGTTTGAAAGGTCAAGTTCTTCTAAG
1 TCTTCCACAACCAATTTGGTACGGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGATATTCTAAG
* *
65404497 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAGGATCTCAAACGCAACGAAAT
66 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGATCTCAAAC-CAACAAAAT
65404562 CAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTGG
130 CAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTGG
* *
65404627 AAGAAAGGTCTA-ATATTTCAAGTGTGC
195 AAGAAAGGCCTACA-ATAT-AAGTGTGC
*
65404654 TCTTCCACAACCAATTTGGTACTGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGATATTCTAAG
1 TCTTCCACAACCAATTTGGTACGGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGATATTCTAAG
65404719 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGATGC-C-AA-CAACAAAAA
66 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGAT-CTCAAACCAAC-AAAA
*
65404781 TCTCAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTTGGAATGTCAATCGCAT
129 --TCAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCAT
65404846 TGGAAGAAAGGCCTACCAATATAAGTGTGC
192 TGGAAGAAAGGCCTA-CAATATAAGTGTGC
65404876 TCTTCCACAACCAATTTGG
1 TCTTCCACAACCAATTTGG
65404895 AACAAGACCG
Statistics
Matches: 225, Mismatches: 10, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
219 4 0.02
220 3 0.01
221 2 0.01
222 211 0.94
223 4 0.02
224 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (220 bp):
TCTTCCACAACCAATTTGGTACGGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGATATTCTAAG
CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGATCTCAAACCAACAAAATC
AGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTGGA
AGAAAGGCCTACAATATAAGTGTGC
Found at i:65411862 original size:7 final size:7
Alignment explanation
Indices: 65411850--65411875 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
65411840 TTTTGTACTC
65411850 TTTAAAA
1 TTTAAAA
65411857 TTTAAAA
1 TTTAAAA
65411864 TTTAAAA
1 TTTAAAA
65411871 TTTAA
1 TTTAA
65411876 TCTCTATACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TTTAAAA
Found at i:65415321 original size:26 final size:25
Alignment explanation
Indices: 65415251--65415371 Score: 107
Period size: 25 Copynumber: 4.6 Consensus size: 25
65415241 AAGTATATAC
**
65415251 ATAGTATTAAAAATATGTACATAAT
1 ATAGTATTAAAAATAAATACATAAT
** * *
65415276 ATAGCGTTCAAAATACATACATAAT
1 ATAGTATTAAAAATAAATACATAAT
*
65415301 ATAGTTATTAAAAATAAATACATAAG
1 ATAG-TATTAAAAATAAATACATAAT
* *
65415327 ATAATATGTAAAAAAATATATATAAATAAT
1 ATAGTAT-T--AAAAATA-A-ATACATAAT
65415357 ATAGTATTAAAAATA
1 ATAGTATTAAAAATA
65415372 TAGTATTTAA
Statistics
Matches: 76, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
25 27 0.36
26 20 0.26
27 7 0.09
28 7 0.09
29 2 0.03
30 13 0.17
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (25 bp):
ATAGTATTAAAAATAAATACATAAT
Found at i:65415322 original size:30 final size:29
Alignment explanation
Indices: 65415286--65415371 Score: 99
Period size: 26 Copynumber: 3.0 Consensus size: 29
65415276 ATAGCGTTCA
*
65415286 AAATACATACATAATATAGTTATTAAAAAT
1 AAATACATAAATAATATAG-TATTAAAAAT
65415316 AAATACATAAGATAATAT-GTA--AAAAA-
1 AAATACATAA-ATAATATAGTATTAAAAAT
* *
65415342 ATATATATAAATAATATAGTATTAAAAAT
1 AAATACATAAATAATATAGTATTAAAAAT
65415371 A
1 A
65415372 TAGTATTTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
25 7 0.15
26 11 0.23
27 5 0.10
28 5 0.10
29 3 0.06
30 10 0.21
31 7 0.15
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.31
Consensus pattern (29 bp):
AAATACATAAATAATATAGTATTAAAAAT
Found at i:65415359 original size:13 final size:13
Alignment explanation
Indices: 65415312--65415452 Score: 66
Period size: 13 Copynumber: 10.9 Consensus size: 13
65415302 TAGTTATTAA
*
65415312 AAATAA-ATACAT
1 AAATAATATATAT
*
65415324 AAGATAATATGTA-
1 AA-ATAATATATAT
*
65415337 AAAAAATATATAT
1 AAATAATATATAT
65415350 AAATAATATAGTATT
1 AAATAATATA-TA-T
65415365 AAA-AATATAGTATTT
1 AAATAATATA-TA--T
65415380 AAA-AGATATATAT
1 AAATA-ATATATAT
**
65415393 ACGTAATATATAT
1 AAATAATATATAT
*
65415406 AAA-AA-ATGTAT
1 AAATAATATATAT
*
65415417 ACATAATATAGTAT
1 AAATAATATA-TAT
*
65415431 TAA-AATAT-T-T
1 AAATAATATATAT
*
65415441 ACATAATATATA
1 AAATAATATATA
65415453 CATATTAGAA
Statistics
Matches: 99, Mismatches: 16, Indels: 27
0.70 0.11 0.19
Matches are distributed among these distances:
10 2 0.02
11 13 0.13
12 15 0.15
13 33 0.33
14 19 0.19
15 12 0.12
16 5 0.05
ACGTcount: A:0.57, C:0.03, G:0.06, T:0.35
Consensus pattern (13 bp):
AAATAATATATAT
Found at i:65415423 original size:24 final size:24
Alignment explanation
Indices: 65415390--65415452 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
65415380 AAAAGATATA
*
65415390 TATACGTAATATATA-TAAAAAAT
1 TATACATAATATATATTAAAAAAT
*
65415413 GTATACATAATATAGTATTAAAATAT
1 -TATACATAATATA-TATTAAAAAAT
65415439 T-TACATAATATATA
1 TATACATAATATATA
65415453 CATATTAGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
23 2 0.06
24 23 0.66
25 3 0.09
26 7 0.20
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (24 bp):
TATACATAATATATATTAAAAAAT
Found at i:65415531 original size:21 final size:20
Alignment explanation
Indices: 65415503--65415567 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 20
65415493 AATACTACAT
65415503 AAATATATACATATATATTA
1 AAATATATACATATATATTA
*
65415523 AAGATATATACATATATAATA
1 AA-ATATATACATATATATTA
*
65415544 AAACATATA-ATA-ATATTA
1 AAATATATACATATATATTA
65415562 ATAATA
1 A-AATA
65415568 ATAATAAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
18 6 0.15
19 6 0.15
20 8 0.21
21 19 0.49
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (20 bp):
AAATATATACATATATATTA
Found at i:65415556 original size:3 final size:3
Alignment explanation
Indices: 65415550--65415616 Score: 57
Period size: 3 Copynumber: 22.0 Consensus size: 3
65415540 AATAAAACAT
* * *
65415550 ATA ATA ATA TTA ATA ATA ATA ATA AGA ATA AT- ATAA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
*
65415595 A-A TATA ATA ATA TTAA ATA ATA
1 ATA -ATA ATA ATA AT-A ATA ATA
65415617 TTAAAAGTAA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
2 3 0.06
3 43 0.84
4 5 0.10
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:65429708 original size:14 final size:14
Alignment explanation
Indices: 65429689--65429738 Score: 100
Period size: 14 Copynumber: 3.6 Consensus size: 14
65429679 TCAATTTCAT
65429689 TAGAAGAACTTTAC
1 TAGAAGAACTTTAC
65429703 TAGAAGAACTTTAC
1 TAGAAGAACTTTAC
65429717 TAGAAGAACTTTAC
1 TAGAAGAACTTTAC
65429731 TAGAAGAA
1 TAGAAGAA
65429739 AAATTTCTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.26
Consensus pattern (14 bp):
TAGAAGAACTTTAC
Found at i:65431956 original size:3 final size:3
Alignment explanation
Indices: 65431950--65432113 Score: 74
Period size: 3 Copynumber: 54.7 Consensus size: 3
65431940 TTTTTTTACA
* *
65431950 TAT TAT TAA TAT TAT TAC TAT TAT T-T TAT T-T CTAT TAT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
* * * * * *
65431994 TAT TAT TAC TGT TAG TAT TAT T-T TCAT TAC TAT TAT TTT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * *
65432039 CA- TAT TAAT TAT T-T TCT AACG TAT TAT TAT TACT AAT TAT TAT TAT
1 TAT TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT
*
65432085 T-T CTAGT T-T TAT TAT TAT TAT TAA TAT TA
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TA
65432114 GGGTATGTAT
Statistics
Matches: 119, Mismatches: 26, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
2 12 0.10
3 95 0.80
4 11 0.09
5 1 0.01
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:65431978 original size:23 final size:23
Alignment explanation
Indices: 65431952--65431997 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
65431942 TTTTTACATA
65431952 TTATTAATATTATTA-CTATTATT
1 TTATTAATATTATTATCT-TTATT
**
65431975 TTATTTCTATTATTATCTTTATT
1 TTATTAATATTATTATCTTTATT
65431998 ATTACTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTAATATTATTATCTTTATT
Found at i:65432348 original size:22 final size:20
Alignment explanation
Indices: 65432346--65432459 Score: 95
Period size: 21 Copynumber: 5.3 Consensus size: 20
65432336 TTTTCAATAT
65432346 TATATATTTTATATATTATTA
1 TATATATTTTA-ATATTATTA
65432367 TATATATTTTAATATTATTA
1 TATATATTTTAATATTATTA
* *
65432387 GTTATATATTTTTATACTATTA
1 --TATATATTTTAATATTATTA
*
65432409 TGTGTATATTTCTAATATTA-TA
1 --TATATATTT-TAATATTATTA
* *
65432431 TTGTATATTTCTAATACTATTA
1 -TATATATTT-TAATATTATTA
*
65432453 TTTATAT
1 TATATAT
65432460 ATATATGTGT
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
20 9 0.11
21 34 0.43
22 30 0.38
23 6 0.08
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.59
Consensus pattern (20 bp):
TATATATTTTAATATTATTA
Found at i:65432351 original size:16 final size:16
Alignment explanation
Indices: 65432330--65432384 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 16
65432320 ATGTTATGTA
*
65432330 TATATATTTTCAATAT
1 TATATATTTTTAATAT
65432346 TATATATTTTATATATTAT
1 TATATATTTT-TA-A-TAT
65432365 TATATATATTTTAATAT
1 TATATAT-TTTTAATAT
65432382 TAT
1 TAT
65432385 TAGTTATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
16 10 0.29
17 7 0.21
18 2 0.06
19 12 0.35
20 3 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
TATATATTTTTAATAT
Found at i:65432372 original size:21 final size:21
Alignment explanation
Indices: 65432346--65432463 Score: 91
Period size: 20 Copynumber: 5.3 Consensus size: 21
65432336 TTTTCAATAT
65432346 TATATATTTTATATATTATTA
1 TATATATTTTATATATTATTA
65432367 TATATATTTTA-ATATTATTA
1 TATATATTTTATATATTATTA
*
65432387 GTTATATATTTTTATACTATTATGTG
1 --TATATA-TTTTATA-TATTAT-TA
*
65432413 TATAT-TTCTA-ATATTA-TA
1 TATATATTTTATATATTATTA
*
65432431 TTGTATATTTCTAATACTATTATTTA
1 -TATATATTT-T-ATA-TATTA-TTA
65432457 TATATAT
1 TATATAT
65432464 ATGTGTGTGT
Statistics
Matches: 77, Mismatches: 6, Indels: 24
0.72 0.06 0.22
Matches are distributed among these distances:
18 1 0.01
19 4 0.05
20 16 0.21
21 13 0.17
22 11 0.14
23 6 0.08
24 11 0.14
25 12 0.16
26 3 0.04
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.58
Consensus pattern (21 bp):
TATATATTTTATATATTATTA
Found at i:65432580 original size:24 final size:24
Alignment explanation
Indices: 65432541--65432696 Score: 90
Period size: 25 Copynumber: 6.4 Consensus size: 24
65432531 ATGTATATAT
*
65432541 TGTATATA-TTTTATA-TATGTTA
1 TGTATATATTTTTATACTATATTA
*
65432563 TGTATATATTTTTAATATTACTAATTA
1 TGTATATATTTTT-ATACTA-T-ATTA
65432590 --TATATATTTCTTATAC-AT-TTCCA
1 TGTATATATTT-TTATACTATATT--A
* * *
65432613 TGTACATATTTTTATACCATCTTA
1 TGTATATATTTTTATACTATATTA
*
65432637 TGTATATATTTTTAAATACTATATTG
1 TGTATATATTTTT--ATACTATATTA
* * * **
65432663 TATATATATTCTTAATACCATATCG
1 TGTATATATT-TTTATACTATATTA
65432688 TGTATATAT
1 TGTATATAT
65432697 CATTATTACA
Statistics
Matches: 107, Mismatches: 12, Indels: 27
0.73 0.08 0.18
Matches are distributed among these distances:
21 2 0.02
22 8 0.07
23 6 0.06
24 23 0.21
25 41 0.38
26 22 0.21
27 5 0.05
ACGTcount: A:0.33, C:0.09, G:0.05, T:0.53
Consensus pattern (24 bp):
TGTATATATTTTTATACTATATTA
Found at i:65441009 original size:22 final size:20
Alignment explanation
Indices: 65440984--65441044 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
65440974 TCCGTAAGCT
65440984 CCCATTAAAGCCAAAATGCAAG
1 CCCATTAAA--CAAAATGCAAG
*
65441006 CCCATTCAACAAAATGCAAG
1 CCCATTAAACAAAATGCAAG
* * *
65441026 TCCATTCAACAAAAGGCAA
1 CCCATTAAACAAAATGCAA
65441045 AAGTCAAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
20 28 0.78
22 8 0.22
ACGTcount: A:0.46, C:0.28, G:0.11, T:0.15
Consensus pattern (20 bp):
CCCATTAAACAAAATGCAAG
Found at i:65441020 original size:20 final size:20
Alignment explanation
Indices: 65440995--65441044 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
65440985 CCATTAAAGC
65440995 CAAAATGCAAGCCCATTCAA
1 CAAAATGCAAGCCCATTCAA
*
65441015 CAAAATGCAAGTCCATTCAA
1 CAAAATGCAAGCCCATTCAA
*
65441035 CAAAAGGCAA
1 CAAAATGCAA
65441045 AAGTCAAGAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.48, C:0.26, G:0.12, T:0.14
Consensus pattern (20 bp):
CAAAATGCAAGCCCATTCAA
Found at i:65444304 original size:144 final size:146
Alignment explanation
Indices: 65444113--65444483 Score: 412
Period size: 144 Copynumber: 2.5 Consensus size: 146
65444103 CGATTTCTGT
* * * * * * * *
65444113 TTTTCAATTTATGTTTTCAAAAGTCAATTCATATTGCTATAGGTGAATTGAGCCTCGGGGCACGC
1 TTTT-AATTTCTGCTTTCAAAATTCAACTCATATTGCAAGAGGTGAATTGAGCCTCAGGACACGC
* * * *
65444178 TGAGGTATTTTCAATTAT-TGT-TTGTCAAAAAA-TCAATTCATATTGCGAGAGGTGAGTTGAGC
65 TGAGGTATTTTCAATT-TCTGTCTT-TCAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGC
***
65444240 CTTGGGACACGTTGAGATAA
128 CTCAAGACACGTTGAGAT-A
* * * * *
65444260 TTTT-TTTTCTG-TTTCAAAATTCAACTCATACTGCAAGAAGTGAATTGAGCCTCAAGACACGTT
1 TTTTAATTTCTGCTTTCAAAATTCAACTCATATTGCAAGAGGTGAATTGAGCCTCAGGACACGCT
65444323 GAGGTATTTTCAATTTCTGTCTTTCAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTC
66 GAGGTATTTTCAATTTCTGTCTTTCAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTC
*
65444388 AAGACACGTTGAGGTA
131 AAGACACGTTGAGATA
*
65444404 TTTTCAATTTCTGTCTTTCAAAATAATCAACTCATATTGCGAGAGGT-AAGTTGAGCCTCAGGAC
1 TTTT-AATTTCTG-CTTTCAAAAT--TCAACTCATATTGCAAGAGGTGAA-TTGAGCCTCAGGAC
65444468 ACGCTGAGGTAATTTT
61 ACGCTGAGGT-ATTTT
65444484 GATCTCCGTT
Statistics
Matches: 187, Mismatches: 26, Indels: 18
0.81 0.11 0.08
Matches are distributed among these distances:
143 1 0.01
144 73 0.39
145 47 0.25
146 6 0.03
147 4 0.02
148 9 0.05
149 2 0.01
150 40 0.21
151 5 0.03
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.35
Consensus pattern (146 bp):
TTTTAATTTCTGCTTTCAAAATTCAACTCATATTGCAAGAGGTGAATTGAGCCTCAGGACACGCT
GAGGTATTTTCAATTTCTGTCTTTCAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTC
AAGACACGTTGAGATA
Found at i:65444368 original size:75 final size:73
Alignment explanation
Indices: 65444113--65444574 Score: 413
Period size: 75 Copynumber: 6.3 Consensus size: 73
65444103 CGATTTCTGT
* * * * * * *
65444113 TTTTCAATTTATGTTTTC-AAAAGTCAATTCATATTGCTATAGGTGAATTGAGCCTCGGGGCACG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAATTGAGCCTCAGGACACG
*
65444177 CTGAGGTA
66 TTGAGGTA
* * * **
65444185 TTTTCAATTAT-TGTTTGTCAAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTTGGGACA
1 TTTTCAATT-TCTGTTT-TCAAAAAATCAACTCATATTGCAAGAGGTGAATTGAGCCTCAGGACA
*
65444249 CGTTGAGATAA
64 CGTTGAGGT-A
* * * * *
65444260 TTTT--TTTTCTG-TTTC-AAAATTCAACTCATACTGCAAGAAGTGAATTGAGCCTCAAGACACG
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAATTGAGCCTCAGGACACG
65444321 TTGAGGTA
66 TTGAGGTA
* * * *
65444329 TTTTCAATTTCTGTCTTTCAAAAAATTCAACTCATACTGCAAGAAGTGAGTTGAGCCTCAAGACA
1 TTTTCAATTTCTGT-TTTCAAAAAA-TCAACTCATATTGCAAGAGGTGAATTGAGCCTCAGGACA
65444394 CGTTGAGGTA
64 CGTTGAGGTA
*
65444404 TTTTCAATTTCTGTCTTTCAAAATAATCAACTCATATTGCGAGAGGT-AAGTTGAGCCTCAGGAC
1 TTTTCAATTTCTGT-TTTCAAAA-AATCAACTCATATTGCAAGAGGTGAA-TTGAGCCTCAGGAC
*
65444468 ACGCTGAGGTAA
63 ACGTTGAGGT-A
* * * ** * * * *
65444480 TTTT-GATCTCCGTTTT-TGAAAATCAACTCATATTGCGAGAGGTGAGTGGAACCTCA-GATCAC
1 TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAATTGAGCCTCAGGA-CAC
*
65444542 ATGTCGAGGTA
65 --GTTGAGGTA
*
65444553 TTTTCAAATTCTGCTTTTCAAA
1 TTTTCAATTTCTG-TTTTCAAA
65444575 TTAAGTTTCA
Statistics
Matches: 325, Mismatches: 44, Indels: 38
0.80 0.11 0.09
Matches are distributed among these distances:
69 5 0.02
70 43 0.13
71 10 0.03
72 51 0.16
73 19 0.06
74 63 0.19
75 126 0.39
76 8 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTCAAAAAATCAACTCATATTGCAAGAGGTGAATTGAGCCTCAGGACACG
TTGAGGTA
Found at i:65446038 original size:22 final size:21
Alignment explanation
Indices: 65446013--65446060 Score: 53
Period size: 20 Copynumber: 2.2 Consensus size: 21
65446003 TTTCCTTCCC
65446013 CCCTCCATTCTCTCTTCTTTCT
1 CCCTCCATT-TCTCTTCTTTCT
* *
65446035 CCCT-CATTTTTTTTCTTTCT
1 CCCTCCATTTCTCTTCTTTCT
65446055 CTCCTC
1 C-CCTC
65446061 AGAATGATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 11 0.50
21 7 0.32
22 4 0.18
ACGTcount: A:0.04, C:0.42, G:0.00, T:0.54
Consensus pattern (21 bp):
CCCTCCATTTCTCTTCTTTCT
Found at i:65446493 original size:3 final size:3
Alignment explanation
Indices: 65446487--65446650 Score: 74
Period size: 3 Copynumber: 54.7 Consensus size: 3
65446477 TTTTTTTACA
* *
65446487 TAT TAT TAA TAT TAT TAC TAT TAT T-T TAT T-T CTAT TAT TAT CT-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT -TAT
* * * * * *
65446531 TAT TAT TAC TGT TAG TAT TAT T-T TCAT TAC TAT TAT TTT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT
* * * * *
65446576 CA- TAT TAAT TAT T-T TCT AACG TAT TAT TAT TACT AAT TAT TAT TA-
1 TAT TAT T-AT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TAT
*
65446621 TAT CTAGT T-T TAT TAT TAT TAT TAA TAT TA
1 TAT -TA-T TAT TAT TAT TAT TAT TAT TAT TA
65446651 GTGTATGTAT
Statistics
Matches: 119, Mismatches: 26, Indels: 32
0.67 0.15 0.18
Matches are distributed among these distances:
2 13 0.11
3 92 0.77
4 13 0.11
5 1 0.01
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:65446515 original size:23 final size:23
Alignment explanation
Indices: 65446489--65446534 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
65446479 TTTTTACATA
65446489 TTATTAATATTATTA-CTATTATT
1 TTATTAATATTATTATCT-TTATT
**
65446512 TTATTTCTATTATTATCTTTATT
1 TTATTAATATTATTATCTTTATT
65446535 ATTACTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 18 0.90
24 2 0.10
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATTAATATTATTATCTTTATT
Found at i:65446661 original size:24 final size:24
Alignment explanation
Indices: 65446611--65446661 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
65446601 ATTATTACTA
*
65446611 ATTATTATTATATCTAGTTTTATT
1 ATTATTATTATATCTAGTTGTATT
65446635 ATTATTATTAATAT-TAG-TGTATGT
1 ATTATTATT-ATATCTAGTTGTAT-T
65446659 ATT
1 ATT
65446662 TATATATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 4 0.17
24 16 0.67
25 4 0.17
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (24 bp):
ATTATTATTATATCTAGTTGTATT
Found at i:65446673 original size:16 final size:16
Alignment explanation
Indices: 65446652--65446682 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
65446642 TTAATATTAG
*
65446652 TGTATGTATTTATATA
1 TGTATGTATATATATA
65446668 TGTATGTATATATAT
1 TGTATGTATATATAT
65446683 TTACATATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (16 bp):
TGTATGTATATATATA
Found at i:65446979 original size:21 final size:22
Alignment explanation
Indices: 65446885--65447001 Score: 114
Period size: 23 Copynumber: 5.2 Consensus size: 22
65446875 TTTTCAATAT
*
65446885 TATATTTTTTATA-TATTATTAG
1 TATATTTTTAATACTATTATT-G
* *
65446907 TTATATATTTTAATATTATTAGTTA
1 -TATAT-TTTTAATACTATTA-TTG
*
65446932 TATATTTTTTATACTATTATGTG
1 TATATTTTTAATACTATTAT-TG
* *
65446955 TATATTTCTAATATTA-TATTG
1 TATATTTTTAATACTATTATTG
65446976 TATATTTTTAATACTATTATT-
1 TATATTTTTAATACTATTATTG
65446997 TATAT
1 TATAT
65447002 ATATATGTGT
Statistics
Matches: 79, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
21 21 0.27
22 8 0.10
23 31 0.39
24 12 0.15
25 5 0.06
26 2 0.03
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (22 bp):
TATATTTTTAATACTATTATTG
Found at i:65446991 original size:44 final size:45
Alignment explanation
Indices: 65446884--65446995 Score: 133
Period size: 45 Copynumber: 2.5 Consensus size: 45
65446874 GTTTTCAATA
* *
65446884 TTATAT-TTTTTATATATTATTA-GTTATATATTTTAATATTATTAG
1 TTATATATTTTTA-ATACTATTATG-TGTATATTTTAATATTATTAG
*
65446929 TTATATATTTTTTATACTATTATGTGTATATTTCTAATATTA-TA-
1 TTATATATTTTTAATACTATTATGTGTATATTT-TAATATTATTAG
*
65446973 TTGTATATTTTTAATACTATTAT
1 TTATATATTTTTAATACTATTAT
65446996 TTATATATAT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
44 21 0.36
45 24 0.41
46 14 0.24
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (45 bp):
TTATATATTTTTAATACTATTATGTGTATATTTTAATATTATTAG
Found at i:65447020 original size:16 final size:17
Alignment explanation
Indices: 65446999--65447033 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
65446989 CTATTATTTA
65446999 TATATATATGTGT-GTG
1 TATATATATGTGTAGTG
*
65447015 TATATATTTGTGTAGTG
1 TATATATATGTGTAGTG
65447032 TA
1 TA
65447034 CAAAGTAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (17 bp):
TATATATATGTGTAGTG
Found at i:65449896 original size:26 final size:27
Alignment explanation
Indices: 65449856--65449925 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
65449846 TATAATAAAT
**
65449856 TTTAAAATAGGTAATATA-GGCG-AAAG
1 TTTAAAATAAATAATATACGG-GAAAAG
65449882 TTTAAAATAAATAATATACGGGAAAAG
1 TTTAAAATAAATAATATACGGGAAAAG
*
65449909 TTTAAAATGAATAATAT
1 TTTAAAATAAATAATAT
65449926 GTAAAATAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
26 17 0.44
27 22 0.56
ACGTcount: A:0.51, C:0.03, G:0.16, T:0.30
Consensus pattern (27 bp):
TTTAAAATAAATAATATACGGGAAAAG
Found at i:65449947 original size:26 final size:27
Alignment explanation
Indices: 65449909--65450005 Score: 99
Period size: 26 Copynumber: 3.6 Consensus size: 27
65449899 ACGGGAAAAG
*
65449909 TTTAAAATGAATAATATGTAAAAT-AA
1 TTTAAAATAAATAATATGTAAAATGAA
* * *
65449935 TTTAAGATAAATAATATAT-AAATGAG
1 TTTAAAATAAATAATATGTAAAATGAA
* *
65449961 TTTAAAATAAATATTATGTAAAAAGAAA
1 TTTAAAATAAATAATATGTAAAATG-AA
* *
65449989 CTTAAAATAAGTAATAT
1 TTTAAAATAAATAATAT
65450006 ACAAGACATC
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
25 4 0.07
26 33 0.59
27 4 0.07
28 15 0.27
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTAAAATAAATAATATGTAAAATGAA
Found at i:65452095 original size:70 final size:67
Alignment explanation
Indices: 65452029--65452171 Score: 250
Period size: 70 Copynumber: 2.1 Consensus size: 67
65452019 TCTATATTTT
*
65452029 ATGTATCTTGGCAAAATCAATGTTATTTCCAATTTTTTTATTTTGACGTGTGTATATATATATAT
1 ATGTATCTTGGCAAAATCAATGTTATTTCCAA-TTTTTTATTTTGA--TGTATATATATATATAT
65452094 ATATG
63 ATATG
65452099 ATGTATCTTGGCAAAATCAATGTTATTTCCAATTTTTTATTTTGATGTATATATATATATATATA
1 ATGTATCTTGGCAAAATCAATGTTATTTCCAATTTTTTATTTTGATGTATATATATATATATATA
65452164 TG
66 TG
65452166 ATGTAT
1 ATGTAT
65452172 ATCACTTTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
67 27 0.38
69 13 0.18
70 32 0.44
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.49
Consensus pattern (67 bp):
ATGTATCTTGGCAAAATCAATGTTATTTCCAATTTTTTATTTTGATGTATATATATATATATATA
TG
Found at i:65452976 original size:26 final size:26
Alignment explanation
Indices: 65452943--65453050 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
65452933 TGATACAAAT
65452943 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * * *
65452969 TGACAATGGATTACGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65452995 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
65453021 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
65453047 TGAT
1 TGAT
65453051 GGGAATTTCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:65455081 original size:137 final size:137
Alignment explanation
Indices: 65454835--65455258 Score: 803
Period size: 137 Copynumber: 3.1 Consensus size: 137
65454825 GAGTAATCTC
65454835 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
65454900 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65454965 ACTGTTA
131 ACTGTTA
65454972 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
65455037 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAATACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65455102 ACTGTTA
131 ACTGTTA
65455109 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
* *
65455174 TGTTATCTGAATAAGGGGTTAAGGCCCAATTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
66 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65455239 ACTGTTA
131 ACTGTTA
**
65455246 CCTGAATGGGCTT
1 CCCAAATGGGCTT
65455259 AGGCCCAATG
Statistics
Matches: 281, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 281 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
ACTGTTA
Found at i:65459680 original size:3 final size:3
Alignment explanation
Indices: 65459672--65459709 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
65459662 GTTAGATATA
*
65459672 ATT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
65459710 ATATATGCGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:65460037 original size:48 final size:49
Alignment explanation
Indices: 65459979--65460072 Score: 138
Period size: 48 Copynumber: 1.9 Consensus size: 49
65459969 GGTATAATTC
* * *
65459979 TTTGGCAAAAAATATTTATATAAAAAA-TGTAAGAAAGTTAGTAGAATCT
1 TTTGGCAAAAAATATTTAGAAAAAAAATTG-AAGAAAGTTAATAGAATCT
65460028 TTTGG-AAAAAATATTTAGAAAAAAAATTGAAGAAAGTTAATAGAA
1 TTTGGCAAAAAATATTTAGAAAAAAAATTGAAGAAAGTTAATAGAA
65460073 AGATAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
48 34 0.83
49 7 0.17
ACGTcount: A:0.53, C:0.02, G:0.15, T:0.30
Consensus pattern (49 bp):
TTTGGCAAAAAATATTTAGAAAAAAAATTGAAGAAAGTTAATAGAATCT
Found at i:65460776 original size:31 final size:31
Alignment explanation
Indices: 65460721--65460784 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
65460711 AAAATTTCAA
* *
65460721 AATTTAAAAAGTACAGAAATTAAAAATT-ACC
1 AATTTAAAAAGTAAAGAAACT-AAAATTGACC
* *
65460752 AATTTAAAAAGTAAAGGAGCTAAAATTGACC
1 AATTTAAAAAGTAAAGAAACTAAAATTGACC
65460783 AA
1 AA
65460785 ATAAAAGTAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 6 0.21
31 22 0.79
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.23
Consensus pattern (31 bp):
AATTTAAAAAGTAAAGAAACTAAAATTGACC
Found at i:65462965 original size:17 final size:17
Alignment explanation
Indices: 65462918--65463018 Score: 60
Period size: 17 Copynumber: 5.9 Consensus size: 17
65462908 TGTTCATATG
* * *
65462918 AAATAACAGTTCTTACC
1 AAATAACAGTTCATGCA
*
65462935 AAATGAA-AGCTCATGCA
1 AAAT-AACAGTTCATGCA
* ***
65462952 AAATAATAGTTCATTTG
1 AAATAACAGTTCATGCA
** * *
65462969 AAATATTAGTTCATACT
1 AAATAACAGTTCATGCA
* *
65462986 GAATAACAATTCATGCA
1 AAATAACAGTTCATGCA
65463003 AAATAACAGTTCATGC
1 AAATAACAGTTCATGC
65463019 TCTATCATAA
Statistics
Matches: 62, Mismatches: 20, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
16 2 0.03
17 58 0.94
18 2 0.03
ACGTcount: A:0.44, C:0.16, G:0.11, T:0.30
Consensus pattern (17 bp):
AAATAACAGTTCATGCA
Found at i:65464466 original size:27 final size:27
Alignment explanation
Indices: 65464430--65464486 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
65464420 CAGTTGAGGA
*
65464430 GATAGCTTGCCTTCGTTATCGAAGTAG
1 GATAGCTTGCCTTCGTTACCGAAGTAG
65464457 GATAGCTTGCCTTCGTTACCGAAGTAG
1 GATAGCTTGCCTTCGTTACCGAAGTAG
65464484 GAT
1 GAT
65464487 GGACTCCCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (27 bp):
GATAGCTTGCCTTCGTTACCGAAGTAG
Found at i:65470886 original size:23 final size:23
Alignment explanation
Indices: 65470856--65470943 Score: 79
Period size: 23 Copynumber: 3.6 Consensus size: 23
65470846 TAAGTGGATG
*
65470856 GGGAAGAAGAAGA-GGGAAAGAAA
1 GGGAAGAA-AAGAGGGGAAAAAAA
65470879 GGGAAGAAAAGAGGGGAAAAAAA
1 GGGAAGAAAAGAGGGGAAAAAAA
* *
65470902 GGAAAAAAGGAAGAAGGGGAAGGAAAAA
1 GGGAAGAA--AAG-AGGGGAA--AAAAA
65470930 GGGAAGAGAAAGAG
1 GGGAAGA-AAAGAG
65470944 AAAGAGAAAG
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
22 4 0.08
23 23 0.43
25 3 0.06
26 9 0.17
27 3 0.06
28 10 0.19
29 1 0.02
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (23 bp):
GGGAAGAAAAGAGGGGAAAAAAA
Found at i:65470948 original size:12 final size:11
Alignment explanation
Indices: 65470927--65470967 Score: 57
Period size: 10 Copynumber: 3.7 Consensus size: 11
65470917 GGGGAAGGAA
*
65470927 AAAGGGAAGAG
1 AAAGGAAAGAG
65470938 AAAGAGAAAGAG
1 AAAG-GAAAGAG
65470950 AAAGGAAA-AG
1 AAAGGAAAGAG
65470960 AAAGGAAA
1 AAAGGAAA
65470968 AGGGAAAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 10 0.36
11 8 0.29
12 10 0.36
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (11 bp):
AAAGGAAAGAG
Found at i:65470973 original size:17 final size:17
Alignment explanation
Indices: 65470921--65470977 Score: 51
Period size: 22 Copynumber: 3.0 Consensus size: 17
65470911 GAAGAAGGGG
*
65470921 AAGGAAAAAGGGAAGAGA
1 AAGG-AAAAGGGAAAAGA
65470939 AAGAGAAAGAGAAAGGAAAAGA
1 AAG-GAAA-AG---GGAAAAGA
65470961 AAGGAAAAGGGAAAAGA
1 AAGGAAAAGGGAAAAGA
65470978 GAGGGGAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
17 8 0.24
18 6 0.18
19 3 0.09
20 2 0.06
21 4 0.12
22 10 0.30
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (17 bp):
AAGGAAAAGGGAAAAGA
Found at i:65482496 original size:21 final size:23
Alignment explanation
Indices: 65482453--65482500 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
65482443 TCAAATATGA
65482453 ATTATTT-GAAAATCATAAAAAT
1 ATTATTTAGAAAATCATAAAAAT
65482475 ATTATTTAG-AAATCATAAAATAT
1 ATTATTTAGAAAATCATAAAA-AT
65482498 ATT
1 ATT
65482501 TAAAGTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 18 0.75
23 6 0.25
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (23 bp):
ATTATTTAGAAAATCATAAAAAT
Found at i:65483416 original size:9 final size:9
Alignment explanation
Indices: 65483404--65483565 Score: 54
Period size: 9 Copynumber: 15.9 Consensus size: 9
65483394 CAATTACTTG
65483404 AATTTTTAT
1 AATTTTTAT
65483413 AATTTTATAAT
1 AATTTT-T-AT
*
65483424 ATATATTTTAA
1 A-AT-TTTTAT
*
65483435 AAATTTTAT
1 AATTTTTAT
* *
65483444 GACTTTTAT
1 AATTTTTAT
*
65483453 ATTTTTTAAT
1 AATTTTT-AT
*
65483463 AATTTGTAAAT
1 AATTT-T-TAT
65483474 AATTTTTAT
1 AATTTTTAT
*
65483483 AATTTCATTTTT
1 AA-TT--TTTAT
65483495 GGAATTTTTAAT
1 --AATTTTT-AT
*
65483507 AAATTTTAT
1 AATTTTTAT
*
65483516 AATTATTTAA
1 AATT-TTTAT
*
65483526 AATATTTTGT
1 AAT-TTTTAT
*
65483536 GATTTTTAGAT
1 AATTTTT--AT
65483547 AATATTTTAAT
1 AAT-TTTT-AT
65483558 AATTTTTA
1 AATTTTTA
65483566 CTAACCACAT
Statistics
Matches: 113, Mismatches: 22, Indels: 36
0.66 0.13 0.21
Matches are distributed among these distances:
9 36 0.32
10 33 0.29
11 25 0.22
12 12 0.11
13 5 0.04
14 2 0.02
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.57
Consensus pattern (9 bp):
AATTTTTAT
Found at i:65483431 original size:23 final size:23
Alignment explanation
Indices: 65483405--65483487 Score: 64
Period size: 23 Copynumber: 3.6 Consensus size: 23
65483395 AATTACTTGA
65483405 ATTTTTATAATTTTATAATATAT
1 ATTTTTATAATTTTATAATATAT
* * * *
65483428 ATTTTAAAAATTTTATGACTTTTAT
1 ATTTTTATAATTTTAT-A-ATATAT
*
65483453 ATTTTT-TAATAATTTGTAA-ATA-
1 ATTTTTATAAT--TTTATAATATAT
65483475 ATTTTTATAATTT
1 ATTTTTATAATTT
65483488 CATTTTTGGA
Statistics
Matches: 46, Mismatches: 9, Indels: 12
0.69 0.13 0.18
Matches are distributed among these distances:
21 2 0.04
22 6 0.13
23 20 0.43
24 4 0.09
25 10 0.22
26 4 0.09
ACGTcount: A:0.37, C:0.01, G:0.02, T:0.59
Consensus pattern (23 bp):
ATTTTTATAATTTTATAATATAT
Found at i:65483551 original size:21 final size:20
Alignment explanation
Indices: 65483407--65483565 Score: 89
Period size: 20 Copynumber: 7.7 Consensus size: 20
65483397 TTACTTGAAT
65483407 TTTTATAATTTTATAATATATA
1 TTTTATAATTTT-TAATA-ATA
* * * *
65483429 TTTTAAAAATTTT-ATGA-C
1 TTTTATAATTTTTAATAATA
*
65483447 TTTTATATTTTTTAATAAT-
1 TTTTATAATTTTTAATAATA
*
65483466 TTGTAAATAATTTTT-ATAATTTCA
1 TT-T-TATAATTTTTAATAA--T-A
65483490 TTTT-TGGAATTTTTAATAA-A
1 TTTTAT--AATTTTTAATAATA
65483510 TTTTATAATTATTTAA-AATA
1 TTTTATAATT-TTTAATAATA
* *
65483530 TTTTGTGATTTTTAGATAATA
1 TTTTATAATTTTTA-ATAATA
65483551 TTTTAATAATTTTTA
1 TTTT-ATAATTTTTA
65483566 CTAACCACAT
Statistics
Matches: 105, Mismatches: 15, Indels: 34
0.68 0.10 0.22
Matches are distributed among these distances:
18 10 0.10
19 16 0.15
20 27 0.26
21 19 0.18
22 19 0.18
23 8 0.08
24 6 0.06
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.58
Consensus pattern (20 bp):
TTTTATAATTTTTAATAATA
Found at i:65484587 original size:3 final size:3
Alignment explanation
Indices: 65484579--65484604 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
65484569 ATCACATGTT
65484579 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
65484605 TGGATGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:65484724 original size:73 final size:73
Alignment explanation
Indices: 65484605--65484774 Score: 331
Period size: 73 Copynumber: 2.3 Consensus size: 73
65484595 TATTATTATT
*
65484605 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
65484670 ATTTTAAG
66 ATTTTAAG
65484678 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
65484743 ATTTTAAG
66 ATTTTAAG
65484751 TGGATGTAATGATGAAACTTAGTT
1 TGGATGTAATGATGAAACTTAGTT
65484775 CCAACTAAGT
Statistics
Matches: 96, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 96 1.00
ACGTcount: A:0.28, C:0.05, G:0.26, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:65489007 original size:3 final size:3
Alignment explanation
Indices: 65488999--65489036 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
65488989 CAATCACATG
65488999 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
65489037 TGGATGTAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:65489158 original size:73 final size:73
Alignment explanation
Indices: 65489039--65489179 Score: 273
Period size: 73 Copynumber: 1.9 Consensus size: 73
65489029 TTATTATTTG
*
65489039 GATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTAT
1 GATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTAT
65489104 TTTAAGTT
66 TTTAAGTT
65489112 GATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTAT
1 GATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTAT
65489177 TTT
66 TTT
65489180 CTTAGTTGTA
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 67 1.00
ACGTcount: A:0.26, C:0.06, G:0.25, T:0.43
Consensus pattern (73 bp):
GATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTAT
TTTAAGTT
Found at i:65489207 original size:53 final size:53
Alignment explanation
Indices: 65489127--65489232 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
65489117 AATGATGAAA
65489127 CTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTATTTT
1 CTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTATTTT
65489180 CTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTATTTT
1 CTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTATTTT
65489233 AAGTGGATGT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.21, C:0.08, G:0.25, T:0.47
Consensus pattern (53 bp):
CTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTTATTTT
Found at i:65492382 original size:222 final size:221
Alignment explanation
Indices: 65491996--65492678 Score: 1149
Period size: 222 Copynumber: 3.1 Consensus size: 221
65491986 TGCAAACTTT
* * *
65491996 TCTTCCACACCCAATTTGGTACGGCCCCGCTTATTTGGTTGTTTGAAAGGTCAAGTTCTTCTAAG
1 TCTTCCACAACCAATTTGGTACTGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGTTCTTCTAAG
* *
65492061 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAGGATCTCAAACGCAAC-GAAA
66 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGATC-C-AA--CAACAAAAA
65492125 --TCAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCAT
127 TCTCAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCAT
65492188 TGGAAGAAAGGTCTAATATTTCAAGTGTGC
192 TGGAAGAAAGGTCTAATATTTCAAGTGTGC
65492218 TCTTCCACAACCAATTTGGTACTGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGTTCTTCTAAG
1 TCTTCCACAACCAATTTGGTACTGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGTTCTTCTAAG
65492283 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGATGCCAACAACAAAAATCT
66 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGAT-CCAACAACAAAAATCT
65492348 CAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTGG
130 CAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTGG
** *
65492413 AAGAAAGGTCTACCGATAT-AAGTGTGC
195 AAGAAAGGTCTA-ATATTTCAAGTGTGC
* * *
65492440 TCTTCCACAACCAATTTGGTACTGCCCCGCTTATTTGGTTATTTGAAAGGTAAAGATATTCTAAG
1 TCTTCCACAACCAATTTGGTACTGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGTTCTTCTAAG
* **
65492505 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGATTCCAAAAACAACGATCT
66 CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGA-TCCAACAACAAAAATCT
65492570 CAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTGG
130 CAGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTGG
65492635 AAGAAAGGTCTAATATTTCAAGTGTGC
195 AAGAAAGGTCTAATATTTCAAGTGTGC
65492662 TCTTCCACAACCAATTT
1 TCTTCCACAACCAATTT
65492679 AGAACAAGAC
Statistics
Matches: 437, Mismatches: 17, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
219 4 0.01
220 3 0.01
221 5 0.01
222 420 0.96
223 5 0.01
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.29
Consensus pattern (221 bp):
TCTTCCACAACCAATTTGGTACTGCCCCGCTTATTTGGTTATTTGAAAGGTCAAGTTCTTCTAAG
CTCTCTTGACTCTTTAGAAATGCTGGAAACGTACTTATATTACAAGATCCAACAACAAAAATCTC
AGCATTGGAAAGGAGGAATTTGCATCATCAAAAGGAAACTGATTCGGAATGTCAATCGCATTGGA
AGAAAGGTCTAATATTTCAAGTGTGC
Found at i:65497136 original size:16 final size:17
Alignment explanation
Indices: 65497117--65497149 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
65497107 CGGTATTTCA
65497117 CATTTTTATT-ATTTAT
1 CATTTTTATTAATTTAT
*
65497133 CATTTTTCTTAATTTAT
1 CATTTTTATTAATTTAT
65497150 TTATTATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (17 bp):
CATTTTTATTAATTTAT
Done.