Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 145 of 171
Found at i:43895772 original size:6 final size:6
Alignment explanation
Indices: 43895761--43895798 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
43895751 AATTGAATCC
*
43895761 AATTTA AATTT- ATTTTA AATTTA AATTTA AATTTA AAT
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AAT
43895799 AAATAAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 4 0.14
6 25 0.86
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
AATTTA
Found at i:43895779 original size:11 final size:11
Alignment explanation
Indices: 43895761--43895796 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
43895751 AATTGAATCC
43895761 AATTTAAATTT
1 AATTTAAATTT
*
43895772 ATTTTAAATTT
1 AATTTAAATTT
43895783 AAATTTAAATTT
1 -AATTTAAATTT
43895795 AA
1 AA
43895797 ATAAATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
AATTTAAATTT
Found at i:43896546 original size:21 final size:19
Alignment explanation
Indices: 43896520--43896568 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
43896510 CACAGATCTG
*
43896520 TAAAAAAATCATTCAACAAAA
1 TAAAAAAAT-ATT-AAAAAAA
43896541 TAAAAAATATATTAAAAAAA
1 TAAAAAA-ATATTAAAAAAA
*
43896561 GAAAAAAA
1 TAAAAAAA
43896569 CAAGAGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
19 1 0.04
20 12 0.48
21 10 0.40
22 2 0.08
ACGTcount: A:0.73, C:0.06, G:0.02, T:0.18
Consensus pattern (19 bp):
TAAAAAAATATTAAAAAAA
Found at i:43897716 original size:30 final size:30
Alignment explanation
Indices: 43897682--43897795 Score: 117
Period size: 29 Copynumber: 3.8 Consensus size: 30
43897672 GAACTTCGTG
* *
43897682 AAAATTATATTTTGACACCTAAAATTTTCC
1 AAAATTACATTTTGACACCTAAACTTTTCC
* *
43897712 AAAATTACATTCT-A-ACCTTGAACTTTTCC
1 AAAATTACATTTTGACACC-TAAACTTTTCC
* * *
43897741 AAAATTGCATTTTTGACTCCTAAACTTTCCC
1 AAAATTACA-TTTTGACACCTAAACTTTTCC
*
43897772 AAAATTACATTTTGAC-CCCAAACT
1 AAAATTACATTTTGACACCTAAACT
43897796 CATCAAAAAA
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
28 3 0.04
29 25 0.36
30 21 0.30
31 18 0.26
32 2 0.03
ACGTcount: A:0.36, C:0.23, G:0.04, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTTGACACCTAAACTTTTCC
Found at i:43897883 original size:29 final size:30
Alignment explanation
Indices: 43897850--43897925 Score: 93
Period size: 29 Copynumber: 2.6 Consensus size: 30
43897840 TTTTCGACCT
* * *
43897850 CAAATTTTCCAAAAGTTT-GATTTTAATCC
1 CAAATTTTCCAAAAATTTCAATTTTAACCC
*
43897879 TAAATTTTCCAAAAATTTCAATTTTAACCC
1 CAAATTTTCCAAAAATTTCAATTTTAACCC
43897909 CAAA-TTTCTCAAAAATT
1 CAAATTTTC-CAAAAATT
43897926 ACGTTTTCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
29 20 0.50
30 20 0.50
ACGTcount: A:0.39, C:0.18, G:0.03, T:0.39
Consensus pattern (30 bp):
CAAATTTTCCAAAAATTTCAATTTTAACCC
Found at i:43900343 original size:22 final size:21
Alignment explanation
Indices: 43900275--43900345 Score: 72
Period size: 21 Copynumber: 3.3 Consensus size: 21
43900265 TCAAAGTTCC
* *
43900275 ATGTCTCAAGACTTGACCCAT
1 ATGTCTCGAGACTTGACCCCT
* * *
43900296 ATGTCTAGAGACAATGACGCC-
1 ATGTCTCGAGAC-TTGACCCCT
43900317 ATGTCTCGAGACTTGACACCCT
1 ATGTCTCGAGACTTGAC-CCCT
43900339 ATGTCTC
1 ATGTCTC
43900346 AAGATAAACA
Statistics
Matches: 39, Mismatches: 8, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
20 4 0.10
21 23 0.59
22 12 0.31
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (21 bp):
ATGTCTCGAGACTTGACCCCT
Found at i:43901636 original size:19 final size:19
Alignment explanation
Indices: 43901613--43901669 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
43901603 AAAATTAAAA
43901613 AAAAATTCAAAATAATTT-T
1 AAAAATTCAAAAT-ATTTAT
* *
43901632 TAAAATTTAAAATATTTAT
1 AAAAATTCAAAATATTTAT
*
43901651 AAAAATTCCAAA-ATTTAT
1 AAAAATTCAAAATATTTAT
43901669 A
1 A
43901670 TTTTTTAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
18 11 0.34
19 21 0.66
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:43911942 original size:2 final size:2
Alignment explanation
Indices: 43911935--43911964 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
43911925 TGTCTGTCTG
43911935 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
43911965 ACACACACAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:43915148 original size:15 final size:14
Alignment explanation
Indices: 43915118--43915160 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
43915108 AATAAATATA
43915118 TAATTTTTTTATTT
1 TAATTTTTTTATTT
43915132 T-ATTTTATTTCATTT
1 TAATTTT-TTT-ATTT
43915147 TAA-TTTTTTATTT
1 TAATTTTTTTATTT
43915160 T
1 T
43915161 TAAATATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
13 10 0.38
14 7 0.27
15 8 0.31
16 1 0.04
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (14 bp):
TAATTTTTTTATTT
Found at i:43915198 original size:13 final size:15
Alignment explanation
Indices: 43915167--43915195 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43915157 TTTTTAAATA
43915167 TATATATATTAATTT
1 TATATATATTAATTT
43915182 TATATA-ATTAATTT
1 TATATATATTAATTT
43915196 ATAACTACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TATATATATTAATTT
Found at i:43919694 original size:2 final size:2
Alignment explanation
Indices: 43919687--43919728 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
43919677 TTTTAAGCTT
43919687 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43919729 AATGGGTGGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43934279 original size:29 final size:28
Alignment explanation
Indices: 43934246--43934332 Score: 68
Period size: 29 Copynumber: 3.0 Consensus size: 28
43934236 AAAAAAAACT
43934246 AATTTTAAAAGTTCAGTGATTAAATTAAA
1 AATTTTAAAAGTT-AGTGATTAAATTAAA
* * ** *
43934275 AATTTTGATAGTTGAAAGATTAAAATAAA
1 AATTTTAAAAGTT-AGTGATTAAATTAAA
*
43934304 AATATATTAAAAATTAGGTGATT-AATTAA
1 AAT-T-TTAAAAGTTA-GTGATTAAATTAA
43934333 GTAGTTTACC
Statistics
Matches: 43, Mismatches: 12, Indels: 5
0.72 0.20 0.08
Matches are distributed among these distances:
29 26 0.60
30 7 0.16
31 10 0.23
ACGTcount: A:0.51, C:0.01, G:0.11, T:0.37
Consensus pattern (28 bp):
AATTTTAAAAGTTAGTGATTAAATTAAA
Found at i:43934454 original size:18 final size:18
Alignment explanation
Indices: 43934410--43934461 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
43934400 AATTTTTAAA
* *
43934410 AAAATATTAAAAATTTT-
1 AAAATTTTAAAGATTTTC
*
43934427 -AAATTATAAAGATTTTC
1 AAAATTTTAAAGATTTTC
*
43934444 AAAATTTTAAAGAATTTC
1 AAAATTTTAAAGATTTTC
43934462 TTAATAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 13 0.46
18 15 0.54
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.40
Consensus pattern (18 bp):
AAAATTTTAAAGATTTTC
Found at i:43934720 original size:33 final size:30
Alignment explanation
Indices: 43934646--43934720 Score: 73
Period size: 33 Copynumber: 2.4 Consensus size: 30
43934636 TATGTATTTA
43934646 AAAAAAT-TAATTTTTTTAAACGTAATTATT
1 AAAAAATATAATTTTTTTAAAC-TAATTATT
*
43934676 AATAAATTATAATTTTTATTAAA-TAATTCAATT
1 AA-AAAATATAATTTTT-TTAAACTAATT--ATT
43934709 ATAAAAATATAA
1 A-AAAAATATAA
43934721 ATAATTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
30 2 0.05
31 9 0.24
32 8 0.22
33 17 0.46
34 1 0.03
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (30 bp):
AAAAAATATAATTTTTTTAAACTAATTATT
Found at i:43934731 original size:34 final size:32
Alignment explanation
Indices: 43934691--43934753 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
43934681 ATTATAATTT
* **
43934691 TTATTAAATAATTCAATTATAAAAATATAAATAA
1 TTATTAAA-AATCCAAAAATAAAAA-ATAAATAA
43934725 TTATTAAAAATCCAAAAATAAAAAATAAA
1 TTATTAAAAATCCAAAAATAAAAAATAAA
43934754 GAATAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 5 0.19
33 13 0.50
34 8 0.31
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (32 bp):
TTATTAAAAATCCAAAAATAAAAAATAAATAA
Found at i:43935146 original size:17 final size:16
Alignment explanation
Indices: 43935123--43935163 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
43935113 ATAATAAAAA
43935123 TATAATTTTAT-TATT
1 TATAATTTTATATATT
43935138 T-TAATAATTTATATATT
1 TATAAT--TTTATATATT
43935155 TATAATTTT
1 TATAATTTT
43935164 TAAAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
14 4 0.18
15 1 0.05
16 8 0.36
17 5 0.23
18 4 0.18
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TATAATTTTATATATT
Found at i:43935438 original size:19 final size:18
Alignment explanation
Indices: 43935415--43935462 Score: 60
Period size: 20 Copynumber: 2.5 Consensus size: 18
43935405 AAAATTTAAA
*
43935415 TAATTTTTAATAATTTTT
1 TAATTTTTAATAATTATT
43935433 TGAATTTTTTAATAATTATT
1 T-AA-TTTTTAATAATTATT
43935453 TATATTTTTA
1 TA-ATTTTTA
43935463 TACTTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
18 1 0.04
19 9 0.35
20 16 0.62
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TAATTTTTAATAATTATT
Found at i:43935739 original size:10 final size:10
Alignment explanation
Indices: 43935712--43935770 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
43935702 ATTGGTTTTT
*
43935712 ATATTTTATAT
1 ATATTTTA-AA
*
43935723 ATTTTTTAAA
1 ATATTTTAAA
*
43935733 ATATTTTGAA
1 ATATTTTAAA
43935743 ATA-TTTAATA
1 ATATTTTAA-A
43935753 AT-TTTTAGAA
1 ATATTTTA-AA
43935763 ATATTTTA
1 ATATTTTA
43935771 TGAGTTTTAG
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
9 4 0.10
10 22 0.56
11 13 0.33
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (10 bp):
ATATTTTAAA
Found at i:43935765 original size:20 final size:20
Alignment explanation
Indices: 43935727--43935800 Score: 62
Period size: 20 Copynumber: 3.7 Consensus size: 20
43935717 TTATATATTT
43935727 TTTAA-AATATTTT-GAAATA
1 TTTAATAAT-TTTTAGAAATA
43935746 TTTAATAATTTTTAGAAATA
1 TTTAATAATTTTTAGAAATA
* * * *
43935766 TTTTATGAGTTTTAGATAATG
1 TTTAATAATTTTTAGA-AATA
* *
43935787 TTTTATGATTTTTA
1 TTTAATAATTTTTA
43935801 ATAATATAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 9 0.19
20 22 0.47
21 16 0.34
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.54
Consensus pattern (20 bp):
TTTAATAATTTTTAGAAATA
Found at i:43935804 original size:20 final size:21
Alignment explanation
Indices: 43935742--43935807 Score: 82
Period size: 20 Copynumber: 3.2 Consensus size: 21
43935732 AATATTTTGA
* *
43935742 AATATTTAATAATTTTTAGA-
1 AATATTTTATGATTTTTAGAT
*
43935762 AATATTTTATGAGTTTTAGAT
1 AATATTTTATGATTTTTAGAT
*
43935783 AATGTTTTATGATTTTTA-AT
1 AATATTTTATGATTTTTAGAT
43935803 AATAT
1 AATAT
43935808 AATGATTCAA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
20 23 0.59
21 16 0.41
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (21 bp):
AATATTTTATGATTTTTAGAT
Found at i:43945100 original size:59 final size:60
Alignment explanation
Indices: 43945023--43945177 Score: 154
Period size: 59 Copynumber: 2.6 Consensus size: 60
43945013 AAAAATGACA
* * * *
43945023 TTTTAGACATCTGGGGGTACAATGGTAATTTTTAGAAAAATCGGGA-CCAAAAA-TGAAGT
1 TTTTGGACATCCGAGGGTAAAATGGTAATTTTTAGAAAAATCGGGAGCCAAAAATTGAA-T
* * ** ** **
43945082 TTTTGGACATTCGAGGGTAAAATAGTAATTTTT-GAAAGTTTTGGAGTTAAAAATTGAAT
1 TTTTGGACATCCGAGGGTAAAATGGTAATTTTTAGAAAAATCGGGAGCCAAAAATTGAAT
* *
43945141 TTTTGGATATCCGAGGGTAAAATGGTAATTTCTAGAA
1 TTTTGGACATCCGAGGGTAAAATGGTAATTTTTAGAA
43945178 GTTTCGAGGT
Statistics
Matches: 77, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
58 8 0.10
59 62 0.81
60 7 0.09
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.34
Consensus pattern (60 bp):
TTTTGGACATCCGAGGGTAAAATGGTAATTTTTAGAAAAATCGGGAGCCAAAAATTGAAT
Found at i:43945180 original size:59 final size:58
Alignment explanation
Indices: 43945071--43945417 Score: 316
Period size: 59 Copynumber: 5.9 Consensus size: 58
43945061 AATCGGGACC
* *
43945071 AAAAAT-GAAGTTTTTGGACA-TTCGAGGGT-AAAATAGTAATTTTTGAAAGTTTTGGAGTT
1 AAAAATGGAA-TTTTTGGA-AGTTCGGGGGTAAAAAT-GTAATTTTAG-AAGTTTTGGAGTT
* * * * *
43945130 AAAAATTGAATTTTTGGATA-TCCGAGGGT-AAAATGGTAATTTCTAGAAG-TTTCGAGGTG
1 AAAAATGGAATTTTTGGA-AGTTCGGGGGTAAAAAT-GTAATTT-TAGAAGTTTTGGA-GTT
* *
43945189 AAAAATGGAATTTTTAGAAGTTCGGGGGTAAAAATGTAATTTTTGGAAGTTTTAGG-GTT
1 AAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGTAA-TTTTAGAAGTTTT-GGAGTT
* * * * *
43945248 AAAAATGGATTTTTTGGAAGTTTGGGGGTAAAAATGTAATTTTTGGAAG-TTTCGAGGTG
1 AAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGTAA-TTTTAGAAGTTTTGGA-GTT
* * *
43945307 AAAAATAGAATTTTTGGAAGTTTGGGGGTAAAAATGTAATTTTAGGAAGTTTTGG-GGT
1 AAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGTAATTTTA-GAAGTTTTGGAGTT
* **
43945365 AAAAATGGAATTTTTGAAAGTTTAGGGGTAAAAATGTAATCTTTAGACAGTTT
1 AAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGTAAT-TTTAGA-AGTTT
43945418 AGGGACCTTT
Statistics
Matches: 247, Mismatches: 27, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
57 1 0.00
58 53 0.21
59 172 0.70
60 20 0.08
61 1 0.00
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.36
Consensus pattern (58 bp):
AAAAATGGAATTTTTGGAAGTTCGGGGGTAAAAATGTAATTTTAGAAGTTTTGGAGTT
Found at i:43945203 original size:118 final size:115
Alignment explanation
Indices: 43944976--43945417 Score: 414
Period size: 118 Copynumber: 3.8 Consensus size: 115
43944966 TTTGAGCTCA
* * *
43944976 CGAGGG-AAAAATGATAATTTTGGAAAATTTTGGGGTTAAAAAT-GACA-TTTTAGACATCTGGG
1 CGAGGGTAAAAATG-TAATTTTTGAAAGTTTT-GGGTTAAAAATGGA-ATTTTTGGA-ATCTGGG
* *** **
43945038 GGTACAATGGTAATTTTTAGAAAAATCG-GGACCAAAAATGAAGTTTTTGGACA-TT
62 GGTAAAATGGTAATTTTTAGAAGTTTCGAGG-TGAAAAATGAA-TTTTTGGA-AGTT
* * *
43945093 CGAGGGT-AAAATAGTAATTTTTGAAAGTTTTGGAGTTAAAAATTGAATTTTTGGATATCCGAGG
1 CGAGGGTAAAAAT-GTAATTTTTGAAAGTTTTGG-GTTAAAAATGGAATTTTTGGA-ATCTGGGG
* *
43945157 GTAAAATGGTAATTTCTAGAAGTTTCGAGGTGAAAAATGGAATTTTTAGAAGTT
63 GTAAAATGGTAATTTTTAGAAGTTTCGAGGTGAAAAAT-GAATTTTTGGAAGTT
* * * *
43945211 CGGGGGTAAAAATGTAATTTTTGGAAGTTTTAGGGTTAAAAATGGATTTTTTGGAAGTTTGGGGG
1 CGAGGGTAAAAATGTAATTTTTGAAAGTTTT-GGGTTAAAAATGGAATTTTTGGAA-TCTGGGGG
*
43945276 TAAAAAT-GTAATTTTTGGAAGTTTCGAGGTGAAAAATAGAATTTTTGGAAGTT
64 T-AAAATGGTAATTTTTAGAAGTTTCGAGGTGAAAAAT-GAATTTTTGGAAGTT
* * * * * * * *
43945329 TGGGGGTAAAAATGTAATTTTAGGAAGTTTTGGGGTAAAAATGGAATTTTTGAAAGTTTAGGGGT
1 CGAGGGTAAAAATGTAATTTTTGAAAGTTTTGGGTTAAAAATGGAATTTTTGGAA-TCTGGGGGT
*
43945394 AAAAAT-GTAATCTTTAGACAGTTT
65 -AAAATGGTAATTTTTAGA-AGTTT
43945418 AGGGACCTTT
Statistics
Matches: 279, Mismatches: 33, Indels: 25
0.83 0.10 0.07
Matches are distributed among these distances:
116 2 0.01
117 84 0.30
118 176 0.63
119 17 0.06
ACGTcount: A:0.35, C:0.04, G:0.26, T:0.35
Consensus pattern (115 bp):
CGAGGGTAAAAATGTAATTTTTGAAAGTTTTGGGTTAAAAATGGAATTTTTGGAATCTGGGGGTA
AAATGGTAATTTTTAGAAGTTTCGAGGTGAAAAATGAATTTTTGGAAGTT
Found at i:43945222 original size:29 final size:29
Alignment explanation
Indices: 43945108--43945400 Score: 284
Period size: 29 Copynumber: 10.0 Consensus size: 29
43945098 GTAAAATAGT
* * * *
43945108 AATTTTTGAAAGTTTTGGAGTTAAAAATTG
1 AATTTTTGGAAG-TTTGGGGGTAAAAATGG
** *
43945138 AATTTTTGGATA-TCCGAGGGT-AAAATGG
1 AATTTTTGGA-AGTTTGGGGGTAAAAATGG
* * * *
43945166 TAATTTCTAGAAGTTTCGAGGTGAAAAATGG
1 -AATTTTTGGAAGTTTGGGGGT-AAAAATGG
* * *
43945197 AATTTTTAGAAGTTCGGGGGTAAAAATGT
1 AATTTTTGGAAGTTTGGGGGTAAAAATGG
* *
43945226 AATTTTTGGAAGTTTTAGGGTTAAAAATGG
1 AATTTTTGGAAG-TTTGGGGGTAAAAATGG
* *
43945256 ATTTTTTGGAAGTTTGGGGGTAAAAATGT
1 AATTTTTGGAAGTTTGGGGGTAAAAATGG
* * *
43945285 AATTTTTGGAAGTTTCGAGGTGAAAAATAG
1 AATTTTTGGAAGTTTGGGGGT-AAAAATGG
*
43945315 AATTTTTGGAAGTTTGGGGGTAAAAATGT
1 AATTTTTGGAAGTTTGGGGGTAAAAATGG
* *
43945344 AATTTTAGGAAGTTTTGGGGTAAAAATGG
1 AATTTTTGGAAGTTTGGGGGTAAAAATGG
* *
43945373 AATTTTTGAAAGTTTAGGGGTAAAAATG
1 AATTTTTGGAAGTTTGGGGGTAAAAATG
43945401 TAATCTTTAG
Statistics
Matches: 213, Mismatches: 43, Indels: 15
0.79 0.16 0.06
Matches are distributed among these distances:
28 7 0.03
29 123 0.58
30 75 0.35
31 8 0.04
ACGTcount: A:0.34, C:0.02, G:0.27, T:0.37
Consensus pattern (29 bp):
AATTTTTGGAAGTTTGGGGGTAAAAATGG
Found at i:43946558 original size:13 final size:13
Alignment explanation
Indices: 43946520--43946564 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
43946510 TTTTTAATAA
*
43946520 ATTATTAATATTCT
1 ATTACTAATATT-T
* *
43946534 ATTAATATTATTT
1 ATTACTAATATTT
43946547 ATTACTAATATTT
1 ATTACTAATATTT
43946560 ATTAC
1 ATTAC
43946565 CATCGTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTACTAATATTT
Found at i:43947915 original size:92 final size:92
Alignment explanation
Indices: 43947752--43948842 Score: 1716
Period size: 92 Copynumber: 12.0 Consensus size: 92
43947742 ATTGTTTTTA
* * * * *
43947752 ATCCAACTTTACTGCAACTTCAAAAGGACAGGAATTGACGTTTGAAGCTTCATCATACTCTTACT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
** * *
43947817 GTAACTTCAGAGATATAAAAACTTGCT
66 ACAACTTCAGAGAGATAAAGACTTGCT
* * *
43947844 ATCAAACTTTACTGCAACTTCAAGAGGATAAGAATTGATGTTTGAAGCTCCATCTTGCTCTTACT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
43947909 ACAACTTCAGAGAGATAAAGACTTGCT
66 ACAACTTCAGAGAGATAAAGACTTGCT
43947936 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
43948001 ACAACTTCAGAGAGATAAAGACTTGCT
66 ACAACTTCAGAGAGATAAAGACTTGCT
43948028 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
*
43948093 ACAACTTCAGAGAGATAAAAACTTGCT
66 ACAACTTCAGAGAGATAAAGACTTGCT
* *
43948120 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTAAAACTTCATCTTGCTCTTACT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
*
43948185 ACAACTT--TAGAG----AGACTTGCT
66 ACAACTTCAGAGAGATAAAGACTTGCT
* *
43948206 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTAAAACTTCATCTTGCTCTTACT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
*
43948271 ACAACTTC--AGAG----AGCCTTGCT
66 ACAACTTCAGAGAGATAAAGACTTGCT
* * * *
43948292 ATTCAACTTTATTGCAACTTCAAGAGGATAGGAATTGATATTTGAAGCTTCATCTTGATCTTACT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
43948357 ACAACTTC--AGAG----AGACTTGCT
66 ACAACTTCAGAGAGATAAAGACTTGCT
*
43948378 ATCCAACTTTATTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
43948443 ACAACTTCAGAGAGATAAAGACTTGCT
66 ACAACTTCAGAGAGATAAAGACTTGCT
* *
43948470 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTAAAACTTCATCTTGCTCTTACT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
43948535 ACAACTTCAGAGAGATAAAGACTTGCT
66 ACAACTTCAGAGAGATAAAGACTTGCT
*
43948562 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTTATCTTGCTCTTACT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
43948627 ACAACTTCAGAGAGATAAAGACTTGCT
66 ACAACTTCAGAGAGATAAAGACTTGCT
* * *
43948654 ATCCAACTTTACTGCAACTTTAAGAGGATAGGAATTAATTTTTGAAGCTTCATCTTGCTCTTACT
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
*
43948719 ACGACTTCAGAGAGATAAAGACATCTTGCT
66 ACAACTTCAGAGAGATAAAG--A-CTTGCT
*
43948749 ATCCAACTTTACTGCAACTTCAAGAAGATAGGAATTGATGTTTGAAGC-TCTATCTTGCTCTTAC
1 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTC-ATCTTGCTCTTAC
*
43948813 TACAACTTCAAAGAGATAAAGACTTGCT
65 TACAACTTCAGAGAGATAAAGACTTGCT
43948841 AT
1 AT
43948843 TTTTACTTGA
Statistics
Matches: 940, Mismatches: 48, Indels: 22
0.93 0.05 0.02
Matches are distributed among these distances:
86 241 0.26
88 4 0.00
90 4 0.00
92 605 0.64
93 1 0.00
94 3 0.00
95 82 0.09
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (92 bp):
ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACT
ACAACTTCAGAGAGATAAAGACTTGCT
Found at i:43948673 original size:534 final size:539
Alignment explanation
Indices: 43947755--43948827 Score: 1737
Period size: 534 Copynumber: 2.0 Consensus size: 539
43947745 GTTTTTAATC
* **
43947755 CAACTTTACTGCAACTTCAAAAGGACAGGAATTGACGTTTGAAGCTTCATCATACTCTTACTGTA
1 CAACTTTACTGCAACTTCAAAAGGACAGGAATTGACATTTGAAGCTTCATCATACTCTTACTACA
43947820 ACTTCAGAGATATAAAAACTTGCTATCAAACTTTACTGCAACTTCAAGAGGATAAGAATTGATGT
66 ACTTCAGAG-----AAAACTTGCTATCAAACTTTACTGCAACTTCAAGAGGATAAGAATTGATGT
43947885 TTGAAGCTCCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTG
126 TTGAAGCTCCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTG
* *
43947950 CAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTGCTCTTACTACAACTTCAGAGAG
191 CAACTTCAAGAGGATAGGAATTGATGTTTAAAACTTCATCTTGCTCTTACTACAACTTCAGAGAG
43948015 ATAAAGACTTGCTATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCA
256 ATAAAGACTTGCTATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCA
43948080 TCTTGCTCTTACTACAACTTCAGAGAGATAAAAACTTGCTATCCAACTTTACTGCAACTTCAAGA
321 TCTTGCTCTTACTACAACTTCAGAGAGATAAAAACTTGCTATCCAACTTTACTGCAACTTCAAGA
* *
43948145 GGATAGGAATTGATGTTTAAAACTTCATCTTGCTCTTACTACAACTT-TAGAG-AG-A-CTTGCT
386 GGATAGGAATTAATGTTTAAAACTTCATCTTGCTCTTACTACAACTTAGAGAGAAGAATCTTGCT
*
43948206 ATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTAAAACT-TCATCTTGCTCTTAC
451 ATCCAACTTTACTGCAACTTCAAGAAGATAGGAATTGATGTTTAAAACTCT-ATCTTGCTCTTAC
*
43948270 TACAACTTCAGAGAGCCTTGCTATT
515 TACAACTTCAAAGAGCCTTGCTATT
* * * * *
43948295 CAACTTTATTGCAACTTCAAGAGGATAGGAATTGATATTTGAAGCTTCATCTTGA-TCTTACTAC
1 CAACTTTACTGCAACTTCAAAAGGACAGGAATTGACATTTGAAGCTTCATCAT-ACTCTTACTAC
* * * *
43948359 AACTTCAGAG-AGACTTGCTATCCAACTTTATTGCAACTTCAAGAGGATAGGAATTGATGTTTGA
65 AACTTCAGAGAAAACTTGCTATCAAACTTTACTGCAACTTCAAGAGGATAAGAATTGATGTTTGA
*
43948423 AGCTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTGCAAC
130 AGCTCCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTGCAAC
43948488 TTCAAGAGGATAGGAATTGATGTTTAAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAA
195 TTCAAGAGGATAGGAATTGATGTTTAAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAA
*
43948553 AGACTTGCTATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTTATCTT
260 AGACTTGCTATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTT
* *
43948618 GCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTGCAACTTTAAGAGGAT
325 GCTCTTACTACAACTTCAGAGAGATAAAAACTTGCTATCCAACTTTACTGCAACTTCAAGAGGAT
* * * *
43948683 AGGAATTAATTTTTGAAGCTTCATCTTGCTCTTACTACGACTTCAGAGAGATAAAGACATCTTGC
390 AGGAATTAATGTTTAAAACTTCATCTTGCTCTTACTACAACTT-AGAGAG---AAGA-ATCTTGC
* *
43948748 TATCCAACTTTACTGCAACTTCAAGAAGATAGGAATTGATGTTTGAAGCTCTATCTTGCTCTTAC
450 TATCCAACTTTACTGCAACTTCAAGAAGATAGGAATTGATGTTTAAAACTCTATCTTGCTCTTAC
43948813 TACAACTTCAAAGAG
515 TACAACTTCAAAGAG
43948828 ATAAAGACTT
Statistics
Matches: 494, Mismatches: 28, Indels: 19
0.91 0.05 0.04
Matches are distributed among these distances:
534 342 0.69
536 4 0.01
540 66 0.13
541 1 0.00
542 1 0.00
543 79 0.16
544 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.32
Consensus pattern (539 bp):
CAACTTTACTGCAACTTCAAAAGGACAGGAATTGACATTTGAAGCTTCATCATACTCTTACTACA
ACTTCAGAGAAAACTTGCTATCAAACTTTACTGCAACTTCAAGAGGATAAGAATTGATGTTTGAA
GCTCCATCTTGCTCTTACTACAACTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTGCAACT
TCAAGAGGATAGGAATTGATGTTTAAAACTTCATCTTGCTCTTACTACAACTTCAGAGAGATAAA
GACTTGCTATCCAACTTTACTGCAACTTCAAGAGGATAGGAATTGATGTTTGAAGCTTCATCTTG
CTCTTACTACAACTTCAGAGAGATAAAAACTTGCTATCCAACTTTACTGCAACTTCAAGAGGATA
GGAATTAATGTTTAAAACTTCATCTTGCTCTTACTACAACTTAGAGAGAAGAATCTTGCTATCCA
ACTTTACTGCAACTTCAAGAAGATAGGAATTGATGTTTAAAACTCTATCTTGCTCTTACTACAAC
TTCAAAGAGCCTTGCTATT
Found at i:43953659 original size:18 final size:19
Alignment explanation
Indices: 43953617--43953659 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
43953607 GCCTGTCATG
43953617 CTTTTCTTATCTCTCGCTT
1 CTTTTCTTATCTCTCGCTT
* **
43953636 CCTTTC-TATCTCTTTCTT
1 CTTTTCTTATCTCTCGCTT
43953654 CTTTTC
1 CTTTTC
43953660 CTATACATCT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.05, C:0.33, G:0.02, T:0.60
Consensus pattern (19 bp):
CTTTTCTTATCTCTCGCTT
Found at i:43960203 original size:96 final size:96
Alignment explanation
Indices: 43960029--43960205 Score: 243
Period size: 96 Copynumber: 1.8 Consensus size: 96
43960019 GAAAAGGATG
* *
43960029 TTTGATTATCTCGATTTAAAGAAAGATTGCACCTAGTGAGTTAAGGCGCAAATTTTCAGAATCGA
1 TTTGATTATCTCGATTTAAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCGA
* *
43960094 AGATAAGGAAATATTGTTTCAATTAAGGGTA
66 AAATAAAGAAATATTGTTTCAATTAAGGGTA
* * *
43960125 TTTGATTATTTCGATTTGAAGAAAAATTGCACCTAGTAAGTTAAGGCGCATATTTTC-GAAACTC
1 TTTGATTATCTCGATTTAAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAG-AA-TC
43960189 -AAAATAAA-AGAATATTG
64 GAAAATAAAGA-AATATTG
43960206 CCTTGATTTT
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
95 2 0.03
96 67 0.94
97 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.33
Consensus pattern (96 bp):
TTTGATTATCTCGATTTAAAGAAAAATTGCACCTAGTAAGTTAAGGCGCAAATTTTCAGAATCGA
AAATAAAGAAATATTGTTTCAATTAAGGGTA
Found at i:43960547 original size:58 final size:58
Alignment explanation
Indices: 43960479--43960612 Score: 137
Period size: 59 Copynumber: 2.3 Consensus size: 58
43960469 TCTCAAGGGC
* ** * *
43960479 AAAATAGTAATTTTGGAAAAATTTAGGG-TTAAAAA-TGACATTTTAGACATCAGAGGGT
1 AAAATGGTAATTTTGGAAAAA-TT-GGGACCAAAAACGGACATTTTAGACATCAGAGCGT
* * ** *
43960537 ACAATGGTAATTTTTAGAAAAATTGGGACCAAAAACGGAGTTTTTAGACATCCGAGCGT
1 AAAATGGTAA-TTTTGGAAAAATTGGGACCAAAAACGGACATTTTAGACATCAGAGCGT
43960596 AAAATGGTAATTTTGGA
1 AAAATGGTAATTTTGGA
43960613 TATTCGGGGG
Statistics
Matches: 61, Mismatches: 12, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
57 3 0.05
58 21 0.34
59 37 0.61
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (58 bp):
AAAATGGTAATTTTGGAAAAATTGGGACCAAAAACGGACATTTTAGACATCAGAGCGT
Found at i:43960609 original size:29 final size:29
Alignment explanation
Indices: 43960577--43960641 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 29
43960567 AAAAACGGAG
43960577 TTTTTAGACATCCGAGCGTAAAATGGTAA
1 TTTTTAGACATCCGAGCGTAAAATGGTAA
* * * * *
43960606 -TTTTGGATATTCGGGGGTAAAATGGTAA
1 TTTTTAGACATCCGAGCGTAAAATGGTAA
43960634 TTTTTAGA
1 TTTTTAGA
43960642 AGTTTTGGGT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.31, C:0.08, G:0.25, T:0.37
Consensus pattern (29 bp):
TTTTTAGACATCCGAGCGTAAAATGGTAA
Found at i:43960664 original size:29 final size:28
Alignment explanation
Indices: 43960620--43960812 Score: 219
Period size: 29 Copynumber: 6.6 Consensus size: 28
43960610 GGATATTCGG
*
43960620 GGGT-AAAATGGTAATTTTTAGAAGTTTT
1 GGGTAAAAATGG-AATTTTTGGAAGTTTT
*
43960648 GGGTGAAAAATGGAATTTTTGGAAGTTTGA
1 GGGT-AAAAATGGAATTTTTGGAAGTTT-T
*
43960678 GGGTAAAAATGTAAGTTTTT-GAAGTTTT
1 GGGTAAAAATGGAA-TTTTTGGAAGTTTT
*
43960706 GGGGTCAAAAATGGAATTTTTGGAAGTTTG
1 -GGGT-AAAAATGGAATTTTTGGAAGTTTT
43960736 GGGTCAAAAATGGAATTTTTGGAAGTTTT
1 GGGT-AAAAATGGAATTTTTGGAAGTTTT
** *
43960765 AGGGTAAAAATGGAATTTTTAAAAGTTTG
1 -GGGTAAAAATGGAATTTTTGGAAGTTTT
*
43960794 GTGGTAAAAATGTAATTTT
1 G-GGTAAAAATGGAATTTT
43960813 CAGATAATTT
Statistics
Matches: 145, Mismatches: 11, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
28 5 0.03
29 104 0.72
30 36 0.25
ACGTcount: A:0.34, C:0.01, G:0.27, T:0.38
Consensus pattern (28 bp):
GGGTAAAAATGGAATTTTTGGAAGTTTT
Found at i:43960670 original size:58 final size:57
Alignment explanation
Indices: 43960596--43960812 Score: 232
Period size: 58 Copynumber: 3.7 Consensus size: 57
43960586 ATCCGAGCGT
43960596 AAAATGGTAA-TTTTGGATA-TTCGGGGGT-AAAATGGTAATTTTTAGAAGTTTT-GGGTGA
1 AAAATGG-AATTTTTGGA-AGTT-GGGGGTAAAAATGGTAATTTTT-GAAGTTTTAGGGT-A
* *
43960654 AAAATGGAATTTTTGGAAGTTTGAGGGTAAAAAT-GTAAGTTTTTGAAGTTTTGGGGTCA
1 AAAATGGAATTTTTGGAAG-TTGGGGGTAAAAATGGTAA-TTTTTGAAGTTTTAGGGT-A
*
43960713 AAAATGGAATTTTTGGAAGTTTGGGGTCAAAAATGG-AATTTTTGGAAGTTTTAGGGTA
1 AAAATGGAATTTTTGGAAGTTGGGGGT-AAAAATGGTAATTTTT-GAAGTTTTAGGGTA
** *
43960771 AAAATGGAATTTTTAAAAGTTTGGTGGTAAAAAT-GTAATTTT
1 AAAATGGAATTTTTGGAAG-TTGGGGGTAAAAATGGTAATTTT
43960813 CAGATAATTT
Statistics
Matches: 139, Mismatches: 9, Indels: 22
0.82 0.05 0.13
Matches are distributed among these distances:
57 4 0.03
58 72 0.52
59 62 0.45
60 1 0.01
ACGTcount: A:0.34, C:0.01, G:0.27, T:0.38
Consensus pattern (57 bp):
AAAATGGAATTTTTGGAAGTTGGGGGTAAAAATGGTAATTTTTGAAGTTTTAGGGTA
Found at i:43960826 original size:58 final size:58
Alignment explanation
Indices: 43960619--43960812 Score: 261
Period size: 59 Copynumber: 3.3 Consensus size: 58
43960609 TGGATATTCG
*
43960619 GGGGT-AAAATGGTAATTTTTAGAAGTTTT-GGGTGAAAAATGGAATTTTTGGAAGTTT
1 GGGGTAAAAAT-GTAATTTTTAGAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAGTTT
*
43960676 GAGGGTAAAAATGTAAGTTTTT-GAAGTTTTGGGGTCAAAAATGGAATTTTTGGAAGTTT
1 G-GGGTAAAAATGTAA-TTTTTAGAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAGTTT
* * **
43960735 GGGGTCAAAAATGGAATTTTTGGAAGTTTTAGGGT-AAAAATGGAATTTTTAAAAGTTT
1 GGGGT-AAAAATGTAATTTTTAGAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAGTTT
43960793 GGTGGTAAAAATGTAATTTT
1 GG-GGTAAAAATGTAATTTT
43960813 CAGATAATTT
Statistics
Matches: 124, Mismatches: 6, Indels: 13
0.87 0.04 0.09
Matches are distributed among these distances:
57 1 0.01
58 61 0.49
59 62 0.50
ACGTcount: A:0.34, C:0.01, G:0.28, T:0.38
Consensus pattern (58 bp):
GGGGTAAAAATGTAATTTTTAGAAGTTTTAGGGTCAAAAATGGAATTTTTGGAAGTTT
Found at i:43961961 original size:13 final size:13
Alignment explanation
Indices: 43961923--43961967 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
43961913 TTTTTAATAA
*
43961923 ATTATTAATATTCT
1 ATTACTAATATT-T
* *
43961937 ATTAATATTATTT
1 ATTACTAATATTT
43961950 ATTACTAATATTT
1 ATTACTAATATTT
43961963 ATTAC
1 ATTAC
43961968 CACCATTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (13 bp):
ATTACTAATATTT
Found at i:43961978 original size:3 final size:3
Alignment explanation
Indices: 43961972--43962014 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
43961962 TATTACCACC
43961972 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
43962015 ATGTAATTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:43962793 original size:17 final size:18
Alignment explanation
Indices: 43962766--43962831 Score: 82
Period size: 17 Copynumber: 3.7 Consensus size: 18
43962756 TATATTTAAT
*
43962766 TAAATTCAAATTTAAAG-
1 TAAATTTAAATTTAAAGA
*
43962783 CAAATTTAAATTTAAAAGGA
1 TAAATTTAAATTT-AAA-GA
43962803 TAAATTTAAATTT-AAGA
1 TAAATTTAAATTTAAAGA
43962820 TAAATTTAAATT
1 TAAATTTAAATT
43962832 AATTTAAACC
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
17 25 0.58
18 5 0.12
19 1 0.02
20 12 0.28
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (18 bp):
TAAATTTAAATTTAAAGA
Found at i:43962809 original size:20 final size:17
Alignment explanation
Indices: 43962752--43962831 Score: 74
Period size: 17 Copynumber: 4.6 Consensus size: 17
43962742 TTTTTAAATC
* *
43962752 AATTTATATTTAA-TTA
1 AATTTAAATTTAAGATA
* *
43962768 AATTCAAATTTAA-AGCA
1 AATTTAAATTTAAGA-TA
43962785 AATTTAAATTTAAAAGGATA
1 AATTTAAATTT--AA-GATA
43962805 AATTTAAATTTAAGATA
1 AATTTAAATTTAAGATA
43962822 AATTTAAATT
1 AATTTAAATT
43962832 AATTTAAACC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
16 11 0.21
17 25 0.47
18 2 0.04
19 2 0.04
20 12 0.23
21 1 0.02
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (17 bp):
AATTTAAATTTAAGATA
Found at i:43969760 original size:27 final size:28
Alignment explanation
Indices: 43969701--43969773 Score: 80
Period size: 27 Copynumber: 2.6 Consensus size: 28
43969691 AATCGGGATC
*
43969701 AAAAAATGGTAATTTTAGATGTTCAGGG
1 AAAAAATGGTAATTTTAGATGCTCAGGG
* *
43969729 -CAAAATGGTAATTTTAGACT-CTCGAGGA
1 AAAAAATGGTAATTTTAGA-TGCTC-AGGG
43969757 AAAAAAT-GTAATTTTAG
1 AAAAAATGGTAATTTTAG
43969774 GAAAATTTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
27 19 0.50
28 14 0.37
29 5 0.13
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.32
Consensus pattern (28 bp):
AAAAAATGGTAATTTTAGATGCTCAGGG
Found at i:43969908 original size:59 final size:59
Alignment explanation
Indices: 43969845--43970099 Score: 216
Period size: 59 Copynumber: 4.3 Consensus size: 59
43969835 TTCCGAGGTT
*
43969845 AAAAATGGAATTTTTGGAATGTCGAGGGAAAAAATGTAATTTTTGGAAGTTTTGGGGTC
1 AAAAATGGAATTTTTGGAATGTCGAGGGCAAAAATGTAATTTTTGGAAGTTTTGGGGTC
* * * * * * * *
43969904 AAAAATGGAATTTTT-TAAAGTTCGAGAGCAAAAACGTAGTTTTGGGAAGTTTCGGAGTC
1 AAAAATGGAATTTTTGGAATG-TCGAGGGCAAAAATGTAATTTTTGGAAGTTTTGGGGTC
* * * *
43969963 AAAAATGGAATTTTTGGAAGTTTTG-GGGCAAAAATGTAATTTTTGGAA-TTTTCGAGGTT
1 AAAAATGGAATTTTTGGAA-TGTCGAGGGCAAAAATGTAATTTTTGGAAGTTTT-GGGGTC
* ** * * * * *
43970022 AAAAATGAAATTTTTAAAAGTTTCAAGGTCAAAAATGTAATTTTGGAGAAG-TTCGAGGGTC
1 AAAAATGGAATTTTTGGAA-TGTCGAGGGCAAAAATGTAATTTTTG-GAAGTTTTG-GGGTC
43970083 AAAATAT--AATTTTTGGA
1 AAAA-ATGGAATTTTTGGA
43970100 TAGTTCAGGG
Statistics
Matches: 154, Mismatches: 33, Indels: 17
0.75 0.16 0.08
Matches are distributed among these distances:
58 6 0.04
59 103 0.67
60 31 0.20
61 12 0.08
62 2 0.01
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.34
Consensus pattern (59 bp):
AAAAATGGAATTTTTGGAATGTCGAGGGCAAAAATGTAATTTTTGGAAGTTTTGGGGTC
Found at i:43969910 original size:30 final size:30
Alignment explanation
Indices: 43969845--43970104 Score: 210
Period size: 30 Copynumber: 8.7 Consensus size: 30
43969835 TTCCGAGGTT
* * *
43969845 AAAAATGGAATTTTTGGAA-TGTCGAGGG-A
1 AAAAATGTAATTTTTGGAAGTTTCG-GGGTC
*
43969874 AAAAATGTAATTTTTGGAAGTTTTGGGGTC
1 AAAAATGTAATTTTTGGAAGTTTCGGGGTC
* ** *
43969904 AAAAATGGAATTTTTTAAAG-TTCGAGAG-C
1 AAAAATGTAATTTTTGGAAGTTTCG-GGGTC
* * * *
43969933 AAAAACGTAGTTTTGGGAAGTTTCGGAGTC
1 AAAAATGTAATTTTTGGAAGTTTCGGGGTC
* *
43969963 AAAAATGGAATTTTTGGAAGTTTTGGGG-C
1 AAAAATGTAATTTTTGGAAGTTTCGGGGTC
* * *
43969992 AAAAATGTAATTTTTGGAATTTTCGAGGTT
1 AAAAATGTAATTTTTGGAAGTTTCGGGGTC
* ** **
43970022 AAAAATGAAATTTTTAAAAGTTTCAAGGTC
1 AAAAATGTAATTTTTGGAAGTTTCGGGGTC
*
43970052 AAAAATGTAATTTTGGAGAAG-TTCGAGGGTC
1 AAAAATGTAATTTTTG-GAAGTTTCG-GGGTC
*
43970083 -AAAATATAATTTTTGGATAGTT
1 AAAAATGTAATTTTTGGA-AGTT
43970105 CAGGGACCTC
Statistics
Matches: 181, Mismatches: 40, Indels: 18
0.76 0.17 0.08
Matches are distributed among these distances:
29 69 0.38
30 104 0.57
31 8 0.04
ACGTcount: A:0.36, C:0.05, G:0.24, T:0.35
Consensus pattern (30 bp):
AAAAATGTAATTTTTGGAAGTTTCGGGGTC
Found at i:43970043 original size:89 final size:90
Alignment explanation
Indices: 43969874--43970105 Score: 233
Period size: 89 Copynumber: 2.6 Consensus size: 90
43969864 TGTCGAGGGA
* *
43969874 AAAAATGTAATTTTTGGAAGTTTTGGGGTCAAAAATGGAATTTTT-TAAAGTTCGAGAGCAAAAA
1 AAAAATGTAATTTTTGGAAGTTTTGGGGTCAAAAATGTAATTTTTGGAAAGTTCGAGAGCAAAAA
* * ** *
43969938 CGTAGTTTTGGGAAGTTTC-GGAGTC
66 CGAAATTTTGAAAAGTTTCAAG-GTC
* ** *
43969963 AAAAATGGAATTTTTGGAAGTTTTGGGG-CAAAAATGTAATTTTTGGAATTTTCGAG-GTTAAAA
1 AAAAATGTAATTTTTGGAAGTTTTGGGGTCAAAAATGTAATTTTTGGAAAGTTCGAGAG-CAAAA
* *
43970026 ATGAAATTTTTAAAAGTTTCAAGGTC
65 ACGAAATTTTGAAAAGTTTCAAGGTC
* * * *
43970052 AAAAATGTAATTTTGGAGAAG-TTCGAGGGTC-AAAATATAATTTTTGGATAGTTC
1 AAAAATGTAATTTTTG-GAAGTTTTG-GGGTCAAAAATGTAATTTTTGGAAAGTTC
43970106 AGGGACCTCT
Statistics
Matches: 117, Mismatches: 20, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
88 16 0.14
89 73 0.62
90 27 0.23
91 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.35
Consensus pattern (90 bp):
AAAAATGTAATTTTTGGAAGTTTTGGGGTCAAAAATGTAATTTTTGGAAAGTTCGAGAGCAAAAA
CGAAATTTTGAAAAGTTTCAAGGTC
Found at i:43971219 original size:15 final size:15
Alignment explanation
Indices: 43971201--43971245 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 15
43971191 ACATTTATTA
43971201 TTATTAATAAAATAG
1 TTATTAATAAAATAG
43971216 TTATTAATATTGAAAATAG
1 TTATT-A-A-T-AAAATAG
43971235 TTATTAATAAA
1 TTATTAATAAA
43971246 TACTTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
15 8 0.31
16 2 0.08
17 2 0.08
18 2 0.08
19 12 0.46
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (15 bp):
TTATTAATAAAATAG
Found at i:43972057 original size:16 final size:15
Alignment explanation
Indices: 43972036--43972090 Score: 65
Period size: 16 Copynumber: 3.4 Consensus size: 15
43972026 TTAGAACCAT
43972036 TTTAAATTAAATTAAA
1 TTTAAATTAAA-TAAA
*
43972052 TTTAAATTCCAAACAAA
1 TTTAAATT--AAATAAA
43972069 TTTAAATTTAAATAAA
1 TTTAAA-TTAAATAAA
43972085 TTTAAA
1 TTTAAA
43972091 ATCAATTCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 20 0.59
17 9 0.26
18 5 0.15
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (15 bp):
TTTAAATTAAATAAA
Found at i:43976540 original size:13 final size:14
Alignment explanation
Indices: 43976522--43976551 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
43976512 TAACTTTTTA
43976522 AAAATTTAA-TAAT
1 AAAATTTAATTAAT
43976535 AAAATTTAATTAAT
1 AAAATTTAATTAAT
43976549 AAA
1 AAA
43976552 TAAAAACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATTTAATTAAT
Found at i:43977226 original size:16 final size:16
Alignment explanation
Indices: 43977207--43977246 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
43977197 ATTACAGAAT
43977207 ATATAAAAATAATATA
1 ATATAAAAATAATATA
*
43977223 ATAT-AAAATATTATA
1 ATATAAAAATAATATA
43977238 A-ATAAAAAT
1 ATATAAAAAT
43977247 GAGTCGGGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 2 0.09
15 16 0.73
16 4 0.18
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATATAAAAATAATATA
Found at i:43980672 original size:62 final size:63
Alignment explanation
Indices: 43980575--43980712 Score: 224
Period size: 62 Copynumber: 2.2 Consensus size: 63
43980565 ATATATAATA
* * * *
43980575 TAATATGATTATTATTAAATATTAATTTAATAAAAATAATAATAAATAATTTAATCATATT-T
1 TAATATAATTATTATTAAATATTAATTTAATAAAAATAAAAATAAATAATTTAATAACATTCT
*
43980637 TAATATAATTCTTATTAAATATTAATTTAATAAAAATAAAAATAAATAATTTAATAACATTCT
1 TAATATAATTATTATTAAATATTAATTTAATAAAAATAAAAATAAATAATTTAATAACATTCT
43980700 TAATATAATTATT
1 TAATATAATTATT
43980713 TTTATATTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
62 56 0.81
63 13 0.19
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (63 bp):
TAATATAATTATTATTAAATATTAATTTAATAAAAATAAAAATAAATAATTTAATAACATTCT
Found at i:43987358 original size:21 final size:23
Alignment explanation
Indices: 43987334--43987384 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
43987324 ATGTGCCTCG
43987334 TATTTTTT-AGTT-AATT-TATAT
1 TATTTTTTCAGTTAAATTCTA-AT
43987355 TATTTTTTTCAGTTAAATTCTAAT
1 TA-TTTTTTCAGTTAAATTCTAAT
43987379 TATTTT
1 TATTTT
43987385 AGAGATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 2 0.08
22 6 0.23
23 8 0.31
24 8 0.31
25 2 0.08
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (23 bp):
TATTTTTTCAGTTAAATTCTAAT
Found at i:43987368 original size:23 final size:23
Alignment explanation
Indices: 43987336--43987384 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
43987326 GTGCCTCGTA
43987336 TTTTTTAGTT-AATT-TATATTAT
1 TTTTTTAGTTAAATTCTA-ATTAT
43987358 TTTTTTCAGTTAAATTCTAATTAT
1 TTTTTT-AGTTAAATTCTAATTAT
43987382 TTT
1 TTT
43987385 AGAGATATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 6 0.25
23 4 0.17
24 12 0.50
25 2 0.08
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (23 bp):
TTTTTTAGTTAAATTCTAATTAT
Found at i:43990956 original size:2 final size:2
Alignment explanation
Indices: 43990949--43991010 Score: 117
Period size: 2 Copynumber: 31.5 Consensus size: 2
43990939 TTTTATATTA
43990949 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43990991 AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
43991011 AAGTAAAGCT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 58 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43997368 original size:59 final size:57
Alignment explanation
Indices: 43997271--43997463 Score: 224
Period size: 59 Copynumber: 3.3 Consensus size: 57
43997261 AACTGTTCAG
* * *
43997271 AAATTACATTTTACCCTCGAACTTTCCAAATTTTCATTTTTAACCCCGATTTCACCAA
1 AAATTACATTTTACCC-CGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAA
* ** * *
43997329 AAATTACCATTTTACCTCCAAACTTTCCAAAACCCCATTTTTAGCCCCAATTTCATCAA
1 AAATTA-CATTTTACC-CCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAA
* * * * *
43997388 AAATTACCGTTTTACCCCGAACTTTTCAAAATTCTATTTTTAACCCTAATTTTACCAA
1 AAATTA-CATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAA
43997446 AAATTACATTTTTACCCC
1 AAATTACA-TTTTACCCC
43997464 CGAAAGTTAA
Statistics
Matches: 113, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
57 1 0.01
58 54 0.48
59 57 0.50
60 1 0.01
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.37
Consensus pattern (57 bp):
AAATTACATTTTACCCCGAACTTTCCAAAATTCCATTTTTAACCCCAATTTCACCAA
Found at i:43997439 original size:58 final size:58
Alignment explanation
Indices: 43997271--43997463 Score: 212
Period size: 58 Copynumber: 3.3 Consensus size: 58
43997261 AACTGTTCAG
* * *
43997271 AAATTA-CATTTTACCCTCGAAC-TTTCCAAATTTTCATTTTTAACCCCGATTTCACCAA
1 AAATTACCATTTTACCC-CGAACTTTTCAAAATTCT-ATTTTTAACCCCAATTTCACCAA
* * ** * * *
43997329 AAATTACCATTTTACCTCCAAACTTTCCAAAACCCCATTTTTAGCCCCAATTTCATCAA
1 AAATTACCATTTTACC-CCGAACTTTTCAAAATTCTATTTTTAACCCCAATTTCACCAA
* * *
43997388 AAATTACCGTTTTACCCCGAACTTTTCAAAATTCTATTTTTAACCCTAATTTTACCAA
1 AAATTACCATTTTACCCCGAACTTTTCAAAATTCTATTTTTAACCCCAATTTCACCAA
43997446 AAATTA-CATTTTTACCCC
1 AAATTACCA-TTTTACCCC
43997464 CGAAAGTTAA
Statistics
Matches: 110, Mismatches: 21, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
57 1 0.01
58 54 0.49
59 48 0.44
60 7 0.06
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.37
Consensus pattern (58 bp):
AAATTACCATTTTACCCCGAACTTTTCAAAATTCTATTTTTAACCCCAATTTCACCAA
Found at i:43997457 original size:30 final size:29
Alignment explanation
Indices: 43997364--43997464 Score: 75
Period size: 30 Copynumber: 3.4 Consensus size: 29
43997354 TCCAAAACCC
* *
43997364 CATTTTTAGCCCCAATTTCATCAAAAATTA
1 CATTTTTAACCCCAATTTTA-CAAAAATTA
**
43997394 CCGTTTT-ACCCCGAACTTTT-C-AAAATT-
1 CATTTTTAACCCC-AA-TTTTACAAAAATTA
*
43997421 CTATTTTTAACCCTAATTTTACCAAAAATTA
1 C-ATTTTTAACCCCAATTTTA-CAAAAATTA
*
43997452 CATTTTTACCCCC
1 CATTTTTAACCCC
43997465 GAAAGTTAAA
Statistics
Matches: 54, Mismatches: 9, Indels: 16
0.68 0.11 0.20
Matches are distributed among these distances:
27 5 0.09
28 12 0.22
29 10 0.19
30 23 0.43
31 4 0.07
ACGTcount: A:0.32, C:0.27, G:0.03, T:0.39
Consensus pattern (29 bp):
CATTTTTAACCCCAATTTTACAAAAATTA
Found at i:43997477 original size:58 final size:59
Alignment explanation
Indices: 43997306--43997485 Score: 145
Period size: 58 Copynumber: 3.1 Consensus size: 59
43997296 CCAAATTTTC
* * * * ** *
43997306 ATTTTTAACCCCGATTTCACCAAAAATTACCA-TTTTACCTCCAAAC-TTTCCAAAA-CCCC
1 ATTTTTAACCCCAATTTCACCAAAAATTA-CAGTTTTACC-CCGAACAGTT-AAAAATTACT
* * * ** *
43997365 ATTTTTAGCCCCAATTTCATCAAAAATTACCGTTTTACCCCGAACTTTTCAAAATT-CT
1 ATTTTTAACCCCAATTTCACCAAAAATTACAGTTTTACCCCGAACAGTTAAAAATTACT
* * *
43997423 ATTTTTAACCCTAATTTTACCAAAAATTACATTTTTACCCCCGAA-AGTTAAAAATTACT
1 ATTTTTAACCCCAATTTCACCAAAAATTACAGTTTTA-CCCCGAACAGTTAAAAATTACT
43997482 ATTT
1 ATTT
43997486 CACCCCCGGG
Statistics
Matches: 100, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
58 51 0.51
59 49 0.49
ACGTcount: A:0.34, C:0.26, G:0.03, T:0.36
Consensus pattern (59 bp):
ATTTTTAACCCCAATTTCACCAAAAATTACAGTTTTACCCCGAACAGTTAAAAATTACT
Found at i:44001928 original size:17 final size:17
Alignment explanation
Indices: 44001906--44001989 Score: 64
Period size: 17 Copynumber: 4.9 Consensus size: 17
44001896 TTTCAGAATA
44001906 AATTTAAATTTAAAATG
1 AATTTAAATTTAAAATG
* **
44001923 AATTTAAACTCCAAAT-
1 AATTTAAATTTAAAATG
* * * *
44001939 AAGCTTATATTTATAATA
1 AA-TTTAAATTTAAAATG
*
44001957 AATTTAAAATTAAAATG
1 AATTTAAATTTAAAATG
44001974 AA-TTAAGATTTAAAAT
1 AATTTAA-ATTTAAAAT
44001990 CTAAAGTTTT
Statistics
Matches: 49, Mismatches: 15, Indels: 6
0.70 0.21 0.09
Matches are distributed among these distances:
16 6 0.12
17 41 0.84
18 2 0.04
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (17 bp):
AATTTAAATTTAAAATG
Found at i:44002625 original size:39 final size:38
Alignment explanation
Indices: 44002576--44002745 Score: 100
Period size: 39 Copynumber: 4.4 Consensus size: 38
44002566 TACCCCATGA
44002576 TCGA-GTAAGAGATTAGCTAATGATAATCTGCCTCAGGC
1 TCGAGGTAAGAGATT-GCTAATGATAATCTGCCTCAGGC
* *
44002614 TCGAGGTAAGAGA-T-CGAATGATTACAATCTGTCTCAGGC
1 TCGAGGTAAGAGATTGCTAATGA-T--AATCTGCCTCAGGC
* * * *
44002653 TC-AGGGTAAGAGATTGGTTGATGATGATCTGCCGCAGGC
1 TCGA-GGTAAGAGATT-GCTAATGATAATCTGCCTCAGGC
* * * * * *
44002692 TAGGGGTAGGAGATCGAATAGCTG-TAATCTGTCCT-AGGC
1 TCGAGGTAAGAGATTG-CTA-ATGATAATCTG-CCTCAGGC
*
44002731 TCGGGGTAAGAGATT
1 TCGAGGTAAGAGATT
44002746 AACCGATGAT
Statistics
Matches: 100, Mismatches: 20, Indels: 23
0.70 0.14 0.16
Matches are distributed among these distances:
36 6 0.06
37 1 0.01
38 7 0.07
39 76 0.76
40 5 0.05
41 1 0.01
42 4 0.04
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.26
Consensus pattern (38 bp):
TCGAGGTAAGAGATTGCTAATGATAATCTGCCTCAGGC
Found at i:44002683 original size:78 final size:78
Alignment explanation
Indices: 44002580--44002746 Score: 196
Period size: 78 Copynumber: 2.1 Consensus size: 78
44002570 CCATGATCGA
* *
44002580 GTAAGAGATTAGCTAATGATAATCTGCCTCAGGCTCGAGGTAAGAGATCGAAT-GAT-TACAATC
1 GTAAGAGATTAGCTAATGATAATCTGCCGCAGGCTAGAGGTAAGAGATCGAATAGATGT--AATC
44002643 TGT-CTCAGGCTCAGG
64 TGTCCT-AGGCTCAGG
* * * * * * *
44002658 GTAAGAGATTGGTTGATGATGATCTGCCGCAGGCTAGGGGTAGGAGATCGAATAGCTGTAATCTG
1 GTAAGAGATTAGCTAATGATAATCTGCCGCAGGCTAGAGGTAAGAGATCGAATAGATGTAATCTG
*
44002723 TCCTAGGCTCGGG
66 TCCTAGGCTCAGG
44002736 GTAAGAGATTA
1 GTAAGAGATTA
44002747 ACCGATGATC
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
78 70 0.93
79 4 0.05
80 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.26
Consensus pattern (78 bp):
GTAAGAGATTAGCTAATGATAATCTGCCGCAGGCTAGAGGTAAGAGATCGAATAGATGTAATCTG
TCCTAGGCTCAGG
Found at i:44003072 original size:49 final size:49
Alignment explanation
Indices: 44003016--44003120 Score: 131
Period size: 49 Copynumber: 2.1 Consensus size: 49
44003006 TTGCGGTTGT
* * *
44003016 AACCTTTCCCTCCATATCTTT-GTGGTACTAGATTTGCCGTTGCAACTTA
1 AACCTTTCCCTCCAT-TCTTTCGAGGTACAAGATTCGCCGTTGCAACTTA
* * * *
44003065 AATCTTTCCCTTCATTCTTTCGAGGTACAAGGTTCGCCGTTGCGACTTA
1 AACCTTTCCCTCCATTCTTTCGAGGTACAAGATTCGCCGTTGCAACTTA
44003114 AACCTTT
1 AACCTTT
44003121 TCCTTGGGCA
Statistics
Matches: 47, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 5 0.11
49 42 0.89
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.38
Consensus pattern (49 bp):
AACCTTTCCCTCCATTCTTTCGAGGTACAAGATTCGCCGTTGCAACTTA
Found at i:44003375 original size:97 final size:98
Alignment explanation
Indices: 44003134--44003409 Score: 385
Period size: 97 Copynumber: 2.8 Consensus size: 98
44003124 TTGGGCATTG
* * * *
44003134 GATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTTTGAGGTATAGGGCTCGTCGTTGCGAC
1 GATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGC-TTTGAGGTATAAGGTTCGCCATTGCGAC
* *
44003199 TTAAACCTTTCCCTTTTGTGTCTTCATGGTACTG
65 TTAAACTTTTCCCTTTTGTGTCTTCATGGTACTA
* * * *
44003233 GATTCACTGTCGCGGCTTAAATCTTTCCCTTCATGTCATTGAGGTATAAGGTTCGCCATTGCGAC
1 GATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATG-CTTTGAGGTATAAGGTTCGCCATTGCGAC
* *
44003298 TTAAACTTTTCTC-TTT-TGTCTTCGTGGTACTA
65 TTAAACTTTTCCCTTTTGTGTCTTCATGGTACTA
*
44003330 GATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTAAGGTATAAGGTTCGCCATTGCGAC
1 GATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTT-TGAGGTATAAGGTTCGCCATTGCGAC
44003395 TTAAACCTTTTCCCT
65 TTAAA-CTTTTCCCT
44003410 GTGGTACTGG
Statistics
Matches: 155, Mismatches: 18, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
96 2 0.01
97 76 0.49
98 10 0.06
99 66 0.43
100 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.39
Consensus pattern (98 bp):
GATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTTGAGGTATAAGGTTCGCCATTGCGACT
TAAACTTTTCCCTTTTGTGTCTTCATGGTACTA
Found at i:44003392 original size:49 final size:50
Alignment explanation
Indices: 44003136--44003409 Score: 201
Period size: 49 Copynumber: 5.6 Consensus size: 50
44003126 GGGCATTGGA
* * * *
44003136 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATG-CTTTTGAGGTATAGGG
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTCATGTCTTCTAAGGTATAAGG
* * * ** *
44003185 CTCGTCGTTGCGACTTAAACCTTTCCCTTTTGTGTCTTC-ATGGTACT--GG
1 TTCGCCGTTGCGACTTAAATCTTTCCC-TTCATGTCTTCTAAGGTA-TAAGG
* * * * * *
44003234 ATTCACTGTCGCGGCTTAAATCTTTCCCTTCATGTCAT-TGAGGTATAAGG
1 -TTCGCCGTTGCGACTTAAATCTTTCCCTTCATGTCTTCTAAGGTATAAGG
* * * *
44003284 TTCGCCATTGCGACTTAAA-CTTTTCTCTT-TTGTCTTCGT--GGTACT-AGA
1 TTCGCCGTTGCGACTTAAATC-TTTCCCTTCATGTCTTC-TAAGGTA-TAAGG
*
44003332 TTCGCCGTTGCGGCTTAAATCTTTCCCTTCATG-CTTCTAAGGTATAAGG
1 TTCGCCGTTGCGACTTAAATCTTTCCCTTCATGTCTTCTAAGGTATAAGG
* *
44003381 TTCGCCATTGCGACTTAAACCTTTTCCCT
1 TTCGCCGTTGCGACTTAAATC-TTTCCCT
44003410 GTGGTACTGG
Statistics
Matches: 170, Mismatches: 38, Indels: 33
0.71 0.16 0.14
Matches are distributed among these distances:
47 1 0.01
48 42 0.25
49 85 0.50
50 38 0.22
51 4 0.02
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (50 bp):
TTCGCCGTTGCGACTTAAATCTTTCCCTTCATGTCTTCTAAGGTATAAGG
Found at i:44003394 original size:196 final size:188
Alignment explanation
Indices: 44003061--44003409 Score: 477
Period size: 196 Copynumber: 1.8 Consensus size: 188
44003051 GCCGTTGCAA
* *
44003061 CTTAAATCTTTCCCTTCATTCTTTCGAGGTACAAGGTTCGCCGTTGCGACTTAAACCTTTTCCTT
1 CTTAAATCTTTCCCTTCATTCATTCGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTTCCTT
* * * * * *
44003126 GGGCATTGGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTTTGAGGTATAGGGCTCGTC
66 GGGCACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTAAGGTATAAGGCTCGCC
*
44003191 GTTGCGACTTAAACC-TTTCCCTTTTGTGTCTTCATGGTACTGGATTCACTGTCGCGG
131 ATTGCGACTTAAACCTTTTCCCTTTTGTGTCTTCATGGTACTGGATTCACTGTCGCGG
*
44003248 CTTAAATCTTTCCCTTCATGTCATT-GAGGTATAAGGTTCGCCATTGCGACTTAAACTTTTCTCT
1 CTTAAATCTTTCCCTTCAT-TCATTCGAGGTACAAGGTTCGCCATTGCGACTTAAA-----C-CT
* *
44003312 TTTGTCTTCGTGGTACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTAAGGTAT
59 TTT-CCTT-G-GGCACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTAAGGTAT
*
44003377 AAGGTTCGCCATTGCGACTTAAACCTTTTCCCT
121 AAGGCTCGCCATTGCGACTTAAACCTTTTCCCT
44003410 GTGGTACTGG
Statistics
Matches: 138, Mismatches: 13, Indels: 12
0.85 0.08 0.07
Matches are distributed among these distances:
187 47 0.34
188 4 0.03
192 1 0.01
193 5 0.04
194 3 0.02
195 1 0.01
196 70 0.51
197 7 0.05
ACGTcount: A:0.17, C:0.25, G:0.19, T:0.39
Consensus pattern (188 bp):
CTTAAATCTTTCCCTTCATTCATTCGAGGTACAAGGTTCGCCATTGCGACTTAAACCTTTTCCTT
GGGCACTAGATTCGCCGTTGCGGCTTAAATCTTTCCCTTCATGCTTCTAAGGTATAAGGCTCGCC
ATTGCGACTTAAACCTTTTCCCTTTTGTGTCTTCATGGTACTGGATTCACTGTCGCGG
Found at i:44004525 original size:17 final size:17
Alignment explanation
Indices: 44004505--44004538 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44004495 CGACCTCTTC
44004505 TTTTTCTTTTCTTTTTT
1 TTTTTCTTTTCTTTTTT
*
44004522 TTTTTTTTTTCTTTTTT
1 TTTTTCTTTTCTTTTTT
44004539 GGGTAAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (17 bp):
TTTTTCTTTTCTTTTTT
Found at i:44011361 original size:26 final size:26
Alignment explanation
Indices: 44011312--44011362 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
44011302 TCACGTGGCA
* **
44011312 CTGACGTGGATGTGATGATGTGGTAG
1 CTGACGTGGACGTGATGACATGGTAG
*
44011338 CTGATGTGGACGTGATGACATGGTA
1 CTGACGTGGACGTGATGACATGGTA
44011363 ACTTAGGCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.22, C:0.10, G:0.39, T:0.29
Consensus pattern (26 bp):
CTGACGTGGACGTGATGACATGGTAG
Found at i:44011502 original size:17 final size:17
Alignment explanation
Indices: 44011480--44011565 Score: 84
Period size: 17 Copynumber: 5.1 Consensus size: 17
44011470 ATTAAACTTT
44011480 TAAATTTAAATTTAAAA
1 TAAATTTAAATTTAAAA
* **
44011497 TAAATTTAAACTCCAAA
1 TAAATTTAAATTTAAAA
** *
44011514 TAAGCTTAAATTTATAA
1 TAAATTTAAATTTAAAA
*
44011531 TAAATTTAAAATTAAAA
1 TAAATTTAAATTTAAAA
*
44011548 TGAA-TTAAGATTTAAAA
1 TAAATTTAA-ATTTAAAA
44011565 T
1 T
44011566 CTAAAGTTTT
Statistics
Matches: 53, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
16 4 0.08
17 49 0.92
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (17 bp):
TAAATTTAAATTTAAAA
Found at i:44019774 original size:18 final size:19
Alignment explanation
Indices: 44019751--44019789 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
44019741 TTTGTTTTTT
44019751 TTATT-AATTTACAATT-TA
1 TTATTAAATTTA-AATTGTA
44019769 TTATTAAATTTAAATTGTA
1 TTATTAAATTTAAATTGTA
44019788 TT
1 TT
44019790 TATTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (19 bp):
TTATTAAATTTAAATTGTA
Found at i:44030059 original size:14 final size:15
Alignment explanation
Indices: 44030040--44030070 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
44030030 TGATTTGAAA
44030040 TTTGTAAATGGA-TT
1 TTTGTAAATGGACTT
44030054 TTTGTAAATGGACTT
1 TTTGTAAATGGACTT
44030069 TT
1 TT
44030071 AAGTAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (15 bp):
TTTGTAAATGGACTT
Found at i:44030538 original size:97 final size:97
Alignment explanation
Indices: 44030404--44030651 Score: 318
Period size: 97 Copynumber: 2.5 Consensus size: 97
44030394 TGAAAATATC
* ** *
44030404 CCCTTCA-TGTCTAAGGTACAAGGTTCATCGTTATGGCTTAAACCTTTCCCTTGACATCTTCGTG
1 CCCTTCATTCTCTAAGGTACAAGGTTCGCCGTTGTGGCTTAAACCTTTCCCTTGACATCTTCGTG
* *
44030468 GTATTGGATTCACCGTTGCGACTTAAATCCTT
66 GTACTGGATTCACCATTGCGACTTAAATCCTT
*
44030500 CCCTTCATTTTCTAAGGTACAAGGTTCGCCGTTGTGGCTTAAACCTTTCCCTTGACATCTTCGTG
1 CCCTTCATTCTCTAAGGTACAAGGTTCGCCGTTGTGGCTTAAACCTTTCCCTTGACATCTTCGTG
* * *
44030565 GTACTGGATTCTCCATTGCGGCTTAAATCTTT
66 GTACTGGATTCACCATTGCGACTTAAATCCTT
* * * * ** *
44030597 CCCTTCATGTCCCCTGAGGTATAAGGTTCGCCATTGCAGCTTAAATCTTTCCCTT
1 CCCTTCAT-T-CTCTAAGGTACAAGGTTCGCCGTTGTGGCTTAAACCTTTCCCTT
44030652 CATGCTTCAT
Statistics
Matches: 132, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
96 7 0.05
97 88 0.67
98 1 0.01
99 36 0.27
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.37
Consensus pattern (97 bp):
CCCTTCATTCTCTAAGGTACAAGGTTCGCCGTTGTGGCTTAAACCTTTCCCTTGACATCTTCGTG
GTACTGGATTCACCATTGCGACTTAAATCCTT
Found at i:44030590 original size:49 final size:49
Alignment explanation
Indices: 44030438--44030601 Score: 176
Period size: 49 Copynumber: 3.4 Consensus size: 49
44030428 TCATCGTTAT
*
44030438 GGCTTAAACCTTTCCCTTGACATCTTCGTGGTATTGGATTCACCGTTGC
1 GGCTTAAACCTTTCCCTTGACATCTTCGTGGTACTGGATTCACCGTTGC
* * * * *
44030487 GACTTAAATCC-TTCCCTT--CATTTTC-TAAGGTACAAGG-TTCGCCGTTGT
1 GGCTTAAA-CCTTTCCCTTGACATCTTCGT--GGTAC-TGGATTCACCGTTGC
* *
44030535 GGCTTAAACCTTTCCCTTGACATCTTCGTGGTACTGGATTCTCCATTGC
1 GGCTTAAACCTTTCCCTTGACATCTTCGTGGTACTGGATTCACCGTTGC
*
44030584 GGCTTAAATCTTTCCCTT
1 GGCTTAAACCTTTCCCTT
44030602 CATGTCCCCT
Statistics
Matches: 93, Mismatches: 13, Indels: 18
0.75 0.10 0.15
Matches are distributed among these distances:
46 1 0.01
47 8 0.09
48 29 0.31
49 46 0.49
50 8 0.09
51 1 0.01
ACGTcount: A:0.18, C:0.27, G:0.18, T:0.38
Consensus pattern (49 bp):
GGCTTAAACCTTTCCCTTGACATCTTCGTGGTACTGGATTCACCGTTGC
Found at i:44040906 original size:24 final size:24
Alignment explanation
Indices: 44040869--44040916 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
44040859 CCTAATGAAA
* * *
44040869 ACAATGCAATTGTTGAAACTAAAG
1 ACAATGCAAATGTTAAAAATAAAG
*
44040893 ACAATGGAAATGTTAAAAATAAAG
1 ACAATGCAAATGTTAAAAATAAAG
44040917 TCTCACTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.52, C:0.08, G:0.17, T:0.23
Consensus pattern (24 bp):
ACAATGCAAATGTTAAAAATAAAG
Found at i:44045594 original size:24 final size:23
Alignment explanation
Indices: 44045561--44045619 Score: 59
Period size: 24 Copynumber: 2.6 Consensus size: 23
44045551 TCAAGTGAGA
*
44045561 CTTTATTTTCATCATTTCCATTGT
1 CTTTA-TTTCATCAATTCCATTGT
* *
44045585 CTTTAGTTTCAACAATTGCATTGT
1 CTTTA-TTTCATCAATTCCATTGT
44045609 -TTT-TTTCATCA
1 CTTTATTTCATCA
44045620 GGTGTATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 7 0.23
23 3 0.10
24 20 0.67
ACGTcount: A:0.20, C:0.19, G:0.07, T:0.54
Consensus pattern (23 bp):
CTTTATTTCATCAATTCCATTGT
Found at i:44045738 original size:35 final size:35
Alignment explanation
Indices: 44045687--44045757 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
44045677 TATTTGAGAA
*
44045687 TGGATTGATCTTTTTGTTATTTTTGAACTGAAGAT
1 TGGAGTGATCTTTTTGTTATTTTTGAACTGAAGAT
44045722 TGGAGTGATCTTTTTGTTATTTTTGAACTGAAGAT
1 TGGAGTGATCTTTTTGTTATTTTTGAACTGAAGAT
44045757 T
1 T
44045758 ACAACATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.23, C:0.06, G:0.21, T:0.51
Consensus pattern (35 bp):
TGGAGTGATCTTTTTGTTATTTTTGAACTGAAGAT
Found at i:44051124 original size:21 final size:22
Alignment explanation
Indices: 44051096--44051152 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
44051086 ATTTAATTTA
44051096 ATAA-TAATTAAAATATTT-TT
1 ATAATTAATTAAAATATTTATT
*
44051116 ATAATTAATGAAAA-ATTTATT
1 ATAATTAATTAAAATATTTATT
**
44051137 ATTTTTAATTACAAAT
1 ATAATTAATTA-AAAT
44051153 TATTGAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
20 8 0.28
21 18 0.62
22 3 0.10
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (22 bp):
ATAATTAATTAAAATATTTATT
Found at i:44052777 original size:10 final size:10
Alignment explanation
Indices: 44052714--44052805 Score: 50
Period size: 10 Copynumber: 9.4 Consensus size: 10
44052704 CTACATCATC
44052714 AATTATTTAA
1 AATTATTTAA
*
44052724 AATT-TGTAA
1 AATTATTTAA
**
44052733 AAGAATTTAAA
1 AATTATTT-AA
*
44052744 AATTATATAGA
1 AATTATTTA-A
**
44052755 AATTTATAGAA
1 AA-TTATTTAA
44052766 AATTATTTAA
1 AATTATTTAA
44052776 AATTA---AA
1 AATTATTTAA
*
44052783 AA-AATTTAA
1 AATTATTTAA
*
44052792 AAGTATTTAA
1 AATTATTTAA
44052802 AATT
1 AATT
44052806 CAAATATATA
Statistics
Matches: 61, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
6 1 0.02
7 4 0.07
9 10 0.16
10 27 0.44
11 13 0.21
12 6 0.10
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (10 bp):
AATTATTTAA
Found at i:44055699 original size:16 final size:15
Alignment explanation
Indices: 44055663--44055720 Score: 53
Period size: 16 Copynumber: 3.7 Consensus size: 15
44055653 TACTTTATGT
44055663 AATTAATGTAAAATAA
1 AATTAAT-TAAAATAA
* *
44055679 CATTATTTAAAATAA
1 AATTAATTAAAATAA
*
44055694 TAATTAATTAACTATAA
1 -AATTAATTAA-AATAA
*
44055711 TATTAATTAA
1 AATTAATTAA
44055721 GTGATAATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
15 8 0.24
16 22 0.65
17 4 0.12
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (15 bp):
AATTAATTAAAATAA
Found at i:44056317 original size:21 final size:20
Alignment explanation
Indices: 44056263--44056327 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 20
44056253 TAAAATCGTG
44056263 TTTTTATATTTATTATTAATT
1 TTTTTATATTT-TTATTAATT
*
44056284 GTTATTACT-TTTTTATTAATT
1 -TTTTTA-TATTTTTATTAATT
*
44056305 TTGTTTATATTTTAAATTAATT
1 TT-TTTATATTTT-TATTAATT
44056327 T
1 T
44056328 GAATTAAGTC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 3 0.08
21 16 0.44
22 16 0.44
23 1 0.03
ACGTcount: A:0.28, C:0.02, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTTTATATTTTTATTAATT
Found at i:44056630 original size:22 final size:22
Alignment explanation
Indices: 44056580--44056631 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
44056570 ATATATGATG
**
44056580 TATAAA-ATTAAAATAAAATTA
1 TATAAATATTAAAATAAAACAA
44056601 T-TAAATATTAAAATAAAACAA
1 TATAAATATTAAAATAAAACAA
44056622 TATAAATATT
1 TATAAATATT
44056632 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 4 0.15
21 15 0.56
22 8 0.30
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (22 bp):
TATAAATATTAAAATAAAACAA
Found at i:44057013 original size:90 final size:89
Alignment explanation
Indices: 44056860--44057114 Score: 336
Period size: 90 Copynumber: 2.9 Consensus size: 89
44056850 GGCGACCTCG
* * *
44056860 TTGTTTCGATGAAAGATCCTCCAAGGCTGCCAACTAGTAAAGGTTCACCTGGTCAGATACACCAC
1 TTGTTCCGATGAAAGATCCTCCAAGGCCGCCAACTAGTAAAGGTGCACCTGGTCAGATACACCAC
*
44056925 CCCCCACCACCACCAGGGTCGCCCA
66 CCCCCACCACCACCAGGGTCG-ACA
44056950 TTGTTCCGATGAAAGATCCTCCAAGGCCGCCAACTAGTAAAGGTGCACCTGGTCAGATACACCAC
1 TTGTTCCGATGAAAGATCCTCCAAGGCCGCCAACTAGTAAAGGTGCACCTGGTCAGATACACCAC
*
44057015 CCCCCACCACCACCGGGGTCGACA
66 CCCCCACCACCACCAGGGTCGACA
* * * * * *
44057039 TTTTTCCGATGACAGATCCTCCAATGCCACC-A--AGTAACGGGGTTGCACCTTGTCAGATACAC
1 TTGTTCCGATGAAAGATCCTCCAAGGCCGCCAACTAGTAA--AGG-TGCACCTGGTCAGATACAC
* *
44057101 CACACACCACCACC
63 CACCCCCCACCACC
44057115 GAGATGGGCA
Statistics
Matches: 149, Mismatches: 13, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
86 5 0.03
88 3 0.02
89 59 0.40
90 82 0.55
ACGTcount: A:0.27, C:0.36, G:0.19, T:0.18
Consensus pattern (89 bp):
TTGTTCCGATGAAAGATCCTCCAAGGCCGCCAACTAGTAAAGGTGCACCTGGTCAGATACACCAC
CCCCCACCACCACCAGGGTCGACA
Found at i:44076033 original size:3 final size:3
Alignment explanation
Indices: 44076025--44076074 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
44076015 TCTTGGGTAA
44076025 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
44076073 AA
1 AA
44076075 CTTTTTTATG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:44076292 original size:16 final size:16
Alignment explanation
Indices: 44076264--44076296 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
44076254 TTTAAACCTT
44076264 TTTAAGATTTTAAAAA
1 TTTAAGATTTTAAAAA
44076280 TTTAA-ATTATTAAAAA
1 TTTAAGATT-TTAAAAA
44076296 T
1 T
44076297 AAAATTGTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 3 0.19
16 13 0.81
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
TTTAAGATTTTAAAAA
Found at i:44076356 original size:21 final size:22
Alignment explanation
Indices: 44076327--44076389 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 22
44076317 ATAAAAATGA
44076327 TAAAATTTTAATTTAATTTT-T
1 TAAAATTTTAATTTAATTTTGT
* * *
44076348 TAAATTTTTATTTTTATTATTGT
1 TAAAATTTTAATTTAATT-TTGT
* *
44076371 AAAAATTATAATTTAATTT
1 TAAAATTTTAATTTAATTT
44076390 CGACTCTCTT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
21 15 0.47
22 3 0.09
23 14 0.44
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
TAAAATTTTAATTTAATTTTGT
Found at i:44077236 original size:12 final size:11
Alignment explanation
Indices: 44077217--44077259 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
44077207 TGCTACTATC
44077217 TTTTATTTTAA
1 TTTTATTTTAA
*
44077228 TTGTTATTTTTA
1 TT-TTATTTTAA
*
44077240 TTATATTTTAA
1 TTTTATTTTAA
44077251 TTTTTATTT
1 -TTTTATTT
44077260 GATTGAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (11 bp):
TTTTATTTTAA
Found at i:44077947 original size:6 final size:6
Alignment explanation
Indices: 44077936--44077962 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
44077926 TAGGGACAGA
44077936 TGGTAT TGGTAT TGGTAT TGGTAT TGG
1 TGGTAT TGGTAT TGGTAT TGGTAT TGG
44077963 ATCACGAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.37, T:0.48
Consensus pattern (6 bp):
TGGTAT
Found at i:44078966 original size:6 final size:6
Alignment explanation
Indices: 44078955--44078984 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
44078945 AGGGAAGTAC
44078955 AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA
44078985 TGAAAGCATG
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:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:44085041 original size:27 final size:27
Alignment explanation
Indices: 44084993--44085044 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
44084983 AATTTGAATT
44084993 ATTTATTTAAATATAAATATAAATATA
1 ATTTATTTAAATATAAATATAAATATA
* *
44085020 ATTTATTTTTAATATTAA-ATAAATA
1 ATTTA-TTTAAATATAAATATAAATA
44085045 GCGAATTCTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
ATTTATTTAAATATAAATATAAATATA
Found at i:44092712 original size:22 final size:22
Alignment explanation
Indices: 44092687--44092729 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
44092677 TATTCAAACA
44092687 ATAATAATAAAATAGTAGCAAC
1 ATAATAATAAAATAGTAGCAAC
* * *
44092709 ATAATAGTGAAATTGTAGCAA
1 ATAATAATAAAATAGTAGCAA
44092730 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (22 bp):
ATAATAATAAAATAGTAGCAAC
Found at i:44093845 original size:17 final size:17
Alignment explanation
Indices: 44093811--44093885 Score: 91
Period size: 17 Copynumber: 4.4 Consensus size: 17
44093801 TTTAATTTGG
*
44093811 ATTTAAATTGAT-TTAA
1 ATTTAAATTTATCTTAA
44093827 ATTTAAATTTATCTTAA
1 ATTTAAATTTATCTTAA
44093844 ATTTAAATTTA-CTTTAA
1 ATTTAAATTTATC-TTAA
**
44093861 ATTTAAATTTAAATTAAA
1 ATTTAAATTTATCTT-AA
44093879 ATTTAAA
1 ATTTAAA
44093886 CAATAAACAT
Statistics
Matches: 53, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
16 12 0.23
17 32 0.60
18 9 0.17
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (17 bp):
ATTTAAATTTATCTTAA
Found at i:44093851 original size:23 final size:22
Alignment explanation
Indices: 44093821--44093883 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 22
44093811 ATTTAAATTG
44093821 ATTTAAATTTAAATTTATCTTAA
1 ATTTAAATTTAAATTTAT-TTAA
*
44093844 ATTTAAATTT-ACTTTAAATTTAA
1 ATTTAAATTTAAATTT--ATTTAA
*
44093867 ATTTAAATTAAAATTTA
1 ATTTAAATTTAAATTTA
44093884 AACAATAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
22 5 0.15
23 23 0.68
24 6 0.18
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTTAAATTTAAATTTATTTAA
Found at i:44093877 original size:5 final size:6
Alignment explanation
Indices: 44093821--44093885 Score: 82
Period size: 6 Copynumber: 11.2 Consensus size: 6
44093811 ATTTAAATTG
*
44093821 ATTTAA ATTTAA ATTT-- ATCTTAA ATTTAA ATTT-A CTTTAA ATTTAA
1 ATTTAA ATTTAA ATTTAA AT-TTAA ATTTAA ATTTAA ATTTAA ATTTAA
*
44093867 ATTTAA ATTAAA ATTTAA A
1 ATTTAA ATTTAA ATTTAA A
44093886 CAATAAACAT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
4 2 0.04
5 6 0.12
6 41 0.80
7 2 0.04
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (6 bp):
ATTTAA
Found at i:44095710 original size:30 final size:30
Alignment explanation
Indices: 44095674--44095736 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
44095664 AAATTGTCCA
*
44095674 AAAATTATATTTTGACCCCAAAACTTTTCT
1 AAAATTACATTTTGACCCCAAAACTTTTCT
44095704 AAAATTACATTTTGACCCCAAAACTTTTCT
1 AAAATTACATTTTGACCCCAAAACTTTTCT
44095734 AAA
1 AAA
44095737 TCCCATTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.40, C:0.21, G:0.03, T:0.37
Consensus pattern (30 bp):
AAAATTACATTTTGACCCCAAAACTTTTCT
Found at i:44095750 original size:29 final size:30
Alignment explanation
Indices: 44095688--44095751 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
44095678 TTATATTTTG
* **
44095688 ACCCCAAAACTTTTCTAAAATTACATTTTG
1 ACCCCAAAACTTTTCTAAAATCACATTTAA
*
44095718 ACCCCAAAACTTTTCT-AAATCCCATTTAA
1 ACCCCAAAACTTTTCTAAAATCACATTTAA
44095747 ACCCC
1 ACCCC
44095752 GATTTCACCA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.36, C:0.31, G:0.02, T:0.31
Consensus pattern (30 bp):
ACCCCAAAACTTTTCTAAAATCACATTTAA
Found at i:44095780 original size:29 final size:30
Alignment explanation
Indices: 44095747--44095892 Score: 124
Period size: 29 Copynumber: 5.0 Consensus size: 30
44095737 TCCCATTTAA
44095747 ACCCCGATTTCACCAAAAATTACCATTTTT
1 ACCCCGATTTCACCAAAAATTACCATTTTT
* * ****
44095777 CCCCCGA-ATCTTTTAAAATT-CCATTTTT
1 ACCCCGATTTCACCAAAAATTACCATTTTT
44095805 AACCCCGATTTCACCAAAAATTACCA-TTTT
1 -ACCCCGATTTCACCAAAAATTACCATTTTT
** ** *
44095835 ACCCCCGA-AGCTTCTAAAATT-CCATTTTT
1 A-CCCCGATTTCACCAAAAATTACCATTTTT
44095864 AACCCCGATTTCACC-AAAATTACCATTTT
1 -ACCCCGATTTCACCAAAAATTACCATTTT
44095893 GCCCCCCGGG
Statistics
Matches: 87, Mismatches: 21, Indels: 16
0.70 0.17 0.13
Matches are distributed among these distances:
28 11 0.13
29 39 0.45
30 34 0.39
31 3 0.03
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (30 bp):
ACCCCGATTTCACCAAAAATTACCATTTTT
Found at i:44095790 original size:59 final size:60
Alignment explanation
Indices: 44095704--44095898 Score: 258
Period size: 59 Copynumber: 3.3 Consensus size: 60
44095694 AAACTTTTCT
* * * *
44095704 AAAATTA-CATTTTGACCCCAAAACTTTTCTAAATCCCA-TTTAAACCCCGATTTCACCA
1 AAAATTACCATTTTGCCCCCGAAACTTTTCTAAATTCCATTTTTAACCCCGATTTCACCA
* * *
44095762 AAAATTACCATTTTTCCCCCGAATCTTTT-AAAATTCCATTTTTAACCCCGATTTCACCA
1 AAAATTACCATTTTGCCCCCGAAACTTTTCTAAATTCCATTTTTAACCCCGATTTCACCA
* *
44095821 AAAATTACCATTTTACCCCCGAAGC--TTCTAAAATTCCATTTTTAACCCCGATTTCACC-
1 AAAATTACCATTTTGCCCCCGAAACTTTTCT-AAATTCCATTTTTAACCCCGATTTCACCA
44095879 AAAATTACCATTTTGCCCCC
1 AAAATTACCATTTTGCCCCC
44095899 CGGGTATCCA
Statistics
Matches: 122, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
57 2 0.02
58 33 0.27
59 87 0.71
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.33
Consensus pattern (60 bp):
AAAATTACCATTTTGCCCCCGAAACTTTTCTAAATTCCATTTTTAACCCCGATTTCACCA
Found at i:44095900 original size:59 final size:59
Alignment explanation
Indices: 44095730--44095898 Score: 263
Period size: 59 Copynumber: 2.9 Consensus size: 59
44095720 CCCAAAACTT
* * * *
44095730 TTCT-AAATCCCA-TTTAAACCCCGATTTCACCAAAAATTACCATTTTTCCCCCGAATC
1 TTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAAGC
*
44095787 TTTTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAAGC
1 TTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAAGC
*
44095846 TTCTAAAATTCCATTTTTAACCCCGATTTCACC-AAAATTACCATTTTGCCCCC
1 TTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCC
44095899 CGGGTATCCA
Statistics
Matches: 103, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
57 3 0.03
58 26 0.25
59 74 0.72
ACGTcount: A:0.31, C:0.31, G:0.04, T:0.34
Consensus pattern (59 bp):
TTCTAAAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAAGC
Found at i:44095922 original size:59 final size:58
Alignment explanation
Indices: 44095734--44095935 Score: 221
Period size: 59 Copynumber: 3.4 Consensus size: 58
44095724 AAACTTTTCT
* * * **
44095734 AAATCCCA-TTTAAACCCCGATTTCACCAAAAATTACCATTTTTCCCCCGAATCTTTTA
1 AAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCG-AGCTTCCA
* *
44095792 AAATTCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAAGCTTCTA
1 AAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCG-AGCTTCCA
* * *
44095851 AAATTCCATTTTTAACCCCGATTTCACC-AAAATTACCATTTTGCCCCCCG-GGTATCCA
1 AAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTT-ACCCCCGAGCT-TCCA
* * *
44095909 TAAGTCCCGTTTTTCACCCCGATTTCA
1 -AAATCCCATTTTTAACCCCGATTTCA
44095936 TCATTTATCA
Statistics
Matches: 128, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
57 2 0.02
58 24 0.19
59 102 0.80
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.33
Consensus pattern (58 bp):
AAATCCCATTTTTAACCCCGATTTCACCAAAAATTACCATTTTACCCCCGAGCTTCCA
Found at i:44097909 original size:18 final size:20
Alignment explanation
Indices: 44097886--44097932 Score: 64
Period size: 17 Copynumber: 2.5 Consensus size: 20
44097876 CTTGTCAACA
44097886 ATTTTTTAATTT-TT-TTAT
1 ATTTTTTAATTTATTGTTAT
44097904 A-TTTTTAGATTTATTGTTAT
1 ATTTTTTA-ATTTATTGTTAT
44097924 ATTTTTTAA
1 ATTTTTTAA
44097933 AAAATAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.24
18 5 0.20
19 2 0.08
20 6 0.24
21 6 0.24
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (20 bp):
ATTTTTTAATTTATTGTTAT
Found at i:44097925 original size:20 final size:17
Alignment explanation
Indices: 44097888--44097929 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 17
44097878 TGTCAACAAT
44097888 TTTTTAATTTTTTTATA
1 TTTTTAATTTTTTTATA
44097905 TTTTTAGATTTATTGTTATA
1 TTTTTA-ATTT-TT-TTATA
44097925 TTTTT
1 TTTTT
44097930 TAAAAAATAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 6 0.27
18 4 0.18
19 2 0.09
20 10 0.45
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (17 bp):
TTTTTAATTTTTTTATA
Found at i:44103225 original size:31 final size:33
Alignment explanation
Indices: 44103185--44103245 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 33
44103175 GTTATTTTTT
44103185 ATAAATTTTT-TATTTTAAA-ATAATTTTTAGA
1 ATAAATTTTTGTATTTTAAATATAATTTTTAGA
* * *
44103216 ATAATTTTTTGTTTTTTAAATATATTTTTT
1 ATAAATTTTTGTATTTTAAATATAATTTTT
44103246 TAATTGCCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 9 0.36
32 8 0.32
33 8 0.32
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (33 bp):
ATAAATTTTTGTATTTTAAATATAATTTTTAGA
Found at i:44103233 original size:20 final size:20
Alignment explanation
Indices: 44103208--44103245 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
44103198 TTTAAAATAA
44103208 TTTTTAGAATA-ATTTTTTGT
1 TTTTTA-AATATATTTTTTGT
44103228 TTTTTAAATATATTTTTT
1 TTTTTAAATATATTTTTT
44103246 TAATTGCCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTTAAATATATTTTTTGT
Found at i:44107519 original size:19 final size:19
Alignment explanation
Indices: 44107496--44107549 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
44107486 AAATTACAAA
*
44107496 AAAAATTCAAAATAATTTTT
1 AAAAATTCAAAAT-ATTTAT
*
44107516 AAAAA-TAAAAATATTTAT
1 AAAAATTCAAAATATTTAT
44107534 AAAAATTCAAAA-ATTT
1 AAAAATTCAAAATATTT
44107550 TTATTTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 14 0.47
19 11 0.37
20 5 0.17
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTCAAAATATTTAT
Found at i:44107547 original size:20 final size:20
Alignment explanation
Indices: 44107496--44107553 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
44107486 AAATTACAAA
*
44107496 AAAAATTC-AAAATAATTTTT
1 AAAAATTCAAAAAT-ATTTAT
44107516 AAAAA-T-AAAAATATTTAT
1 AAAAATTCAAAAATATTTAT
*
44107534 AAAAATTCAAAAATTTTTAT
1 AAAAATTCAAAAATATTTAT
44107554 TTTTAAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 10 0.30
19 7 0.21
20 16 0.48
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATTCAAAAATATTTAT
Found at i:44114661 original size:16 final size:17
Alignment explanation
Indices: 44114640--44114672 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
44114630 ATTACCTAGT
44114640 CCAAATTT-AACAAAAC
1 CCAAATTTAAACAAAAC
44114656 CCAAATTTAAACAAAAC
1 CCAAATTTAAACAAAAC
44114673 AAAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.58, C:0.24, G:0.00, T:0.18
Consensus pattern (17 bp):
CCAAATTTAAACAAAAC
Found at i:44127755 original size:50 final size:50
Alignment explanation
Indices: 44127675--44127807 Score: 171
Period size: 50 Copynumber: 2.7 Consensus size: 50
44127665 AACGAATCCT
* * *
44127675 ATACCCCTAAAGCTGTAGAGGAGC-GAATTGAAGCTGCAATGACAAATCTC
1 ATACACCTAAAGCTGTAGAGGGGCAG-ATTGAAGCCGCAATGACAAATCTC
* *
44127725 ATACACCTAAAGCTGTAGAGGGGCAGATTGAAGCCGCATTGGCAAATCTC
1 ATACACCTAAAGCTGTAGAGGGGCAGATTGAAGCCGCAATGACAAATCTC
* *
44127775 A-ATCACCTAAAACTGTAGAGGGGCAGAGTGAAG
1 ATA-CACCTAAAGCTGTAGAGGGGCAGATTGAAG
44127808 TCGTAAGGAC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
49 1 0.01
50 72 0.97
51 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.26, T:0.19
Consensus pattern (50 bp):
ATACACCTAAAGCTGTAGAGGGGCAGATTGAAGCCGCAATGACAAATCTC
Found at i:44128547 original size:16 final size:17
Alignment explanation
Indices: 44128526--44128557 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
44128516 ATTACCTAGC
44128526 CCAAATTT-AACAAAAT
1 CCAAATTTAAACAAAAT
44128542 CCAAATTTAAACAAAA
1 CCAAATTTAAACAAAA
44128558 CAAAAAACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.59, C:0.19, G:0.00, T:0.22
Consensus pattern (17 bp):
CCAAATTTAAACAAAAT
Found at i:44137561 original size:9 final size:9
Alignment explanation
Indices: 44137550--44137606 Score: 96
Period size: 9 Copynumber: 6.3 Consensus size: 9
44137540 CCCAAAAACT
*
44137550 TTCATCACT
1 TTCATCACC
44137559 TTCATCACC
1 TTCATCACC
44137568 TTCATCACC
1 TTCATCACC
44137577 TTCATCACC
1 TTCATCACC
44137586 TTCATCACC
1 TTCATCACC
*
44137595 TTCATCATC
1 TTCATCACC
44137604 TTC
1 TTC
44137607 TCCAAACATG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.21, C:0.40, G:0.00, T:0.39
Consensus pattern (9 bp):
TTCATCACC
Found at i:44150936 original size:41 final size:41
Alignment explanation
Indices: 44150872--44151028 Score: 190
Period size: 41 Copynumber: 3.8 Consensus size: 41
44150862 TATAATTTAT
** *
44150872 CTGATTCAATAAACCGGCATGAAGCCTGCTAGGCTCAAGGC
1 CTGATTCAATTCACCAGCATGAAGCCTGCTAGGCTCAAGGC
*
44150913 CTGATTCAATTCACCAGCTTGAAGCCTGCTAGGCTCAAGGC
1 CTGATTCAATTCACCAGCATGAAGCCTGCTAGGCTCAAGGC
* * * *
44150954 CTTATTCAATTCACC-GACTTGAAGCCTGCTAGGCACAAAGC
1 CTGATTCAATTCACCAG-CATGAAGCCTGCTAGGCTCAAGGC
* * * *
44150995 TTGAATCAATGCACCAGCATGAAGTCTGCTAGGC
1 CTGATTCAATTCACCAGCATGAAGCCTGCTAGGC
44151029 ACAAAGCTTG
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 1 0.01
41 99 0.98
42 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (41 bp):
CTGATTCAATTCACCAGCATGAAGCCTGCTAGGCTCAAGGC
Found at i:44150997 original size:23 final size:22
Alignment explanation
Indices: 44150971--44151039 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 22
44150961 AATTCACCGA
44150971 CTTGAAGCCTGCTAGGCACAAAG
1 CTTGAAG-CTGCTAGGCACAAAG
* * *
44150994 CTTGAA--T-CAATGCAC-CAG
1 CTTGAAGCTGCTAGGCACAAAG
*
44151012 CATGAAGTCTGCTAGGCACAAAG
1 CTTGAAG-CTGCTAGGCACAAAG
44151035 CTTGA
1 CTTGA
44151040 TAATACGCTG
Statistics
Matches: 33, Mismatches: 8, Indels: 10
0.65 0.16 0.20
Matches are distributed among these distances:
18 7 0.21
19 6 0.18
20 1 0.03
21 1 0.03
22 6 0.18
23 12 0.36
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (22 bp):
CTTGAAGCTGCTAGGCACAAAG
Found at i:44152057 original size:9 final size:9
Alignment explanation
Indices: 44152043--44152072 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
44152033 ATTCTTTTCC
44152043 TTTTTCCTT
1 TTTTTCCTT
44152052 TTTTTCCTT
1 TTTTTCCTT
44152061 TTTTTCCTT
1 TTTTTCCTT
44152070 TTT
1 TTT
44152073 GTTCTTGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTCCTT
Found at i:44158081 original size:21 final size:22
Alignment explanation
Indices: 44158043--44158092 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 22
44158033 AAATTTAGAC
44158043 TTTTTTATGAAAATATATATGA
1 TTTTTTATGAAAATATATATGA
* *
44158065 TTTTTGTATAAAAATATATATTA
1 TTTTT-TATGAAAATATATATGA
44158088 TTTTT
1 TTTTT
44158093 ATTAATTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (22 bp):
TTTTTTATGAAAATATATATGA
Found at i:44158575 original size:14 final size:16
Alignment explanation
Indices: 44158554--44158593 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
44158544 TAATGAGTTG
44158554 AAATATTTTT-ATA-A
1 AAATATTTTTAATATA
*
44158568 ATATATTTTTAATATA
1 AAATATTTTTAATATA
44158584 AAATATTTTT
1 AAATATTTTT
44158594 GTTTGTGATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 9 0.41
15 3 0.14
16 10 0.45
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AAATATTTTTAATATA
Found at i:44163068 original size:78 final size:81
Alignment explanation
Indices: 44162940--44163093 Score: 199
Period size: 78 Copynumber: 1.9 Consensus size: 81
44162930 TTGGTACTTG
* ** * *
44162940 AACTTGACACTTTTTCTTAATTTGGTACCTAAACTTTTTTTTGCTCCAATTTGGTA-CTCAAACT
1 AACTTGACACTTTTTCTTAAGTTGGTACCTAAACTTTTTTGGGATCCAATTTGATACCT-AAACT
44163004 TGACACTTTTTCACCTA
65 TGACACTTTTTCACCTA
* *
44163021 AACTTGACA-TTTTT-TTAAGTTGGTACTTAAAC-TTTTTGGGATCCAATTTGATACCTGAACTT
1 AACTTGACACTTTTTCTTAAGTTGGTACCTAAACTTTTTTGGGATCCAATTTGATACCTAAACTT
*
44163083 GACTCTTTTTC
66 GACACTTTTTC
44163094 CTAATTTGAT
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
78 32 0.50
79 18 0.28
80 5 0.08
81 9 0.14
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.45
Consensus pattern (81 bp):
AACTTGACACTTTTTCTTAAGTTGGTACCTAAACTTTTTTGGGATCCAATTTGATACCTAAACTT
GACACTTTTTCACCTA
Found at i:44163350 original size:29 final size:28
Alignment explanation
Indices: 44163253--44163354 Score: 100
Period size: 29 Copynumber: 3.5 Consensus size: 28
44163243 ATACAATAAA
*
44163253 TTTAGGTACCAAATTGAATCTAAAAAAAG
1 TTTAGGTACCAAATTGGATC-AAAAAAAG
* *
44163282 CTTAGGTTCCAAATTAGGA--AAAAATGCCAAG
1 TTTAGGTACCAAATT-GGATCAAAAA----AAG
44163313 TTTAGGTACCAAATTGGATTCAAAAAAAG
1 TTTAGGTACCAAATTGGA-TCAAAAAAAG
44163342 TTTAGGTACCAAA
1 TTTAGGTACCAAA
44163355 AATAGGAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
27 5 0.08
29 29 0.48
30 5 0.08
31 16 0.27
33 5 0.08
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.26
Consensus pattern (28 bp):
TTTAGGTACCAAATTGGATCAAAAAAAG
Found at i:44163374 original size:61 final size:59
Alignment explanation
Indices: 44163253--44163434 Score: 238
Period size: 60 Copynumber: 3.0 Consensus size: 59
44163243 ATACAATAAA
* * * *
44163253 TTTAGGTACCAAATTGAATCTAAAAAAAGCTTAGGTTCCAAATTAGGAAAAAATGCCAAG
1 TTTAGGTACCAAATTGAATC-AAAAAAAGTTTAGGTACCAAATTAGGAAAAAGTGTCAAG
* *
44163313 TTTAGGTACCAAATTGGATTCAAAAAAAGTTTAGGTACCAAAAATAGGAAAAAGTGTCAAG
1 TTTAGGTACCAAATT-GAATCAAAAAAAGTTTAGGTACC-AAATTAGGAAAAAGTGTCAAG
* * * *
44163374 TTTAGATACCAAAATGAGTCAAAAACAAGTTTAGGTACCAAATTAAGAAAAAGTGTCAAG
1 TTTAGGTACCAAATTGAATCAAAAA-AAGTTTAGGTACCAAATTAGGAAAAAGTGTCAAG
44163434 T
1 T
44163435 GTCAAGTTCA
Statistics
Matches: 108, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
60 60 0.56
61 48 0.44
ACGTcount: A:0.46, C:0.12, G:0.18, T:0.25
Consensus pattern (59 bp):
TTTAGGTACCAAATTGAATCAAAAAAAGTTTAGGTACCAAATTAGGAAAAAGTGTCAAG
Found at i:44163412 original size:29 final size:29
Alignment explanation
Indices: 44163309--44163415 Score: 103
Period size: 29 Copynumber: 3.6 Consensus size: 29
44163299 GAAAAAATGC
* *
44163309 CAAGTTTAGGTACCAAATTGGATTCAAAAA
1 CAAGTTTAGGTACCAAAAT-GAGTCAAAAA
*
44163339 -AAGTTTAGGTACCAAAAAT-AG-GAAAAA
1 CAAGTTTAGGTACC-AAAATGAGTCAAAAA
*
44163366 GTGTCAAGTTTAGATACCAAAATGAGTCAAAAA
1 ----CAAGTTTAGGTACCAAAATGAGTCAAAAA
44163399 CAAGTTTAGGTACCAAA
1 CAAGTTTAGGTACCAAA
44163416 TTAAGAAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 17
0.73 0.07 0.20
Matches are distributed among these distances:
27 5 0.08
28 1 0.02
29 29 0.46
30 4 0.06
31 5 0.08
32 14 0.22
33 5 0.08
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.23
Consensus pattern (29 bp):
CAAGTTTAGGTACCAAAATGAGTCAAAAA
Found at i:44166434 original size:23 final size:23
Alignment explanation
Indices: 44166411--44166580 Score: 164
Period size: 23 Copynumber: 7.3 Consensus size: 23
44166401 CTAGTGCGCT
*
44166411 CTCTGTTTAGCACTGTGTGTGCT
1 CTCTGTTTAGCACTGTGTGTGCC
*
44166434 CTCTGTTTAGCACTGTGTGTGCT
1 CTCTGTTTAGCACTGTGTGTGCC
* * *
44166457 CTTTGTTCAGCATTGTGTGTGCC
1 CTCTGTTTAGCACTGTGTGTGCC
* *
44166480 CTCTATTTAGCAC-GTTTCGTGCC
1 CTCTGTTTAGCACTGTGT-GTGCC
* *
44166503 CTCTATTCAGCACTGTGTGTGCC
1 CTCTGTTTAGCACTGTGTGTGCC
* *
44166526 CTCTATTATTAGCA-TTTCGTGTGCC
1 CTCT-GT-TTAGCACTGT-GTGTGCC
* * *
44166551 CTCTGATTAGCACTTTGTGTGTC
1 CTCTGTTTAGCACTGTGTGTGCC
44166574 CTCTGTT
1 CTCTGTT
44166581 AAGTACTTTG
Statistics
Matches: 123, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
22 3 0.02
23 95 0.77
24 9 0.07
25 16 0.13
ACGTcount: A:0.11, C:0.25, G:0.22, T:0.42
Consensus pattern (23 bp):
CTCTGTTTAGCACTGTGTGTGCC
Found at i:44166553 original size:71 final size:69
Alignment explanation
Indices: 44166411--44166577 Score: 180
Period size: 71 Copynumber: 2.4 Consensus size: 69
44166401 CTAGTGCGCT
* * * * *
44166411 CTCTGTTTAGCACTGTGTGTGCTCTCTGTTTAGCACTGTGTGTGCTCTTTGTTCAGCATTGTGTG
1 CTCTATTTAGCACTGTGTGTGCCCTCTATTCAGCACTGTGTGTGCTCTTTATTCAGCATTGTGTG
44166476 TGCC
66 TGCC
*
44166480 CTCTATTTAGCAC-GTTTCGTGCCCTCTATTCAGCACTGTGTGTGCCCTCTATTATT-AGCATT-
1 CTCTATTTAGCACTGTGT-GTGCCCTCTATTCAGCACTGTGTGTG--CTCT-TTATTCAGCATTG
44166542 TCGTGTGCC
62 T-GTGTGCC
* *
44166551 CTCTGA-TTAGCACTTTGTGTGTCCTCT
1 CTCT-ATTTAGCACTGTGTGTGCCCTCT
44166578 GTTAAGTACT
Statistics
Matches: 82, Mismatches: 9, Indels: 12
0.80 0.09 0.12
Matches are distributed among these distances:
68 3 0.04
69 35 0.43
70 1 0.01
71 36 0.44
72 7 0.09
ACGTcount: A:0.11, C:0.25, G:0.22, T:0.42
Consensus pattern (69 bp):
CTCTATTTAGCACTGTGTGTGCCCTCTATTCAGCACTGTGTGTGCTCTTTATTCAGCATTGTGTG
TGCC
Found at i:44167313 original size:70 final size:71
Alignment explanation
Indices: 44167194--44167523 Score: 369
Period size: 71 Copynumber: 4.7 Consensus size: 71
44167184 CTTGGATTCA
* * ** *
44167194 TTTCACATTTA-AGTGACTCATGATGCTATAGAGAATCCGTAACAGATGCAGGATC-TAACCATC
1 TTTCAC-TTTACAGTGACTCACGATGCTGTAGAGAATCCACAACAAATGCAGGATCTTAACCATC
* *
44167257 GGACGAA
65 GGACCAT
* * * * * *
44167264 CTTCACATTTA-AGTGACTCACGATGCTGTAGAGAATCTACAACAAATGCAAGATCTTAGCTATT
1 TTTCAC-TTTACAGTGACTCACGATGCTGTAGAGAATCCACAACAAATGCAGGATCTTAACCATC
* *
44167328 GAACCAG
65 GGACCAT
* * * * *
44167335 TTTCACTTTACAATGACTCACGATGTTGTAGAGAATCCACAACATATGCAGGATCTCAACCATCA
1 TTTCACTTTACAGTGACTCACGATGCTGTAGAGAATCCACAACAAATGCAGGATCTTAACCATCG
44167400 GACCAT
66 GACCAT
* * *
44167406 TTTCACTTTACAGTGACTCACGATGCTGTAAAGAATCCACAACAAATGCACGATCTTAGCCATCG
1 TTTCACTTTACAGTGACTCACGATGCTGTAGAGAATCCACAACAAATGCAGGATCTTAACCATCG
*
44167471 GGCCAT
66 GACCAT
* * **
44167477 TTTCACTTTACAGTGACTCATGATGTTGTAGAGAATCCGTAACAAAT
1 TTTCACTTTACAGTGACTCACGATGCTGTAGAGAATCCACAACAAAT
44167524 ACAAGATTTC
Statistics
Matches: 217, Mismatches: 41, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
70 51 0.24
71 166 0.76
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (71 bp):
TTTCACTTTACAGTGACTCACGATGCTGTAGAGAATCCACAACAAATGCAGGATCTTAACCATCG
GACCAT
Found at i:44167549 original size:142 final size:142
Alignment explanation
Indices: 44167194--44167523 Score: 441
Period size: 142 Copynumber: 2.3 Consensus size: 142
44167184 CTTGGATTCA
* * *
44167194 TTTCACATTTA-AGTGACTCATGATGCTATAGAGAATCCGTAACAGATGCAGGATCT-AACCATC
1 TTTCAC-TTTACAGTGACTCATGATGTTGTAGAGAATCCGTAACAAATGCAGGATCTCAACCATC
* * ** * *
44167257 GGACGAACTTCACATTTAAGTGACTCACGATGCTGTAGAGAATCTACAACAAATGCAAGATCTTA
65 AGACCATTTTCACATTTAAGTGACTCACGATGCTGTAAAGAATCCACAACAAATGCAAGATCTTA
* *
44167322 GCTATTGAACCAG
130 GCCATCGAACCAG
* * ** *
44167335 TTTCACTTTACAATGACTCACGATGTTGTAGAGAATCCACAACATATGCAGGATCTCAACCATCA
1 TTTCACTTTACAGTGACTCATGATGTTGTAGAGAATCCGTAACAAATGCAGGATCTCAACCATCA
*
44167400 GACCATTTTCAC-TTTACAGTGACTCACGATGCTGTAAAGAATCCACAACAAATGCACGATCTTA
66 GACCATTTTCACATTTA-AGTGACTCACGATGCTGTAAAGAATCCACAACAAATGCAAGATCTTA
** *
44167464 GCCATCGGGCCAT
130 GCCATCGAACCAG
44167477 TTTCACTTTACAGTGACTCATGATGTTGTAGAGAATCCGTAACAAAT
1 TTTCACTTTACAGTGACTCATGATGTTGTAGAGAATCCGTAACAAAT
44167524 ACAAGATTTC
Statistics
Matches: 162, Mismatches: 24, Indels: 5
0.85 0.13 0.03
Matches are distributed among these distances:
140 4 0.02
141 48 0.30
142 110 0.68
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.27
Consensus pattern (142 bp):
TTTCACTTTACAGTGACTCATGATGTTGTAGAGAATCCGTAACAAATGCAGGATCTCAACCATCA
GACCATTTTCACATTTAAGTGACTCACGATGCTGTAAAGAATCCACAACAAATGCAAGATCTTAG
CCATCGAACCAG
Found at i:44193922 original size:21 final size:21
Alignment explanation
Indices: 44193896--44193941 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
44193886 TAATCACAAC
**
44193896 TTTATCAAAGGAATTCAGTTT
1 TTTATCAAACAAATTCAGTTT
*
44193917 TTTATCAACCAAATTCAGTTT
1 TTTATCAAACAAATTCAGTTT
44193938 TTTA
1 TTTA
44193942 GCTAGACTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.46
Consensus pattern (21 bp):
TTTATCAAACAAATTCAGTTT
Found at i:44197649 original size:28 final size:28
Alignment explanation
Indices: 44197592--44197651 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
44197582 TATGACCATC
*
44197592 ATTTTAAATTAATTTTTAATTTTTAAAAT
1 ATTTTAAATTAATTTTTAATTATT-AAAT
44197621 ATTTT-AATTATATTTTTAAATTATT-AAT
1 ATTTTAAATTA-ATTTTT-AATTATTAAAT
44197649 ATT
1 ATT
44197652 ATATTAATCG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 11 0.39
29 11 0.39
30 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (28 bp):
ATTTTAAATTAATTTTTAATTATTAAAT
Found at i:44197652 original size:22 final size:22
Alignment explanation
Indices: 44197610--44197656 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
44197600 TTAATTTTTA
*
44197610 ATTTTTAAAATATTTTAATTAT
1 ATTTTTAAAATATTATAATTAT
*
44197632 ATTTTTAAATTATTA-ATATTAT
1 ATTTTTAAAATATTATA-ATTAT
44197654 ATT
1 ATT
44197657 AATCGAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTTTAAAATATTATAATTAT
Done.