Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-JGI_221_v2.0
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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 16 of 206
Found at i:4875578 original size:32 final size:32
Alignment explanation
Indices: 4875537--4875605 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
4875527 ACCATAGCAT
* ** *
4875537 ACATGAGAGATCCCATTGGATTAGAGTATGGA
1 ACATGAGAGATCCCACTACACTAGAGTATGGA
4875569 ACATGAGAGATCCCACTACACTAGAGTATGGA
1 ACATGAGAGATCCCACTACACTAGAGTATGGA
4875601 ACATG
1 ACATG
4875606 TGACATGTAC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (32 bp):
ACATGAGAGATCCCACTACACTAGAGTATGGA
Found at i:4884371 original size:21 final size:22
Alignment explanation
Indices: 4884329--4884372 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
4884319 CCATGTACTA
* *
4884329 TTATTCCATGTTTATTATATTG
1 TTATTCCATGTTCATCATATTG
4884351 TTATTCCATG-TCATCATATTG
1 TTATTCCATGTTCATCATATTG
4884372 T
1 T
4884373 AAATTAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.55
Consensus pattern (22 bp):
TTATTCCATGTTCATCATATTG
Found at i:4886261 original size:19 final size:19
Alignment explanation
Indices: 4886237--4886283 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
4886227 AACGTCTTTT
*
4886237 TTTGCATT-CATTTCATACA
1 TTTGCATTACATTGCAT-CA
4886256 TTTGCATTACATTGCATCA
1 TTTGCATTACATTGCATCA
*
4886275 TATGCATTA
1 TTTGCATTA
4886284 GATTTTCACG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.45
Consensus pattern (19 bp):
TTTGCATTACATTGCATCA
Found at i:4890468 original size:45 final size:44
Alignment explanation
Indices: 4890417--4890554 Score: 115
Period size: 45 Copynumber: 3.2 Consensus size: 44
4890407 GTAGAGCTGG
4890417 TTGAAGATAATAGATCTTGCCTTCCTGCATTTACAGCGAAGCAGA
1 TTGAAGATAA-AGATCTTGCCTTCCTGCATTTACAGCGAAGCAGA
* * * ** * *
4890462 TTGAAGA-CAA-ACCTTGCC-TCTCT-CGTTTGTAGC-AGAGCTGG
1 TTGAAGATAAAGATCTTGCCTTC-CTGCATTTACAGCGA-AGCAGA
* *
4890503 TTGAAGATAACAGATCTTGCCTTCCTGCATTGACGGCGAAGCAGA
1 TTGAAGATAA-AGATCTTGCCTTCCTGCATTTACAGCGAAGCAGA
*
4890548 TCGAAGA
1 TTGAAGA
4890555 CAAACCTTGC
Statistics
Matches: 68, Mismatches: 17, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
40 1 0.01
41 20 0.29
42 10 0.15
43 2 0.03
44 10 0.15
45 24 0.35
46 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (44 bp):
TTGAAGATAAAGATCTTGCCTTCCTGCATTTACAGCGAAGCAGA
Found at i:4890480 original size:42 final size:42
Alignment explanation
Indices: 4890432--4890566 Score: 114
Period size: 41 Copynumber: 3.2 Consensus size: 42
4890422 GATAATAGAT
4890432 CTTGCCTTCCTGCATTTACAGCGAAGCAGATTGAAGACAAAC
1 CTTGCCTTCCTGCATTTACAGCGAAGCAGATTGAAGACAAAC
* ** * * * *
4890474 CTTGCC-TCTCT-CGTTTGTAGC-AGAGCTGGTTGAAGATAACAGAT
1 CTTGCCTTC-CTGCATTTACAGCGA-AGCAGATTGAAG---ACAAAC
* * *
4890518 CTTGCCTTCCTGCATTGACGGCGAAGCAGATCGAAGACAAAC
1 CTTGCCTTCCTGCATTTACAGCGAAGCAGATTGAAGACAAAC
4890560 CTTGCCT
1 CTTGCCT
4890567 CTCTCGTTTG
Statistics
Matches: 68, Mismatches: 17, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
40 1 0.01
41 19 0.28
42 19 0.28
44 12 0.18
45 16 0.24
46 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (42 bp):
CTTGCCTTCCTGCATTTACAGCGAAGCAGATTGAAGACAAAC
Found at i:4890524 original size:44 final size:44
Alignment explanation
Indices: 4890388--4890524 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 44
4890378 CGAAACAAAC
* *
4890388 CTTGCCTCTCTCGTTTGTAGTAGAGCTGGTTGAAGATAATAGAT
1 CTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGAT
* ** * * * *
4890432 CTTGCCT-TCCTGCATTTACAGC-GAAGCAGATTGAAG---ACAAAC
1 CTTGCCTCT-CT-CGTTTGTAGCAG-AGCTGGTTGAAGATAACAGAT
4890474 CTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGAT
1 CTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGAT
4890518 CTTGCCT
1 CTTGCCT
4890525 TCCTGCATTG
Statistics
Matches: 69, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
41 17 0.25
42 13 0.19
43 2 0.03
44 21 0.30
45 16 0.23
ACGTcount: A:0.24, C:0.22, G:0.23, T:0.31
Consensus pattern (44 bp):
CTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGAT
Found at i:4890527 original size:86 final size:86
Alignment explanation
Indices: 4890376--4890597 Score: 385
Period size: 86 Copynumber: 2.6 Consensus size: 86
4890366 ATCAGTAAAA
* *
4890376 ATCGAA-ACAAACCTTGCCTCTCTCGTTTGTAGTAGAGCTGGTTGAAGATAATAGATCTTGCCTT
1 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGATCTTGCCTT
*
4890440 CCTGCATTTACAGCGAAGCAG
66 CCTGCATTGACAGCGAAGCAG
*
4890461 ATTGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGATCTTGCCTT
1 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGATCTTGCCTT
*
4890526 CCTGCATTGACGGCGAAGCAG
66 CCTGCATTGACAGCGAAGCAG
4890547 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGG-TGAAGATAA
1 ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAA
4890598 TNNNNNNNNN
Statistics
Matches: 130, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
85 14 0.11
86 116 0.89
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (86 bp):
ATCGAAGACAAACCTTGCCTCTCTCGTTTGTAGCAGAGCTGGTTGAAGATAACAGATCTTGCCTT
CCTGCATTGACAGCGAAGCAG
Found at i:4896673 original size:21 final size:22
Alignment explanation
Indices: 4896631--4896674 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
4896621 CCATGTACTA
* *
4896631 TTATTCCATGTTTATTATATTG
1 TTATTCCATGTTCATCATATTG
4896653 TTATTCCATG-TCATCATATTG
1 TTATTCCATGTTCATCATATTG
4896674 T
1 T
4896675 AAATTAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.55
Consensus pattern (22 bp):
TTATTCCATGTTCATCATATTG
Found at i:4898612 original size:15 final size:14
Alignment explanation
Indices: 4898580--4898633 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 14
4898570 CTATATTGAA
*
4898580 TATTTTTATATTATT
1 TATTTTTATA-TAAT
4898595 TATTTTTAATATAAT
1 TATTTTT-ATATAAT
*
4898610 TATTCTTTTTATAAT
1 TATT-TTTATATAAT
4898625 TACTTTTTA
1 TA-TTTTTA
4898634 ATCTGTATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
15 25 0.76
16 8 0.24
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTTTATATAAT
Found at i:4899889 original size:21 final size:22
Alignment explanation
Indices: 4899856--4899896 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
4899846 CAATTTCTCA
* *
4899856 ATCTAATATATATATTTCAATC
1 ATCTAAGATATATAATTCAATC
4899878 ATCTAAGA-ATATAATTCAA
1 ATCTAAGATATATAATTCAA
4899897 GTTACACGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.39
Consensus pattern (22 bp):
ATCTAAGATATATAATTCAATC
Found at i:4900694 original size:50 final size:50
Alignment explanation
Indices: 4900572--4900780 Score: 199
Period size: 50 Copynumber: 4.2 Consensus size: 50
4900562 TAATAACATT
* * * **
4900572 CCAAAGCCATGTTCCAGACATGGTCTTACATGGGATGTT-T--TTTGCACTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGGTG
* *
4900621 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTG
* ** ** *
4900671 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTG
* * ** * *
4900721 CCAACGCCACGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCTGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTG
*
4900771 CCAACGCCAT
1 CCAATGCCAT
4900781 TGTAATCACT
Statistics
Matches: 135, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
48 3 0.02
49 32 0.24
50 98 0.73
51 2 0.01
ACGTcount: A:0.21, C:0.30, G:0.22, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCGGTG
Found at i:4901160 original size:29 final size:29
Alignment explanation
Indices: 4900964--4901163 Score: 145
Period size: 30 Copynumber: 6.8 Consensus size: 29
4900954 CAAAAAAATA
* * *
4900964 AAAATTACATTTTAGCCCCTGATCTTT-TC
1 AAAATTACATTTT-GACCCTAAACTTTCTC
* *
4900993 AAAAATTATATTTTGACCCCAAACTTT-TC
1 -AAAATTACATTTTGACCCTAAACTTTCTC
* * *
4901022 TAAAATTTACATTTTAACCCCAAAATTT-TC
1 -AAAA-TTACATTTTGACCCTAAACTTTCTC
** *
4901052 TAAAATTACATTTCAACCATTAAACTTTCTC
1 -AAAATTACATTTTGACC-CTAAACTTTCTC
* *
4901083 AAAATTACACTTTGACCACTAAACTTTCTA
1 AAAATTACATTTTGACC-CTAAACTTTCTC
* * * * *
4901113 AAAATTACATCTTGGCCCTATATTTTCCC
1 AAAATTACATTTTGACCCTAAACTTTCTC
*
4901142 AAAATTACATTTTTACCCTAAA
1 AAAATTACATTTTGACCCTAAA
4901164 TATTTTGTGT
Statistics
Matches: 138, Mismatches: 29, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
29 53 0.38
30 83 0.60
31 2 0.01
ACGTcount: A:0.36, C:0.23, G:0.03, T:0.38
Consensus pattern (29 bp):
AAAATTACATTTTGACCCTAAACTTTCTC
Found at i:4901719 original size:20 final size:20
Alignment explanation
Indices: 4901690--4901767 Score: 85
Period size: 19 Copynumber: 4.1 Consensus size: 20
4901680 GTGCGACCCG
*
4901690 AAGAAGAAGAAGAAAAAAGA
1 AAGAAAAAGAAGAAAAAAGA
4901710 AAGAAAAAGAAG-AAAAA-A
1 AAGAAAAAGAAGAAAAAAGA
* *
4901728 AAGAGAGAGAA-AAAAAAGA
1 AAGAAAAAGAAGAAAAAAGA
4901747 AAG-AAAA-AAGAAAAAAAGA
1 AAGAAAAAGAAG-AAAAAAGA
4901766 AA
1 AA
4901768 AGTCAACAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
17 2 0.04
18 17 0.35
19 19 0.39
20 11 0.22
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (20 bp):
AAGAAAAAGAAGAAAAAAGA
Found at i:4901722 original size:13 final size:13
Alignment explanation
Indices: 4901690--4901768 Score: 74
Period size: 13 Copynumber: 6.1 Consensus size: 13
4901680 GTGCGACCCG
4901690 AAGAAG-AAGAAGA
1 AAGAAGAAAGAA-A
*
4901703 AAAAAGAAAGAAA
1 AAGAAGAAAGAAA
4901716 AAGAAGAAA-AAA
1 AAGAAGAAAGAAA
*
4901728 AAG-AGAGAGAAA
1 AAGAAGAAAGAAA
*
4901740 AAAAAGAAAGAAAA
1 AAGAAGAAAG-AAA
*
4901754 AAGAAAAAAAGAAA
1 AAG-AAGAAAGAAA
4901768 A
1 A
4901769 GTCAACAGTC
Statistics
Matches: 54, Mismatches: 7, Indels: 9
0.77 0.10 0.13
Matches are distributed among these distances:
11 4 0.07
12 11 0.20
13 19 0.35
14 14 0.26
15 6 0.11
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AAGAAGAAAGAAA
Found at i:4901744 original size:19 final size:20
Alignment explanation
Indices: 4901696--4901769 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
4901686 CCCGAAGAAG
*
4901696 AAGAAGAAAAAAGAAAG-AAA
1 AAGAA-AAAAAAAAAAGAAAA
* *
4901716 AAG-AAGAAAAAAAAG-AGA
1 AAGAAAAAAAAAAAAGAAAA
* *
4901734 GAGAAAAAAAAGAAAGAAAA
1 AAGAAAAAAAAAAAAGAAAA
*
4901754 AAGAAAAAAAGAAAAG
1 AAGAAAAAAAAAAAAG
4901770 TCAACAGTCG
Statistics
Matches: 42, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
18 13 0.31
19 11 0.26
20 18 0.43
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (20 bp):
AAGAAAAAAAAAAAAGAAAA
Found at i:4901764 original size:15 final size:14
Alignment explanation
Indices: 4901703--4901768 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 14
4901693 AAGAAGAAGA
4901703 AAAAAGAAAGAAAAAG
1 AAAAA-AAA-AAAAAG
*
4901719 AAGAAAAAAAAGAGAG
1 AA-AAAAAAAA-AAAG
*
4901735 AGAAAAAAAAGAAAG
1 A-AAAAAAAAAAAAG
4901750 AAAAAAGAAAAAAAG
1 AAAAAA-AAAAAAAG
4901765 AAAA
1 AAAA
4901769 GTCAACAGTC
Statistics
Matches: 42, Mismatches: 4, Indels: 9
0.76 0.07 0.16
Matches are distributed among these distances:
14 5 0.12
15 17 0.40
16 16 0.38
17 4 0.10
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:4901769 original size:13 final size:13
Alignment explanation
Indices: 4901693--4901769 Score: 54
Period size: 15 Copynumber: 5.6 Consensus size: 13
4901683 CGACCCGAAG
4901693 AAGAAGAAG-AAAA
1 AAGAA-AAGAAAAA
4901706 AAG-AAAGAAAAA
1 AAGAAAAGAAAAA
4901718 GAAGAAAA-AAAAGA
1 -AAGAAAAGAAAA-A
4901732 GAGAGAAAA-AAAAGA
1 -A-AGAAAAGAAAA-A
4901747 AAGAAAAAAGAAAAA
1 AAG--AAAAGAAAAA
4901762 AAGAAAAG
1 AAGAAAAG
4901770 TCAACAGTCG
Statistics
Matches: 56, Mismatches: 0, Indels: 16
0.78 0.00 0.22
Matches are distributed among these distances:
11 3 0.05
12 5 0.09
13 17 0.30
14 7 0.12
15 20 0.36
16 4 0.07
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAGAAAAGAAAAA
Found at i:4901911 original size:4 final size:4
Alignment explanation
Indices: 4901897--4901936 Score: 55
Period size: 4 Copynumber: 10.0 Consensus size: 4
4901887 AAGAAGCAGC
*
4901897 AGAA A-AA AGAA AGAA AGAA AGAA AGAA AAAGA AGAA AGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGA-A AGAA AGAA
4901937 GCAACCCACA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
3 3 0.09
4 26 0.81
5 3 0.09
ACGTcount: A:0.78, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:4901978 original size:26 final size:25
Alignment explanation
Indices: 4901949--4902002 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 25
4901939 AACCCACATA
4901949 CAGGCCCAGCGCAGCAGCAGGCCCAG
1 CAGGCCCAGCGCAGCAGCA-GCCCAG
* * *
4901975 CAGGCCTAGTGCAGCGGCAGCCCAG
1 CAGGCCCAGCGCAGCAGCAGCCCAG
4902000 CAG
1 CAG
4902003 CCCCTAGGCC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.22, C:0.39, G:0.35, T:0.04
Consensus pattern (25 bp):
CAGGCCCAGCGCAGCAGCAGCCCAG
Found at i:4902056 original size:10 final size:10
Alignment explanation
Indices: 4902043--4902094 Score: 52
Period size: 10 Copynumber: 4.9 Consensus size: 10
4902033 AGCCCAGTCC
4902043 AGAAAAAAAA
1 AGAAAAAAAA
4902053 AGAAAAAAGAA
1 AGAAAAAA-AA
4902064 A-AAGAGGAAAAA
1 AGAA-A--AAAAA
*
4902076 AGAAGAAAAA
1 AGAAAAAAAA
4902086 AGAAAAAAA
1 AGAAAAAAA
4902095 GGGGTTTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
10 23 0.66
11 4 0.11
12 3 0.09
13 5 0.14
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:4902060 original size:7 final size:7
Alignment explanation
Indices: 4902048--4902093 Score: 51
Period size: 7 Copynumber: 6.9 Consensus size: 7
4902038 AGTCCAGAAA
4902048 AAAAAAG
1 AAAAAAG
4902055 AAAAAAG
1 AAAAAAG
4902062 -AAAAAG
1 AAAAAAG
**
4902068 AGGAAA-
1 AAAAAAG
*
4902074 AAAGAAG
1 AAAAAAG
4902081 AAAAAAG
1 AAAAAAG
4902088 AAAAAA
1 AAAAAA
4902094 AGGGGTTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
6 9 0.29
7 22 0.71
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:4902751 original size:18 final size:18
Alignment explanation
Indices: 4902658--4902828 Score: 94
Period size: 18 Copynumber: 9.6 Consensus size: 18
4902648 TTTCAAGAGT
4902658 TTTCGTG-TTTCAAAAGAAA
1 TTTCGTGTTTTC-AAA-AAA
*
4902677 TTTCTGCGATTTT-AAAAAA
1 TTTC-GTG-TTTTCAAAAAA
* * *
4902696 ATTCGT-ATTTCAAAAAT
1 TTTCGTGTTTTCAAAAAA
4902713 TTTCGTGTTTT---AAAA
1 TTTCGTGTTTTCAAAAAA
4902728 TCTTCGTGTTTTCAAAAAA
1 T-TTCGTGTTTTCAAAAAA
4902747 TTTCG-GTGTTTCAAAAAA
1 TTTCGTGT-TTTCAAAAAA
* *
4902765 TTCCAGTATTTT---AAAA
1 TTTC-GTGTTTTCAAAAAA
* *
4902781 GTTCTGGGTTTTC-AAAAA
1 TTTC-GTGTTTTCAAAAAA
* *
4902799 TTATCGTGTTTTTAAAAAT
1 TT-TCGTGTTTTCAAAAAA
4902818 TTTCGTGTTTT
1 TTTCGTGTTTT
4902829 GTAAATTTTC
Statistics
Matches: 117, Mismatches: 19, Indels: 33
0.69 0.11 0.20
Matches are distributed among these distances:
15 4 0.03
16 24 0.21
17 12 0.10
18 41 0.35
19 27 0.23
20 6 0.05
22 3 0.03
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.45
Consensus pattern (18 bp):
TTTCGTGTTTTCAAAAAA
Found at i:4902816 original size:19 final size:18
Alignment explanation
Indices: 4902788--4902833 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
4902778 AAAGTTCTGG
*
4902788 GTTTTCAAAAATTATCGT
1 GTTTTTAAAAATTATCGT
*
4902806 GTTTTTAAAAATTTTCGT
1 GTTTTTAAAAATTATCGT
4902824 GTTTTGTAAA
1 GTTTT-TAAA
4902834 TTTTCGTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.30, C:0.07, G:0.13, T:0.50
Consensus pattern (18 bp):
GTTTTTAAAAATTATCGT
Found at i:4902828 original size:17 final size:17
Alignment explanation
Indices: 4902686--4903322 Score: 172
Period size: 17 Copynumber: 36.5 Consensus size: 17
4902676 ATTTCTGCGA
** *
4902686 TTTTAAAAAAATTCGTA
1 TTTTAAAAATTTTCGTG
*
4902703 TTTCAAAAATTTTCGTG
1 TTTTAAAAATTTTCGTG
*
4902720 TTTT-AAAATCTTCGTG
1 TTTTAAAAATTTTCGTG
*
4902736 TTTTCAAAAAATTTCGGTG
1 TTTT-AAAAATTTTC-GTG
* * * *
4902755 TTTCAAAAAATTCCAGTA
1 TTTTAAAAATTTTC-GTG
* * *
4902773 TTTTAAAAGTTCT-GGG
1 TTTTAAAAATTTTCGTG
*
4902789 TTTTCAAAAATTATCGTG
1 TTTT-AAAAATTTTCGTG
4902807 TTTTTAAAAATTTTCGTG
1 -TTTTAAAAATTTTCGTG
**
4902825 TTTTGTAAATTTTCGT-
1 TTTTAAAAATTTTCGTG
** *
4902841 TTTT-TGAATTCTC--G
1 TTTTAAAAATTTTCGTG
* * *
4902855 TATTAAAAATTCTCGTA
1 TTTTAAAAATTTTCGTG
* *
4902872 TTTCACAAACTTATT--T-
1 TTTTA-AAAATT-TTCGTG
** * *
4902888 TTAAAAAAAATTCTAGTG
1 TT-TTAAAAATTTTCGTG
* * * **
4902906 TTATCAAAAAAATCTATTG
1 TT-T-TAAAAATTTTCGTG
* *
4902925 TTTCAAAAATTTTCGTA
1 TTTTAAAAATTTTCGTG
*
4902942 TTTTAAAAAAAATTCTCGTG
1 TTTT---AAAAATTTTCGTG
** * *
4902962 TTTTGTAAACTTTCATG
1 TTTTAAAAATTTTCGTG
** * *
4902979 TTCTTTTAAATTCTCGTA
1 TT-TTAAAAATTTTCGTG
* *
4902997 TTTCAAAAATTTCCGTG
1 TTTTAAAAATTTTCGTG
* **
4903014 CTTTGAAAAAAATCCTCGTG
1 -TTT--TAAAAATTTTCGTG
*
4903034 TTTTAAAAATTTCCGTG
1 TTTTAAAAATTTTCGTG
*
4903051 TTTT-AAAATTTTCGCG
1 TTTTAAAAATTTTCGTG
*
4903067 TTCTCAAAAATTTCTCGTG
1 TT-TTAAAAATTT-TCGTG
* *
4903086 TTTCAAAAAATTGTCGTG
1 TTT-TAAAAATTTTCGTG
***
4903104 TTTCGCAAATTTTCGTG
1 TTTTAAAAATTTTCGTG
* * *
4903121 TTTTTAAAATTCTCGTA
1 TTTTAAAAATTTTCGTG
* * *
4903138 TTTCAAAAGTTTCCGTG
1 TTTTAAAAATTTTCGTG
4903155 TTTTAAAAAAAATTTCTCGTG
1 TTTT---AAAAATTT-TCGTG
* *
4903176 TTTCAGAAATTTTCGTG
1 TTTTAAAAATTTTCGTG
4903193 TTTT----ATTTT-GTG
1 TTTTAAAAATTTTCGTG
* *
4903205 TTCTCAAAAAATTCTCGTG
1 TT-T-TAAAAATTTTCGTG
** * *
4903224 TTTCGAAAATTGTCATG
1 TTTTAAAAATTTTCGTG
***
4903241 TTTCGTAAATTTTCGTG
1 TTTTAAAAATTTTCGTG
* *
4903258 TTGTAAAAATTTTCAGGTT
1 TTTTAAAAATTTTC--GTG
*
4903277 TTTTAAAAAAAATTTCGTG
1 TTTT--AAAAATTTTCGTG
*
4903296 TTTCT-AAAATTCTCGTG
1 TTT-TAAAAATTTTCGTG
4903313 TTTTCAAAAA
1 TTTT-AAAAA
4903323 AAAATTTTCG
Statistics
Matches: 453, Mismatches: 121, Indels: 91
0.68 0.18 0.14
Matches are distributed among these distances:
12 5 0.01
13 6 0.01
14 3 0.01
15 15 0.03
16 44 0.10
17 179 0.40
18 96 0.21
19 56 0.12
20 33 0.07
21 16 0.04
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (17 bp):
TTTTAAAAATTTTCGTG
Found at i:4902916 original size:20 final size:18
Alignment explanation
Indices: 4902891--4902933 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
4902881 CTTATTTTTA
4902891 AAAAAAATTCTAGTGTTATC
1 AAAAAAA-TCTAGTGTT-TC
*
4902911 AAAAAAATCTATTGTTTC
1 AAAAAAATCTAGTGTTTC
4902929 AAAAA
1 AAAAA
4902934 TTTTCGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 8 0.36
20 7 0.32
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (18 bp):
AAAAAAATCTAGTGTTTC
Found at i:4903078 original size:18 final size:18
Alignment explanation
Indices: 4902997--4903187 Score: 63
Period size: 18 Copynumber: 10.7 Consensus size: 18
4902987 AATTCTCGTA
*
4902997 TTTCAAAAATTTC-CGTG
1 TTTCAAAAATTTCTCGCG
* * * *
4903014 CTTTGAAAAAAATCCTCGTG
1 -TTT-CAAAAATTTCTCGCG
* *
4903034 TTTTAAAAATTTC-CGTG
1 TTTCAAAAATTTCTCGCG
*
4903051 TTT-TAAAATTT-TCGCG
1 TTTCAAAAATTTCTCGCG
*
4903067 TTCTCAAAAATTTCTCGTG
1 TT-TCAAAAATTTCTCGCG
* * *
4903086 TTTCAAAAAATTGTCGTG
1 TTTCAAAAATTTCTCGCG
** *
4903104 TTTCGCAAATTT-TCGTG
1 TTTCAAAAATTTCTCGCG
** **
4903121 TTTTTAAAA-TTCTCGTA
1 TTTCAAAAATTTCTCGCG
* *
4903138 TTTCAAAAGTTTC-CGTG
1 TTTCAAAAATTTCTCGCG
* *
4903155 TTTTAAAAAAAATTTCTCGTG
1 -TTT--CAAAAATTTCTCGCG
*
4903176 TTTCAGAAATTT
1 TTTCAAAAATTT
4903188 TCGTGTTTTA
Statistics
Matches: 134, Mismatches: 27, Indels: 24
0.72 0.15 0.13
Matches are distributed among these distances:
16 14 0.10
17 32 0.24
18 53 0.40
19 16 0.12
20 15 0.11
21 4 0.03
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (18 bp):
TTTCAAAAATTTCTCGCG
Found at i:4903095 original size:72 final size:72
Alignment explanation
Indices: 4902925--4903196 Score: 270
Period size: 72 Copynumber: 3.8 Consensus size: 72
4902915 AAATCTATTG
* * *** * * *
4902925 TTTCAAAAATTT-TCGTATTTTAAAAAAAATTCTCGTGTTTTGTAAACTTTCATGTTCTTTTAAA
1 TTTCAAAAATTTCTCGTGTTTCAAAAAAAATTCTCGTGTTTCAAAAATTTTCGTGTT-TTTAAAA
4902989 TTCTCGTA
65 TTCTCGTA
* * * *
4902997 TTTCAAAAATTTC-CGTGCTTT-GAAAAAAATCCTCGTGTTTTAAAAATTTCCGTG-TTTTAAAA
1 TTTCAAAAATTTCTCGTG-TTTCAAAAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTTAAAA
* **
4903059 TTTTCGCG
65 TTCTCGTA
* **
4903067 TTCTCAAAAATTTCTCGTGTTTC--AAAAAATTGTCGTGTTTCGCAAATTTTCGTGTTTTTAAAA
1 TT-TCAAAAATTTCTCGTGTTTCAAAAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTTAAAA
4903130 TTCTCGTA
65 TTCTCGTA
* * *
4903138 TTTCAAAAGTTTC-CGTGTTTTAAAAAAAATTTCTCGTGTTTCAGAAATTTTCGTGTTTT
1 TTTCAAAAATTTCTCGTGTTTCAAAAAAAA-TTCTCGTGTTTCAAAAATTTTCGTGTTTT
4903197 ATTTTGTGTT
Statistics
Matches: 165, Mismatches: 26, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
69 7 0.04
70 48 0.29
71 36 0.22
72 71 0.43
73 3 0.02
ACGTcount: A:0.29, C:0.14, G:0.12, T:0.46
Consensus pattern (72 bp):
TTTCAAAAATTTCTCGTGTTTCAAAAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTTAAAAT
TCTCGTA
Found at i:4903103 original size:70 final size:71
Alignment explanation
Indices: 4902923--4903271 Score: 254
Period size: 72 Copynumber: 5.0 Consensus size: 71
4902913 AAAAATCTAT
* ** *** * * *
4902923 TGTT-TCAAAAATTTTCGTATTTTAAAAAAAATTCTCGTGTTTTGTAAACTTTCATGTTCTTTTA
1 TGTTCTCAAAAATTTCCGTGCTTTAAAAAAAATTCTCGTGTTTCAAAAATTTTCGTG-T-TTTAA
*
4902987 AATTCTCG
64 AATTTTCG
* * * * *
4902995 TATT-TCAAAAATTTCCGTGCTTTGAAAAAAATCCTCGTGTTTTAAAAATTTCCGTGTTTTAAAA
1 TGTTCTCAAAAATTTCCGTGCTTTAAAAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTAAAA
4903059 TTTTCG
66 TTTTCG
* * * **
4903065 CGTTCTCAAAAATTTCTCGTG-TTT-CAAAAAATTGTCGTGTTTCGCAAATTTTCGTGTTTTTAA
1 TGTTCTCAAAAATTTC-CGTGCTTTAAAAAAAATTCTCGTGTTTCAAAAATTTTCGTG-TTTTAA
*
4903128 AATTCTCG
64 AATTTTCG
* * * *
4903136 TATT-TCAAAAGTTTCCGTGTTTTAAAAAAAATTTCTCGTGTTTCAGAAATTTTCGTGTTTT---
1 TGTTCTCAAAAATTTCCGTGCTTTAAAAAAAA-TTCTCGTGTTTCAAAAATTTTCGTGTTTTAAA
4903197 ATTTT-G
65 ATTTTCG
* ** * * ** *
4903203 TGTTCTCAAAAAATTCTCGTG-TTT--CGAAAATTGTCATGTTTCGTAAATTTTCGTGTTGTAAA
1 TGTTCTCAAAAATTTC-CGTGCTTTAAAAAAAATTCTCGTGTTTCAAAAATTTTCGTGTT-TTAA
4903265 AATTTTC
64 AATTTTC
4903272 AGGTTTTTTA
Statistics
Matches: 223, Mismatches: 41, Indels: 28
0.76 0.14 0.10
Matches are distributed among these distances:
65 23 0.10
66 5 0.02
67 4 0.02
68 16 0.07
69 13 0.06
70 51 0.23
71 40 0.18
72 71 0.32
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (71 bp):
TGTTCTCAAAAATTTCCGTGCTTTAAAAAAAATTCTCGTGTTTCAAAAATTTTCGTGTTTTAAAA
TTTTCG
Found at i:4903228 original size:120 final size:119
Alignment explanation
Indices: 4903083--4903316 Score: 287
Period size: 120 Copynumber: 2.0 Consensus size: 119
4903073 AAAATTTCTC
* * * * * *
4903083 GTGTTTCAAAAAATTGTCGTGTTTCGCAAATTTTCGTGTTT-TTAAAATTCTCGTATT-TCAAAA
1 GTGTTTCAAAAAATTCTCGTGTTTCGAAAATTGTCATGTTTCGT-AAATTCTCGTATTGTAAAAA
*
4903146 GTTTC-CGTGTTTTAAAAAAAATTTCTCGTGTTTC-AGAAATTTTCGTGTTTTATTTT
65 GTTTCACGTGTTTTAAAAAAAA-TT-TCGTGTTTCTA-AAATTCTCGTGTTTTATTTT
* *
4903202 GTGTTCTCAAAAAATTCTCGTGTTTCGAAAATTGTCATGTTTCGTAAATTTTCGTGTTGTAAAAA
1 GTGTT-TCAAAAAATTCTCGTGTTTCGAAAATTGTCATGTTTCGTAAATTCTCGTATTGTAAAAA
* * *
4903267 TTTTCAGGTTTTTTAAAAAAAATTTCGTGTTTCTAAAATTCTCGTGTTTT
65 GTTTCACGTGTTTTAAAAAAAATTTCGTGTTTCTAAAATTCTCGTGTTTT
4903317 CAAAAAAAAA
Statistics
Matches: 98, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
119 5 0.05
120 66 0.67
121 13 0.13
122 14 0.14
ACGTcount: A:0.27, C:0.12, G:0.15, T:0.47
Consensus pattern (119 bp):
GTGTTTCAAAAAATTCTCGTGTTTCGAAAATTGTCATGTTTCGTAAATTCTCGTATTGTAAAAAG
TTTCACGTGTTTTAAAAAAAATTTCGTGTTTCTAAAATTCTCGTGTTTTATTTT
Found at i:4903294 original size:38 final size:39
Alignment explanation
Indices: 4903247--4903344 Score: 112
Period size: 38 Copynumber: 2.5 Consensus size: 39
4903237 CATGTTTCGT
* **
4903247 AAATTTTCGTGTTGT-AAAAATTTTCAG-GTTTTTTAAAAA
1 AAATTTTCGTGTT-TCAAAAATTCTC-GTGTTTTCAAAAAA
*
4903286 AAA-TTTCGTGTTTCTAAAATTCTCGTGTTTTCAAAAAA
1 AAATTTTCGTGTTTCAAAAATTCTCGTGTTTTCAAAAAA
4903324 AAATTTTCGTGTTTTCAAAAA
1 AAATTTTCGTG-TTTCAAAAA
4903345 ATATTGTGTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
37 2 0.04
38 30 0.60
39 10 0.20
40 8 0.16
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (39 bp):
AAATTTTCGTGTTTCAAAAATTCTCGTGTTTTCAAAAAA
Found at i:4903326 original size:22 final size:22
Alignment explanation
Indices: 4903301--4903345 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
4903291 TCGTGTTTCT
4903301 AAAATTCTCGTGTTTTCAAAAA
1 AAAATTCTCGTGTTTTCAAAAA
*
4903323 AAAATTTTCGTGTTTTCAAAAA
1 AAAATTCTCGTGTTTTCAAAAA
4903345 A
1 A
4903346 TATTGTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
AAAATTCTCGTGTTTTCAAAAA
Found at i:4903357 original size:39 final size:38
Alignment explanation
Indices: 4903281--4903360 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 38
4903271 CAGGTTTTTT
* * *
4903281 AAAAAAAATTTCGTGTTTCTAAAATTCTCGTGTTTTCA
1 AAAAAAAATTTCGTGTTTCAAAAAATATCGTGTTTTCA
*
4903319 AAAAAAAATTTTCGTGTTTTCAAAAAATATTGTG-TTTCA
1 AAAAAAAA-TTTCGTG-TTTCAAAAAATATCGTGTTTTCA
4903358 AAA
1 AAA
4903361 TTCTCATGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 8 0.22
39 15 0.42
40 13 0.36
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (38 bp):
AAAAAAAATTTCGTGTTTCAAAAAATATCGTGTTTTCA
Found at i:4903363 original size:56 final size:59
Alignment explanation
Indices: 4903283--4903395 Score: 162
Period size: 56 Copynumber: 2.0 Consensus size: 59
4903273 GGTTTTTTAA
* *
4903283 AAAAAATTTCGTGTTTCTAAAATTCTCGTGTTTTCAAAA-AA-AAATTTTCGTGTTTTC
1 AAAAAATTTCGTGTTTCTAAAATTCTCATGTTTTCAAAACAAGAAATTCTCGTGTTTTC
*
4903340 AAAAAATATT-GTGTTTC-AAAATTCTCATGTTTTCAAAACAAGAGATTCTCGTGTTT
1 AAAAAAT-TTCGTGTTTCTAAAATTCTCATGTTTTCAAAACAAGAAATTCTCGTGTTT
4903396 CAATCGGATC
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
56 20 0.40
57 16 0.32
58 14 0.28
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (59 bp):
AAAAAATTTCGTGTTTCTAAAATTCTCATGTTTTCAAAACAAGAAATTCTCGTGTTTTC
Found at i:4909580 original size:22 final size:22
Alignment explanation
Indices: 4909566--4909621 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
4909556 AAAAAAAGAG
4909566 ACAAAAAAAACAAAAAACAAAA
1 ACAAAAAAAACAAAAAACAAAA
*
4909588 ACAAAAAAAA-ACAACAACAAAAA
1 ACAAAAAAAACA-AAAAAC-AAAA
4909611 ACAAAGAAAAA
1 ACAAA-AAAAA
4909622 AAGAAAAATC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
21 1 0.03
22 15 0.50
23 9 0.30
24 5 0.17
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (22 bp):
ACAAAAAAAACAAAAAACAAAA
Found at i:4909581 original size:10 final size:10
Alignment explanation
Indices: 4909568--4909622 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
4909558 AAAAAGAGAC
*
4909568 AAAAAA-AAC
1 AAAAAACAAA
4909577 AAAAAACAAA
1 AAAAAACAAA
*
4909587 AACAAA-AAA
1 AAAAAACAAA
* *
4909596 AAACAACAAC
1 AAAAAACAAA
4909606 AAAAAACAAA
1 AAAAAACAAA
4909616 GAAAAAA
1 -AAAAAA
4909623 AGAAAAATCA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
9 13 0.36
10 17 0.47
11 6 0.17
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:4909585 original size:16 final size:17
Alignment explanation
Indices: 4909566--4909621 Score: 64
Period size: 16 Copynumber: 3.4 Consensus size: 17
4909556 AAAAAAAGAG
4909566 ACAAAAA-AAACAAA-AA
1 ACAAAAACAAA-AAACAA
4909582 ACAAAAACAAAAAA-AA
1 ACAAAAACAAAAAACAA
*
4909598 ACAACAACAAAAAACAA
1 ACAAAAACAAAAAACAA
*
4909615 AGAAAAA
1 ACAAAAA
4909622 AAGAAAAATC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
16 25 0.71
17 10 0.29
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (17 bp):
ACAAAAACAAAAAACAA
Found at i:4909587 original size:6 final size:6
Alignment explanation
Indices: 4909571--4909629 Score: 52
Period size: 6 Copynumber: 9.8 Consensus size: 6
4909561 AAGAGACAAA
*
4909571 AAAAAC AAAAAAC AAAAAC -AAAA- AAAAAC AACAAC AAAAAAC AAAGAA-
1 AAAAAC -AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC -AAAAAC AAA-AAC
*
4909619 AAAAAG AAAAA
1 AAAAAC AAAAA
4909630 TCAAGATGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
5 10 0.22
6 22 0.49
7 13 0.29
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:4909587 original size:13 final size:13
Alignment explanation
Indices: 4909571--4909629 Score: 57
Period size: 13 Copynumber: 4.4 Consensus size: 13
4909561 AAGAGACAAA
4909571 AAAAACAAAAAAC
1 AAAAACAAAAAAC
4909584 AAAAACAAAAAAAAAC
1 AAAAAC---AAAAAAC
*
4909600 AACAACAAAAAAC
1 AAAAACAAAAAAC
* *
4909613 AAAGA-AAAAAAG
1 AAAAACAAAAAAC
4909625 AAAAA
1 AAAAA
4909630 TCAAGATGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
12 10 0.26
13 16 0.42
16 12 0.32
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (13 bp):
AAAAACAAAAAAC
Found at i:4909594 original size:23 final size:23
Alignment explanation
Indices: 4909568--4909622 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 23
4909558 AAAAAGAGAC
4909568 AAAAAAAACAAAAA-ACAAAAACA
1 AAAAAAAACAAAAACA-AAAAACA
*
4909591 AAAAAAAACAACAACAAAAAACA
1 AAAAAAAACAAAAACAAAAAACA
4909614 AAGAAAAAA
1 AA-AAAAAA
4909623 AGAAAAATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 22 0.76
24 7 0.24
ACGTcount: A:0.85, C:0.13, G:0.02, T:0.00
Consensus pattern (23 bp):
AAAAAAAACAAAAACAAAAAACA
Found at i:4910792 original size:76 final size:77
Alignment explanation
Indices: 4910511--4911094 Score: 594
Period size: 76 Copynumber: 7.6 Consensus size: 77
4910501 TTTCTGATTC
* * *
4910511 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-TTCT
1 TTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT--CATGCCGAGGTATTTCT
4910575 TTTAAATTT-C-TAT
64 TTTAAATTTCCGT-T
* * * * * *
4910588 TTTCAAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCGAGTCACGTCGAGGTA--T-T
1 TTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
**
4910650 TTTAAATTTTTGCTT
64 TTTAAATTTCCG-TT
*** *
4910665 TAAAAAAAATCAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
1 T---TTCAA--AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
4910730 TCTTTTAAATTTCCGTT
61 TCTTTTAAATTTCCGTT
* * *
4910747 TTTCAAAAATCAACTTATAATAC-AGAGGTAAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTT
1 TTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTT
*
4910811 TAAATTTTCGTT
66 TAAATTTCCGTT
* *
4910823 TTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTC-GGTCATGCTGAGGTATTTCTTT
1 TTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTT
*
4910886 TAAATTTCC-AT
66 TAAATTTCCGTT
* * * *
4910897 TTTCAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTTGGGTTAT-CCTGAGGTA--T-TT
1 TTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATGCC-GAGGTATTTCTT
* *
4910958 TTCAATTTCTGTT
65 TTAAATTTCCGTT
4910971 TTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCAT-CCTGAGG----TC
1 TTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATGCC-GAGGTATTTC
* *
4911031 TTTTCAATTTCTGTT
63 TTTTAAATTTCCGTT
* *
4911046 TTTCAAAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCATCGGGTC
1 TTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC
4911095 GCACGCCGAG
Statistics
Matches: 442, Mismatches: 45, Indels: 42
0.84 0.09 0.08
Matches are distributed among these distances:
73 10 0.02
74 29 0.07
75 118 0.27
76 150 0.34
77 31 0.07
78 3 0.01
79 41 0.09
80 45 0.10
82 4 0.01
83 11 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (77 bp):
TTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTT
TAAATTTCCGTT
Found at i:4910887 original size:151 final size:150
Alignment explanation
Indices: 4910511--4911094 Score: 627
Period size: 151 Copynumber: 3.8 Consensus size: 150
4910501 TTTCTGATTC
* *
4910511 TTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTCTT
1 TTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGT--CATGCTGAGGTATTCTT
* * *
4910576 TTAAATTT-CTATTTTCAAAAAAATCAACTCAT-ATTGTGAGAAGTGAGTTGAGCCTCGAGTCAC
64 TTAAATTTCCT-TTTTC-AAAAAATCAACTCATAATT-CGAGAAGTGAGTTGAGCCTCGGGTCAT
* *
4910639 GTCGAGGTATTTTTAAATTTTTGCTT
126 GCCGAGGTATTTTTAAATTTTCG-TT
*** * *
4910665 TAAAAAAAATCAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATT
1 T---TTCAA--AAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTA-T
* * * *
4910730 TCTTTTAAATTTCCGTTTTTC-AAAAATCAACTTATAATAC-AGAGGTAAGTTGAGCCTCGGGTC
60 TCTTTTAAATTTCC-TTTTTCAAAAAATCAACTCATAATTCGAGAAGTGAGTTGAGCCTCGGGTC
4910793 ATGCCGAGGTATTTCTTTTAAATTTTCGTT
124 ATGCCGAGGTA--T-TTTTAAATTTTCGTT
*
4910823 TTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTC-GGTCATGCTGAGGTATTTCTTT
1 TTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTA-TTCTTT
* * *
4910886 TAAATTTCCATTTTC-AAAAATCAACTCAT-ATTGCGAGAAGTGAGTTGAGCCTTGGGTTAT-CC
65 TAAATTTCCTTTTTCAAAAAATCAACTCATAATT-CGAGAAGTGAGTTGAGCCTCGGGTCATGCC
*
4910948 TGAGGTATTTTTCAA-TTTCTGTT
129 -GAGGTATTTTTAAATTTTC-GTT
*
4910971 TTTCAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATCCTGAGG---TCTT
1 TTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTCTT
* * * *
4911033 TTCAATTTCTGTTTTTCAAAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCATCGGGTC
64 TTAAATTTC-CTTTTTC-AAAAAATCAACTCATAATTCGAGAAGTGAGTTGAGCCTCGGGTC
4911095 GCACGCCGAG
Statistics
Matches: 368, Mismatches: 38, Indels: 51
0.81 0.08 0.11
Matches are distributed among these distances:
147 4 0.01
148 25 0.07
149 8 0.02
150 39 0.11
151 110 0.30
152 33 0.09
153 16 0.04
154 1 0.00
155 2 0.01
156 29 0.08
157 25 0.07
158 19 0.05
159 56 0.15
160 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (150 bp):
TTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTATTCTTTT
AAATTTCCTTTTTCAAAAAATCAACTCATAATTCGAGAAGTGAGTTGAGCCTCGGGTCATGCCGA
GGTATTTTTAAATTTTCGTT
Found at i:4911438 original size:30 final size:30
Alignment explanation
Indices: 4911403--4911604 Score: 189
Period size: 30 Copynumber: 6.8 Consensus size: 30
4911393 AGCAAAAAAA
* * *
4911403 TAAAAATTACATTTTAGCCCCTGATCTTTTC
1 TAAAAATTACATTTT-GACCCTAAACTTTTC
4911434 -AAAAATTACATTTTGACCCTAAACTTTTC
1 TAAAAATTACATTTTGACCCTAAACTTTTC
* * *
4911463 TAAAATTTACATTTTGACCCCAAAATTTTC
1 TAAAAATTACATTTTGACCCTAAACTTTTC
** *
4911493 T-AAAATTACATTTCAACCATTAAAC-TTTC
1 TAAAAATTACATTTTGACC-CTAAACTTTTC
* *
4911522 TCAAAATTACACTTTGACCACTAAAC-TTTC
1 TAAAAATTACATTTTGACC-CTAAACTTTTC
* * *
4911552 TAAAAATTACATCTTGGCCCTATA-TTTTC
1 TAAAAATTACATTTTGACCCTAAACTTTTC
** *
4911581 CCAAAATTACATTTTTACCCTAAA
1 TAAAAATTACATTTTGACCCTAAA
4911605 TATTTTGTGT
Statistics
Matches: 140, Mismatches: 27, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
29 57 0.41
30 83 0.59
ACGTcount: A:0.36, C:0.22, G:0.03, T:0.38
Consensus pattern (30 bp):
TAAAAATTACATTTTGACCCTAAACTTTTC
Found at i:4911498 original size:59 final size:58
Alignment explanation
Indices: 4911429--4911610 Score: 170
Period size: 59 Copynumber: 3.1 Consensus size: 58
4911419 GCCCCTGATC
*
4911429 TTTTCAAAAATTACATTTTGACCCTAAACTTTTCTAAAATTTACATTTTGACCCCAAAA
1 TTTTCTAAAATTACATTTTGACCCTAAACTTTTCTAAAA-TTACATTTTGACCCCAAAA
** * * * *
4911488 TTTTCTAAAATTACATTTCAACCATTAAAC-TTTCTCAAAATTACACTTTGACCACTAAA
1 TTTTCTAAAATTACATTTTGACC-CTAAACTTTTCT-AAAATTACATTTTGACCCCAAAA
* * * * * * *
4911547 CTTTCTAAAAATTACATCTTGGCCCTATA-TTTTCCCAAAATTACATTTTTACCCTAAATA
1 TTTTCT-AAAATTACATTTTGACCCTAAACTTTT-CTAAAATTACATTTTGACCCCAAA-A
4911607 TTTT
1 TTTT
4911611 GTGTCTTCTA
Statistics
Matches: 96, Mismatches: 21, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
59 69 0.72
60 27 0.28
ACGTcount: A:0.36, C:0.21, G:0.03, T:0.40
Consensus pattern (58 bp):
TTTTCTAAAATTACATTTTGACCCTAAACTTTTCTAAAATTACATTTTGACCCCAAAA
Found at i:4912165 original size:23 final size:23
Alignment explanation
Indices: 4912135--4912198 Score: 87
Period size: 22 Copynumber: 2.8 Consensus size: 23
4912125 CGACCCGAAG
4912135 AAGAAGAAGAAAAAAGAAAGAAA
1 AAGAAGAAGAAAAAAGAAAGAAA
*
4912158 AAGAAGAAG-AAAAAGAGAGAAA
1 AAGAAGAAGAAAAAAGAAAGAAA
*
4912180 AA-AGGAAAGAAAAAAGAAA
1 AAGAAG-AAGAAAAAAGAAA
4912199 AAAGGAAAAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.06
22 17 0.47
23 17 0.47
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (23 bp):
AAGAAGAAGAAAAAAGAAAGAAA
Found at i:4912182 original size:12 final size:12
Alignment explanation
Indices: 4912132--4912181 Score: 59
Period size: 13 Copynumber: 4.2 Consensus size: 12
4912122 GTGCGACCCG
4912132 AAGAAGAAGAAGA
1 AAGAAGAAGAA-A
*
4912145 AAAAAGAAAGAAA
1 AAGAAG-AAGAAA
4912158 AAGAAGAAGAAA
1 AAGAAGAAGAAA
4912170 AAG-AG-AGAAA
1 AAGAAGAAGAAA
4912180 AA
1 AA
4912182 AGGAAAGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 7 0.21
11 2 0.06
12 9 0.26
13 11 0.32
14 5 0.15
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAGAAGAAGAAA
Found at i:4912183 original size:29 final size:31
Alignment explanation
Indices: 4912131--4912207 Score: 78
Period size: 29 Copynumber: 2.7 Consensus size: 31
4912121 GGTGCGACCC
* *
4912131 GAAGAAGAAGAAGA-A-AAAAGAAAGAAA-AA
1 GAAGAAGAAAAAGAGAGAAAA-AAGGAAAGAA
4912160 GAAGAAGAAAAAGAGAGAAAAAAGGAAAGAA
1 GAAGAAGAAAAAGAGAGAAAAAAGGAAAGAA
4912191 -AA-AAGAAAAA-AG-GAAAA
1 GAAGAAGAAAAAGAGAGAAAA
4912208 GTCAACAGTC
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 5 0.12
28 2 0.05
29 21 0.49
30 9 0.21
31 6 0.14
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (31 bp):
GAAGAAGAAAAAGAGAGAAAAAAGGAAAGAA
Found at i:4912190 original size:12 final size:11
Alignment explanation
Indices: 4912141--4912198 Score: 66
Period size: 12 Copynumber: 5.2 Consensus size: 11
4912131 GAAGAAGAAG
4912141 AAGAAAAAAGA
1 AAGAAAAAAGA
4912152 AAG-AAAAAG-
1 AAGAAAAAAGA
4912161 AAGAAGAAAAAGA
1 AAG-A-AAAAAGA
*
4912174 GAGAAAAAAGGA
1 AAGAAAAAA-GA
4912186 AAGAAAAAAGA
1 AAGAAAAAAGA
4912197 AA
1 AA
4912199 AAAGGAAAAG
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
9 3 0.08
10 6 0.15
11 12 0.30
12 17 0.43
13 2 0.05
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (11 bp):
AAGAAAAAAGA
Found at i:4912370 original size:16 final size:16
Alignment explanation
Indices: 4912320--4912373 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
4912310 AAACCAAAAC
* *
4912320 AGAAAAAGAAGCAG-C
1 AGAAAAAGAAGAAGAA
4912335 AGAAAAAAGAAAGAAAGAA
1 AG-AAAAAG-AAG-AAGAA
4912354 AGAAAAAGAAGAAGAA
1 AGAAAAAGAAGAAGAA
4912370 AGAA
1 AGAA
4912374 GCAGCCCACA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
15 2 0.06
16 15 0.45
17 6 0.18
18 8 0.24
19 2 0.06
ACGTcount: A:0.72, C:0.04, G:0.24, T:0.00
Consensus pattern (16 bp):
AGAAAAAGAAGAAGAA
Found at i:4912424 original size:34 final size:32
Alignment explanation
Indices: 4912386--4912467 Score: 110
Period size: 34 Copynumber: 2.5 Consensus size: 32
4912376 AGCCCACATA
4912386 CAGGCCCAGCGCAGCAGCAGGCCCAGCAGGCCCC
1 CAGGCCCAGCGCAGCAGCA-GCCCAGCA-GCCCC
* *
4912420 CAGGCCCAGTGCAGCGGCAGCCCAGCAGCCCC
1 CAGGCCCAGCGCAGCAGCAGCCCAGCAGCCCC
*
4912452 CAGGCCTAGCAGCAGC
1 CAGGCCCAGC-GCAGC
4912468 CCAACAGGCC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
32 13 0.30
33 13 0.30
34 17 0.40
ACGTcount: A:0.21, C:0.45, G:0.32, T:0.02
Consensus pattern (32 bp):
CAGGCCCAGCGCAGCAGCAGCCCAGCAGCCCC
Found at i:4912505 original size:7 final size:7
Alignment explanation
Indices: 4912493--4912540 Score: 53
Period size: 7 Copynumber: 6.9 Consensus size: 7
4912483 AGTCTAGAAA
4912493 AAAAAAG
1 AAAAAAG
4912500 AAAAAAG
1 AAAAAAG
4912507 AAAAAGAG
1 AAAAA-AG
**
4912515 AGGAAA-
1 AAAAAAG
*
4912521 AAAGAAG
1 AAAAAAG
4912528 AAAAAAG
1 AAAAAAG
4912535 AAAAAA
1 AAAAAA
4912541 AAGGGTTTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
6 3 0.09
7 25 0.76
8 5 0.15
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:4912520 original size:11 final size:10
Alignment explanation
Indices: 4912488--4912543 Score: 64
Period size: 10 Copynumber: 5.9 Consensus size: 10
4912478 AGCCCAGTCT
*
4912488 AGAAAAAAAA
1 AGAAAAAAGA
4912498 AGAAAAAAG-
1 AGAAAAAAGA
*
4912507 A-AAAAGAGA
1 AGAAAAAAGA
*
4912516 GGAAAAAAGA
1 AGAAAAAAGA
4912526 AGAAAAAAGA
1 AGAAAAAAGA
4912536 A-AAAAAAG
1 AGAAAAAAG
4912544 GGTTTTAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
8 6 0.15
9 8 0.21
10 25 0.64
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AGAAAAAAGA
Found at i:4913173 original size:18 final size:17
Alignment explanation
Indices: 4913143--4913841 Score: 194
Period size: 17 Copynumber: 39.8 Consensus size: 17
4913133 TTTAAAAAAA
*
4913143 TTCGTATTTCAAAAATT
1 TTCGTGTTTCAAAAATT
*
4913160 TTCGTGTTTCCAAAATT
1 TTCGTGTTTCAAAAATT
* *
4913177 TTGCGTGTTT-TAAAATC
1 TT-CGTGTTTCAAAAATT
4913194 TTCGTGTTTTCAAAAAATT
1 TTCGTG-TTTC-AAAAATT
*
4913213 TTGGTGTTTCAAAAAATT
1 TTCGTGTTTC-AAAAATT
** * * *
4913231 CCCGTATTTTAAAAGTT
1 TTCGTGTTTCAAAAATT
* *
4913248 CTAG-GTTTTCAAAAATT
1 TTCGTG-TTTCAAAAATT
* *
4913265 ATCGCGTTTTCAAAAATT
1 TTCGTG-TTTCAAAAATT
***
4913283 TTCGTGTTTTGTAAATT
1 TTCGTGTTTCAAAAATT
***
4913300 TTCGT-TTT-TTGAATT
1 TTCGTGTTTCAAAAATT
* *
4913315 CTCGT-ATT-AAAAATT
1 TTCGTGTTTCAAAAATT
* * *
4913330 CTCGTATTTCACAAACTT
1 TTCGTGTTTCA-AAAATT
*
4913348 TT--T-TTTAAAAAAATT
1 TTCGTGTTT-CAAAAATT
* * *
4913363 CTAGTGTTATCAAAAAAAT
1 TTCGTGTT-TC-AAAAATT
* **
4913382 CTATTGTTTCAAAAATT
1 TTCGTGTTTCAAAAATT
* *
4913399 TTCGTATTTTAAAAAAATAT
1 TTCGT-GTTT-CAAAAAT-T
*** *
4913419 TCTCGTGTTTTGTAAACT
1 T-TCGTGTTTCAAAAATT
* ***
4913437 TTCATGTTCTTTTAAATT
1 TTCGTGTT-TCAAAAATT
* *
4913455 CTCGTATTTCAAAAATT
1 TTCGTGTTTCAAAAATT
* * *
4913472 TCCGTGCTTTAAAAAAAATC
1 TTCGTG-TTT--CAAAAATT
* *
4913492 CTCGTGTTTTAAAAATT
1 TTCGTGTTTCAAAAATT
* *
4913509 TCCGTGTTT-TAAAATT
1 TTCGTGTTTCAAAAATT
*
4913525 TTCGCGTTCTCAAAAATT
1 TTCGTGTT-TCAAAAATT
4913543 TCTCGTGTTTCAAAAAAATT
1 T-TCGTGTTTC--AAAAATT
* **
4913563 GTCGTGTTTCGCAAATT
1 TTCGTGTTTCAAAAATT
**
4913580 TTCGTGTTTTTAAAATT
1 TTCGTGTTTCAAAAATT
* *
4913597 CTCGTATTTC-AAAATT
1 TTCGTGTTTCAAAAATT
*
4913613 TTCCGTGTTTTAAAAAAATT
1 TT-CGTG-TTT-CAAAAATT
*
4913633 TCTCGTGTTTCACAAATT
1 T-TCGTGTTTCAAAAATT
* *
4913651 TCCGTGTTT----TATT
1 TTCGTGTTTCAAAAATT
*
4913664 TT-GTGTTCTGAAAAAATT
1 TTCGTGTT-T-CAAAAATT
* *
4913682 CTCGTGTTTCGAAAATT
1 TTCGTGTTTCAAAAATT
* * **
4913699 GTCATGTTTCGCAAATT
1 TTCGTGTTTCAAAAATT
*
4913716 TTCGTGTTGT-GAAAATT
1 TTCGTGTT-TCAAAAATT
* * *
4913733 TTCAGGTTTTTTAAAAAAAAT
1 TTC--G-TGTTT-CAAAAATT
*
4913754 TTCGTGTTTCTAAAATT
1 TTCGTGTTTCAAAAATT
*
4913771 CTCGTGTTTTCAAAAAAAAATT
1 TTCGTG-TTTC----AAAAATT
*
4913793 TTCGTGTTTTCAAAAAATA
1 TTCGTG-TTTC-AAAAATT
4913812 TT-GTGTTTC-AAAATT
1 TTCGTGTTTCAAAAATT
*
4913827 CTCGTGTTTTCAAAA
1 TTCGTG-TTTCAAAA
4913842 TAAGAGATTC
Statistics
Matches: 510, Mismatches: 118, Indels: 107
0.69 0.16 0.15
Matches are distributed among these distances:
12 5 0.01
13 5 0.01
15 35 0.07
16 33 0.06
17 186 0.36
18 110 0.22
19 71 0.14
20 36 0.07
21 13 0.03
22 16 0.03
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (17 bp):
TTCGTGTTTCAAAAATT
Found at i:4913198 original size:34 final size:35
Alignment explanation
Indices: 4913149--4913226 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 35
4913139 AAAATTCGTA
* *
4913149 TTTCAAAAATTTTCGTG-TTTC-CAAAATTTTGCGTG
1 TTTC-AAAATCTTCGTGTTTTCAAAAAATTTTG-GTG
*
4913184 TTTTAAAATCTTCGTGTTTTCAAAAAATTTTGGTG
1 TTTCAAAATCTTCGTGTTTTCAAAAAATTTTGGTG
4913219 TTTCAAAA
1 TTTCAAAA
4913227 AATTCCCGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
34 11 0.30
35 17 0.46
36 9 0.24
ACGTcount: A:0.29, C:0.12, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTCAAAATCTTCGTGTTTTCAAAAAATTTTGGTG
Found at i:4913205 original size:52 final size:50
Alignment explanation
Indices: 4913149--4913292 Score: 146
Period size: 53 Copynumber: 2.8 Consensus size: 50
4913139 AAAATTCGTA
*
4913149 TTTCAAAAATTTTCGTGTTTCCAAAATTTTGCGTGTTTTAAAATCTTCGT-GT
1 TTTCAAAAATTTTCGTGTTTCAAAAATTTT-CGTGTTTTAAAA-CTTC-TAGT
* ** * *
4913201 TTTCAAAAAATTTTGGTGTTTCAAAAAATTCCCGTATTTTAAAAGTTCTAGGT
1 TTTC-AAAAATTTTCGTGTTTC-AAAAATTTTCGTGTTTTAAAACTTCTA-GT
* *
4913254 TTTCAAAAATTATCGCGTTTTCAAAAATTTTCGTGTTTT
1 TTTCAAAAATTTTCGTG-TTTCAAAAATTTTCGTGTTTT
4913293 GTAAATTTTC
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
51 1 0.01
52 31 0.41
53 37 0.49
54 6 0.08
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (50 bp):
TTTCAAAAATTTTCGTGTTTCAAAAATTTTCGTGTTTTAAAACTTCTAGT
Found at i:4913379 original size:20 final size:18
Alignment explanation
Indices: 4913354--4913396 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
4913344 ACTTTTTTTT
4913354 AAAAAAATTCTAGTGTTATC
1 AAAAAAA-TCTAGTGTT-TC
*
4913374 AAAAAAATCTATTGTTTC
1 AAAAAAATCTAGTGTTTC
4913392 AAAAA
1 AAAAA
4913397 TTTTCGTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 7 0.32
19 8 0.36
20 7 0.32
ACGTcount: A:0.51, C:0.09, G:0.07, T:0.33
Consensus pattern (18 bp):
AAAAAAATCTAGTGTTTC
Found at i:4913506 original size:37 final size:37
Alignment explanation
Indices: 4913450--4913661 Score: 132
Period size: 37 Copynumber: 5.9 Consensus size: 37
4913440 ATGTTCTTTT
*
4913450 AAATTCTCGTATTTCAAAAATTTCCGTGCTTTAAAAA
1 AAATCCTCGTATTTCAAAAATTTCCGTGCTTTAAAAA
* * *
4913487 AAATCCTCGTGTTTTAAAAATTTCCGTG-TTT-TAAA
1 AAATCCTCGTATTTCAAAAATTTCCGTGCTTTAAAAA
** * * * *
4913522 ATTTTCGCGT-TCTCAAAAATTTCTCGTG-TTTCAAAA
1 AAATCCTCGTATTTCAAAAATTTC-CGTGCTTTAAAAA
** * ** * **
4913558 AAATTGTCGTGTTTCGCAAATTTTCGTG-TTT--TTA
1 AAATCCTCGTATTTCAAAAATTTCCGTGCTTTAAAAA
* * *
4913592 AAATTCTCGTATTTCAAAATTTTCCGTGTTTTAAAAA
1 AAATCCTCGTATTTCAAAAATTTCCGTGCTTTAAAAA
* * * * *
4913629 AATTTCTCGTGTTTCACAAATTTCCGTGTTTTA
1 AAATCCTCGTATTTCAAAAATTTCCGTGCTTTA
4913662 TTTTGTGTTC
Statistics
Matches: 136, Mismatches: 33, Indels: 12
0.75 0.18 0.07
Matches are distributed among these distances:
34 34 0.25
35 19 0.14
36 19 0.14
37 64 0.47
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.44
Consensus pattern (37 bp):
AAATCCTCGTATTTCAAAAATTTCCGTGCTTTAAAAA
Found at i:4913558 original size:71 final size:70
Alignment explanation
Indices: 4913446--4913735 Score: 265
Period size: 71 Copynumber: 4.2 Consensus size: 70
4913436 TTTCATGTTC
* * * * * *
4913446 TTTT-AAATTCTCGTATT-TCAAAAATTTCCGTGCTTTAAAAAAAATCCTCGTGTTTTAAAAATT
1 TTTTAAAATTTTCGTGTTCTCAAAAATTTCCGTG-TTTCAAAAAAATTCTCGTGTTTCACAAATT
4913509 TCCGTG
65 TCCGTG
* * *
4913515 TTTTAAAATTTTCGCGTTCTCAAAAATTTCTCGTGTTTCAAAAAAATTGTCGTGTTTCGCAAATT
1 TTTTAAAATTTTCGTGTTCTCAAAAATTTC-CGTGTTTCAAAAAAATTCTCGTGTTTCACAAATT
*
4913580 TTCGTG
65 TCCGTG
* * * *
4913586 TTTTTAAAATTCTCGTATT-TCAAAATTTTCCGTGTTTTAAAAAAATTTCTCGTGTTTCACAAAT
1 -TTTTAAAATTTTCGTGTTCTCAAAAATTTCCGTGTTTCAAAAAAA-TTCTCGTGTTTCACAAAT
4913650 TTCCGTG
64 TTCCGTG
* * * * * *
4913657 TTTT---ATTTT-GTGTTCTGAAAAAATTCTCGTGTTTC--GAAAATTGTCATGTTTCGCAAATT
1 TTTTAAAATTTTCGTGTTCTCAAAAATTTC-CGTGTTTCAAAAAAATTCTCGTGTTTCACAAATT
*
4913716 TTCGTG
65 TCCGTG
*
4913722 TTGTGAAAATTTTC
1 TT-TTAAAATTTTC
4913736 AGGTTTTTTA
Statistics
Matches: 179, Mismatches: 30, Indels: 23
0.77 0.13 0.10
Matches are distributed among these distances:
65 23 0.13
66 9 0.05
67 12 0.07
68 7 0.04
69 9 0.05
70 28 0.16
71 72 0.40
72 19 0.11
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (70 bp):
TTTTAAAATTTTCGTGTTCTCAAAAATTTCCGTGTTTCAAAAAAATTCTCGTGTTTCACAAATTT
CCGTG
Found at i:4913650 original size:88 final size:87
Alignment explanation
Indices: 4913493--4913659 Score: 205
Period size: 88 Copynumber: 1.9 Consensus size: 87
4913483 AAAAAAATCC
* * *
4913493 TCGTGTTTTAAAAATTTCCGTGTTTTAAAATTTTCGCGTTCTCAAAAATTTCTCGTGTTTCAAAA
1 TCGTGTTTTAAAAATTTCCGTATTTCAAAATTTTCGCGTTCTAAAAAATTTCTCGTGTTTC-AAA
4913558 AAATTGT-CGTGTTTCGCAAATTT
65 AAATT-TCCGTGTTTCGCAAATTT
* * *
4913581 TCGTGTTTTTAAAA-TTCTCGTATTTCAAAATTTTCCGTGTTTTAAAAAAATTTCTCGTGTTTC-
1 TCGTGTTTTAAAAATTTC-CGTATTTCAAAATTTT-CGCGTTCT-AAAAAATTTCTCGTGTTTCA
*
4913644 ACAAATTTCCGTGTTT
63 AAAAATTTCCGTGTTT
4913660 TATTTTGTGT
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
87 4 0.06
88 40 0.59
89 6 0.09
90 18 0.26
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (87 bp):
TCGTGTTTTAAAAATTTCCGTATTTCAAAATTTTCGCGTTCTAAAAAATTTCTCGTGTTTCAAAA
AATTTCCGTGTTTCGCAAATTT
Found at i:4913687 original size:119 final size:120
Alignment explanation
Indices: 4913555--4913780 Score: 280
Period size: 119 Copynumber: 1.9 Consensus size: 120
4913545 TCGTGTTTCA
* * * * **
4913555 AAAAAATTGTCGTGTTTCGCAAATTTTCGTGTTTTTAAAATTCTCGTATT-TCAAAATTTTC-CG
1 AAAAAATTCTCGTGTTTCGAAAATTGTCATGTTTCGAAAATTCTCGTATTGTCAAAATTTTCACG
*
4913618 TGTTTTAAAAAAATTTCTCGTGTTTC-ACAAATT-TCCGTGTTTTATTTTGTGTTCTG
66 TGTTTTAAAAAAAATT-TCGTGTTTCTA-AAATTCT-CGTGTTTTATTTTGTGTTCTG
* * * * *
4913674 AAAAAATTCTCGTGTTTCGAAAATTGTCATGTTTCGCAAATTTTCGTGTTGTGAAAATTTTCAGG
1 AAAAAATTCTCGTGTTTCGAAAATTGTCATGTTTCGAAAATTCTCGTATTGTCAAAATTTTCACG
*
4913739 TTTTTTAAAAAAAATTTCGTGTTTCTAAAATTCTCGTGTTTT
66 TGTTTTAAAAAAAATTTCGTGTTTCTAAAATTCTCGTGTTTT
4913781 CAAAAAAAAA
Statistics
Matches: 90, Mismatches: 13, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
119 41 0.46
120 32 0.36
121 17 0.19
ACGTcount: A:0.27, C:0.12, G:0.14, T:0.46
Consensus pattern (120 bp):
AAAAAATTCTCGTGTTTCGAAAATTGTCATGTTTCGAAAATTCTCGTATTGTCAAAATTTTCACG
TGTTTTAAAAAAAATTTCGTGTTTCTAAAATTCTCGTGTTTTATTTTGTGTTCTG
Found at i:4913759 original size:38 final size:39
Alignment explanation
Indices: 4913711--4913801 Score: 107
Period size: 38 Copynumber: 2.4 Consensus size: 39
4913701 CATGTTTCGC
* **
4913711 AAATTTTCGTGTTGT-GAAAATTTTCAG-GTTTTTTAAAAA
1 AAATTTTCGTGTT-TCGAAAATTCTC-GTGTTTTCAAAAAA
*
4913750 AAA-TTTCGTGTTTCTAAAATTCTCGTGTTTTCAAAAAA
1 AAATTTTCGTGTTTCGAAAATTCTCGTGTTTTCAAAAAA
4913788 AAATTTTCGTGTTT
1 AAATTTTCGTGTTT
4913802 TCAAAAAATA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
37 2 0.04
38 30 0.67
39 13 0.29
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (39 bp):
AAATTTTCGTGTTTCGAAAATTCTCGTGTTTTCAAAAAA
Found at i:4913790 original size:22 final size:22
Alignment explanation
Indices: 4913765--4913809 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
4913755 TCGTGTTTCT
4913765 AAAATTCTCGTGTTTTCAAAAA
1 AAAATTCTCGTGTTTTCAAAAA
*
4913787 AAAATTTTCGTGTTTTCAAAAA
1 AAAATTCTCGTGTTTTCAAAAA
4913809 A
1 A
4913810 TATTGTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (22 bp):
AAAATTCTCGTGTTTTCAAAAA
Found at i:4913821 original size:39 final size:38
Alignment explanation
Indices: 4913745--4913824 Score: 99
Period size: 39 Copynumber: 2.1 Consensus size: 38
4913735 CAGGTTTTTT
* * *
4913745 AAAAAAAATTTCGTGTTTCTAAAATTCTCGTGTTTTCA
1 AAAAAAAATTTCGTGTTTCAAAAAATATCGTGTTTTCA
*
4913783 AAAAAAAATTTTCGTGTTTTCAAAAAATATTGTG-TTTCA
1 AAAAAAAA-TTTCGTG-TTTCAAAAAATATCGTGTTTTCA
4913822 AAA
1 AAA
4913825 TTCTCGTGTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 8 0.22
39 15 0.42
40 13 0.36
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (38 bp):
AAAAAAAATTTCGTGTTTCAAAAAATATCGTGTTTTCA
Found at i:4913834 original size:56 final size:59
Alignment explanation
Indices: 4913747--4913859 Score: 171
Period size: 56 Copynumber: 2.0 Consensus size: 59
4913737 GGTTTTTTAA
*
4913747 AAAAAATTTCGTGTTTCTAAAATTCTCGTGTTTTCAAAA-AA-AAATTTTCGTGTTTTC
1 AAAAAATTTCGTGTTTCTAAAATTCTCGTGTTTTCAAAATAAGAAATTCTCGTGTTTTC
*
4913804 AAAAAATATT-GTGTTTC-AAAATTCTCGTGTTTTCAAAATAAGAGATTCTCGTGTTT
1 AAAAAAT-TTCGTGTTTCTAAAATTCTCGTGTTTTCAAAATAAGAAATTCTCGTGTTT
4913860 CAATCGGATC
Statistics
Matches: 51, Mismatches: 2, Indels: 5
0.88 0.03 0.09
Matches are distributed among these distances:
56 21 0.41
57 16 0.31
58 14 0.27
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (59 bp):
AAAAAATTTCGTGTTTCTAAAATTCTCGTGTTTTCAAAATAAGAAATTCTCGTGTTTTC
Found at i:4914323 original size:56 final size:50
Alignment explanation
Indices: 4914212--4914388 Score: 162
Period size: 50 Copynumber: 3.5 Consensus size: 50
4914202 GGTCGTTACA
**
4914212 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAATGCCAAC
* * *
4914262 GCCATGTCCCAGACATGGTCTTACATGTGACCTCTCATAATTTCAATAATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---AATGCCAAC
* * * * * * *
4914318 GCCATGTCCCAGACATGATCTTACACT-GG--CTCACATATCGATGTCGAT
1 GCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCATCTCAATGCCAAC
4914366 GCCATGTCCCAGACATGGTCTTA
1 GCCATGTCCCAGACATGGTCTTA
4914389 TACGAGATCA
Statistics
Matches: 107, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
48 28 0.26
50 35 0.33
51 4 0.04
53 4 0.04
54 4 0.04
56 31 0.29
57 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAATGCCAAC
Found at i:4915480 original size:30 final size:31
Alignment explanation
Indices: 4915428--4915495 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
4915418 ACCCTTAAAA
** **
4915428 TATTTACACTATTAGTCCTTCAACTTTTTCG
1 TATTTACACTATTAACCCTTCAACTTTTGAG
4915459 TATTTACACT-TTAACCCTTCAACTTTTGAG
1 TATTTACACTATTAACCCTTCAACTTTTGAG
4915489 TATTTAC
1 TATTTAC
4915496 TCTAGGACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
30 23 0.70
31 10 0.30
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (31 bp):
TATTTACACTATTAACCCTTCAACTTTTGAG
Found at i:4916592 original size:6 final size:6
Alignment explanation
Indices: 4916568--4916611 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
4916558 TGCCTTCTTC
* * *
4916568 TCCCCTT TCCCCT TTCCCT TCCCCT TCCCTT TTCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
4916612 GGATTGCAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
6 26 0.84
7 5 0.16
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (6 bp):
TCCCCT
Found at i:4916595 original size:18 final size:18
Alignment explanation
Indices: 4916568--4916611 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
4916558 TGCCTTCTTC
4916568 TCCCCTTTCCCCTTTCCCT
1 TCCCC-TTCCCCTTTCCCT
*
4916587 TCCCCTTCCCTTTTCCCT
1 TCCCCTTCCCCTTTCCCT
4916605 TCCCCTT
1 TCCCCTT
4916612 GGATTGCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 19 0.79
19 5 0.21
ACGTcount: A:0.00, C:0.57, G:0.00, T:0.43
Consensus pattern (18 bp):
TCCCCTTCCCCTTTCCCT
Found at i:4916705 original size:25 final size:25
Alignment explanation
Indices: 4916671--4916720 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
4916661 CAGGTAAGAC
4916671 TCCTTCTTCTTCTTCCGTTCTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
* *
4916696 TCCTTTTTCTTCTTCTGTTCTTCAT
1 TCCTTCTTCTTCTTCCGTTCTTCAT
4916721 CTTCTCTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.04, C:0.32, G:0.04, T:0.60
Consensus pattern (25 bp):
TCCTTCTTCTTCTTCCGTTCTTCAT
Found at i:4929261 original size:51 final size:51
Alignment explanation
Indices: 4929198--4929306 Score: 209
Period size: 51 Copynumber: 2.1 Consensus size: 51
4929188 AATCAGCAGT
4929198 ATCCTATAAAACTCGATAGTATGGTAGAAAAAAAATATGAATCTTTCTACC
1 ATCCTATAAAACTCGATAGTATGGTAGAAAAAAAATATGAATCTTTCTACC
4929249 ATCCTATAAAACTCGATAGTATGGTAGAAAAAAAATATGAATCTTTCTACC
1 ATCCTATAAAACTCGATAGTATGGTAGAAAAAAAATATGAATCTTTCTACC
*
4929300 ATACTAT
1 ATCCTAT
4929307 CTATATCTAT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 57 1.00
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (51 bp):
ATCCTATAAAACTCGATAGTATGGTAGAAAAAAAATATGAATCTTTCTACC
Found at i:4942284 original size:18 final size:18
Alignment explanation
Indices: 4942261--4942295 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4942251 GTTTCTGAAC
4942261 TTTTTGGCTAAGTCTAGA
1 TTTTTGGCTAAGTCTAGA
* *
4942279 TTTTTGGGTCAGTCTAG
1 TTTTTGGCTAAGTCTAG
4942296 GTTGTGTGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.11, G:0.26, T:0.46
Consensus pattern (18 bp):
TTTTTGGCTAAGTCTAGA
Found at i:4948384 original size:32 final size:31
Alignment explanation
Indices: 4948348--4948440 Score: 84
Period size: 32 Copynumber: 3.0 Consensus size: 31
4948338 GAGAAGTCTA
4948348 TTATATGAGGAAGCCTTTGTGGTTATCTAATG
1 TTATATGAGGAAGCCTTTGTGG-TATCTAATG
* * * *
4948380 TTATATAACGATGCCTTTGTGG-CTCTATATG
1 TTATATGAGGAAGCCTTTGTGGTATCTA-ATG
* *
4948411 -T-TATGTGGACGCCTTTGTGGCTATCTAATG
1 TTATATGAGGAAGCCTTTGTGG-TATCTAATG
4948441 ATGTATGGAC
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
29 15 0.31
30 8 0.16
31 7 0.14
32 19 0.39
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.41
Consensus pattern (31 bp):
TTATATGAGGAAGCCTTTGTGGTATCTAATG
Found at i:4951531 original size:6 final size:6
Alignment explanation
Indices: 4951520--4951548 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
4951510 GCAAATGAAT
4951520 CATTTC CATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTT
4951549 TGGAAATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.52
Consensus pattern (6 bp):
CATTTC
Found at i:4956702 original size:28 final size:28
Alignment explanation
Indices: 4956662--4956763 Score: 168
Period size: 28 Copynumber: 3.6 Consensus size: 28
4956652 TGACTTTTGA
* *
4956662 CACTAAGTGTGCGAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATGGTAAAG
*
4956690 CACTAAGTGTGCGAGTTTAATGGCAAAG
1 CACTAAGTGTGCGAGTTTAATGGTAAAG
*
4956718 CACTAAGTGTGCGAGTTTAATGGAAAAG
1 CACTAAGTGTGCGAGTTTAATGGTAAAG
4956746 CACTAAGTGTGCGAGTTT
1 CACTAAGTGTGCGAGTTT
4956764 GATTATTGAA
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 70 1.00
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATGGTAAAG
Found at i:4956778 original size:56 final size:54
Alignment explanation
Indices: 4956661--4956788 Score: 168
Period size: 56 Copynumber: 2.3 Consensus size: 54
4956651 TTGACTTTTG
* *
4956661 ACACTAAGTGTGCGAATTTAATTGTAAAGCACTAAGTGTGCGAGTTTAATGGCAA
1 ACACTAAGTGTGCGAATTTAATGGAAAAGCACTAAGTGTGCGAGTTTAATGG-AA
* *
4956716 AGCACTAAGTGTGCGAGTTTAATGGAAAAGCACTAAGTGTGCGAGTTTGATTATTG-A
1 A-CACTAAGTGTGCGAATTTAATGGAAAAGCACTAAGTGTGCGAGTTT-A--ATGGAA
4956773 ACACTAAGTGTGCGAA
1 ACACTAAGTGTGCGAA
4956789 CTTATTAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
55 1 0.02
56 57 0.89
57 3 0.05
59 3 0.05
ACGTcount: A:0.34, C:0.12, G:0.26, T:0.28
Consensus pattern (54 bp):
ACACTAAGTGTGCGAATTTAATGGAAAAGCACTAAGTGTGCGAGTTTAATGGAA
Found at i:4957546 original size:23 final size:23
Alignment explanation
Indices: 4957484--4958131 Score: 406
Period size: 23 Copynumber: 28.0 Consensus size: 23
4957474 TCTACAATTG
* *
4957484 GTATATATATGCTGCCCAATTTT
1 GTATATACATGCTGTCCAATTTT
*
4957507 GGTGA-ATAAATGCTGTCCAATTTT
1 -GT-ATATACATGCTGTCCAATTTT
*
4957531 GTATATACATGCTGTCAAATTTT
1 GTATATACATGCTGTCCAATTTT
* *
4957554 GTGTATA-ACTGCTGTCCAA-ATT
1 GTATATACA-TGCTGTCCAATTTT
* * *
4957576 GCTACATATATGCTGCCCAATTTT
1 G-TATATACATGCTGTCCAATTTT
*
4957600 GGTGA-ATAAATGCTGTCCAATTTTAT
1 -GT-ATATACATGCTGTCCAA-TTT-T
*
4957626 GTATA-AC-TGCTGTCCAA-ATT
1 GTATATACATGCTGTCCAATTTT
* *
4957646 GCTAGATATATGCTG-CCAAATTTT
1 G-TATATACATGCTGTCC-AATTTT
* *
4957670 GGTGA-ATAAATGTTGTCCAATTTT
1 -GT-ATATACATGCTGTCCAATTTT
*
4957694 GTATATACATGCTGTCAAATTTT
1 GTATATACATGCTGTCCAATTTT
* * * *
4957717 ATGTATA-AGTGTTGTCCAA-ATT
1 GTATATACA-TGCTGTCCAATTTT
* * *
4957739 GCTACATATATGCTGCCCAATTTT
1 G-TATATACATGCTGTCCAATTTT
*
4957763 GGTGA-ATAAATGCTGTCCAATTTT
1 -GT-ATATACATGCTGTCCAATTTT
4957787 GTATATACATGCTGTCCAATTTT
1 GTATATACATGCTGTCCAATTTT
* *
4957810 GTGTATA-AGTGCTGTCCAA-ATT
1 GTATATACA-TGCTGTCCAATTTT
* * *
4957832 GCTACATATATGCTGCCCAATTTT
1 G-TATATACATGCTGTCCAATTTT
*
4957856 GGTGA-ATAAATGCTGTCCAATTTT
1 -GT-ATATACATGCTGTCCAATTTT
* *
4957880 GTATATACATGTTGTCAAATTTT
1 GTATATACATGCTGTCCAATTTT
* * * *
4957903 GTGTATA-AGTGTTGTCCAAATTG
1 GTATATACA-TGCTGTCCAATTTT
*
4957926 GTATAT--ATGCTGCCCAATTTT
1 GTATATACATGCTGTCCAATTTT
*
4957947 GGTGA-ATAAATGCTGTCCAATTTT
1 -GT-ATATACATGCTGTCCAATTTT
*
4957971 GTATATACATGCTGTCAAATTTT
1 GTATATACATGCTGTCCAATTTT
* * * * *
4957994 GTGTATA-AGTACTATCCAAATTG
1 GTATATACA-TGCTGTCCAATTTT
* *
4958017 GTATATATATGCTGCCCAATTTT
1 GTATATACATGCTGTCCAATTTT
* *
4958040 GGTGA-ATAAATGTTGTCCAATTTT
1 -GT-ATATACATGCTGTCCAATTTT
*
4958064 GTATATACATGCTGTCAAATTTT
1 GTATATACATGCTGTCCAATTTT
* * * *
4958087 ATGTATA-AGTGCTGTCCAAATTG
1 GTATATACA-TGCTGTCCAATTTT
4958110 GTATATACATGCTG-CTCAATTT
1 GTATATACATGCTGTC-CAATTT
4958132 CTGATGTATA
Statistics
Matches: 490, Mismatches: 86, Indels: 97
0.73 0.13 0.14
Matches are distributed among these distances:
20 2 0.00
21 14 0.03
22 29 0.06
23 295 0.60
24 131 0.27
25 18 0.04
26 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (23 bp):
GTATATACATGCTGTCCAATTTT
Found at i:4957622 original size:70 final size:69
Alignment explanation
Indices: 4957511--4957991 Score: 366
Period size: 70 Copynumber: 7.0 Consensus size: 69
4957501 AATTTTGGTG
* * *
4957511 AATAAATGCTGTCCAATTTT-GT-ATATACATGCTGTCAAATTTTGTGTATAACTGCTGTCCAAA
1 AATATATGCTGTCCAATTTTGGTGA-ATAAATGCTGTCCAATTTTGTGTATAACTGCTGTCCAAA
4957574 TTGCT
65 TTGCT
* *
4957579 ACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTATGTATAACTGCTGTCCAAA
1 A-ATATATGCTGTCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTGTATAACTGCTGTCCAAA
4957644 TTGCT
65 TTGCT
* *
4957649 AGATATATGCTG-CCAAATTTTGGTGAATAAATGTTGTCCAATTTTGTATAT-ACATGCTGT-CA
1 A-ATATATGCTGTCC-AATTTTGGTGAATAAATGCTGTCCAATTTTGTGTATAAC-TGCTGTCCA
*
4957711 AATT-TT
63 AATTGCT
* * * * * * * *
4957717 ATGTATAAGTGTTGTCCAA-ATTGCT-ACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTC
1 A-ATAT-A-TGCTGTCCAATTTTGGTGA-ATAAATGCTGTCCAATTTT-GTGTATAACTGCTGTC
*
4957780 CAATTTTG-T
61 CAA-ATTGCT
* * * * ** *
4957789 ATATACATGCTGTCCAATTTT-GTGTATAAGTGCTGTCCAA-ATTGCTACATATA-TGCTGCCCA
1 A-ATATATGCTGTCCAATTTTGGTGAATAAATGCTGTCCAATTTTG-TGTATA-ACTGCTGTCCA
* *
4957851 ATTTTGGT
63 A-ATTGCT
* * * * * *
4957859 GAATAAATGCTGTCCAATTTT-GT-ATATACATGTTGTCAAATTTTGTGTATAAGTGTTGTCCAA
1 -AATATATGCTGTCCAATTTTGGTGA-ATAAATGCTGTCCAATTTTGTGTATAACTGCTGTCCAA
*
4957922 ATTGGT
64 ATTGCT
* *
4957928 -ATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATAT-ACATGCTGT-CAAA
1 AATATATGCTGTCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTGTATAAC-TGCTGTCCAAA
4957990 TT
65 TT
4957992 TTGTGTATAA
Statistics
Matches: 332, Mismatches: 55, Indels: 53
0.75 0.12 0.12
Matches are distributed among these distances:
67 24 0.07
68 36 0.11
69 75 0.23
70 176 0.53
71 14 0.04
72 7 0.02
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.40
Consensus pattern (69 bp):
AATATATGCTGTCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTGTATAACTGCTGTCCAAAT
TGCT
Found at i:4957660 original size:93 final size:93
Alignment explanation
Indices: 4957585--4958153 Score: 840
Period size: 93 Copynumber: 6.1 Consensus size: 93
4957575 TGCTACATAT
* * * *
4957585 ATGCTGCCCAATTTTGGTGA-ATAAATGCTGTCCAATTTTATGTATAACTGCTGTCCAAATTGCT
1 ATGCTGTCCAATTTT-GT-ATATACATGCTGTCAAATTTTATGTATAAGTGCTGTCCAAATTGCT
* *
4957649 AGATATATGCTGCCAAATTTTGGTGAATAA
64 ACATATATGCTGCCCAATTTTGGTGAATAA
* *
4957679 ATGTTGTCCAATTTTGTATATACATGCTGTCAAATTTTATGTATAAGTGTTGTCCAAATTGCTAC
1 ATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTATGTATAAGTGCTGTCCAAATTGCTAC
4957744 ATATATGCTGCCCAATTTTGGTGAATAA
66 ATATATGCTGCCCAATTTTGGTGAATAA
* *
4957772 ATGCTGTCCAATTTTGTATATACATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTAC
1 ATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTATGTATAAGTGCTGTCCAAATTGCTAC
4957837 ATATATGCTGCCCAATTTTGGTGAATAA
66 ATATATGCTGCCCAATTTTGGTGAATAA
* * * *
4957865 ATGCTGTCCAATTTTGTATATACATGTTGTCAAATTTTGTGTATAAGTGTTGTCCAAATTGGT--
1 ATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTATGTATAAGTGCTGTCCAAATTGCTAC
4957928 ATATATGCTGCCCAATTTTGGTGAATAA
66 ATATATGCTGCCCAATTTTGGTGAATAA
* * * * *
4957956 ATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGTGTATAAGTACTATCCAAATTGGTAT
1 ATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTATGTATAAGTGCTGTCCAAATTGCTAC
4958021 ATATATGCTGCCCAATTTTGGTGAATAA
66 ATATATGCTGCCCAATTTTGGTGAATAA
* * *
4958049 ATGTTGTCCAATTTTGTATATACATGCTGTCAAATTTTATGTATAAGTGCTGTCCAAATTGGTAT
1 ATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTATGTATAAGTGCTGTCCAAATTGCTAC
* * * *
4958114 ATACATGCTGCTCAATTTCTGATGTATAA
66 ATATATGCTGCCCAATTT-TGGTGAATAA
4958143 GA-GCTGTCCAA
1 -ATGCTGTCCAA
4958154 ACAGGGTAGA
Statistics
Matches: 441, Mismatches: 29, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
91 87 0.20
92 1 0.00
93 323 0.73
94 29 0.07
95 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (93 bp):
ATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTATGTATAAGTGCTGTCCAAATTGCTAC
ATATATGCTGCCCAATTTTGGTGAATAA
Found at i:4957675 original size:163 final size:163
Alignment explanation
Indices: 4957479--4957805 Score: 559
Period size: 163 Copynumber: 2.0 Consensus size: 163
4957469 AATGGTCTAC
* * *
4957479 AATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCT
1 AATTGCTAGATATATGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCT
*
4957544 GTCAAATTTTGTGTATAACTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAA
66 GTCAAATTTTATGTATAACTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAA
4957609 ATGCTGTCCAATTTTATGTATA-AC-TGCTGTCCA
131 ATGCTGTCCAA-TTT-TGTATATACATGCTGTCCA
*
4957642 AATTGCTAGATATATGCTGCCAAATTTTGGTGAATAAATGTTGTCCAATTTTGTATATACATGCT
1 AATTGCTAGATATATGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCT
* *
4957707 GTCAAATTTTATGTATAAGTGTTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAA
66 GTCAAATTTTATGTATAACTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAA
4957772 ATGCTGTCCAATTTTGTATATACATGCTGTCCA
131 ATGCTGTCCAATTTTGTATATACATGCTGTCCA
4957805 A
1 A
4957806 TTTTGTGTAT
Statistics
Matches: 155, Mismatches: 7, Indels: 4
0.93 0.04 0.02
Matches are distributed among these distances:
161 6 0.04
162 5 0.03
163 144 0.93
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.39
Consensus pattern (163 bp):
AATTGCTAGATATATGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCT
GTCAAATTTTATGTATAACTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAA
ATGCTGTCCAATTTTGTATATACATGCTGTCCA
Found at i:4957871 original size:163 final size:161
Alignment explanation
Indices: 4957479--4957900 Score: 529
Period size: 163 Copynumber: 2.6 Consensus size: 161
4957469 AATGGTCTAC
* * * *
4957479 AATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCT
1 AATTGCTAGATATATGCTG-CCAAATTTGCTGAATAAATGCTGTCCAATTTTGTATATACATGCT
*
4957544 GTCAAATTTTGTGTATAACTGCTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAA
65 GTCAAATTTTGTGTATAA-TGTTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAA
4957609 ATGCTGTCCAATTTTATGTATAACTGCTGTCCA
129 ATGCTGTCCAATTTTATGTATAACTGCTGTCCA
* *
4957642 AATTGCTAGATATATGCTGCCAAATTTTGGTGAATAAATGTTGTCCAATTTTGTATATACATGCT
1 AATTGCTAGATATATGCTGCCAAA-TTTGCTGAATAAATGCTGTCCAATTTTGTATATACATGCT
*
4957707 GTCAAATTTTATGTATAAGTGTTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAA
65 GTCAAATTTTGTGTATAA-TGTTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAA
4957772 ATGCTGTCCAA-TTT-TGTATATACATGCTGTCCA
129 ATGCTGTCCAATTTTATGTATA-AC-TGCTGTCCA
* * *
4957805 ATTTTG-T-G-TATAAGTGCTGTCCAAA-TTGCT-ACATATATGCTGCCCAATTTTGGTGA-ATA
1 A-ATTGCTAGATAT-A-TGCTG-CCAAATTTGCTGA-ATAAATGCTGTCCAATTTT-GT-ATATA
* * *
4957864 AATGCTGTCCAATTTTGTATATACATGTTGT-CAAATT
59 CATGCTGTCAAATTTTGTGTATA-ATGTTGTCCAAATT
4957901 TTGTGTATAA
Statistics
Matches: 232, Mismatches: 16, Indels: 23
0.86 0.06 0.08
Matches are distributed among these distances:
161 10 0.04
162 37 0.16
163 175 0.75
164 10 0.04
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (161 bp):
AATTGCTAGATATATGCTGCCAAATTTGCTGAATAAATGCTGTCCAATTTTGTATATACATGCTG
TCAAATTTTGTGTATAATGTTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAAAT
GCTGTCCAATTTTATGTATAACTGCTGTCCA
Found at i:4958027 original size:184 final size:184
Alignment explanation
Indices: 4957585--4958153 Score: 881
Period size: 184 Copynumber: 3.1 Consensus size: 184
4957575 TGCTACATAT
* * * *
4957585 ATGCTGCCCAATTTTGGTGA-ATAAATGCTGTCCAATTTTATGTATAACTGCTGTCCAAATTGCT
1 ATGCTGTCCAATTTT-GT-ATATACATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCT
* *
4957649 AGATATATGCTGCCAAATTTTGGTGAATAAATGTTGTCCAATTTTGTATATACATGCTGTCAAAT
64 ACATATATGCTGCCCAATTTTGGTGAATAAATGTTGTCCAATTTTGTATATACATGCTGTCAAAT
*
4957714 TTTATGTATAAGTGTTGTCCAAATTGCTACATATATGCTGCCCAATTTTGGTGAATAA
129 TTTATGTATAAGTGTTGTCCAAATTGGT--ATATATGCTGCCCAATTTTGGTGAATAA
4957772 ATGCTGTCCAATTTTGTATATACATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTAC
1 ATGCTGTCCAATTTTGTATATACATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTAC
* *
4957837 ATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGTTGTCAAATTT
66 ATATATGCTGCCCAATTTTGGTGAATAAATGTTGTCCAATTTTGTATATACATGCTGTCAAATTT
*
4957902 TGTGTATAAGTGTTGTCCAAATTGGTATATATGCTGCCCAATTTTGGTGAATAA
131 TATGTATAAGTGTTGTCCAAATTGGTATATATGCTGCCCAATTTTGGTGAATAA
* * * * *
4957956 ATGCTGTCCAATTTTGTATATACATGCTGTCAAATTTTGTGTATAAGTACTATCCAAATTGGTAT
1 ATGCTGTCCAATTTTGTATATACATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTAC
4958021 ATATATGCTGCCCAATTTTGGTGAATAAATGTTGTCCAATTTTGTATATACATGCTGTCAAATTT
66 ATATATGCTGCCCAATTTTGGTGAATAAATGTTGTCCAATTTTGTATATACATGCTGTCAAATTT
* * * *
4958086 TATGTATAAGTGCTGTCCAAATTGGTATATACATGCTGCTCAATTTCTGATGTATAA
131 TATGTATAAGTGTTGTCCAAATTGGTATAT--ATGCTGCCCAATTT-TGGTGAATAA
4958143 GA-GCTGTCCAA
1 -ATGCTGTCCAA
4958154 ACAGGGTAGA
Statistics
Matches: 355, Mismatches: 22, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
184 179 0.50
185 1 0.00
186 143 0.40
187 31 0.09
188 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (184 bp):
ATGCTGTCCAATTTTGTATATACATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTAC
ATATATGCTGCCCAATTTTGGTGAATAAATGTTGTCCAATTTTGTATATACATGCTGTCAAATTT
TATGTATAAGTGTTGTCCAAATTGGTATATATGCTGCCCAATTTTGGTGAATAA
Found at i:4964572 original size:28 final size:28
Alignment explanation
Indices: 4964532--4964655 Score: 178
Period size: 28 Copynumber: 4.4 Consensus size: 28
4964522 TGACTTTCGA
*
4964532 CACTAAGTGTGCGAATTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
4964560 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* *
4964588 CACTAAGTGTGCGAGTTTAATGGCAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * *
4964616 CACTAAGTGTGCGAGTTTGATTATTGAA-
1 CACTAAGTGTGCGAGTTTAATT-GTAAAG
4964644 CACTAAGTGTGC
1 CACTAAGTGTGC
4964656 AAACTTATTA
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
28 85 0.98
29 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.25, T:0.31
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:4966964 original size:23 final size:23
Alignment explanation
Indices: 4966906--4967156 Score: 179
Period size: 23 Copynumber: 10.8 Consensus size: 23
4966896 GCTGCTCAAT
*
4966906 TGCTGCCAAATTTTGGTGA-ATAAA
1 TGCTGTCAAATTTT-GT-ATATAAA
* *
4966930 TGCTGTCCAATTTTGTATATACA
1 TGCTGTCAAATTTTGTATATAAA
* * *
4966953 TGTTGTCAAATTTTGTGTATAAG
1 TGCTGTCAAATTTTGTATATAAA
* *
4966976 TGCTGTCCAAA-TTGGTATATATA
1 TGCTGT-CAAATTTTGTATATAAA
* *
4966999 TGCTGCCCAATTTTGGTGA-ATAAA
1 TGCTGTCAAATTTT-GT-ATATAAA
* *
4967023 TGATGTCCAATTTTGTATATAAA
1 TGCTGTCAAATTTTGTATATAAA
* * *
4967046 TGCTATCAAATTTTGTGTATAAG
1 TGCTGTCAAATTTTGTATATAAA
* * *
4967069 TACTGTCCAAA-TTGGTATATATA
1 TGCTGT-CAAATTTTGTATATAAA
* *
4967092 TGCTGCCCAATTTTGGTGA-ATAAA
1 TGCTGTCAAATTTT-GT-ATATAAA
* * *
4967116 TGTTGTCCAATTTTGTATATACA
1 TGCTGTCAAATTTTGTATATAAA
*
4967139 TGCTGTCAAATTGTGTAT
1 TGCTGTCAAATTTTGTAT
4967157 GTGTTGTCCA
Statistics
Matches: 175, Mismatches: 41, Indels: 23
0.73 0.17 0.10
Matches are distributed among these distances:
22 9 0.05
23 108 0.62
24 56 0.32
25 2 0.01
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (23 bp):
TGCTGTCAAATTTTGTATATAAA
Found at i:4967148 original size:93 final size:93
Alignment explanation
Indices: 4965355--4967215 Score: 1754
Period size: 93 Copynumber: 20.0 Consensus size: 93
4965345 TCTAAAATTG
* * * * * * * * * *
4965355 GTATATATATGCTGCCCAATTTTGGTGAATAAATGATGTCCAATTTTGTATATACATGCTGTCCA
1 GTATATACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCA
* * *
4965420 ATTTT-GTGTATAAGTGCTGTCCAA-ATT
65 ATTTTGGTGAATAAATGCTGTCCAATTTT
* * * * * * * * * *
4965447 GCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCTGTCC
1 G-TATATACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCC
* * *
4965512 AATTTT-GTGTATAAGTGCTGTCCAA-ATT
64 AATTTTGGTGAATAAATGCTGTCCAATTTT
* * * * * * * * *
4965540 GCTACATATATGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCTGTCC
1 G-TATATACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCC
* * *
4965605 AATTTT-GTGTATAAGTGCTGTCCAA-ATT
64 AATTTTGGTGAATAAATGCTGTCCAATTTT
* * * * * * * * * *
4965633 GCTACATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCTGTCC
1 G-TATATACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCC
* * *
4965698 AATTTT-GTGTATAAGTGCTGTCCAA-ATT
64 AATTTTGGTGAATAAATGCTGTCCAATTTT
* * * * * * * * * *
4965726 GCTACATATATGCTGCCAAATTTTG-GTCAATAAATGTTGTCCAATTTTGTATATACATGTTGTC
1 G-TATATACATGCTGTCAAATTTTGTGT--ATAAGTGCTGTCCAAATTGGTATATATATGCTGCC
* * * * * *
4965790 AAATTTT-GTGTATAAGTGATGTCCAAATTG
63 CAATTTTGGTGAATAAATGCTGTCCAATTTT
* * * * * * * * *
4965820 GTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGCTGTCCA
1 GTATATACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCA
* * *
4965885 ATTTT-GTGTATAAGTGCTGTCCAA-ATT
65 ATTTTGGTGAATAAATGCTGTCCAATTTT
* * * * * * * * * * * *
4965912 GCTACATATATGCTGCCAAATTTTGGTGAATAAATGTTGTCCAATTTTGTATATACATGTTGTCA
1 G-TATATACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCC
* * * * *
4965977 AATTTT-GTGTATAAGTGATGTCCAAATTG
64 AATTTTGGTGAATAAATGCTGTCCAATTTT
* * * * * * * * * ** * *
4966006 GTATATATATGCTGCCCAATTTTGGTGAATAAATGCAGTCCAATTTTGTATATACACACTGTCAA
1 GTATATACATGCTGTCAAATTTT-GTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCA
* * * * *
4966071 ATTTT-GTGTATAAGTACTGTCCAAATTG
65 ATTTTGGTGAATAAATGCTGTCCAATTTT
* ** * ** * *
4966099 GTATATATATGCTACCCAATTTTGTGTATAAGTGCTGTCCAAATTCCTACATATATGCTGCCAAA
1 GTATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
* *
4966164 TTTTGGTGAATAAATGCGGCCCAATTTT
66 TTTTGGTGAATAAATGCTGTCCAATTTT
* * *
4966192 GTATATACATGTTGTCAAATTTTGTGTCTAAGTGTTGTCCAAATTGGTATATATATGCTGCCCAA
1 GTATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
4966257 TTTTGGTGAATAAATGCTGTCCAATTTT
66 TTTTGGTGAATAAATGCTGTCCAATTTT
* * * * *
4966285 GTATATACATGCCGTCCAATTTTGTGTATAACTGCTGTCCAAATTGCTACATATATGCTGCCCAA
1 GTATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
* *
4966350 TTTTGGTGAATAAATGATGTACAATTTT
66 TTTTGGTGAATAAATGCTGTCCAATTTT
* * * * * *
4966378 GTATATACATGCTGTCCAATTTTGGGTATAACTGTTGTCCAAATTGCTACATATATGCTGCCCAA
1 GTATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
4966443 TTTTGGTGAATAAATGCTGTCCAATTTT
66 TTTTGGTGAATAAATGCTGTCCAATTTT
* * * *
4966471 GTATATACATGCTGTCCAATTTTGTGTATAAGTGTTGTCCAAATTGCTACATATATGCTGCCCAA
1 GTATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
*
4966536 TTTTGGTGAATAAATGTTGTCCAATTTT
66 TTTTGGTGAATAAATGCTGTCCAATTTT
* * * **
4966564 GTATATACATGCTGTCCAATTTTGTGTATAAGTGCTGTCCAAATTGCTACA-ATATGCTGGCAAA
1 GTATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCT-GCCCA
*
4966628 ATTCTGGTGAATAAATGCTGTCCAATTTTT
65 ATTTTGGTGAATAAATGCTGTCCAA-TTTT
*
4966658 GTATATACATGATGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
1 GTATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
*
4966723 TTTTGGTGAATAAATGATGTCCAATTTT
66 TTTTGGTGAATAAATGCTGTCCAATTTT
* * *
4966751 GTATATAAATGCTATCAAATTTTGTGTATAAGTACTGTCCAAATTGGTATATATATGCTGCCCAA
1 GTATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
*
4966816 TTTTGGTGAATAAATGTTGTCCAATTTT
66 TTTTGGTGAATAAATGCTGTCCAATTTT
*
4966844 GTATATACATGCTGTCAAA--TTGTGTAT--GTGTTGTCCAAATTGGTATATACAAGCTGCTCAA
1 GTATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATAT---A-----T--A
*
4966905 TTGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTT
56 -TGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTT
*
4966944 GTATATACATGTTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
1 GTATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
*
4967009 TTTTGGTGAATAAATGATGTCCAATTTT
66 TTTTGGTGAATAAATGCTGTCCAATTTT
* * *
4967037 GTATATAAATGCTATCAAATTTTGTGTATAAGTACTGTCCAAATTGGTATATATATGCTGCCCAA
1 GTATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
*
4967102 TTTTGGTGAATAAATGTTGTCCAATTTT
66 TTTTGGTGAATAAATGCTGTCCAATTTT
* * * *
4967130 GTATATACATGCTGTCAAA--TTGTGTAT--GTGTTGTCCAAATTGGTATATACAAGCTGCTCAA
1 GTATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
* *
4967191 TTTCTGATGTATAAGA-GCTGTCCAA
66 TTT-TGGTGAATAA-ATGCTGTCCAA
4967216 ACAGGGTAGA
Statistics
Matches: 1609, Mismatches: 131, Indels: 60
0.89 0.07 0.03
Matches are distributed among these distances:
89 51 0.03
90 16 0.01
91 18 0.01
92 47 0.03
93 1300 0.81
94 83 0.05
95 8 0.00
96 1 0.00
97 1 0.00
99 1 0.00
100 54 0.03
101 1 0.00
102 8 0.00
104 20 0.01
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (93 bp):
GTATATACATGCTGTCAAATTTTGTGTATAAGTGCTGTCCAAATTGGTATATATATGCTGCCCAA
TTTTGGTGAATAAATGCTGTCCAATTTT
Found at i:4973497 original size:20 final size:20
Alignment explanation
Indices: 4973460--4973498 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4973450 CTGCAGTTTG
* * *
4973460 AAAATTTTCATCTTTTTCCT
1 AAAAATTTCATATGTTTCCT
4973480 AAAAATTTCATATGTTTCC
1 AAAAATTTCATATGTTTCC
4973499 GATTTAGTCC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.18, G:0.03, T:0.49
Consensus pattern (20 bp):
AAAAATTTCATATGTTTCCT
Found at i:4977222 original size:10 final size:10
Alignment explanation
Indices: 4977207--4977240 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
4977197 CGTCGAGATT
*
4977207 TTTATTTTTG
1 TTTATTTTTA
4977217 TTTATTTTTA
1 TTTATTTTTA
4977227 TTTATTTTCTA
1 TTTATTTT-TA
4977238 TTT
1 TTT
4977241 GCAAAGCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 17 0.77
11 5 0.23
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:4980524 original size:19 final size:16
Alignment explanation
Indices: 4980500--4980544 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 16
4980490 TGTAATAACT
4980500 TTTAATTAAACCAAATTAA
1 TTTAATTAAACC--ATT-A
4980519 TTTAATT-AACCATTA
1 TTTAATTAAACCATTA
4980534 TTTAATTAAAC
1 TTTAATTAAAC
4980545 AAAAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.32
16 6 0.24
18 4 0.16
19 7 0.28
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (16 bp):
TTTAATTAAACCATTA
Found at i:4983978 original size:43 final size:43
Alignment explanation
Indices: 4983914--4984206 Score: 424
Period size: 43 Copynumber: 6.8 Consensus size: 43
4983904 CTTTTTTAGG
*
4983914 CCTTTAGCGGCGCTTCTCCCACAAACGCCGCTAAAGACCAAGA
1 CCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGA
*
4983957 CCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCAAGA
1 CCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGA
**
4984000 CCTTTAGCGGCAATTTTCCCACAAACGCCGCTAAAGACCAAGA
1 CCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGA
*
4984043 CCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCACGA
1 CCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGA
* *
4984086 CTTTTAGCGGCGCTTTTCCCACAAACGCCGTTAAAGACCAAGA
1 CCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGA
* * ** * * *
4984129 CCTTTAGCAGCACTTTTATCACAAACGCCACTATAGACCATGA
1 CCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGA
* ** *
4984172 CCTTTAGCGGCGCTTCTAGCAAAAACGCCGCTAAA
1 CCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAA
4984207 AACATAAACT
Statistics
Matches: 223, Mismatches: 27, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 223 1.00
ACGTcount: A:0.29, C:0.34, G:0.17, T:0.20
Consensus pattern (43 bp):
CCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCAAGA
Found at i:4984606 original size:17 final size:17
Alignment explanation
Indices: 4984584--4984616 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
4984574 ATACAAAATA
4984584 AAAACTTAATGCTACAG
1 AAAACTTAATGCTACAG
4984601 AAAACTTAATGCTACA
1 AAAACTTAATGCTACA
4984617 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.24
Consensus pattern (17 bp):
AAAACTTAATGCTACAG
Found at i:4988143 original size:52 final size:52
Alignment explanation
Indices: 4988085--4988186 Score: 195
Period size: 52 Copynumber: 2.0 Consensus size: 52
4988075 TTATTTCATT
*
4988085 TTGAACAAAACGACCCCGTTTTACTCAGTTAAAAATATTTTATTTTGTCTAC
1 TTGAACAAAACGACCCCGTTTTACTCAGCTAAAAATATTTTATTTTGTCTAC
4988137 TTGAACAAAACGACCCCGTTTTACTCAGCTAAAAATATTTTATTTTGTCT
1 TTGAACAAAACGACCCCGTTTTACTCAGCTAAAAATATTTTATTTTGTCT
4988187 GCTAAAAATT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 49 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (52 bp):
TTGAACAAAACGACCCCGTTTTACTCAGCTAAAAATATTTTATTTTGTCTAC
Found at i:4988825 original size:14 final size:14
Alignment explanation
Indices: 4988792--4988818 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4988782 CCTTAAATCA
4988792 CTAACCACAAACCC
1 CTAACCACAAACCC
4988806 CTAACCACAAACC
1 CTAACCACAAACC
4988819 TTTAACCCCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.48, G:0.00, T:0.07
Consensus pattern (14 bp):
CTAACCACAAACCC
Found at i:4989004 original size:81 final size:82
Alignment explanation
Indices: 4988835--4989008 Score: 205
Period size: 81 Copynumber: 2.1 Consensus size: 82
4988825 CCCTAACTAC
* *
4988835 TAACCCCTAAACCTTATTTAATATATAAATTAAAAAATACTAATTAATCTAAACCTTAAATCCCA
1 TAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAATCCCA
* **
4988900 ACCCGAATACCTAACCCC
66 ACCCGAATA-CGAACCAA
*
4988918 TAACCCCTAAACCTTATTT-A-ATATAAATTAAAACACACTAATTAATCTAAACCCTAAA-CCCT
1 TAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAATCCC-
* *
4988980 AACCTGACAT-CGAATCAA
65 AACCCGA-ATACGAACCAA
4988998 TGAA-CCCTAAA
1 T-AACCCCTAAA
4989009 TCCCTAACTC
Statistics
Matches: 80, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
80 15 0.19
81 43 0.54
82 3 0.04
83 19 0.24
ACGTcount: A:0.45, C:0.26, G:0.02, T:0.26
Consensus pattern (82 bp):
TAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAAATCCCA
ACCCGAATACGAACCAA
Found at i:4989029 original size:14 final size:14
Alignment explanation
Indices: 4989000--4989064 Score: 69
Period size: 14 Copynumber: 4.6 Consensus size: 14
4988990 CGAATCAATG
*
4989000 AACCCTAAATCCCT
1 AACCCTTAATCCCT
* *
4989014 AACTCTTAATCTCT
1 AACCCTTAATCCCT
4989028 AACCCTTAATCCCT
1 AACCCTTAATCCCT
* *
4989042 AACCCCTAAATCAC-
1 AA-CCCTTAATCCCT
4989056 AACCCTTAA
1 AACCCTTAA
4989065 ACCAGAACCC
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
13 6 0.14
14 27 0.64
15 9 0.21
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.26
Consensus pattern (14 bp):
AACCCTTAATCCCT
Found at i:4989059 original size:28 final size:29
Alignment explanation
Indices: 4989000--4989078 Score: 81
Period size: 28 Copynumber: 2.8 Consensus size: 29
4988990 CGAATCAATG
* * * *
4989000 AACCCTAAATCCCTAA-CTCTTAATCTCT
1 AACCCTTAATCCCTAACCCCTAAATCACT
4989028 AACCCTTAATCCCTAACCCCTAAATCAC-
1 AACCCTTAATCCCTAACCCCTAAATCACT
* **
4989056 AACCCTTAAACCAGAACCCCTAA
1 AACCCTTAATCCCTAACCCCTAA
4989079 TCCATAGTCC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 35 0.81
29 8 0.19
ACGTcount: A:0.37, C:0.39, G:0.01, T:0.23
Consensus pattern (29 bp):
AACCCTTAATCCCTAACCCCTAAATCACT
Found at i:4989573 original size:41 final size:41
Alignment explanation
Indices: 4989527--4989669 Score: 227
Period size: 41 Copynumber: 3.5 Consensus size: 41
4989517 CGGCACTTCT
4989527 TCAAAAACGCCGCTAAAGCCAAGAGCATTAGCGGCGCTTTA
1 TCAAAAACGCCGCTAAAGCCAAGAGCATTAGCGGCGCTTTA
* *
4989568 TCAAAAACGCCGCTAAAGCCCAGAGCATTAGCGGCACTTTA
1 TCAAAAACGCCGCTAAAGCCAAGAGCATTAGCGGCGCTTTA
*
4989609 CCAAAAACGCCGCTAAAG-CACAGAGCATTAGCGGCGCTTT-
1 TCAAAAACGCCGCTAAAGCCA-AGAGCATTAGCGGCGCTTTA
4989649 TCCAAAAACGCCGCTAAAGCC
1 T-CAAAAACGCCGCTAAAGCC
4989670 TCGAATGGTC
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
40 1 0.01
41 91 0.98
42 1 0.01
ACGTcount: A:0.34, C:0.30, G:0.20, T:0.15
Consensus pattern (41 bp):
TCAAAAACGCCGCTAAAGCCAAGAGCATTAGCGGCGCTTTA
Found at i:4989755 original size:40 final size:40
Alignment explanation
Indices: 4989705--4989840 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 40
4989695 TGGGCTTAGG
* * * *
4989705 TTTTTTGCGGCGTTTTCTCAAAAAACGCCGCTAATTCTC-A
1 TTTTTAGCGGCGTTTTC-CATAAAGCGCCGCTAATGCTCGA
* * * *
4989745 TTTTTAGCGGCGCTTTCCCTAAGGCGCCGCTAATGCTCTA
1 TTTTTAGCGGCGTTTTCCATAAAGCGCCGCTAATGCTCGA
* * * *
4989785 TCTTTAGCAGCGTTTTACGTAAAGCGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTCCATAAAGCGCCGCTAATGCTCGA
4989825 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
4989841 GTATCCAAAC
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 16 0.20
40 63 0.80
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTCCATAAAGCGCCGCTAATGCTCGA
Found at i:5001946 original size:45 final size:44
Alignment explanation
Indices: 5001880--5002006 Score: 175
Period size: 45 Copynumber: 2.8 Consensus size: 44
5001870 TCATTGGCTT
* *
5001880 GAAATGAATAAGACCACAGTTGAAAGACACAATGGCACTAT-ACCA
1 GAAATGAATAAGACCATAGTTGAAAGACACTATGGCAC-ATGA-CA
* * *
5001925 GAAATGAATAAGACCATAGTTGAAAGACATTATAGCAACATGATA
1 GAAATGAATAAGACCATAGTTGAAAGACACTATGGC-ACATGACA
5001970 GAAATGAATAAGACCATAGTTGAAAGACACTATGGCA
1 GAAATGAATAAGACCATAGTTGAAAGACACTATGGCA
5002007 TCATTTCAGG
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
44 1 0.01
45 69 0.95
46 3 0.04
ACGTcount: A:0.47, C:0.15, G:0.19, T:0.19
Consensus pattern (44 bp):
GAAATGAATAAGACCATAGTTGAAAGACACTATGGCACATGACA
Found at i:5001949 original size:21 final size:21
Alignment explanation
Indices: 5001925--5001994 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
5001915 CACTATACCA
5001925 GAAATGAATAAGACCATAGTT
1 GAAATGAATAAGACCATAGTT
* *
5001946 GAAA-GACATTATAGCAACAT-GATA
1 GAAATGA-A-TA-AG-ACCATAG-TT
5001970 GAAATGAATAAGACCATAGTT
1 GAAATGAATAAGACCATAGTT
5001991 GAAA
1 GAAA
5001995 GACACTATGG
Statistics
Matches: 38, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
20 2 0.05
21 14 0.37
22 5 0.13
23 5 0.13
24 10 0.26
25 2 0.05
ACGTcount: A:0.50, C:0.10, G:0.19, T:0.21
Consensus pattern (21 bp):
GAAATGAATAAGACCATAGTT
Found at i:5004941 original size:6 final size:6
Alignment explanation
Indices: 5004930--5004961 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
5004920 GAAGCTATCT
5004930 GAGTGA GAGTGA GAGTGA GAGTGA GAGTGA GA
1 GAGTGA GAGTGA GAGTGA GAGTGA GAGTGA GA
5004962 ATTTGTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.50, T:0.16
Consensus pattern (6 bp):
GAGTGA
Found at i:5005299 original size:3 final size:3
Alignment explanation
Indices: 5005291--5005339 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
5005281 CCGCAAGTAA
5005291 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
5005339 A
1 A
5005340 GTGCTATATC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:5010561 original size:17 final size:17
Alignment explanation
Indices: 5010532--5010564 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5010522 TTAATTTATA
5010532 TAAATTAATTTCTCAAT
1 TAAATTAATTTCTCAAT
5010549 TAAA-TAATATTCTCAA
1 TAAATTAAT-TTCTCAA
5010565 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (17 bp):
TAAATTAATTTCTCAAT
Found at i:5013441 original size:11 final size:12
Alignment explanation
Indices: 5013425--5013453 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
5013415 AATCTGAAAG
5013425 TTTCCT-CCCTT
1 TTTCCTCCCCTT
5013436 TTTCCTCCCCTT
1 TTTCCTCCCCTT
5013448 TTTCCT
1 TTTCCT
5013454 TCTAAACTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (12 bp):
TTTCCTCCCCTT
Found at i:5018750 original size:15 final size:15
Alignment explanation
Indices: 5018730--5018772 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
5018720 TAGTTTTATA
5018730 TTTTGTTTATTTTGT
1 TTTTGTTTATTTTGT
5018745 TTTTGTTT-TTTTGT
1 TTTTGTTTATTTTGT
*
5018759 TTTTTTTTAATTTT
1 TTTTGTTT-ATTTT
5018773 ACAATGCACT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 13 0.52
15 8 0.32
16 4 0.16
ACGTcount: A:0.07, C:0.00, G:0.09, T:0.84
Consensus pattern (15 bp):
TTTTGTTTATTTTGT
Found at i:5019745 original size:19 final size:20
Alignment explanation
Indices: 5019723--5019778 Score: 73
Period size: 18 Copynumber: 3.0 Consensus size: 20
5019713 AAAAAAAGAA
*
5019723 AAATGAAAA-ATAAAAAAAC
1 AAATGAAAAGAGAAAAAAAC
*
5019742 AAATGAAAAGAGAAAAAAAT
1 AAATGAAAAGAGAAAAAAAC
5019762 AAA--AAAAGAGAAAAAAA
1 AAATGAAAAGAGAAAAAAA
5019779 TTAATTGAGC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 14 0.41
19 9 0.26
20 11 0.32
ACGTcount: A:0.80, C:0.02, G:0.11, T:0.07
Consensus pattern (20 bp):
AAATGAAAAGAGAAAAAAAC
Found at i:5022276 original size:22 final size:22
Alignment explanation
Indices: 5022209--5022276 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
5022199 AATTTAATGT
*
5022209 CATAATATCTTTCAACTACGGT
1 CATAATATCTTTCAACTACGGC
* ** *
5022231 CTTACATAT-TTTCAGGTTAGGGC
1 CATA-ATATCTTTCA-ACTACGGC
*
5022254 CATAATATCTTTCAACTATGGC
1 CATAATATCTTTCAACTACGGC
5022276 C
1 C
5022277 TTACACATTT
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
22 18 0.53
23 16 0.47
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (22 bp):
CATAATATCTTTCAACTACGGC
Found at i:5041613 original size:51 final size:51
Alignment explanation
Indices: 5041532--5041739 Score: 312
Period size: 51 Copynumber: 4.1 Consensus size: 51
5041522 ACTTCTGATC
*
5041532 AGTGACAAGTGATAAGT-AGTAGCTTCAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGA-TAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
5041583 AGTGGCAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATTAGTGACA
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACA
*
5041634 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACA
* * * * *
5041685 AGTGGCAAGTGATAAGTGGTAGC-TTAACTACACTTATCTGATTAGGGACA
1 AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACA
5041735 AGTGA
1 AGTGA
5041740 TGAGTGATCA
Statistics
Matches: 145, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
50 28 0.19
51 116 0.80
52 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (51 bp):
AGTGACAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:5041694 original size:102 final size:101
Alignment explanation
Indices: 5041532--5041739 Score: 362
Period size: 102 Copynumber: 2.0 Consensus size: 101
5041522 ACTTCTGATC
5041532 AGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
1 AGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
* *
5041597 AGTGATAGCTTTAGCTACACTTATCTGATTAGTGACA
66 AGTGATAGC-TTAACTACACTTATCTGATTAGGGACA
* *
5041634 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
1 AGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
*
5041699 AGTGGTAGCTTAACTACACTTATCTGATTAGGGACA
66 AGTGATAGCTTAACTACACTTATCTGATTAGGGACA
5041735 AGTGA
1 AGTGA
5041740 TGAGTGATCA
Statistics
Matches: 101, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
101 30 0.30
102 71 0.70
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (101 bp):
AGTGACAAGTGATAAGTAGTAGCTTCAGCTACACTTATCTGATCAGTGACAAGTGGCAAGTGATA
AGTGATAGCTTAACTACACTTATCTGATTAGGGACA
Found at i:5043475 original size:36 final size:36
Alignment explanation
Indices: 5043421--5043514 Score: 118
Period size: 36 Copynumber: 2.6 Consensus size: 36
5043411 ACTTGCATCT
* * *
5043421 TCTTCCTCGACCGTATCTTCTTGCTTATTAGGATCA
1 TCTTCCTCGACTGCATCTTCTTGCTCATTAGGATCA
* **
5043457 TCTTCCTTGACTGCATCTTCTTGCTCATTAGGATTT
1 TCTTCCTCGACTGCATCTTCTTGCTCATTAGGATCA
5043493 TCTTCCTCGA-TCGCATCTTCTT
1 TCTTCCTCGACT-GCATCTTCTT
5043515 CCTAATCTGC
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
35 1 0.02
36 49 0.98
ACGTcount: A:0.14, C:0.29, G:0.13, T:0.45
Consensus pattern (36 bp):
TCTTCCTCGACTGCATCTTCTTGCTCATTAGGATCA
Found at i:5043478 original size:18 final size:18
Alignment explanation
Indices: 5043414--5043478 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 18
5043404 GTTCCTCACT
*
5043414 TGCATCTTCTTCCTCGAC
1 TGCATCTTCTTCCTTGAC
* * * *
5043432 CGTATCTTCTTGCTT-AT
1 TGCATCTTCTTCCTTGAC
* *
5043449 TAGGATCATCTTCCTTGAC
1 T-GCATCTTCTTCCTTGAC
5043468 TGCATCTTCTT
1 TGCATCTTCTT
5043479 GCTCATTAGG
Statistics
Matches: 33, Mismatches: 12, Indels: 4
0.67 0.24 0.08
Matches are distributed among these distances:
17 1 0.03
18 30 0.91
19 2 0.06
ACGTcount: A:0.14, C:0.29, G:0.12, T:0.45
Consensus pattern (18 bp):
TGCATCTTCTTCCTTGAC
Found at i:5045856 original size:23 final size:23
Alignment explanation
Indices: 5045796--5045874 Score: 95
Period size: 24 Copynumber: 3.3 Consensus size: 23
5045786 CTAAGCCAAA
*
5045796 AAACCATAAAAATATTAAAACCCT
1 AAACC-TAAAAATATTAAAAACCT
*
5045820 AAACCCTAAGAATATTAAAAACCT
1 AAA-CCTAAAAATATTAAAAACCT
*
5045844 AAACCTAAAAATATTTAAAACCAT
1 AAACCTAAAAATATTAAAAACC-T
*
5045868 AACCCTA
1 AAACCTA
5045875 GGAGAGAGTA
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
23 17 0.35
24 29 0.60
25 2 0.04
ACGTcount: A:0.56, C:0.22, G:0.01, T:0.22
Consensus pattern (23 bp):
AAACCTAAAAATATTAAAAACCT
Found at i:5046321 original size:15 final size:17
Alignment explanation
Indices: 5046301--5046332 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
5046291 TATATGTATA
5046301 AAAT-AATATA-CACAT
1 AAATAAATATACCACAT
5046316 AAATAAATATACCACAT
1 AAATAAATATACCACAT
5046333 CTAGATTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 6 0.40
17 5 0.33
ACGTcount: A:0.59, C:0.16, G:0.00, T:0.25
Consensus pattern (17 bp):
AAATAAATATACCACAT
Found at i:5048787 original size:45 final size:45
Alignment explanation
Indices: 5048718--5048808 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
5048708 AGATACTTGA
* * *
5048718 TGGATTCAGCCCATAGCAACCACCTTATTAATCAATGATGTCCGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
*
5048763 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTTCGG
1 TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
5048808 T
1 T
5048809 TCACATAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (45 bp):
TGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGG
Found at i:5052893 original size:135 final size:136
Alignment explanation
Indices: 5052737--5053010 Score: 435
Period size: 138 Copynumber: 2.0 Consensus size: 136
5052727 AGTTTGAGGG
* * *
5052737 ACTTAAATAGTAATTATTCCAAGGACTAAAATGATTAAAAATCAATTTTAG-T-TAGATATTGGA
1 ACTTAAATAGTAATTATTCCAAAGACTAAAATGATTAAAAATAAATTTTAGTTATAGATAGTGGA
* *
5052800 TACTGATGAGGTTGGACATTAAGTTAAAATAATTATAATTAAAATTATTAACTAAGAGTAATTAA
66 TACTGATGAGGTTGGACATTAAGTTAAAATAATTATAATTAAAATAAGTAACTAAGAGTAATT-A
5052865 ATATAAA
130 ATATAAA
* *
5052872 ACTTAGATAGTAATTATTCCAAAGACTAAAATGGTTAAAAATAAATTTTAGTTAATAGATAGTGG
1 ACTTAAATAGTAATTATTCCAAAGACTAAAATGATTAAAAATAAATTTTAGTT-ATAGATAGTGG
* *
5052937 ATGCTGATGAGGTTGGACATTAAGTTAAAATAATTATAATTAAAATAAGTAATTAAGAGTAATTA
65 ATACTGATGAGGTTGGACATTAAGTTAAAATAATTATAATTAAAATAAGTAACTAAGAGTAATTA
5053002 ATATAAA
130 ATATAAA
5053009 AC
1 AC
5053011 ATGATTAACT
Statistics
Matches: 127, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
135 47 0.37
136 1 0.01
137 10 0.08
138 69 0.54
ACGTcount: A:0.47, C:0.05, G:0.14, T:0.34
Consensus pattern (136 bp):
ACTTAAATAGTAATTATTCCAAAGACTAAAATGATTAAAAATAAATTTTAGTTATAGATAGTGGA
TACTGATGAGGTTGGACATTAAGTTAAAATAATTATAATTAAAATAAGTAACTAAGAGTAATTAA
TATAAA
Found at i:5062247 original size:13 final size:13
Alignment explanation
Indices: 5062203--5062257 Score: 58
Period size: 13 Copynumber: 4.2 Consensus size: 13
5062193 ATTCCCAAAT
5062203 CAAAATCCAAAGTCC
1 CAAAA-CCAAAGT-C
*
5062218 CAAAACCAAA-AC
1 CAAAACCAAAGTC
5062230 CAAAACCAAAGTC
1 CAAAACCAAAGTC
**
5062243 CAAAATTAAAGTC
1 CAAAACCAAAGTC
5062256 CA
1 CA
5062258 CAGTAAATAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
12 11 0.31
13 14 0.40
14 5 0.14
15 5 0.14
ACGTcount: A:0.55, C:0.29, G:0.05, T:0.11
Consensus pattern (13 bp):
CAAAACCAAAGTC
Found at i:5063003 original size:36 final size:35
Alignment explanation
Indices: 5062963--5063069 Score: 117
Period size: 35 Copynumber: 3.0 Consensus size: 35
5062953 ACGGTTTAAC
5062963 ATAATGGCATGCTTAACATGCGAATCAGAATCAGAA
1 ATAATGGCATGCTTAACATGCGAATCAGAATCA-AA
* * *
5062999 ATAATGGCATGCTTAATATG-TAAGTCAAAATCAAA
1 ATAATGGCATGCTTAACATGCGAA-TCAGAATCAAA
* * * * *
5063034 AGAATAGCATGCTTAACTTGCGAATTAGAATAAAA
1 ATAATGGCATGCTTAACATGCGAATCAGAATCAAA
5063069 A
1 A
5063070 AATATTAACA
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
35 29 0.50
36 29 0.50
ACGTcount: A:0.45, C:0.13, G:0.17, T:0.25
Consensus pattern (35 bp):
ATAATGGCATGCTTAACATGCGAATCAGAATCAAA
Found at i:5071788 original size:3 final size:3
Alignment explanation
Indices: 5071780--5071811 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
5071770 ATTTAATCTT
5071780 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5071812 TAAATATTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:5072575 original size:23 final size:23
Alignment explanation
Indices: 5072541--5072596 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
5072531 GAAATGTGTA
* *
5072541 AAAAATATATAAATAT-AAATAG
1 AAAAATAAATAAAGATGAAATAG
5072563 ACAAAATAAATAAAGATGAAATAG
1 A-AAAATAAATAAAGATGAAATAG
5072587 AATAAATAAA
1 AA-AAATAAA
5072597 AATTATACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 1 0.03
23 14 0.48
24 14 0.48
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (23 bp):
AAAAATAAATAAAGATGAAATAG
Found at i:5073295 original size:21 final size:24
Alignment explanation
Indices: 5073270--5073316 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 24
5073260 TTAAAATGAC
5073270 TTAAAAAA-C-AAATTT-TTATTT
1 TTAAAAAATCTAAATTTCTTATTT
*
5073291 TTAAAAAATCTAAATTTCTTTTTT
1 TTAAAAAATCTAAATTTCTTATTT
5073315 TT
1 TT
5073317 CTTTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 8 0.36
22 1 0.05
23 6 0.27
24 7 0.32
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.53
Consensus pattern (24 bp):
TTAAAAAATCTAAATTTCTTATTT
Found at i:5073622 original size:160 final size:157
Alignment explanation
Indices: 5073160--5073624 Score: 651
Period size: 161 Copynumber: 3.0 Consensus size: 157
5073150 AAAATCAAAG
* * * *
5073160 TTTTCTTTAAAAAAAATTACTACTTTTCTTAAAAATTAAAAC--TTATTTCGAAATAGTTG--AA
1 TTTTCTTTTAAAAAAATTACTACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTGAAAA
* * * *
5073221 -AAAGATCAAAACTTTGTTTTAAAAATTTAAACTTTTTCTTTAAAATGACTTAAAAAACAAATTT
66 CAAAAATCAAAACTTTGTTTTAAAAATTTAAAC-TTTCCTTTAAAATGAC-TAAAAAATATATTT
5073285 TTATTTTTAAAAAATCTAAA--TTTCTTTT
129 TTATTTTT-AAAAATCTAAACTTTTCTTTT
* * *
5073313 TTTTCTTTT-AAAAAATTACTATTTTTATTAAAGATCAAAGTTTTTATTTCGAAATAGTTGAAAA
1 TTTTCTTTTAAAAAAATTACTACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTGAAAA
* *
5073377 CAAAAATCAAAACTTTGTTTTAAAAATTTTAACTTTCCTTTGAAATGACTAAAATAATATATTTT
66 CAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAA-AATATATTTT
*
5073442 TATTTTTAAAAATATAAACTTTCTCTAATTT
130 TATTTTTAAAAATCTAAACTTT-TCT--TTT
*
5073473 TTTTCTTTTAAAAAAATCACTACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTGAAAA
1 TTTTCTTTTAAAAAAATTACTACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTGAAAA
*
5073538 CAAAAAT-AAAATCTTTGTTTTAAAAATTTAAACATTCCTTTAAAATGACTAAAAAATATATTTT
66 CAAAAATCAAAA-CTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAAAATATATTTT
5073602 TATTTTTAAAAATCTAAACTTTT
130 TATTTTTAAAAATCTAAACTTTT
5073625 TCTTAAGATC
Statistics
Matches: 277, Mismatches: 22, Indels: 20
0.87 0.07 0.06
Matches are distributed among these distances:
152 26 0.09
153 8 0.03
154 17 0.06
155 15 0.05
156 31 0.11
157 32 0.12
158 3 0.01
159 1 0.00
160 47 0.17
161 97 0.35
ACGTcount: A:0.42, C:0.09, G:0.05, T:0.44
Consensus pattern (157 bp):
TTTTCTTTTAAAAAAATTACTACTTTTCTTAAAGATCAAAGCTTTTATTTCGAAATAGTTGAAAA
CAAAAATCAAAACTTTGTTTTAAAAATTTAAACTTTCCTTTAAAATGACTAAAAAATATATTTTT
ATTTTTAAAAATCTAAACTTTTCTTTT
Found at i:5084285 original size:66 final size:66
Alignment explanation
Indices: 5084202--5084334 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
5084192 GAAATACAAC
* *
5084202 CTTAAAAGTTTGATGGGTGATGTGATGGTCCCAAACTGATACCATGGCTTCTCGACAAGTCCAAA
1 CTTAAAAGTTCGATGGGTGATGTGATGGTCCCAAACTGACACCATGGCTTCTCGACAAGTCCAAA
5084267 A
66 A
*
5084268 CTTAAAAGTTCGATGGGTGATGTGGTGGTCCCAAACTGACACCATGGCTTCTCGACAAGTCCAAA
1 CTTAAAAGTTCGATGGGTGATGTGATGGTCCCAAACTGACACCATGGCTTCTCGACAAGTCCAAA
5084333 A
66 A
5084334 C
1 C
5084335 CTACATGTTT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (66 bp):
CTTAAAAGTTCGATGGGTGATGTGATGGTCCCAAACTGACACCATGGCTTCTCGACAAGTCCAAA
A
Found at i:5090959 original size:9 final size:9
Alignment explanation
Indices: 5090945--5090975 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
5090935 GTTAAACGAA
5090945 TCGAGTTAT
1 TCGAGTTAT
*
5090954 TCGAGTTAA
1 TCGAGTTAT
5090963 TCGAGTTAT
1 TCGAGTTAT
5090972 TCGA
1 TCGA
5090976 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Done.