Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 52 of 195
Found at i:10863229 original size:18 final size:20
Alignment explanation
Indices: 10863183--10863229 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
10863173 TTTTTTTTAG
10863183 ATTTTTTAA-ATTTATAAAT
1 ATTTTTTAAGATTTATAAAT
10863202 ATTTTTTAAGATTTA-AAAT
1 ATTTTTTAAGATTTATAAAT
10863221 -TTTTTTAAG
1 ATTTTTTAAG
10863230 GTGGCACCCA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 9 0.33
19 13 0.48
20 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.57
Consensus pattern (20 bp):
ATTTTTTAAGATTTATAAAT
Found at i:10863671 original size:8 final size:8
Alignment explanation
Indices: 10863658--10863706 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
10863648 ATGTCTCCAG
10863658 TTATTTTT
1 TTATTTTT
10863666 TTATTTTT
1 TTATTTTT
* **
10863674 TTAGTTAC
1 TTATTTTT
*
10863682 TTATTCTT
1 TTATTTTT
*
10863690 TTATTCTT
1 TTATTTTT
10863698 TTATTTTT
1 TTATTTTT
10863706 T
1 T
10863707 AATATTTAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.14, C:0.06, G:0.02, T:0.78
Consensus pattern (8 bp):
TTATTTTT
Found at i:10864850 original size:17 final size:18
Alignment explanation
Indices: 10864813--10864851 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
10864803 TTATTTAATT
10864813 TTATATTTATAAAATATA
1 TTATATTTATAAAATATA
10864831 TTATA-TTACTAAAA-ATA
1 TTATATTTA-TAAAATATA
10864848 TTAT
1 TTAT
10864852 TTGATCTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (18 bp):
TTATATTTATAAAATATA
Found at i:10865821 original size:20 final size:20
Alignment explanation
Indices: 10865798--10865835 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10865788 ATATTTTCAA
10865798 TAAAAATCA-TATTTTTTTCT
1 TAAAAAT-ATTATTTTTTTCT
10865818 TAAAAATATTATTTTTTT
1 TAAAAATATTATTTTTTT
10865836 TATTTTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.06
20 16 0.94
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (20 bp):
TAAAAATATTATTTTTTTCT
Found at i:10866153 original size:14 final size:15
Alignment explanation
Indices: 10866123--10866157 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
10866113 TTCTCATAAT
*
10866123 ATATCAACAAGCAAA
1 ATATAAACAAGCAAA
10866138 ATATAAACAA-CAAA
1 ATATAAACAAGCAAA
10866152 ATATAA
1 ATATAA
10866158 TTTGTTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.66, C:0.14, G:0.03, T:0.17
Consensus pattern (15 bp):
ATATAAACAAGCAAA
Found at i:10867888 original size:18 final size:18
Alignment explanation
Indices: 10867865--10867900 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10867855 GATGAAAATG
10867865 TAGTTAGGACGTTCTATC
1 TAGTTAGGACGTTCTATC
*
10867883 TAGTTAGGATGTTCTATC
1 TAGTTAGGACGTTCTATC
10867901 CTAACCCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (18 bp):
TAGTTAGGACGTTCTATC
Found at i:10868813 original size:11 final size:11
Alignment explanation
Indices: 10868797--10868826 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
10868787 ATATATTAAA
10868797 ATTAAATACAT
1 ATTAAATACAT
10868808 ATTAAAATACAT
1 ATT-AAATACAT
10868820 ATTAAAT
1 ATTAAAT
10868827 GAGTATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (11 bp):
ATTAAATACAT
Found at i:10868817 original size:12 final size:12
Alignment explanation
Indices: 10868800--10868825 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10868790 TATTAAAATT
10868800 AAATACATATTA
1 AAATACATATTA
10868812 AAATACATATTA
1 AAATACATATTA
10868824 AA
1 AA
10868826 TGAGTATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATACATATTA
Found at i:10869377 original size:2 final size:2
Alignment explanation
Indices: 10869372--10869399 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
10869362 CGTATGTGTG
10869372 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10869400 AAGCACGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10873068 original size:192 final size:192
Alignment explanation
Indices: 10872741--10873124 Score: 626
Period size: 192 Copynumber: 2.0 Consensus size: 192
10872731 ACCCATAAAG
* * *
10872741 AGCATCAACTGGCATGAGGAAAACATTAAAGCAGCAACTATTTTGAAGTTCATTTCAGATTCTTT
1 AGCATCAACTGGCAGGAGGAAAACATTAAAGCAGCAACTATTTTGAAGTTCATTTCAGATTCCTC
* * **
10872806 TTTTCCAGCAAATGTGAAATCAATGACATAGGATGGACTGTGTATGGGATGTGCATCTTTCTTTA
66 TTTTCCAGCAAATGTGAAATCAATGACATAAGATGGACTGTGCACAGGATGTGCATCTTTCTTTA
* *
10872871 GACCTACCTTAAATAAGCCATCTCTCTAGCTTACAATAAGCCACACATAAACACTCCAAATT
131 GACCTACCTTAAATAAGCCATCTCTCTAACTTACAATAAGCAACACATAAACACTCCAAATT
* *
10872933 AGCATCAACTGGCAGGAGGAAAACATTAAAGCAGTAACTTTTTTGAAGTTCATTTCAGATTCCTC
1 AGCATCAACTGGCAGGAGGAAAACATTAAAGCAGCAACTATTTTGAAGTTCATTTCAGATTCCTC
10872998 TTTTCCAGCAAATGTGAAATCAA-GAACATAAGATGGACTGTGCACAGGATGTGCATCTTTCTTT
66 TTTTCCAGCAAATGTGAAATCAATG-ACATAAGATGGACTGTGCACAGGATGTGCATCTTTCTTT
* * *
10873062 AGACCTACCTTAAATAAGCCCTCTGTCTAACTTACAATAAGCAACACATAAACACTTCAAATT
130 AGACCTACCTTAAATAAGCCATCTCTCTAACTTACAATAAGCAACACATAAACACTCCAAATT
10873125 CAAATAACTG
Statistics
Matches: 177, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
191 1 0.01
192 176 0.99
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (192 bp):
AGCATCAACTGGCAGGAGGAAAACATTAAAGCAGCAACTATTTTGAAGTTCATTTCAGATTCCTC
TTTTCCAGCAAATGTGAAATCAATGACATAAGATGGACTGTGCACAGGATGTGCATCTTTCTTTA
GACCTACCTTAAATAAGCCATCTCTCTAACTTACAATAAGCAACACATAAACACTCCAAATT
Found at i:10874522 original size:15 final size:15
Alignment explanation
Indices: 10874498--10874528 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10874488 CCTCCAGAAC
10874498 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
*
10874513 AAAAAGAAAAAAAAG
1 AAAAAAAAAAAAAAG
10874528 A
1 A
10874529 TCAAATCCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:10876155 original size:18 final size:19
Alignment explanation
Indices: 10876113--10876158 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
10876103 AACTTAAAAA
10876113 ATCATATTTTAATAATTTT
1 ATCATATTTTAATAATTTT
* *
10876132 A-AATATTTTAAT-TTTTT
1 ATCATATTTTAATAATTTT
10876149 ATCATATTTT
1 ATCATATTTT
10876159 TTAAATTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
17 5 0.22
18 17 0.74
19 1 0.04
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (19 bp):
ATCATATTTTAATAATTTT
Found at i:10876665 original size:16 final size:15
Alignment explanation
Indices: 10876644--10876679 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
10876634 TGAAATTTCT
*
10876644 TTAAAATTATTAAAAA
1 TTAAAAATATT-AAAA
10876660 TTAAAAATATTAAAA
1 TTAAAAATATTAAAA
10876675 TTAAA
1 TTAAA
10876680 TATTTCATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TTAAAAATATTAAAA
Found at i:10876870 original size:23 final size:22
Alignment explanation
Indices: 10876844--10876930 Score: 79
Period size: 23 Copynumber: 3.8 Consensus size: 22
10876834 TTTATAGAAT
10876844 CCAAAAATATGATTTTTAATAAA
1 CCAAAAATATGATTTTTAA-AAA
10876867 CCAAAACAT-TGATTTTTAAAGAA
1 CCAAAA-ATATGATTTTTAAA-AA
**
10876890 -TTAAAATATGAATTTTTAAAAAA
1 CCAAAAATATG-ATTTTT-AAAAA
* *
10876913 CAAAAAATATAATTTTTA
1 CCAAAAATATGATTTTTA
10876931 TTAATAATTA
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
21 2 0.04
22 7 0.13
23 32 0.60
24 12 0.23
ACGTcount: A:0.53, C:0.07, G:0.05, T:0.36
Consensus pattern (22 bp):
CCAAAAATATGATTTTTAAAAA
Found at i:10876882 original size:46 final size:46
Alignment explanation
Indices: 10876812--10876918 Score: 114
Period size: 46 Copynumber: 2.3 Consensus size: 46
10876802 AAAATATTGA
*
10876812 TTTAAAAAA-AATAAA-ATTAGA-TTTTATAGAATCCAAAAATATG-ATT
1 TTTAAAAAACAA-AAACATT-GATTTTTAAAGAAT--AAAAATATGAATT
* * *
10876858 TTTAATAAACCAAAACATTGATTTTTAAAGAATTAAAATATGAATT
1 TTTAAAAAACAAAAACATTGATTTTTAAAGAATAAAAATATGAATT
10876904 TTTAAAAAACAAAAA
1 TTTAAAAAACAAAAA
10876919 ATATAATTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
45 8 0.16
46 29 0.57
47 14 0.27
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.34
Consensus pattern (46 bp):
TTTAAAAAACAAAAACATTGATTTTTAAAGAATAAAAATATGAATT
Found at i:10882852 original size:353 final size:352
Alignment explanation
Indices: 10882193--10882894 Score: 1208
Period size: 353 Copynumber: 2.0 Consensus size: 352
10882183 TGTTCTTTCT
* *
10882193 CCCTTTTTTGCTTTGCCAACTGTTCTTTGGGTTTAATATTCCTAGGAGCAAGTCAAGAATAATCC
1 CCCTTGTTTGCTTTGCCAACTGTTCTTTGGGTTTAATATTCCAAGGAGCAAGTCAAGAATAATCC
* **
10882258 AACCTTTGGGTTGTAGTCTTCAAGCTGAGCTTCTCGTAATTTTGACTCTAGAAGGATAATTTTCT
66 AACCTTAGGGTTGTAGTCTTCAAGCTGAGCTTCTCGTAATTTTGACTCTAGAAGGATAATTTTAG
*
10882323 GATGAAACAAATTTGGTTTCAAGTCTTTGGAAAATTGGAAAATGTCTTCTTCTTGATAAGCTAGA
131 GATGAAACAAATTTGGTTTCAAGTCTATGGAAAATTGGAAAATGTCTTCTTCTTGATAAGCTAGA
* *
10882388 TTCCCTAGCCTAGATGTCTGTATGCTACTTTTTGTGGAAAAGAAAAAAGTTTCCAGAGGATGTAT
196 TTCCCTAGCCTAGATGTCTGTATGCTACTTTTTGTGGAAAAGAAAAAAGTTTCCAGAGCATATAT
* * *
10882453 TACATGTAGAGGTTTGCTAATTGAAGCATTGTGAAATTGCTTACTTTAGTTTATAACTGATGCTG
261 TACATGTAGAGGTTTGCTAATCGAAACATTGTGAAATTGCTTACTTTA-TTTATAAATGATGCTG
10882518 CCATACATCCAACCATTTGACGTGCTCC
325 CCATACATCCAACCATTTGACGTGCTCC
* *
10882546 CCCTTGTTTGCTTTGCCAACTGTTCTTTGGGTTTAATATTCCAAGGAGCGAGTCAAGAATAATTC
1 CCCTTGTTTGCTTTGCCAACTGTTCTTTGGGTTTAATATTCCAAGGAGCAAGTCAAGAATAATCC
* *
10882611 AGCCTTAGGGTTGTAGTCTTCAAGCTGAGCTTCTCGTAATTTTGACTCTAGATGGATAATTTTAG
66 AACCTTAGGGTTGTAGTCTTCAAGCTGAGCTTCTCGTAATTTTGACTCTAGAAGGATAATTTTAG
*
10882676 GATGAAACAAATTTGGTTTCAAGTCTAT-GACAAATTGGAAAATGTCTTCTTCTTGATAAGGTAG
131 GATGAAACAAATTTGGTTTCAAGTCTATGGA-AAATTGGAAAATGTCTTCTTCTTGATAAGCTAG
*
10882740 ATTGCCTAGCCTAGATGTCTGTATGCTACTTTTTGTGGAAAAGAAAAAAGTTTCCAGAGCATATA
195 ATTCCCTAGCCTAGATGTCTGTATGCTACTTTTTGTGGAAAAGAAAAAAGTTTCCAGAGCATATA
*
10882805 TTACATGTAGAGGTTTGCTAATCGAAACATTGTGAAATTGGTTACTTTATTTATAAATGATGCTG
260 TTACATGTAGAGGTTTGCTAATCGAAACATTGTGAAATTGCTTACTTTATTTATAAATGATGCTG
*
10882870 CCATACATCCAACCGTTTGACGTGC
325 CCATACATCCAACCATTTGACGTGC
10882895 ACCCTCTTAA
Statistics
Matches: 329, Mismatches: 19, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
352 41 0.12
353 288 0.88
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (352 bp):
CCCTTGTTTGCTTTGCCAACTGTTCTTTGGGTTTAATATTCCAAGGAGCAAGTCAAGAATAATCC
AACCTTAGGGTTGTAGTCTTCAAGCTGAGCTTCTCGTAATTTTGACTCTAGAAGGATAATTTTAG
GATGAAACAAATTTGGTTTCAAGTCTATGGAAAATTGGAAAATGTCTTCTTCTTGATAAGCTAGA
TTCCCTAGCCTAGATGTCTGTATGCTACTTTTTGTGGAAAAGAAAAAAGTTTCCAGAGCATATAT
TACATGTAGAGGTTTGCTAATCGAAACATTGTGAAATTGCTTACTTTATTTATAAATGATGCTGC
CATACATCCAACCATTTGACGTGCTCC
Found at i:10894523 original size:21 final size:22
Alignment explanation
Indices: 10894481--10894524 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
10894471 TTAAATTTCT
* * *
10894481 TTTTTTCTTTCTCTTTTTTCTC
1 TTTTTTCTTTCTCCTCTCTCTC
10894503 TTTTTT-TTTCTCCTCTCTCTC
1 TTTTTTCTTTCTCCTCTCTCTC
10894524 T
1 T
10894525 AAAAATCCAG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTTTTCTTTCTCCTCTCTCTC
Found at i:10894791 original size:22 final size:19
Alignment explanation
Indices: 10894760--10894799 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 19
10894750 AACCAGTGTC
10894760 AAAATTTTCACCAAAAAATTG
1 AAAATTTTCA--AAAAAATTG
10894781 AAAATCTTTCAAAAAAATT
1 AAAAT-TTTCAAAAAAATT
10894800 TCCAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 5 0.28
22 5 0.28
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (19 bp):
AAAATTTTCAAAAAAATTG
Found at i:10895091 original size:13 final size:13
Alignment explanation
Indices: 10895075--10895099 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10895065 TTTTTATTTT
10895075 TTATTTTTTTATA
1 TTATTTTTTTATA
10895088 TTATTTTTTTAT
1 TTATTTTTTTAT
10895100 TAATAGAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTATTTTTTTATA
Found at i:10895487 original size:128 final size:126
Alignment explanation
Indices: 10895308--10895718 Score: 482
Period size: 128 Copynumber: 3.3 Consensus size: 126
10895298 ACAAAGCTCC
*
10895308 TCTAAACAGAGGCTCAACAACTTTGAAAAAAATAAATCAAGCTCCTTTAAACAGAGGCTCAACAA
1 TCTAAACAGAGGCTCAACAACTTTG--AAAAATAAAT-AAGCTCCTCTAAACAGAGGCTCAACAA
*
10895373 CTTTGAAAAATAAATGCTCCTTTAAACAGAGGCTCAACAACTTTTAAAAAATAAATAATGCTAT
63 CTTTGAAAAATAAATGCTCCTCTAAACAGAGGCTCAACAACTTTTAAAAAATAAATAATGCTAT
* * *
10895437 TCTAAACAGAGGCTCAACGACTTTTGAAAAATAAATAATGCTCCTCTAAACAGAGGTTTAACAAC
1 TCTAAACAGAGGCTCAACAAC-TTTGAAAAATAAATAA-GCTCCTCTAAACAGAGGCTCAACAAC
* *
10895502 TTTGAAAAATAAATGCTCCTCTAAATAGAGGCTCAACAAC-TTT-GAAAAT--A-AATGCTCAT
64 TTTGAAAAATAAATGCTCCTCTAAACAGAGGCTCAACAACTTTTAAAAAATAAATAATGCT-AT
* * * *
10895561 T-TAAATAGAGGCTTAACAACTTTGAAAAA-ATAA-ACGCTCTTCTAAACAGAGGCTCAACAACT
1 TCTAAACAGAGGCTCAACAACTTTGAAAAATA-AATAAGCTCCTCTAAACAGAGGCTCAACAACT
* * * * ** *
10895623 TT-AAAAATAAATGATCCTCTAAACAAAGGATCAACGATCTTGGAAAAAATAAATAAAGCT-T
65 TTGAAAAATAAATGCTCCTCTAAACAGAGGCTCAAC-AACTTTTAAAAAATAAATAATGCTAT
* * *
10895684 CTCTAAACAAATGCTCAACAACTTTAAAAAATAAA
1 -TCTAAACAGAGGCTCAACAACTTTGAAAAATAAA
10895719 GGTTCCTCTA
Statistics
Matches: 241, Mismatches: 28, Indels: 30
0.81 0.09 0.10
Matches are distributed among these distances:
119 29 0.12
120 28 0.12
121 3 0.01
122 16 0.07
123 23 0.10
124 6 0.02
125 30 0.12
126 6 0.02
127 5 0.02
128 71 0.29
129 20 0.08
130 4 0.02
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25
Consensus pattern (126 bp):
TCTAAACAGAGGCTCAACAACTTTGAAAAATAAATAAGCTCCTCTAAACAGAGGCTCAACAACTT
TGAAAAATAAATGCTCCTCTAAACAGAGGCTCAACAACTTTTAAAAAATAAATAATGCTAT
Found at i:10895646 original size:39 final size:40
Alignment explanation
Indices: 10895303--10895793 Score: 441
Period size: 39 Copynumber: 11.9 Consensus size: 40
10895293 AAGTAACAAA
10895303 GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAAATAAAT
1 GCTCCTCTAAACAGAGGCTCAACAACTTTG--AAAAATAAAT
*
10895345 CAAGCTCCTTTAAACAGAGGCTCAACAACTTTGAAAAATAAAT
1 ---GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAAT
* *
10895388 GCTCCTTTAAACAGAGGCTCAACAACTTTTAAAAAATAAATAAT
1 GCTCCTCTAAACAGAGGCTCAACAAC-TTTGAAAAAT--A-AAT
** *
10895432 GCTATTCTAAACAGAGGCTCAACGACTTTTGAAAAATAAATAAT
1 GCTCCTCTAAACAGAGGCTCAACAAC-TTTGAAAAAT--A-AAT
* *
10895476 GCTCCTCTAAACAGAGGTTTAACAACTTTGAAAAATAAAT
1 GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAAT
*
10895516 GCTCCTCTAAATAGAGGCTCAACAACTTTG-AAAATAAAT
1 GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAAT
* * * * *
10895555 GCTCATTTAAATAGAGGCTTAACAACTTTGAAAAAATAAAC
1 GCTCCTCTAAACAGAGGCTCAACAACTTTG-AAAAATAAAT
*
10895596 GCTCTTCTAAACAGAGGCTCAACAACTTT-AAAAATAAAT
1 GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAAT
* * * * *
10895635 GATCCTCTAAACAAAGGATCAACGATCTTGGAAAAAATAAAT
1 GCTCCTCTAAACAGAGGCTCAAC-AACTTTG-AAAAATAAAT
* * * * *
10895677 AAAGCTTCTCTAAACAAATGCTCAACAACTTTAAAAAATAAAG
1 ---GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAAT
* * * * * *
10895720 GTTCCTCTAATCAAAGGCTCACCAA-TTTCAGAAAAT-AAG
1 GCTCCTCTAAACAGAGGCTCAACAACTTTGA-AAAATAAAT
* ** * **
10895759 GTTTTTCTAATCAGAGGCTCAATGACTTTGAAAAA
1 GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAA
10895794 AATAAAGGCT
Statistics
Matches: 381, Mismatches: 51, Indels: 34
0.82 0.11 0.07
Matches are distributed among these distances:
39 94 0.25
40 89 0.23
41 43 0.11
42 10 0.03
43 30 0.08
44 67 0.18
45 48 0.13
ACGTcount: A:0.44, C:0.19, G:0.12, T:0.26
Consensus pattern (40 bp):
GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAAT
Found at i:10895704 original size:84 final size:84
Alignment explanation
Indices: 10895303--10895757 Score: 475
Period size: 84 Copynumber: 5.5 Consensus size: 84
10895293 AAGTAACAAA
* * *
10895303 GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAAATAAATCAAGCTCCTTTAAACAGAGGCTC
1 GCTCCTCTAAACAGAGGCTCAACAACTTTG-AAAAAATAAATAAAGCTTCTCTAAACAGAGGCTC
10895368 AACAACTTTGAAAAATAAAT
65 AACAACTTTGAAAAATAAAT
* * *
10895388 GCTCCTTTAAACAGAGGCTCAACAACTTTTAAAAAATAAATAATGCTAT-TCTAAACAGAGGCTC
1 GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATAAAGCT-TCTCTAAACAGAGGCTC
*
10895452 AACGACTTTTGAAAAATAAATAAT
65 AACAAC-TTTGAAAAAT--A-AAT
* * * *
10895476 GCTCCTCTAAACAGAGGTTTAACAACTTTG-AAAAATAAAT---GCTCCTCTAAATAGAGGCTCA
1 GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATAAAGCTTCTCTAAACAGAGGCTCA
10895537 ACAACTTTG-AAAATAAAT
66 ACAACTTTGAAAAATAAAT
* * * * *
10895555 GCTCATTTAAATAGAGGCTTAACAACTTTGAAAAAAT--A-AACGC-TCTTCTAAACAGAGGCTC
1 GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATAAAGCTTC-TCTAAACAGAGGCTC
10895616 AACAACTTT-AAAAATAAAT
65 AACAACTTTGAAAAATAAAT
* * * * * * *
10895635 GATCCTCTAAACAAAGGATCAACGATCTTGGAAAAAATAAATAAAGCTTCTCTAAACAAATGCTC
1 GCTCCTCTAAACAGAGGCTCAAC-AACTTTGAAAAAATAAATAAAGCTTCTCTAAACAGAGGCTC
* *
10895700 AACAACTTTAAAAAATAAAG
65 AACAACTTTGAAAAATAAAT
* * * * * *
10895720 GTTCCTCTAATCAAAGGCTCACCAA-TTTCAGAAAATAA
1 GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAA
10895758 GGTTTTTCTA
Statistics
Matches: 311, Mismatches: 41, Indels: 38
0.80 0.11 0.10
Matches are distributed among these distances:
78 1 0.00
79 30 0.10
80 57 0.18
81 12 0.04
82 5 0.02
83 15 0.05
84 83 0.27
85 68 0.22
87 11 0.04
88 29 0.09
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.25
Consensus pattern (84 bp):
GCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAATAAATAAAGCTTCTCTAAACAGAGGCTCA
ACAACTTTGAAAAATAAAT
Found at i:10895777 original size:204 final size:208
Alignment explanation
Indices: 10895284--10895799 Score: 529
Period size: 204 Copynumber: 2.5 Consensus size: 208
10895274 AGGGTCCATG
* * *
10895284 ACTTTAAAAAAGTAACAAAGCTCCTCTAAACAGAGGCTCAACAACTTTGAAAAAAATAAATCAAG
1 ACTTTAAAAAA-T-A-AAGGCTCCTCTAAATAAAGGCTCAACAACTTTG---AAAATAAAT---G
* *
10895349 CTCCTTTAAA-CAGAGGCTCAACAACTTTG-AAAAATAAATGCTCCTTTAAACAGAGGCTCAACA
57 CTCATTTAAATCAGAGGCTCAACAACTTTGAAAAAATAAACGCTCCTTTAAACAGAGGCTCAACA
* * * * *
10895412 ACTTTTAAAAAATAAATAATGCTATTCTAAACAGAGGCTCAACGACTTTTGAAAAATAAATAATG
122 ACTTTTAAAAAATAAATAATGC-ACTCTAAACAAAGGATCAACGACTTTGGAAAAATAAATAAAG
* * *
10895477 CTCCTCTAAACAGAGGTTTAACA
186 CTCCTCTAAACAAAGGCTCAACA
* * *
10895500 ACTTTGAAAAATAAATGCTCCTCTAAATAGAGGCTCAACAACTTTGAAAATAAATGCTCATTTAA
1 ACTTTAAAAAATAAAGGCTCCTCTAAATAAAGGCTCAACAACTTTGAAAATAAATGCTCATTTAA
*
10895565 AT-AGAGGCTTAACAACTTTGAAAAAATAAACGCT-CTTCTAAACAGAGGCTCAACAAC-TTT-A
66 ATCAGAGGCTCAACAACTTTGAAAAAATAAACGCTCCTT-TAAACAGAGGCTCAACAACTTTTAA
* *
10895626 AAAATAAATGAT-C-CTCTAAACAAAGGATCAACGA-TCTTGGAAAAAATAAATAAAGCTTCTCT
130 AAAATAAATAATGCACTCTAAACAAAGGATCAACGACT-TTGG-AAAAATAAATAAAGCTCCTCT
*
10895688 AAACAAATGCTCAACA
193 AAACAAAGGCTCAACA
* * * *
10895704 ACTTTAAAAAATAAAGGTTCCTCT-AATCAAAGGCTCACCAA-TTTCAGAAAAT-AA-GGT-TTT
1 ACTTTAAAAAATAAAGGCTCCTCTAAAT-AAAGGCTCAACAACTTT--GAAAATAAATGCTCATT
* **
10895764 TCTAATCAGAGGCTCAATGACTTTGAAAAAAATAAA
63 T-AAATCAGAGGCTCAACAACTTTG-AAAAAATAAA
10895800 GGCTTCTTGA
Statistics
Matches: 261, Mismatches: 28, Indels: 33
0.81 0.09 0.10
Matches are distributed among these distances:
202 4 0.02
203 32 0.12
204 80 0.31
205 17 0.07
206 12 0.05
207 33 0.13
208 31 0.12
210 9 0.03
213 31 0.12
214 1 0.00
215 1 0.00
216 10 0.04
ACGTcount: A:0.45, C:0.18, G:0.12, T:0.25
Consensus pattern (208 bp):
ACTTTAAAAAATAAAGGCTCCTCTAAATAAAGGCTCAACAACTTTGAAAATAAATGCTCATTTAA
ATCAGAGGCTCAACAACTTTGAAAAAATAAACGCTCCTTTAAACAGAGGCTCAACAACTTTTAAA
AAATAAATAATGCACTCTAAACAAAGGATCAACGACTTTGGAAAAATAAATAAAGCTCCTCTAAA
CAAAGGCTCAACA
Found at i:10896218 original size:21 final size:21
Alignment explanation
Indices: 10896194--10896254 Score: 86
Period size: 21 Copynumber: 2.9 Consensus size: 21
10896184 TTCACATCTC
10896194 AAATATTCTCATTTAAAATTT
1 AAATATTCTCATTTAAAATTT
*
10896215 AAATATTCTCATTTGAAATTT
1 AAATATTCTCATTTAAAATTT
* *
10896236 AAAGACTCTCATTTGAAAA
1 AAATATTCTCATTT-AAAA
10896255 CTCAAAAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
21 32 0.91
22 3 0.09
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (21 bp):
AAATATTCTCATTTAAAATTT
Found at i:10897552 original size:13 final size:12
Alignment explanation
Indices: 10897530--10897571 Score: 57
Period size: 13 Copynumber: 3.3 Consensus size: 12
10897520 TCCTTTTACA
10897530 TTTTTTTTCATT
1 TTTTTTTTCATT
10897542 TTTTTTCTTCATT
1 TTTTTT-TTCATT
*
10897555 TTATTTTTTTATT
1 TT-TTTTTTCATT
10897568 TTTT
1 TTTT
10897572 CATCCATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 8 0.30
13 15 0.56
14 4 0.15
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTTTCATT
Found at i:10898674 original size:94 final size:94
Alignment explanation
Indices: 10898513--10898704 Score: 366
Period size: 94 Copynumber: 2.0 Consensus size: 94
10898503 GAAAGAAAAC
10898513 CTAGAATGACAAGTAACATCTAACTAGCCTTAACATCCTTTTTCTTTCCAAAATTATGCTTCAAT
1 CTAGAATGACAAGTAACATCTAACTAGCCTTAACATCCTTTTTCTTTCCAAAATTATGCTTCAAT
10898578 GTAATCAACTGAAAGATTTTTCTTAACAT
66 GTAATCAACTGAAAGATTTTTCTTAACAT
* *
10898607 CTAGAATGACAAGTAACATCTAACTAGCCTTAACATCTTTTTTCTTTCCAAAATTATGCTTCCAT
1 CTAGAATGACAAGTAACATCTAACTAGCCTTAACATCCTTTTTCTTTCCAAAATTATGCTTCAAT
10898672 GTAATCAACTGAAAGATTTTTCTTAACAT
66 GTAATCAACTGAAAGATTTTTCTTAACAT
10898701 CTAG
1 CTAG
10898705 CCTCTGATTC
Statistics
Matches: 96, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 96 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.36
Consensus pattern (94 bp):
CTAGAATGACAAGTAACATCTAACTAGCCTTAACATCCTTTTTCTTTCCAAAATTATGCTTCAAT
GTAATCAACTGAAAGATTTTTCTTAACAT
Found at i:10900157 original size:18 final size:18
Alignment explanation
Indices: 10900134--10900179 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
10900124 ATGACATTTT
10900134 AGGATATGTATACCCTAC
1 AGGATATGTATACCCTAC
*
10900152 AGGATACGTATACCCTAC
1 AGGATATGTATACCCTAC
*
10900170 AAGATATGTA
1 AGGATATGTA
10900180 AATTGCTAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.26
Consensus pattern (18 bp):
AGGATATGTATACCCTAC
Found at i:10902214 original size:23 final size:22
Alignment explanation
Indices: 10902166--10902220 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
10902156 AAAAACACAT
*
10902166 AAATAAATAACTAAAAATAAATA
1 AAATAAAT-ACTAAAAATAAAAA
10902189 AAATAAATAC-AAAAATACGAAAA
1 AAATAAATACTAAAAATA--AAAA
*
10902212 AAAGAAATA
1 AAATAAATA
10902221 GCTCAGTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.25
22 2 0.07
23 19 0.68
ACGTcount: A:0.75, C:0.05, G:0.04, T:0.16
Consensus pattern (22 bp):
AAATAAATACTAAAAATAAAAA
Found at i:10906115 original size:38 final size:37
Alignment explanation
Indices: 10906054--10906127 Score: 112
Period size: 38 Copynumber: 2.0 Consensus size: 37
10906044 CTATCCTTAT
* *
10906054 TTTTTTAAATATATACTATATTTAAAATTTAAATAGA
1 TTTTTTAAATATATACGACATTTAAAATTTAAATAGA
*
10906091 TTTTTTAAGATATTTACGACATTTAAAATTTAAATAG
1 TTTTTTAA-ATATATACGACATTTAAAATTTAAATAG
10906128 TTAAAAATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
37 8 0.24
38 25 0.76
ACGTcount: A:0.43, C:0.04, G:0.05, T:0.47
Consensus pattern (37 bp):
TTTTTTAAATATATACGACATTTAAAATTTAAATAGA
Found at i:10909142 original size:225 final size:225
Alignment explanation
Indices: 10908746--10909196 Score: 776
Period size: 225 Copynumber: 2.0 Consensus size: 225
10908736 AGAATTATCT
* *
10908746 ATACAGTTGGAAAGGTACATGGTATATTTGCTAAAGGAATTGTGAGAAATTCCCATTCTGAAGGG
1 ATACAGTTGGAAAAGTACATGGTATATTTGCTAAAGGAAATGTGAGAAATTCCCATTCTGAAGGG
*
10908811 TTTTCAAGAAATTCTTTGCTTTTAGAAAATGCTCATGAATTATGAAACTATAATACTTCTAATCT
66 TTTTCAAGAAATTCTTTACTTTTAGAAAATGCTCATGAATTATGAAACTATAATACTTCTAATCT
*
10908876 TGATGGTTACTTTAAGTGGTGGAAATATGAGTTAATTTATGCTGAAACTTCTTAGTTTACAGTAG
131 TGATGGTTACTTTAACTGGTGGAAATATGAGTTAATTTATGCTGAAACTTCTTAGTTTACAGTAG
10908941 AACACAGCTTCTTAACTATGTTACTATGTA
196 AACACAGCTTCTTAACTATGTTACTATGTA
* *
10908971 ATACAGTTGTAAAAGTACATGGTATATTTGCTAAGGGAAATGTGAGAAATTCCCATTCTGAAGGG
1 ATACAGTTGGAAAAGTACATGGTATATTTGCTAAAGGAAATGTGAGAAATTCCCATTCTGAAGGG
** * *
10909036 TTTTCTTGACATTCTTTACTTTTAGAAAATGCTCATGAATTTTGAAACTATAATACTTCTAATCT
66 TTTTCAAGAAATTCTTTACTTTTAGAAAATGCTCATGAATTATGAAACTATAATACTTCTAATCT
* * *
10909101 TGATGGTTACTTTAACTGGTGGGAATATGAGTTAGTTTATGCTGAAACTTCTTAGTTTACATTAG
131 TGATGGTTACTTTAACTGGTGGAAATATGAGTTAATTTATGCTGAAACTTCTTAGTTTACAGTAG
*
10909166 AACACCGCTTCTTAACTATGTTACTATGTA
196 AACACAGCTTCTTAACTATGTTACTATGTA
10909196 A
1 A
10909197 AGTACTAAGT
Statistics
Matches: 212, Mismatches: 14, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
225 212 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.38
Consensus pattern (225 bp):
ATACAGTTGGAAAAGTACATGGTATATTTGCTAAAGGAAATGTGAGAAATTCCCATTCTGAAGGG
TTTTCAAGAAATTCTTTACTTTTAGAAAATGCTCATGAATTATGAAACTATAATACTTCTAATCT
TGATGGTTACTTTAACTGGTGGAAATATGAGTTAATTTATGCTGAAACTTCTTAGTTTACAGTAG
AACACAGCTTCTTAACTATGTTACTATGTA
Found at i:10911638 original size:80 final size:82
Alignment explanation
Indices: 10911505--10911662 Score: 284
Period size: 80 Copynumber: 2.0 Consensus size: 82
10911495 GGTAGGTCAT
10911505 TGTGTTCTGATCAGTCCCTGTTTTACTTTCCATTGATTTTGATGTTGCATTACAATAGCCAA-TA
1 TGTGTTCTGATCAGTCCCTGTTTTACTTTCCATTGATTTTGATGTTGCATTACAATAGCCAATTA
10911569 AAAAAA-GGGTATTTAC
66 AAAAAATGGGTATTTAC
* *
10911585 TGTGTTCTGATCGGTCCCTGTTTTACTTTCCATTGATTTTGATGTTTCATTACAATAGCCAATTA
1 TGTGTTCTGATCAGTCCCTGTTTTACTTTCCATTGATTTTGATGTTGCATTACAATAGCCAATTA
10911650 AAAAAATGGGTAT
66 AAAAAATGGGTAT
10911663 CATTATAGGA
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
80 60 0.81
81 8 0.11
82 6 0.08
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (82 bp):
TGTGTTCTGATCAGTCCCTGTTTTACTTTCCATTGATTTTGATGTTGCATTACAATAGCCAATTA
AAAAAATGGGTATTTAC
Found at i:10914703 original size:18 final size:18
Alignment explanation
Indices: 10914682--10914723 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10914672 TATTTAATGT
*
10914682 TATATTGATTTTTATATA
1 TATATTGAATTTTATATA
* *
10914700 TATATTTAATTTTATATT
1 TATATTGAATTTTATATA
10914718 TATATT
1 TATATT
10914724 AAAAATAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TATATTGAATTTTATATA
Found at i:10922971 original size:27 final size:27
Alignment explanation
Indices: 10922897--10922960 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
10922887 CAAAACCAAA
* * *
10922897 TTCATAACCAGATTCACAACCAGCCCC
1 TTCAAAACCAGAATCTCAACCAGCCCC
* *
10922924 TTTAAAACTAGAATCTCAACCAGCCCC
1 TTCAAAACCAGAATCTCAACCAGCCCC
10922951 TTCAAAACCA
1 TTCAAAACCA
10922961 AATTCTTAAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.38, C:0.36, G:0.06, T:0.20
Consensus pattern (27 bp):
TTCAAAACCAGAATCTCAACCAGCCCC
Found at i:10925937 original size:22 final size:22
Alignment explanation
Indices: 10925909--10925952 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10925899 ATTTTCTGTG
*
10925909 CTTAATTATAGGGATACAAATA
1 CTTAATTATAGAGATACAAATA
* *
10925931 CTTAATTCTATAGATACAAATA
1 CTTAATTATAGAGATACAAATA
10925953 TAAATATACA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.34
Consensus pattern (22 bp):
CTTAATTATAGAGATACAAATA
Found at i:10928839 original size:13 final size:14
Alignment explanation
Indices: 10928821--10928849 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10928811 ATGTATCAAC
10928821 TTTTTC-TTTTCCT
1 TTTTTCTTTTTCCT
10928834 TTTTTCTTTTTCCT
1 TTTTTCTTTTTCCT
10928848 TT
1 TT
10928850 GATATATTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTTTCTTTTTCCT
Found at i:10934500 original size:2 final size:2
Alignment explanation
Indices: 10934493--10934519 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10934483 GCATCTTTAT
10934493 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
10934520 AATCCTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10935642 original size:3 final size:3
Alignment explanation
Indices: 10935634--10935688 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
10935624 TAGTATGCTC
10935634 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10935682 TTA TTA T
1 TTA TTA T
10935689 CATTTATTTC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:10936154 original size:21 final size:21
Alignment explanation
Indices: 10936106--10936162 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
10936096 GATTTTGGAG
* *
10936106 AATTCTGGGAGTAATCTGGGCA
1 AATT-TGGGAGAAATCTGGGAA
10936128 AATTTGGGAGAAATCT-GGAA
1 AATTTGGGAGAAATCTGGGAA
10936148 AAGTTT-GGA-AAATCT
1 AA-TTTGGGAGAAATCT
10936163 TGAGTTTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 6 0.19
20 8 0.25
21 14 0.44
22 4 0.12
ACGTcount: A:0.35, C:0.09, G:0.28, T:0.28
Consensus pattern (21 bp):
AATTTGGGAGAAATCTGGGAA
Found at i:10936494 original size:6 final size:6
Alignment explanation
Indices: 10936485--10936537 Score: 51
Period size: 6 Copynumber: 9.0 Consensus size: 6
10936475 AGGTTTTCTT
10936485 TTTTTA -TTTT- TTTTTA TTTTTA TTTTT- TGATTTTA -TTTTA TTTTATA
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA T--TTTTA TTTTTA TTTT-TA
10936532 TTTTTA
1 TTTTTA
10936538 GCTCATCTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
5 14 0.35
6 16 0.40
7 10 0.25
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (6 bp):
TTTTTA
Found at i:10936498 original size:10 final size:10
Alignment explanation
Indices: 10936483--10936536 Score: 56
Period size: 10 Copynumber: 5.3 Consensus size: 10
10936473 CAAGGTTTTC
10936483 TTTTTTTATT
1 TTTTTTTATT
10936493 TTTTTTTATT
1 TTTTTTTATT
*
10936503 TTTATTT-TT
1 TTTTTTTATT
**
10936512 TGATTTTATT
1 TTTTTTTATT
10936522 TTATTTTATATT
1 TT-TTTT-TATT
10936534 TTT
1 TTT
10936537 AGCTCATCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
9 6 0.17
10 19 0.54
11 4 0.11
12 6 0.17
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:10936510 original size:23 final size:25
Alignment explanation
Indices: 10936483--10936536 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 25
10936473 CAAGGTTTTC
* *
10936483 TTTTTTTATTTTTTTTTATTTT-TA
1 TTTTTTGATTTTATTTTATTTTATA
10936507 TTTTTTGATTTTATTTTATTTTATA
1 TTTTTTGATTTTATTTTATTTTATA
10936532 TTTTT
1 TTTTT
10936537 AGCTCATCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 20 0.74
25 7 0.26
ACGTcount: A:0.15, C:0.00, G:0.02, T:0.83
Consensus pattern (25 bp):
TTTTTTGATTTTATTTTATTTTATA
Found at i:10936787 original size:17 final size:18
Alignment explanation
Indices: 10936748--10936790 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
10936738 ATTTATAAAA
10936748 ACAAAA-AAAAATCTTTT
1 ACAAAATAAAAATCTTTT
*
10936765 TC-AAATAAAAATC-TTT
1 ACAAAATAAAAATCTTTT
10936781 ACAAAATAAA
1 ACAAAATAAA
10936791 TTCATGAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (18 bp):
ACAAAATAAAAATCTTTT
Found at i:10944250 original size:24 final size:25
Alignment explanation
Indices: 10944223--10944273 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
10944213 ATAAATTTTT
*
10944223 ATATT-ATGTTCGAGCTTC-GTTTAG
1 ATATTAATGTTCAAG-TTCAGTTTAG
10944247 ATATTAATGTTCAAGTTCAGTTTAG
1 ATATTAATGTTCAAGTTCAGTTTAG
10944272 AT
1 AT
10944274 CGATTTGTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (25 bp):
ATATTAATGTTCAAGTTCAGTTTAG
Found at i:10949571 original size:25 final size:25
Alignment explanation
Indices: 10949552--10949605 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
10949542 AAATTACTAT
10949552 AATACCCTCTAACCATAATTATGAA
1 AATACCCTCTAACCATAATTATGAA
**
10949577 AATATTCTCTAACCATAATTATGAA
1 AATACCCTCTAACCATAATTATGAA
10949602 AATA
1 AATA
10949606 ACTTTCTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (25 bp):
AATACCCTCTAACCATAATTATGAA
Found at i:10950120 original size:25 final size:23
Alignment explanation
Indices: 10950092--10950146 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 23
10950082 AAATTACAAT
*
10950092 AATACTTTCTAACCATAATTATGAA
1 AATACTTT-T-ACAATAATTATGAA
10950117 AATATGCTTTTACAATAATTATGAA
1 AATA--CTTTTACAATAATTATGAA
10950142 AATAC
1 AATAC
10950147 CCTTAATCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
23 1 0.04
25 21 0.78
26 1 0.04
27 4 0.15
ACGTcount: A:0.45, C:0.13, G:0.05, T:0.36
Consensus pattern (23 bp):
AATACTTTTACAATAATTATGAA
Found at i:10950664 original size:62 final size:61
Alignment explanation
Indices: 10950589--10950706 Score: 157
Period size: 61 Copynumber: 1.9 Consensus size: 61
10950579 GTCCTCCTAC
* *
10950589 TATAATTTATCAAAATTATTATAATATCTTTATTATCAT-AATTATGAAAATACCCTTCATAT
1 TATAATTTATCAAAATTACTATAATA-CTCTATTATC-TGAATTATGAAAATACCCTTCATAT
* * * *
10950651 TATAATTTGTCAAAATTGCTATAATACTCTCTTGTCTGAATTATGAAAATACCCTT
1 TATAATTTATCAAAATTACTATAATACTCTATTATCTGAATTATGAAAATACCCTT
10950707 TTATTGCTTC
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
60 1 0.02
61 25 0.51
62 23 0.47
ACGTcount: A:0.38, C:0.14, G:0.05, T:0.43
Consensus pattern (61 bp):
TATAATTTATCAAAATTACTATAATACTCTATTATCTGAATTATGAAAATACCCTTCATAT
Found at i:10951143 original size:19 final size:19
Alignment explanation
Indices: 10951119--10951182 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
10951109 TCGATGTTAA
10951119 TAATAGATAAATATTATAT
1 TAATAGATAAATATTATAT
** *
10951138 TAATAGATTGGAT-TT-TAA
1 TAATAGA-TAAATATTATAT
10951156 TAATAGATAAATATTATAT
1 TAATAGATAAATATTATAT
10951175 TAATAGAT
1 TAATAGAT
10951183 TGGATTGTCA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
17 3 0.08
18 11 0.31
19 19 0.53
20 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (19 bp):
TAATAGATAAATATTATAT
Found at i:10951157 original size:37 final size:37
Alignment explanation
Indices: 10951115--10951188 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
10951105 CTGATCGATG
10951115 TTAATAATAGATAAATATTATATTAATAGATTGGATT
1 TTAATAATAGATAAATATTATATTAATAGATTGGATT
10951152 TTAATAATAGATAAATATTATATTAATAGATTGGATT
1 TTAATAATAGATAAATATTATATTAATAGATTGGATT
10951189 GTCACAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (37 bp):
TTAATAATAGATAAATATTATATTAATAGATTGGATT
Found at i:10951422 original size:25 final size:25
Alignment explanation
Indices: 10951371--10951422 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
10951361 ACACAATACT
* * *
10951371 AAAAATATTATTTTTTTATTATTAA
1 AAAAATATAATTTTATTATTATCAA
10951396 AAAAATATAATTTATATTATT-TCAA
1 AAAAATATAATTT-TATTATTATCAA
10951421 AA
1 AA
10951423 TAAAAGATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 17 0.74
26 6 0.26
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (25 bp):
AAAAATATAATTTTATTATTATCAA
Found at i:10955445 original size:2 final size:2
Alignment explanation
Indices: 10955438--10955470 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10955428 GACAGAAATG
10955438 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10955471 AAAGGATTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10956445 original size:13 final size:13
Alignment explanation
Indices: 10956429--10956471 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
10956419 AAATCATATT
10956429 TTTTTATATAATA
1 TTTTTATATAATA
*
10956442 TTTTTATATTATA
1 TTTTTATATAATA
* *
10956455 TTATTATATCATA
1 TTTTTATATAATA
10956468 TTTT
1 TTTT
10956472 AAATTATCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (13 bp):
TTTTTATATAATA
Found at i:10957325 original size:5 final size:5
Alignment explanation
Indices: 10957280--10957338 Score: 50
Period size: 5 Copynumber: 11.8 Consensus size: 5
10957270 ATGTAAATAA
* * * *
10957280 AAAAT AATAT AATAT ATAAT -AAAT -AAAT AAAACAC AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAA-AT AAAAT AAAAT AAAAT
10957330 AAAAT AAAA
1 AAAAT AAAA
10957339 ATACCAAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
4 7 0.16
5 32 0.71
6 5 0.11
7 1 0.02
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (5 bp):
AAAAT
Found at i:10957326 original size:21 final size:21
Alignment explanation
Indices: 10957300--10957341 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10957290 AATATATAAT
10957300 AAAT-AAATAAAACACAAAATA
1 AAATAAAATAAAACA-AAAATA
*
10957321 AAATAAAATAAAATAAAAATA
1 AAATAAAATAAAACAAAAATA
10957342 CCAAAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.17
Consensus pattern (21 bp):
AAATAAAATAAAACAAAAATA
Found at i:10957331 original size:30 final size:31
Alignment explanation
Indices: 10957273--10957337 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
10957263 AATATGTATG
* * * *
10957273 TAAATAAAAAATAATATAATATATAAT-AAA
1 TAAATAAAAAACAAAATAAAATAAAATAAAA
*
10957303 TAAATAAAACACAAAATAAAATAAAATAAAA
1 TAAATAAAAAACAAAATAAAATAAAATAAAA
10957334 TAAA
1 TAAA
10957338 AATACCAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 22 0.76
31 7 0.24
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (31 bp):
TAAATAAAAAACAAAATAAAATAAAATAAAA
Found at i:10958030 original size:20 final size:19
Alignment explanation
Indices: 10957990--10958030 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
10957980 TAAATACTCT
*
10957990 AAAAAACTAAAAAACACAAA
1 AAAAAACTAAAAAA-AAAAA
*
10958010 AAAAATCTAAAAAAAAAAA
1 AAAAAACTAAAAAAAAAAA
10958029 AA
1 AA
10958031 GGAAGAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.83, C:0.10, G:0.00, T:0.07
Consensus pattern (19 bp):
AAAAAACTAAAAAAAAAAA
Found at i:10963792 original size:23 final size:24
Alignment explanation
Indices: 10963735--10963793 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
10963725 TATGACTGTC
*
10963735 TATTTTAAATAGATAAAAACTATT
1 TATTTTGAATAGATAAAAACTATT
* *
10963759 TATTTTTGAATAG-TTAAAATTATT
1 TA-TTTTGAATAGATAAAAACTATT
10963783 TATTTTGAATA
1 TATTTTGAATA
10963794 AACTTATCTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
23 9 0.29
24 13 0.42
25 9 0.29
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.49
Consensus pattern (24 bp):
TATTTTGAATAGATAAAAACTATT
Found at i:10978610 original size:22 final size:23
Alignment explanation
Indices: 10978553--10978618 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 23
10978543 ATCTTTCCAA
10978553 CTTT-GTTAGACATGTGTGCTA-
1 CTTTAGTTAGACATGTGTGCTAG
*
10978574 CTTTATTTA-ATCATGTGTGCTAG
1 CTTTAGTTAGA-CATGTGTGCTAG
*
10978597 C-TTAGTTAGACATGCGTG-TAG
1 CTTTAGTTAGACATGTGTGCTAG
10978618 C
1 C
10978619 ATATATAGCA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
21 9 0.24
22 27 0.71
23 2 0.05
ACGTcount: A:0.21, C:0.15, G:0.23, T:0.41
Consensus pattern (23 bp):
CTTTAGTTAGACATGTGTGCTAG
Found at i:10981056 original size:15 final size:16
Alignment explanation
Indices: 10981035--10981071 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
10981025 AAAATGAAGA
10981035 ATTTTATTTATT-ATAT
1 ATTTTATTT-TTAATAT
10981051 -TTTTATTTTTAATAT
1 ATTTTATTTTTAATAT
10981066 ATTTTA
1 ATTTTA
10981072 AAAGAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 2 0.11
15 12 0.63
16 5 0.26
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
ATTTTATTTTTAATAT
Found at i:10983346 original size:8 final size:7
Alignment explanation
Indices: 10983328--10983361 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
10983318 TCAATTTAAG
10983328 TTTTTCA
1 TTTTTCA
10983335 TTTTTCA
1 TTTTTCA
10983342 TTTTTCA
1 TTTTTCA
*
10983349 TCTTTC-
1 TTTTTCA
10983355 TTTTTCA
1 TTTTTCA
10983362 CTCATCACAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (7 bp):
TTTTTCA
Found at i:10985191 original size:110 final size:110
Alignment explanation
Indices: 10984998--10985197 Score: 301
Period size: 110 Copynumber: 1.8 Consensus size: 110
10984988 TGAAAATAAG
** * * * *
10984998 CACTAACTTAAGATCATTGTGTGAAAATTAGAGCATCATACATTAATTGAAAAGATTAGGTATAC
1 CACTAACCCAAGATCATTATGTGAAAATTAGAACACCATACATTAATTGAAAAGATTAGGCATAC
*
10985063 CTGTTTAGGTGATCATTGTGAATTTGTGGAAGTAAAACATGTAAA
66 CTATTTAGGTGATCATTGTGAATTTGTGGAAGTAAAACATGTAAA
* *
10985108 CACTAACCCAAGATCATTATGTGAAAATTAGAACACCATACATTAATTGAAGATATTAGGCATAC
1 CACTAACCCAAGATCATTATGTGAAAATTAGAACACCATACATTAATTGAAAAGATTAGGCATAC
* *
10985173 CTATTTGGGTGGTCATTGTGAATTT
66 CTATTTAGGTGATCATTGTGAATTT
10985198 ACGGTAGCAA
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
110 79 1.00
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (110 bp):
CACTAACCCAAGATCATTATGTGAAAATTAGAACACCATACATTAATTGAAAAGATTAGGCATAC
CTATTTAGGTGATCATTGTGAATTTGTGGAAGTAAAACATGTAAA
Found at i:10990770 original size:21 final size:21
Alignment explanation
Indices: 10990744--10990785 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10990734 CCTTAATGTA
10990744 TTCAATAGACCATTCCAGTTG
1 TTCAATAGACCATTCCAGTTG
*
10990765 TTCAATAGACCATTCTAGTTG
1 TTCAATAGACCATTCCAGTTG
10990786 AGATACTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (21 bp):
TTCAATAGACCATTCCAGTTG
Found at i:10993623 original size:109 final size:110
Alignment explanation
Indices: 10993416--10993624 Score: 294
Period size: 109 Copynumber: 1.9 Consensus size: 110
10993406 TATAAGCACC
* * * * *
10993416 AACCCAATATCATTATGTGAAAATTAGAACACCATATATTAATCGAAGAGATTAGGCATACCTGT
1 AACCCAATATCATTATATAAAAATTAGAACACCATACATTAATCAAAGAGATTAGACATACCTGT
* *
10993481 TTAGGTAGTCATTGTGAATTCATGGAAGTAAAACATGTAAGCATT
66 TTAGGTAGTCATTGTGAATTCATGAAAGCAAAACATGTAAGCATT
* *
10993526 AACCCAATATCATTATATAAAAATTAGAACACC-TACGTTAATCAAAGAGATTAGATATACCTGT
1 AACCCAATATCATTATATAAAAATTAGAACACCATACATTAATCAAAGAGATTAGACATACCTGT
* * **
10993590 TTGGGTGGTCATTGTGAATTTGTGAAAGCAAAACA
66 TTAGGTAGTCATTGTGAATTCATGAAAGCAAAACA
10993625 ATCCCTGAAG
Statistics
Matches: 86, Mismatches: 13, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
109 55 0.64
110 31 0.36
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.30
Consensus pattern (110 bp):
AACCCAATATCATTATATAAAAATTAGAACACCATACATTAATCAAAGAGATTAGACATACCTGT
TTAGGTAGTCATTGTGAATTCATGAAAGCAAAACATGTAAGCATT
Found at i:10996030 original size:15 final size:15
Alignment explanation
Indices: 10996003--10996042 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
10995993 TGCCAAAATT
*
10996003 AAAATCAATATATCA
1 AAAATCAAAATATCA
*
10996018 AAAATTAAAATATCA
1 AAAATCAAAATATCA
10996033 AAAATCAAAA
1 AAAATCAAAA
10996043 GGAAAAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.23
Consensus pattern (15 bp):
AAAATCAAAATATCA
Found at i:10996042 original size:21 final size:20
Alignment explanation
Indices: 10995996--10996042 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 20
10995986 ATTAAAATGC
*
10995996 CAAAATTAAAATCAATATAT
1 CAAAATTAAAATCAATAAAT
10996016 CAAAAATTAAAATATCAA-AAAT
1 C-AAAATT-AAA-ATCAATAAAT
10996038 CAAAA
1 CAAAA
10996043 GGAAAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 1 0.04
21 10 0.43
22 7 0.30
23 5 0.22
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (20 bp):
CAAAATTAAAATCAATAAAT
Found at i:10996863 original size:129 final size:129
Alignment explanation
Indices: 10996676--10996916 Score: 376
Period size: 129 Copynumber: 1.9 Consensus size: 129
10996666 TAGTTTCATG
* * *
10996676 AAAAATTGATATTTCAACTTTTTCGTTAGCATTTTTCAAATTTTATTTTATTTGATTTTTATTTA
1 AAAAATTGATATTTCAACTTTTTCCTTAGCATTTTTCAAATTTAATTTAATTTGATTTTTATTTA
10996741 AAAGAACTTAGGAAAAATTGATATTCCAACTTTTTCCTAAATATTTTCAAAATTTATTCTAAAT
66 AAAGAACTTAGGAAAAATTGATATTCCAACTTTTTCCTAAATATTTTCAAAATTTATTCTAAAT
*
10996805 AAAAATTGATATTTCAACTTTTTCCTTAGCCTTTTTCAAAATTTAATTTAATTT-ATTTTTATTT
1 AAAAATTGATATTTCAACTTTTTCCTTAGCATTTTTC-AAATTTAATTTAATTTGATTTTTATTT
* * ** * *
10996869 CAAAGAACTTAGGAAAATTTGATATTTGAACTTTTTCTTAAATTTTTT
65 AAAAGAACTTAGGAAAAATTGATATTCCAACTTTTTCCTAAATATTTT
10996917 TCATTTATTT
Statistics
Matches: 101, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
129 87 0.86
130 14 0.14
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.49
Consensus pattern (129 bp):
AAAAATTGATATTTCAACTTTTTCCTTAGCATTTTTCAAATTTAATTTAATTTGATTTTTATTTA
AAAGAACTTAGGAAAAATTGATATTCCAACTTTTTCCTAAATATTTTCAAAATTTATTCTAAAT
Found at i:10997049 original size:9 final size:9
Alignment explanation
Indices: 10997014--10997067 Score: 60
Period size: 9 Copynumber: 6.1 Consensus size: 9
10997004 ACAAAAATAA
10997014 AATAAATAAT
1 AATAAA-AAT
*
10997024 AA-AAAAAG
1 AATAAAAAT
10997032 AATAAAAAT
1 AATAAAAAT
10997041 AATAAAAAT
1 AATAAAAAT
10997050 ACA-AAAAAT
1 A-ATAAAAAT
10997059 -ATAAAAAT
1 AATAAAAAT
10997067 A
1 A
10997068 TATATATGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
7 1 0.03
8 10 0.26
9 24 0.63
10 3 0.08
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (9 bp):
AATAAAAAT
Found at i:10997062 original size:20 final size:18
Alignment explanation
Indices: 10997006--10997067 Score: 72
Period size: 20 Copynumber: 3.4 Consensus size: 18
10996996 AAGTTCATAC
*
10997006 AAAAATAAAATAAATAAT
1 AAAAATAAAAAAAATAAT
*
10997024 AAAAAAAGAATAAAAATAAT
1 AAAAATA-AA-AAAAATAAT
*
10997044 AAAAATACAAAAAAT-AT
1 AAAAATAAAAAAAATAAT
10997061 AAAAATA
1 AAAAATA
10997068 TATATATGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
17 9 0.24
18 12 0.32
19 3 0.08
20 14 0.37
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (18 bp):
AAAAATAAAAAAAATAAT
Found at i:10997062 original size:26 final size:27
Alignment explanation
Indices: 10997014--10997067 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 27
10997004 ACAAAAATAA
10997014 AATAAATAATAAAAAAAGAATAAAAAT
1 AATAAATAATAAAAAAAGAATAAAAAT
*
10997041 AATAAA-AATACAAAAAA-TATAAAAAT
1 AATAAATAATA-AAAAAAGAATAAAAAT
10997067 A
1 A
10997068 TATATATGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.19
Consensus pattern (27 bp):
AATAAATAATAAAAAAAGAATAAAAAT
Found at i:10998695 original size:15 final size:17
Alignment explanation
Indices: 10998672--10998704 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
10998662 ATTTTCAAAC
10998672 CTTTAAATTTTT-TGCT
1 CTTTAAATTTTTATGCT
10998688 CTTT-AATTTTTATGCT
1 CTTTAAATTTTTATGCT
10998704 C
1 C
10998705 CTTGTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.18, C:0.15, G:0.06, T:0.61
Consensus pattern (17 bp):
CTTTAAATTTTTATGCT
Found at i:11000043 original size:16 final size:16
Alignment explanation
Indices: 11000024--11000054 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
11000014 AAATTGTATG
*
11000024 AACTTAATTATTCATT
1 AACTTAATCATTCATT
11000040 AACTTAATCATTCAT
1 AACTTAATCATTCAT
11000055 AAATCTATGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.16, G:0.00, T:0.45
Consensus pattern (16 bp):
AACTTAATCATTCATT
Found at i:11001310 original size:14 final size:15
Alignment explanation
Indices: 11001289--11001340 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 15
11001279 TTTTATTTTT
11001289 ATTAATTAAATTAAA
1 ATTAATTAAATTAAA
*
11001304 ATT-ATTAATTTCAAAA
1 ATTAATTAAATT--AAA
11001320 ATTAATT-AATTAAA
1 ATTAATTAAATTAAA
*
11001334 TTTAATT
1 ATTAATT
11001341 TAATCAATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 16 0.52
15 3 0.10
16 9 0.29
17 3 0.10
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAATTAAATTAAA
Found at i:11001352 original size:35 final size:36
Alignment explanation
Indices: 11001289--11001358 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
11001279 TTTTATTTTT
*
11001289 ATTAATTAAATTAAAATTATTAATTTCAAA-AATTA
1 ATTAATTAAATTAAAATTATCAATTTCAAATAATTA
* *
11001324 ATTAATTAAATTTAATTTAATCAA-TTCAAATAATT
1 ATTAATTAAATTAAAATT-ATCAATTTCAAATAATT
11001359 TTTTATTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 22 0.73
36 8 0.27
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (36 bp):
ATTAATTAAATTAAAATTATCAATTTCAAATAATTA
Found at i:11004071 original size:2 final size:2
Alignment explanation
Indices: 11004058--11004102 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
11004048 ACTTCTTTAT
* *
11004058 TC TC TC TT TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC GC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
11004100 TC T
1 TC T
11004103 TCCTTTCTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.00, C:0.47, G:0.02, T:0.51
Consensus pattern (2 bp):
TC
Found at i:11011779 original size:22 final size:22
Alignment explanation
Indices: 11011741--11011785 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
11011731 TTATGAAATT
11011741 AGTTTCACAAAACTA-CCTTTA
1 AGTTTCACAAAACTACCCTTTA
11011762 AGTTTCAACAAAGA-TACCCTTTA
1 AGTTTC-ACAAA-ACTACCCTTTA
11011785 A
1 A
11011786 TATGAAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 6 0.29
22 7 0.33
23 8 0.38
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (22 bp):
AGTTTCACAAAACTACCCTTTA
Found at i:11013547 original size:25 final size:24
Alignment explanation
Indices: 11013504--11013562 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
11013494 ATATATTAGA
* * *
11013504 ATTAATATTTTTTTTAAAAATATAT
1 ATTAATATATTTATAAAAAAT-TAT
11013529 ATTAATATATTTATAAAAAATTAT
1 ATTAATATATTTATAAAAAATTAT
* *
11013553 CTAAATATAT
1 ATTAATATAT
11013563 AACATAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 11 0.38
25 18 0.62
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTAATATATTTATAAAAAATTAT
Found at i:11014028 original size:10 final size:10
Alignment explanation
Indices: 11014010--11014042 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
11014000 GATAAATATA
11014010 AATAA-TTTT
1 AATAATTTTT
11014019 AATAATTTTT
1 AATAATTTTT
11014029 AATAATTTGTT
1 AATAATTT-TT
11014040 AAT
1 AAT
11014043 TTTACAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 5 0.23
10 12 0.55
11 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (10 bp):
AATAATTTTT
Found at i:11014092 original size:22 final size:20
Alignment explanation
Indices: 11014067--11014106 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
11014057 ATACATAATA
11014067 TAATTCAATTATACTATAATTT
1 TAATTCAA-TATACT-TAATTT
*
11014089 TAATTTAATATACTTAAT
1 TAATTCAATATACTTAAT
11014107 AATCTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 6 0.35
22 7 0.41
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTCAATATACTTAATTT
Found at i:11014223 original size:21 final size:21
Alignment explanation
Indices: 11014166--11014214 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
11014156 ATTATTACCT
* * * *
11014166 TTAATCTCATAATAATAATAT
1 TTAATTTCATCATTATAATAA
11014187 TTAATTTCATCATTATAATAA
1 TTAATTTCATCATTATAATAA
11014208 TTAATTT
1 TTAATTT
11014215 TATTCTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATTTCATCATTATAATAA
Found at i:11015052 original size:26 final size:26
Alignment explanation
Indices: 11015023--11015078 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
11015013 ATTTTATTTA
* *
11015023 TAAAAT-AATTTTTTTAATAAATTATT
1 TAAAATGAATATTTTGAAT-AATTATT
* *
11015049 TAAATTGAATATTTTGGATAATTATT
1 TAAAATGAATATTTTGAATAATTATT
11015075 TAAA
1 TAAA
11015079 TTAAAAATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 16 0.64
27 9 0.36
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (26 bp):
TAAAATGAATATTTTGAATAATTATT
Found at i:11015739 original size:15 final size:15
Alignment explanation
Indices: 11015712--11015750 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
11015702 TTATATTCTC
11015712 TATTTCTTTTTATTA
1 TATTTCTTTTTATTA
11015727 TATTT-TTTATTATTA
1 TATTTCTTT-TTATTA
*
11015742 AATTTCTTT
1 TATTTCTTT
11015751 GTTTACAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 15 0.71
16 3 0.14
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (15 bp):
TATTTCTTTTTATTA
Found at i:11021442 original size:14 final size:12
Alignment explanation
Indices: 11021410--11021435 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11021400 TCGATTAAAA
11021410 TTAAATTAATTT
1 TTAAATTAATTT
11021422 TTAAATTAATTT
1 TTAAATTAATTT
11021434 TT
1 TT
11021436 TCAAATTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTAAATTAATTT
Found at i:11022777 original size:10 final size:10
Alignment explanation
Indices: 11022762--11022816 Score: 58
Period size: 10 Copynumber: 5.5 Consensus size: 10
11022752 ATTTGACTAT
11022762 TTTGATCAAG
1 TTTGATCAAG
*
11022772 TTTGATCAAA
1 TTTGATCAAG
**
11022782 TTTGA-CTTTG
1 TTTGATC-AAG
11022792 TTTGATCAAG
1 TTTGATCAAG
*
11022802 TTTGATAAAG
1 TTTGATCAAG
11022812 TTTGA
1 TTTGA
11022817 CTATGGGTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
9 1 0.03
10 34 0.94
11 1 0.03
ACGTcount: A:0.29, C:0.07, G:0.18, T:0.45
Consensus pattern (10 bp):
TTTGATCAAG
Found at i:11022798 original size:30 final size:29
Alignment explanation
Indices: 11022733--11022820 Score: 115
Period size: 30 Copynumber: 3.0 Consensus size: 29
11022723 ATTTTAAAGA
* *
11022733 TTGACTCAAGTTCGATCCAATTTGACTATT
1 TTGA-TCAAGTTTGATCAAATTTGACTATT
*
11022763 TTGATCAAGTTTGATCAAATTTGACTTTGT
1 TTGATCAAGTTTGATCAAATTTGACTAT-T
11022793 TTGATCAAGTTTGAT-AAAGTTTGACTAT
1 TTGATCAAGTTTGATCAAA-TTTGACTAT
11022821 GGGTATTAGG
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
29 24 0.46
30 28 0.54
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.43
Consensus pattern (29 bp):
TTGATCAAGTTTGATCAAATTTGACTATT
Found at i:11028754 original size:24 final size:24
Alignment explanation
Indices: 11028723--11028768 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
11028713 TAAATGTTTT
*
11028723 TCTTATG-CTTTTAATTTTCCAAG
1 TCTTATGCCATTTAATTTTCCAAG
*
11028746 TCTTGATGCCATTTCATTTTCCA
1 TCTT-ATGCCATTTAATTTTCCA
11028769 TTTTTCTAGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.21
24 3 0.16
25 12 0.63
ACGTcount: A:0.20, C:0.22, G:0.09, T:0.50
Consensus pattern (24 bp):
TCTTATGCCATTTAATTTTCCAAG
Found at i:11029854 original size:22 final size:22
Alignment explanation
Indices: 11029829--11029872 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
11029819 ATTTAGGTTA
11029829 TTTAAGTAATGTTA-ATTTCATG
1 TTTAAGTAAT-TTAGATTTCATG
*
11029851 TTTAATTAATTTAGATTTCATG
1 TTTAAGTAATTTAGATTTCATG
11029873 CACAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 3 0.15
22 17 0.85
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (22 bp):
TTTAAGTAATTTAGATTTCATG
Found at i:11029972 original size:17 final size:17
Alignment explanation
Indices: 11029945--11029998 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
11029935 GGTTTTAAAT
11029945 TTTTCA-TTTTAATAAC
1 TTTTCATTTTTAATAAC
**
11029961 TTTTC-TTATTTAGCAAC
1 TTTTCATT-TTTAATAAC
*
11029978 TTTTCATTTTTAATAAG
1 TTTTCATTTTTAATAAC
11029995 TTTT
1 TTTT
11029999 AGATTTAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
16 6 0.20
17 22 0.73
18 2 0.07
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.59
Consensus pattern (17 bp):
TTTTCATTTTTAATAAC
Found at i:11031476 original size:69 final size:69
Alignment explanation
Indices: 11031331--11031469 Score: 199
Period size: 69 Copynumber: 2.0 Consensus size: 69
11031321 GATACAATAA
* * * *
11031331 GATAGGATAAGATAATATTATGAATATGATTAAATTAAATAATGATATCTTATCTTATATTTGAT
1 GATAGGATAAGATAATATTATAAATAGGATTAAATTAAACAATGACATCTTATCTTATATTTGAT
11031396 GTGT
66 GTGT
* * *
11031400 GATAGGATAATATAATATTATAAATAGGATTAGATTAAACAAT-AGCATCTTATCTTATGTTTGA
1 GATAGGATAAGATAATATTATAAATAGGATTAAATTAAACAATGA-CATCTTATCTTATATTTGA
11031464 TGTGT
65 TGTGT
11031469 G
1 G
11031470 CAAGGATTGA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
68 1 0.02
69 61 0.98
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (69 bp):
GATAGGATAAGATAATATTATAAATAGGATTAAATTAAACAATGACATCTTATCTTATATTTGAT
GTGT
Found at i:11033093 original size:18 final size:17
Alignment explanation
Indices: 11033052--11033097 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
11033042 TTTTTATTTG
11033052 ATAAAAAT-TTATATGT
1 ATAAAAATATTATATGT
*
11033068 ATATAAATATTAT-TGT
1 ATAAAAATATTATATGT
11033084 AAATAAAAATATTA
1 --ATAAAAATATTA
11033098 AAAAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 10 0.40
17 4 0.16
18 11 0.44
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (17 bp):
ATAAAAATATTATATGT
Found at i:11033907 original size:2 final size:2
Alignment explanation
Indices: 11033900--11033931 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11033890 CTGTTTATGA
11033900 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11033932 TGAATTCTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11035942 original size:13 final size:13
Alignment explanation
Indices: 11035926--11035961 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
11035916 TCTTTGCTGC
11035926 TGGTTGTCACCTT
1 TGGTTGTCACCTT
*
11035939 TGGTTCT-ACCTT
1 TGGTTGTCACCTT
11035951 TGGTTGTCACC
1 TGGTTGTCACC
11035962 CTTTAGTGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.08, C:0.25, G:0.22, T:0.44
Consensus pattern (13 bp):
TGGTTGTCACCTT
Found at i:11042283 original size:20 final size:21
Alignment explanation
Indices: 11042255--11042296 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
11042245 GTGAATTTTA
11042255 TATTAGATAAA-AAAATTTAAT
1 TATTAGATAAATAAAA-TTAAT
11042276 TATT-GATAAATAAAATTAAT
1 TATTAGATAAATAAAATTAAT
11042296 T
1 T
11042297 TTTATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
TATTAGATAAATAAAATTAAT
Found at i:11042337 original size:14 final size:15
Alignment explanation
Indices: 11042313--11042341 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11042303 TTAATTATAT
11042313 TTATATTTTAAATAA
1 TTATATTTTAAATAA
11042328 TTAT-TTTTAAATAA
1 TTATATTTTAAATAA
11042342 AAATAACAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATATTTTAAATAA
Found at i:11042415 original size:19 final size:18
Alignment explanation
Indices: 11042392--11042440 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
11042382 ATAAATAGAT
11042392 TATTATTTATAAAATTTA
1 TATTATTTATAAAATTTA
*
11042410 TGATTATATA-AAAATTTA
1 T-ATTATTTATAAAATTTA
*
11042428 TAAT-TTTATAAAA
1 TATTATTTATAAAA
11042441 GATCATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 3 0.12
17 6 0.23
18 10 0.38
19 7 0.27
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (18 bp):
TATTATTTATAAAATTTA
Found at i:11042423 original size:18 final size:18
Alignment explanation
Indices: 11042402--11042440 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
11042392 TATTATTTAT
*
11042402 AAAATTTATGATTATATA
1 AAAATTTATAATTATATA
*
11042420 AAAATTTATAATTTTATA
1 AAAATTTATAATTATATA
11042438 AAA
1 AAA
11042441 GATCATAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
AAAATTTATAATTATATA
Found at i:11042846 original size:67 final size:67
Alignment explanation
Indices: 11042738--11042870 Score: 230
Period size: 67 Copynumber: 2.0 Consensus size: 67
11042728 AGCATAGAAA
*
11042738 GCTTTAATTATCAAAATAATTTCTTGGTGAAATAAATACTAAACACAAGATAAGTTTTTTATTAT
1 GCTTTAATTATCAAAATAATTTCTTGGTGAAATAAATACTAAACACAAGATAAGTTTTCTATTAT
11042803 TG
66 TG
* * *
11042805 GCTTTAATTATCCAAATAATTTTTTGGTGAAATAAATACTAAATACAAGATAAGTTTTCTATTAT
1 GCTTTAATTATCAAAATAATTTCTTGGTGAAATAAATACTAAACACAAGATAAGTTTTCTATTAT
11042870 T
66 T
11042871 ATCTTTCTAG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 62 1.00
ACGTcount: A:0.40, C:0.09, G:0.10, T:0.41
Consensus pattern (67 bp):
GCTTTAATTATCAAAATAATTTCTTGGTGAAATAAATACTAAACACAAGATAAGTTTTCTATTAT
TG
Found at i:11046558 original size:16 final size:14
Alignment explanation
Indices: 11046523--11046597 Score: 61
Period size: 14 Copynumber: 5.6 Consensus size: 14
11046513 AACTTTGATA
11046523 TATTAAT-TTAAAT
1 TATTAATATTAAAT
11046536 TATTAATATTATAAT
1 TATTAATATTA-AAT
11046551 TGATTAATA-TAAAT
1 T-ATTAATATTAAAT
* *
11046565 GA-TAATAGT--AT
1 TATTAATATTAAAT
* *
11046576 TATTAATATGATAT
1 TATTAATATTAAAT
11046590 TATTAATA
1 TATTAATA
11046598 ACTAATTATA
Statistics
Matches: 51, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
11 3 0.06
12 10 0.20
13 9 0.18
14 16 0.31
15 6 0.12
16 7 0.14
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (14 bp):
TATTAATATTAAAT
Found at i:11048577 original size:31 final size:30
Alignment explanation
Indices: 11048534--11048656 Score: 138
Period size: 32 Copynumber: 3.9 Consensus size: 30
11048524 AGATTAATAA
* *
11048534 ATTTATTTTTTAAAATGATATGTAATTTTT
1 ATTTAATTTTTAAAATGATATGAAATTTTT
*
11048564 ATTTAATATTTTAAAATGATATGAAGTTTTTT
1 ATTTAAT-TTTTAAAATGATATGAA-ATTTTT
* *
11048596 ATTTAATTTTTTAAATCGATATAGAAAATTTT
1 ATTTAATTTTTAAAAT-GATAT-GAAATTTTT
*
11048628 ATTTATTTTTTTAAAAATGATATGAAATT
1 ATTTA-ATTTTT-AAAATGATATGAAATT
11048657 CTTTTAAAAG
Statistics
Matches: 78, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
30 6 0.08
31 24 0.31
32 31 0.40
33 13 0.17
34 4 0.05
ACGTcount: A:0.38, C:0.01, G:0.07, T:0.54
Consensus pattern (30 bp):
ATTTAATTTTTAAAATGATATGAAATTTTT
Found at i:11051449 original size:64 final size:62
Alignment explanation
Indices: 11051307--11051472 Score: 172
Period size: 62 Copynumber: 2.6 Consensus size: 62
11051297 TTTTTTTGGT
* * * * *
11051307 TTATTCAAGCTATTTTTTGTCAAAAATGCCTTAAATAATTCCTTACAAAAAATTTAATGGGA
1 TTATTCAAGGTATTTTTGGCCAAAAATACCTTAAATAATCCCTTACAAAAAATTTAATGGGA
* * * * *
11051369 TTATTCAAGGCATTTTTGGCCAAAAATACCTTGAATAATCCTCTTA-ATAAATTTTTATGAGAGA
1 TTATTCAAGGTATTTTTGGCCAAAAATACCTTAAATAATCC-CTTACAAAAAATTTAATG-G-GA
* * * *
11051433 TTATTGAAGGTATTTTTGGCCAAAAAAACTTTCAATAATC
1 TTATTCAAGGTATTTTTGGCCAAAAATACCTTAAATAATC
11051473 ATTTCTAAAT
Statistics
Matches: 86, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
62 44 0.51
63 5 0.06
64 37 0.43
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.38
Consensus pattern (62 bp):
TTATTCAAGGTATTTTTGGCCAAAAATACCTTAAATAATCCCTTACAAAAAATTTAATGGGA
Found at i:11051589 original size:50 final size:50
Alignment explanation
Indices: 11051497--11051592 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 50
11051487 TCAAGGGATT
* *
11051497 AAAACGCCTTCAATAATCTTTTCCAAATTTTGTCAAGGGATTATTGGCCA
1 AAAACGCCTTCAATAATCTTTTCAAAATTTTGTCAAGAGATTATTGGCCA
* *
11051547 AAAATGCCTTTAATAATCCTTTTCAAAAATTTT-T-AAGAGATTATTG
1 AAAACGCCTTCAATAAT-CTTTTC-AAAATTTTGTCAAGAGATTATTG
11051593 AAGGTATTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
50 26 0.65
51 7 0.17
52 7 0.17
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (50 bp):
AAAACGCCTTCAATAATCTTTTCAAAATTTTGTCAAGAGATTATTGGCCA
Found at i:11052429 original size:363 final size:358
Alignment explanation
Indices: 11051695--11052395 Score: 783
Period size: 363 Copynumber: 2.0 Consensus size: 358
11051685 CTCAATAAAC
* * *
11051695 TTTTTCGTATGGATTATTGAAGGTGGTTTTGGCTGAAAACACTTTTAATAATTATTTTTCAAAAT
1 TTTTTTGTATGGATTATTGAAGGT-GTTTTGGCTGAAAACACCTTTAATAATCATTTTTCAAAAT
* * * *
11051760 TTTTTGAATGAATTATTGAATGTATTTTTTACCAAAAATGCTTTCAATAATGCAATTCAATTTTT
65 TTTTTAAATGAATTATTGAATATATTTTTGACAAAAAATGCTTTCAATAATGCAATTCAATTTTT
* ** *
11051825 TGTAAGCTAATAATTTTTTTGTTTTGAGCCTATAATAATGGTTATGTTAATAACTGTCAGTATAT
130 TGTAAGCTAATAAGTTTTTTGTTTTGAGCCTATAATAACAGTTACGTTAATAACTGTCAGTATAT
* *** *** * ** *
11051890 AACATATTTATACTGATGGATAGTCATATATTGTCTGAAAAGTTTATTATATTGACGGTTAAATA
195 AACATATTTATACTGACGGATAGTCATATACAATAAAAAAAATTTATTATACCGACGATTAAATA
* * ** * * *
11051955 GGTGTTGGTATAAGTATGCTATATTCTGACAGTATTAAAAAGTTATCAATGAAGTCTCTTTTACT
260 AGTGTTGGTATAAATATAATACATTCTAACAATATTAAAAAGTTAT--AT--AGTCTCTTTTACT
*
11052020 AACGAAATTTAACCGTCAATAAATAATCCATATAAAAA
321 AACGAAATTTAACCATCAATAAATAATCCATATAAAAA
* * * *
11052058 ATTTTTGTATGGATTATTAGATGCGT-TTTTGGTTGAAAACACCTTTAATAATCGTTTTTCAAAA
1 TTTTTTGTATGGATTATT-GAAG-GTGTTTTGGCTGAAAACACCTTTAATAATCATTTTTCAAAA
* * *
11052122 TTTTTTAAATGGATTATTGAATATGTTTTTGGCAAAAAATGAC-TTCAATAAT-CACATTCAATT
64 TTTTTTAAATGAATTATTGAATATATTTTTGACAAAAAATG-CTTTCAATAATGCA-ATTCAATT
* * * *
11052185 TTTTGTAAGCTAATAGGTTTTTTGTTTTGAGCTTATACTGACAGTTACGTTAATAA-TAGTCAGT
127 TTTTGTAAGCTAATAAGTTTTTTGTTTTGAGCCTATAATAACAGTTACGTTAATAACT-GTCAGT
* * * *
11052249 ATATAATATATTTATATTGACGGATAGTTATATACAATAAAAAAAATTTATTTATACCGA-TATT
191 ATATAACATATTTATACTGACGGATAGTCATATACAATAAAAAAAATTTA-TTATACCGACGATT
* *
11052313 AAATAAAGTGTTGGTATAAATATAATACATTCTAATAATATT-AAAA-TT-T-T-GTTTCTTTTA
255 AAAT-AAGTGTTGGTATAAATATAATACATTCTAACAATATTAAAAAGTTATATAGTCTCTTTTA
* *
11052373 CTAACGAAATTTGACTATCAATA
319 CTAACGAAATTTAACCATCAATA
11052396 TAACTAAGCA
Statistics
Matches: 282, Mismatches: 49, Indels: 22
0.80 0.14 0.06
Matches are distributed among these distances:
355 29 0.10
358 1 0.00
361 1 0.00
362 5 0.02
363 204 0.72
364 40 0.14
365 2 0.01
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (358 bp):
TTTTTTGTATGGATTATTGAAGGTGTTTTGGCTGAAAACACCTTTAATAATCATTTTTCAAAATT
TTTTAAATGAATTATTGAATATATTTTTGACAAAAAATGCTTTCAATAATGCAATTCAATTTTTT
GTAAGCTAATAAGTTTTTTGTTTTGAGCCTATAATAACAGTTACGTTAATAACTGTCAGTATATA
ACATATTTATACTGACGGATAGTCATATACAATAAAAAAAATTTATTATACCGACGATTAAATAA
GTGTTGGTATAAATATAATACATTCTAACAATATTAAAAAGTTATATAGTCTCTTTTACTAACGA
AATTTAACCATCAATAAATAATCCATATAAAAA
Found at i:11060334 original size:2 final size:2
Alignment explanation
Indices: 11060329--11060386 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
11060319 TATATATAAT
11060329 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
11060371 GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA
11060387 TAAATGAGCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:11060740 original size:24 final size:23
Alignment explanation
Indices: 11060710--11060770 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
11060700 TTAATCTAAT
11060710 TTTAATTTTTTATTATGGTTTATC
1 TTTAATTTTTTATT-TGGTTTATC
* *
11060734 TTTAA-TTTTAATTTTGTTTATC
1 TTTAATTTTTTATTTGGTTTATC
* *
11060756 TTAAATATTTTATTT
1 TTTAATTTTTTATTT
11060771 TATTAGTTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
22 12 0.39
23 14 0.45
24 5 0.16
ACGTcount: A:0.25, C:0.03, G:0.05, T:0.67
Consensus pattern (23 bp):
TTTAATTTTTTATTTGGTTTATC
Found at i:11060752 original size:22 final size:23
Alignment explanation
Indices: 11060727--11060771 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
11060717 TTTTATTATG
*
11060727 GTTTATCTTTAAT-TTTAATTTT
1 GTTTATCTTAAATATTTAATTTT
*
11060749 GTTTATCTTAAATATTTTATTTT
1 GTTTATCTTAAATATTTAATTTT
11060772 ATTAGTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 12 0.60
23 8 0.40
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.67
Consensus pattern (23 bp):
GTTTATCTTAAATATTTAATTTT
Found at i:11064596 original size:10 final size:10
Alignment explanation
Indices: 11064583--11064617 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
11064573 CAAAAGCTTT
11064583 AAAAAAATAA
1 AAAAAAATAA
11064593 AAAAAAATGAA
1 AAAAAAAT-AA
*
11064604 AAAAAAGTAA
1 AAAAAAATAA
11064614 AAAA
1 AAAA
11064618 CAAAAGGCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.86, C:0.00, G:0.06, T:0.09
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:11071787 original size:22 final size:23
Alignment explanation
Indices: 11071744--11071797 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
11071734 TAAATTTTAA
*
11071744 ATTTTTATATATTATTTTAATAGG
1 ATTTTTATATATTATTTAAATA-G
11071768 ATTTTTA-ATA-TATTTAAATAG
1 ATTTTTATATATTATTTAAATAG
*
11071789 ATTTATATA
1 ATTTTTATA
11071798 GGAAATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 7 0.26
22 10 0.37
23 3 0.11
24 7 0.26
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.56
Consensus pattern (23 bp):
ATTTTTATATATTATTTAAATAG
Found at i:11074473 original size:38 final size:39
Alignment explanation
Indices: 11074325--11074515 Score: 174
Period size: 38 Copynumber: 4.8 Consensus size: 39
11074315 AGTGTAGCCT
* * * *
11074325 TTATTTTTAAAATTGTGTGTC-TCGTGTTGAAAGAGCTC
1 TTATTTTTAAAGTTGTGTGCCTTCTTGTTGAAAGAACTC
11074363 TTATTTTTTTTAAAAGTTGTGTGCCTTCTTGTTGAAAGAACTC
1 TTA---TTTTT-AAAGTTGTGTGCCTTCTTGTTGAAAGAACTC
* * *
11074406 TTATTTTTAAAGTTGTATGCTTTTTTGTTG-AAGAGACT-
1 TTATTTTTAAAGTTGTGTGCCTTCTTGTTGAAAGA-ACTC
* * * *
11074444 TTATTTTTAATGTTAG-GTGCCTTCGTGTTGAAATAGCTC
1 TTATTTTTAAAGTT-GTGTGCCTTCTTGTTGAAAGAACTC
* *
11074483 TCTTTTTTTAAAGTTGTGTGCCTTCATGTTGAA
1 T-TATTTTTAAAGTTGTGTGCCTTCTTGTTGAA
11074516 GGAGCTTTTC
Statistics
Matches: 125, Mismatches: 17, Indels: 20
0.77 0.10 0.12
Matches are distributed among these distances:
38 32 0.26
39 28 0.22
40 31 0.25
41 5 0.04
42 11 0.09
43 18 0.14
ACGTcount: A:0.22, C:0.10, G:0.19, T:0.49
Consensus pattern (39 bp):
TTATTTTTAAAGTTGTGTGCCTTCTTGTTGAAAGAACTC
Found at i:11074530 original size:40 final size:39
Alignment explanation
Indices: 11074328--11074541 Score: 166
Period size: 40 Copynumber: 5.3 Consensus size: 39
11074318 GTAGCCTTTA
* *
11074328 TTTTTAAAATTGTGTGTC-TCGTGTTGAAAGAGCTCTTATTT
1 TTTTTAAAGTTGTGTGCCTTCGTGTTGAAAGAG--CTT-TTT
* * * *
11074369 TTTTTAAAAGTTGTGTGCCTTCTTGTTGAAAGAACTCTTA
1 TTTTT-AAAGTTGTGTGCCTTCGTGTTGAAAGAGCTTTTT
* * ** *
11074409 TTTTTAAAGTTGTATGCTTTTTTGTTG-AAGAGAC-TTTA
1 TTTTTAAAGTTGTGTGCCTTCGTGTTGAAAGAG-CTTTTT
* * *
11074447 TTTTTAATGTTAG-GTGCCTTCGTGTTGAAATAGCTCTCTT
1 TTTTTAAAGTT-GTGTGCCTTCGTGTTGAAAGAGCT-TTTT
* *
11074487 TTTTTAAAGTTGTGTGCCTTCATGTTGAAGGAGCTTTTCTT
1 TTTTTAAAGTTGTGTGCCTTCGTGTTGAAAGAGC-TTT-TT
11074528 TTTTTAAAGCTTGT
1 TTTTTAAAG-TTGT
11074542 CATTAAAAAC
Statistics
Matches: 138, Mismatches: 24, Indels: 21
0.75 0.13 0.11
Matches are distributed among these distances:
38 28 0.20
39 26 0.19
40 38 0.28
41 19 0.14
42 15 0.11
43 12 0.09
ACGTcount: A:0.21, C:0.11, G:0.19, T:0.49
Consensus pattern (39 bp):
TTTTTAAAGTTGTGTGCCTTCGTGTTGAAAGAGCTTTTT
Found at i:11074758 original size:23 final size:23
Alignment explanation
Indices: 11074724--11074783 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
11074714 CTATATTTCA
*
11074724 TTTT-TTATTTTTATGTTTTTATG
1 TTTTATTATTTTTATGTTTTTA-C
11074747 TTTTATTA-TTTTATGTTTTTAC
1 TTTTATTATTTTTATGTTTTTAC
11074769 TTTTATT-TTATTTAT
1 TTTTATTATT-TTTAT
11074784 CCATAAGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
22 8 0.24
23 22 0.67
24 3 0.09
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.77
Consensus pattern (23 bp):
TTTTATTATTTTTATGTTTTTAC
Found at i:11074888 original size:23 final size:22
Alignment explanation
Indices: 11074829--11074923 Score: 68
Period size: 22 Copynumber: 4.1 Consensus size: 22
11074819 ATTATTTATT
* *
11074829 TTTATTTTTAATCTTTTCTTT-A
1 TTTATCTTTAAT-TTTTATTTCA
**
11074851 TTTGAT-TTTATATTTTTATTATGG
1 TTT-ATCTTTA-ATTTTTATT-TCA
*
11074875 TTTATCTTTAATTTTAATTTCA
1 TTTATCTTTAATTTTTATTTCA
*
11074897 TTTATCTTTAAATATTTTATTTTA
1 TTTATCTTT-AAT-TTTTATTTCA
11074921 TTT
1 TTT
11074924 TATGGTATTT
Statistics
Matches: 59, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
22 23 0.39
23 18 0.31
24 18 0.31
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.68
Consensus pattern (22 bp):
TTTATCTTTAATTTTTATTTCA
Found at i:11076576 original size:9 final size:9
Alignment explanation
Indices: 11076562--11076615 Score: 67
Period size: 9 Copynumber: 6.0 Consensus size: 9
11076552 AAAAATGCAT
11076562 TAAAAAAAG
1 TAAAAAAAG
11076571 TAAAAAAAG
1 TAAAAAAAG
11076580 T--AAAAAG
1 TAAAAAAAG
11076587 TAAAAAAAG
1 TAAAAAAAG
*
11076596 TAAAATAAAAA
1 T-AAA-AAAAG
11076607 TAAAAAAAG
1 TAAAAAAAG
11076616 AAATAAAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
7 7 0.18
9 21 0.54
10 6 0.15
11 5 0.13
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (9 bp):
TAAAAAAAG
Found at i:11076586 original size:16 final size:16
Alignment explanation
Indices: 11076565--11076600 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
11076555 AATGCATTAA
11076565 AAAAAGTAAAAAAAGT
1 AAAAAGTAAAAAAAGT
11076581 AAAAAGTAAAAAAAGT
1 AAAAAGTAAAAAAAGT
11076597 AAAA
1 AAAA
11076601 TAAAAATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (16 bp):
AAAAAGTAAAAAAAGT
Found at i:11076619 original size:18 final size:19
Alignment explanation
Indices: 11076575--11076630 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 19
11076565 AAAAAGTAAA
11076575 AAAAGTAAAAAGTAAAAAAAG
1 AAAA-TAAAAA-TAAAAAAAG
11076596 TAAAATAAAAATAAAAAAAG
1 -AAAATAAAAATAAAAAAAG
*
11076616 -AAATAAAAACAAAAA
1 AAAATAAAAATAAAAA
11076631 TGAAGCTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
18 14 0.42
20 9 0.27
21 6 0.18
22 4 0.12
ACGTcount: A:0.80, C:0.02, G:0.07, T:0.11
Consensus pattern (19 bp):
AAAATAAAAATAAAAAAAG
Found at i:11076631 original size:12 final size:11
Alignment explanation
Indices: 11076588--11076631 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
11076578 AGTAAAAAGT
*
11076588 AAAAAAAGTAA
1 AAAAAAAATAA
*
11076599 AATAAAAATAA
1 AAAAAAAATAA
11076610 AAAAAGAAATAA
1 AAAAA-AAATAA
11076622 AAACAAAAAT
1 AAA-AAAAAT
11076632 GAAGCTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 13 0.46
12 13 0.46
13 2 0.07
ACGTcount: A:0.82, C:0.02, G:0.05, T:0.11
Consensus pattern (11 bp):
AAAAAAAATAA
Found at i:11078295 original size:20 final size:20
Alignment explanation
Indices: 11078272--11078318 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
11078262 TTACATAAAT
*
11078272 GTGAAAAATAAAAATAAGAA
1 GTGAAAAATAAAAATAAAAA
11078292 GTGAAAAATAAAAATAAAAA
1 GTGAAAAATAAAAATAAAAA
11078312 GT-AAAAA
1 GTGAAAAA
11078319 AAGAAAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.72, C:0.00, G:0.13, T:0.15
Consensus pattern (20 bp):
GTGAAAAATAAAAATAAAAA
Found at i:11078310 original size:5 final size:6
Alignment explanation
Indices: 11078275--11078318 Score: 52
Period size: 6 Copynumber: 6.8 Consensus size: 6
11078265 CATAAATGTG
*
11078275 AAAAAT AAAAAT AAGAAGT GAAAAAT AAAAAT AAAAAGT AAAAA
1 AAAAAT AAAAAT AA-AAAT -AAAAAT AAAAAT AAAAA-T AAAAA
11078319 AAGAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
6 19 0.58
7 12 0.36
8 2 0.06
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:11078325 original size:20 final size:20
Alignment explanation
Indices: 11078272--11078325 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
11078262 TTACATAAAT
* *
11078272 GTGAAAAATAAAAATAAGAA
1 GTGAAAAAAAAAAATAAAAA
*
11078292 GTGAAAAATAAAAATAAAAA
1 GTGAAAAAAAAAAATAAAAA
11078312 GT-AAAAAAAGAAAA
1 GTGAAAAAAA-AAAA
11078326 AATTTAGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (20 bp):
GTGAAAAAAAAAAATAAAAA
Found at i:11078877 original size:12 final size:13
Alignment explanation
Indices: 11078857--11078895 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
11078847 ATATCAAGCA
11078857 AAAATATCATAAT
1 AAAATATCATAAT
11078870 AAAA-ATCATACA-
1 AAAATATCATA-AT
11078882 AAAATATCATAAT
1 AAAATATCATAAT
11078895 A
1 A
11078896 GAATCATGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (13 bp):
AAAATATCATAAT
Found at i:11078877 original size:25 final size:25
Alignment explanation
Indices: 11078844--11078915 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
11078834 AAATACTATC
11078844 AAAATATCAAGCAAAAATATCATAAT
1 AAAA-ATCAAGCAAAAATATCATAAT
11078870 AAAAATCATA-CAAAAATATCATAAT
1 AAAAATCA-AGCAAAAATATCATAAT
* * *
11078895 -AGAATCATGCAATAATATCAT
1 AAAAATCAAGCAAAAATATCAT
11078916 TAATCATGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
24 17 0.41
25 19 0.46
26 5 0.12
ACGTcount: A:0.58, C:0.12, G:0.04, T:0.25
Consensus pattern (25 bp):
AAAAATCAAGCAAAAATATCATAAT
Found at i:11078919 original size:25 final size:25
Alignment explanation
Indices: 11078844--11078959 Score: 93
Period size: 24 Copynumber: 4.9 Consensus size: 25
11078834 AAATACTATC
*
11078844 AAAATATCAAGCAAAAATATCATAAT
1 AAAA-ATCATGCAAAAATATCATAAT
*
11078870 AAAAATCATACAAAAATATCATAAT
1 AAAAATCATGCAAAAATATCATAAT
* *
11078895 -AGAATCATGCAATAATATCAT--T
1 AAAAATCATGCAAAAATATCATAAT
* *
11078917 ---AATCATGGAAAAATATAATAAT
1 AAAAATCATGCAAAAATATCATAAT
** *
11078939 -AATGTCATGCAATAATATCAT
1 AAAAATCATGCAAAAATATCAT
11078960 CAATCATGTA
Statistics
Matches: 73, Mismatches: 13, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
20 16 0.22
22 2 0.03
24 32 0.44
25 19 0.26
26 4 0.05
ACGTcount: A:0.55, C:0.11, G:0.06, T:0.28
Consensus pattern (25 bp):
AAAAATCATGCAAAAATATCATAAT
Found at i:11078922 original size:20 final size:20
Alignment explanation
Indices: 11078897--11078967 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
11078887 ATCATAATAG
11078897 AATCATGCAATAATATCATT
1 AATCATGCAATAATATCATT
* * *
11078917 AATCATGGAAAAATATAATAAT
1 AATCATGCAATAATATCAT--T
*
11078939 AATGTCATGCAATAATATCATC
1 AA--TCATGCAATAATATCATT
11078961 AATCATG
1 AATCATG
11078968 TAAAAATAAA
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
20 21 0.52
22 5 0.12
24 14 0.35
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (20 bp):
AATCATGCAATAATATCATT
Done.