Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 22 of 333
Found at i:6601980 original size:7 final size:7
Alignment explanation
Indices: 6601771--6602005 Score: 73
Period size: 7 Copynumber: 33.0 Consensus size: 7
6601761 TTAAATCCTA
*
6601771 AAACTCT
1 AAACCCT
*
6601778 AAACCTT
1 AAACCCT
6601785 AAACCCT
1 AAACCCT
6601792 AAA-CCT
1 AAACCCT
*
6601798 AAATCACT
1 AAA-CCCT
6601806 AAACCCTT
1 AAACCC-T
***
6601814 AAA-TAA
1 AAACCCT
*
6601820 AAATCCT
1 AAACCCT
*
6601827 AAATCCT
1 AAACCCT
*
6601834 AAAACTCT
1 -AAACCCT
*
6601842 AAACCTT
1 AAACCCT
*
6601849 AAACCTT
1 AAACCCT
*
6601856 AAACTC-
1 AAACCCT
*
6601862 AAATCACT
1 AAA-CCCT
6601870 -AACCCTT
1 AAACCC-T
*
6601877 AAGCCCTT
1 AAACCC-T
** *
6601885 AAATACG
1 AAACCCT
*
6601892 AAATCCT
1 AAACCCT
*
6601899 AAATCCT
1 AAACCCT
* *
6601906 AAATCAT
1 AAACCCT
*
6601913 AAAACTCT
1 -AAACCCT
*
6601921 AAACCTT
1 AAACCCT
*
6601928 AAACCAT
1 AAACCCT
*
6601935 AAACCAT
1 AAACCCT
6601942 AAACCCT
1 AAACCCT
*
6601949 AAATCCT
1 AAACCCT
***
6601956 AAATAAT
1 AAACCCT
6601963 AAACCCT
1 AAACCCT
6601970 AAACCCT
1 AAACCCT
**
6601977 AAACTAT
1 AAACCCT
* *
6601984 AGACACT
1 AAACCCT
6601991 AAACCCTT
1 AAACCC-T
6601999 AAACCCT
1 AAACCCT
6602006 TAAATACAAA
Statistics
Matches: 170, Mismatches: 47, Indels: 22
0.71 0.20 0.09
Matches are distributed among these distances:
6 14 0.08
7 122 0.72
8 34 0.20
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.23
Consensus pattern (7 bp):
AAACCCT
Found at i:6607656 original size:7 final size:7
Alignment explanation
Indices: 6607646--6607677 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
6607636 AGATAATACA
6607646 TATCAAG
1 TATCAAG
6607653 TATCAAG
1 TATCAAG
6607660 TATCAAG
1 TATCAAG
6607667 TATCAAG
1 TATCAAG
6607674 TATC
1 TATC
6607678 TAATAGGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (7 bp):
TATCAAG
Found at i:6607753 original size:9 final size:9
Alignment explanation
Indices: 6607735--6607855 Score: 102
Period size: 9 Copynumber: 13.6 Consensus size: 9
6607725 TATTTATGTA
6607735 TTATGTAAG
1 TTATGTAAG
*
6607744 TTAAGTAAG
1 TTATGTAAG
*
6607753 TTTTGTAAG
1 TTATGTAAG
6607762 TTATGTAAG
1 TTATGTAAG
* *
6607771 ATATGATATG
1 TTATG-TAAG
* * *
6607781 ATATAT-AT
1 TTATGTAAG
*
6607789 TTGTGTAAG
1 TTATGTAAG
6607798 TTATGTAAG
1 TTATGTAAG
* *
6607807 TTATAT-AT
1 TTATGTAAG
*
6607815 TTATCTAAG
1 TTATGTAAG
*
6607824 TTATCTAAG
1 TTATGTAAG
*
6607833 TTATGTAAA
1 TTATGTAAG
6607842 TTATGTAAG
1 TTATGTAAG
6607851 TTATG
1 TTATG
6607856 ATATGATATA
Statistics
Matches: 88, Mismatches: 21, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
8 9 0.10
9 72 0.82
10 7 0.08
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:6607832 original size:26 final size:26
Alignment explanation
Indices: 6607782--6607854 Score: 92
Period size: 26 Copynumber: 2.8 Consensus size: 26
6607772 TATGATATGA
* *
6607782 TATATATTTGTGTAAGTTATGTAAGT
1 TATATATTTATGTAAGTTATCTAAGT
*
6607808 TATATATTTATCTAAGTTATCTAAGT
1 TATATATTTATGTAAGTTATCTAAGT
* *
6607834 TATGTAAATTATGTAAGTTAT
1 TATAT-ATTTATGTAAGTTAT
6607855 GATATGATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 27 0.68
27 13 0.32
ACGTcount: A:0.34, C:0.03, G:0.14, T:0.49
Consensus pattern (26 bp):
TATATATTTATGTAAGTTATCTAAGT
Found at i:6608013 original size:19 final size:20
Alignment explanation
Indices: 6607972--6608014 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
6607962 ATTATATTGA
* * *
6607972 TAAAAAATATTTACAATTTT
1 TAAAAAATATTTAAAAATAT
6607992 TAAAAAA-ATTTAAAAATAT
1 TAAAAAATATTTAAAAATAT
6608011 TAAA
1 TAAA
6608015 TATTAAAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAAAATATTTAAAAATAT
Found at i:6608584 original size:23 final size:23
Alignment explanation
Indices: 6608538--6608599 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
6608528 TTTGAAATAA
**
6608538 AAATAAATTTT-TTATTATTATC
1 AAATAAATTTTCTTAACATTATC
*
6608560 AAATGAATTTTCTTAACATTATC
1 AAATAAATTTTCTTAACATTATC
6608583 AAATAAATTTTCTTAAC
1 AAATAAATTTTCTTAAC
6608600 CAAATACTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 10 0.29
23 25 0.71
ACGTcount: A:0.42, C:0.10, G:0.02, T:0.47
Consensus pattern (23 bp):
AAATAAATTTTCTTAACATTATC
Found at i:6609266 original size:25 final size:25
Alignment explanation
Indices: 6609231--6609297 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
6609221 TGGTTGGCAG
* *
6609231 AAAGGAGATGCCGACGGAGATGTAGC
1 AAAGG-GATGCCGACGAAAATGTAGC
*
6609257 AAAGGGATGCCGGCGAAAATGTAGC
1 AAAGGGATGCCGACGAAAATGTAGC
* * *
6609282 AGAGGGTTGCTGACGA
1 AAAGGGATGCCGACGA
6609298 CGATGCCGAG
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
25 29 0.85
26 5 0.15
ACGTcount: A:0.33, C:0.15, G:0.39, T:0.13
Consensus pattern (25 bp):
AAAGGGATGCCGACGAAAATGTAGC
Found at i:6613293 original size:46 final size:44
Alignment explanation
Indices: 6613150--6613293 Score: 114
Period size: 46 Copynumber: 3.1 Consensus size: 44
6613140 CCCGCCCATA
*
6613150 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
** * * * *
6613197 CA-CAAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCG--GATGC-CAACCATCT
6613243 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
6613289 AGTGA
1 AGTGA
6613294 CATGTCACTT
Statistics
Matches: 75, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 31 0.41
47 28 0.37
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:6616024 original size:40 final size:40
Alignment explanation
Indices: 6615931--6616041 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 40
6615921 TAATTAGACT
* * *
6615931 TTTATTGGCGTTTTT-CAAAAGC-CCAGTTAAATCTCAATC
1 TTTAGTGGCGTTTTTACAAAAGCGCC-GCTAATTCTCAATC
* * *
6615970 TTTTGCGGCATTTTTACAAAAGCGCCGCTAATTCTCAATC
1 TTTAGTGGCGTTTTTACAAAAGCGCCGCTAATTCTCAATC
* * **
6616010 TTTAGTGGTGTTTTTAGAAAAATGCCGCTAAT
1 TTTAGTGGCGTTTTTACAAAAGCGCCGCTAAT
6616042 GCCTCTGGAG
Statistics
Matches: 57, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
39 11 0.19
40 44 0.77
41 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (40 bp):
TTTAGTGGCGTTTTTACAAAAGCGCCGCTAATTCTCAATC
Found at i:6622810 original size:36 final size:36
Alignment explanation
Indices: 6622770--6622850 Score: 101
Period size: 38 Copynumber: 2.2 Consensus size: 36
6622760 CCCGGCCCAT
*
6622770 ACCATAAACTTAACACACTA-TACCATTGAACCCTAA
1 ACCATAAACTTAAAACA-TATTACCATTGAACCCTAA
* *
6622806 ACCATAAACTTAAAATATATTCTACCATTGAACCTTAA
1 ACCATAAACTTAAAACATA-T-TACCATTGAACCCTAA
6622844 ACCATAA
1 ACCATAA
6622851 GCCTTAAACC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
35 2 0.05
36 15 0.38
38 22 0.56
ACGTcount: A:0.46, C:0.26, G:0.02, T:0.26
Consensus pattern (36 bp):
ACCATAAACTTAAAACATATTACCATTGAACCCTAA
Found at i:6623041 original size:21 final size:21
Alignment explanation
Indices: 6623002--6623047 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
6622992 GGTTTAGGGT
*
6623002 TTTAGAGTTTATGGATTAGTA
1 TTTAGAGTTTATGGATTAGAA
* **
6623023 TTTAGGGTTTATGTTTTAGAA
1 TTTAGAGTTTATGGATTAGAA
6623044 TTTA
1 TTTA
6623048 AGATTTAGGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.22, T:0.52
Consensus pattern (21 bp):
TTTAGAGTTTATGGATTAGAA
Found at i:6623053 original size:28 final size:28
Alignment explanation
Indices: 6623022--6623077 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
6623012 ATGGATTAGT
6623022 ATTTAGGGTTT-ATGTTTTAGAATTTAAG
1 ATTTAGGGTTTAATG-TTTAGAATTTAAG
*
6623050 ATTTAGGGTTTAATGTTTAGGATTTAAG
1 ATTTAGGGTTTAATGTTTAGAATTTAAG
6623078 GGTTTAGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (28 bp):
ATTTAGGGTTTAATGTTTAGAATTTAAG
Found at i:6623061 original size:21 final size:23
Alignment explanation
Indices: 6623037--6623085 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 23
6623027 GGGTTTATGT
6623037 TTTAGA-ATTTAAGATTT-AGGG
1 TTTAGATATTTAAGATTTAAGGG
* *
6623058 TTTA-ATGTTTAGGATTTAAGGG
1 TTTAGATATTTAAGATTTAAGGG
6623080 TTTAGA
1 TTTAGA
6623086 GAAAGTTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 13 0.57
22 8 0.35
23 1 0.04
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (23 bp):
TTTAGATATTTAAGATTTAAGGG
Found at i:6623068 original size:14 final size:15
Alignment explanation
Indices: 6623022--6623076 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 15
6623012 ATGGATTAGT
*
6623022 ATTTAGGGTTT-ATG
1 ATTTAGGATTTAATG
* *
6623036 TTTTAGAATTTAA-G
1 ATTTAGGATTTAATG
*
6623050 ATTTAGGGTTTAATG
1 ATTTAGGATTTAATG
6623065 -TTTAGGATTTAA
1 ATTTAGGATTTAA
6623077 GGGTTTAGAG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
14 30 0.94
15 2 0.06
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (15 bp):
ATTTAGGATTTAATG
Found at i:6623517 original size:41 final size:41
Alignment explanation
Indices: 6623366--6623549 Score: 108
Period size: 41 Copynumber: 4.4 Consensus size: 41
6623356 CTGCTCAACA
* * *
6623366 TTTT-GCGGCG-TTTGGACCAAAAACTCCACTATTGATCAG-
1 TTTTAGCGGCGTTTTAG-CCAAAAACGCTACTATTGATCAGT
* * * *
6623405 TTTTAGTGGCGTTTGAACCAAAAATGCCGCTACTACTCATTCATCAGT
1 TTTTAGCGGCGTTTTAGCCAAAAA---CG---CTACT-ATTGATCAGT
* * * *
6623453 TTTTAGTGGCGTTTTAGCTAAAAATG-TCGCTATTGATCAGT
1 TTTTAGCGGCGTTTTAGCCAAAAACGCT-ACTATTGATCAGT
* *
6623494 TTTTAGCGGTGTTTGT-GCCAAAAACGCTACTATTGTTCAGT
1 TTTTAGCGGCGTTT-TAGCCAAAAACGCTACTATTGATCAGT
* *
6623535 TTTTTGCGGCATTTT
1 TTTTAGCGGCGTTTT
6623550 TATAATCTTT
Statistics
Matches: 110, Mismatches: 22, Indels: 25
0.70 0.14 0.16
Matches are distributed among these distances:
39 4 0.04
40 13 0.12
41 54 0.49
42 4 0.04
43 1 0.01
45 1 0.01
46 4 0.04
47 8 0.07
48 21 0.19
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.38
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTAGCCAAAAACGCTACTATTGATCAGT
Found at i:6625977 original size:7 final size:7
Alignment explanation
Indices: 6625965--6626021 Score: 73
Period size: 7 Copynumber: 8.4 Consensus size: 7
6625955 GTTGCTCATT
6625965 ACCCTAA
1 ACCCTAA
6625972 ACCCTAA
1 ACCCTAA
6625979 ACCC--A
1 ACCCTAA
*
6625984 ACCTTAA
1 ACCCTAA
*
6625991 ACCTTAA
1 ACCCTAA
*
6625998 ACCTTAA
1 ACCCTAA
6626005 ACCCTAA
1 ACCCTAA
6626012 ACCCTAA
1 ACCCTAA
6626019 ACC
1 ACC
6626022 TTTTATTTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
5 4 0.09
7 42 0.91
ACGTcount: A:0.42, C:0.40, G:0.00, T:0.18
Consensus pattern (7 bp):
ACCCTAA
Found at i:6626073 original size:23 final size:23
Alignment explanation
Indices: 6626046--6626871 Score: 582
Period size: 23 Copynumber: 36.0 Consensus size: 23
6626036 TGATTGTTGT
6626046 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
*
6626069 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* * *
6626092 TGTTTAAATACTGCAATTTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
** *
6626115 TGTTTAGTTGCTGCAAAATTG-AG
1 TGTTTAAATGCTG-TAAATTGAAG
* * *
6626138 ATGTTTTATTGCTGT-AATTGAGG
1 -TGTTTAAATGCTGTAAATTGAAG
* * *
6626161 TGTATAAATGTTGTTAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
*
6626183 ATG-TTAAAGTGCTGCAAATTGAAG
1 -TGTTTAAA-TGCTGTAAATTGAAG
*
6626207 TGTTTAAATGCTGTAAATTGAAT
1 TGTTTAAATGCTGTAAATTGAAG
* *
6626230 TGCTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* * *
6626253 TGTTTAAGTACTGCAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
** *
6626276 TGTTTAGTTGCTGAAAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
* *
6626298 ATGTTT-TAT-C-GCTACAATTGAGG
1 -TGTTTAAATGCTG-TA-AATTGAAG
* * *
6626321 TGTATAAATGTTGTTAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
* * *
6626343 ATG-TTAAAGTACAGCAAATTGAAG
1 -TGTTTAAA-TGCTGTAAATTGAAG
6626367 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
*
6626390 TG-TTAAAGTGCTGCAAATTGAAG
1 TGTTTAAA-TGCTGTAAATTGAAG
6626413 TG-TTAAAGTGCTGTAAATTGAAG
1 TGTTTAAA-TGCTGTAAATTGAAG
*
6626436 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* * *
6626459 TGCTTAAATGTTGTAAATTGAAC
1 TGTTTAAATGCTGTAAATTGAAG
* * *
6626482 TGTTTTAAGTACTGCAAATTGAAG
1 TG-TTTAAATGCTGTAAATTGAAG
** *
6626506 TGTTTAGTTGCTGGAAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
* * *
6626528 ATGTTT-TATCACTGT-AATTGAGG
1 -TGTTTAAAT-GCTGTAAATTGAAG
* * *
6626551 TGTATAAATGTTGTTAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
* *
6626573 ATG-TTAAAGTGATGCAAATTGAAG
1 -TGTTTAAA-TGCTGTAAATTGAAG
6626597 TGTTTAAATGCTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* *
6626620 TG-TTAAAGTACTGCAAATTGAAG
1 TGTTTAAA-TGCTGTAAATTGAAG
* * *
6626643 TGTTTGAATGTTATAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
*
6626666 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* * *
6626689 TGTTTAAGTACTGCAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
** * *
6626712 TGTTTAGTTGTTGGAAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
* *
6626734 ATGTTT-TATCGCTGT-AATTGAGG
1 -TGTTTAAAT-GCTGTAAATTGAAG
* * * *
6626757 AGTATAAATGTTGTTAATTG-AG
1 TGTTTAAATGCTGTAAATTGAAG
*
6626779 ATG-TTAAAGTGCTGCAAATTGAAG
1 -TGTTTAAA-TGCTGTAAATTGAAG
* ** *
6626803 TGTTAAAAGTGCTACAAATTGGAG
1 TGTTTAAA-TGCTGTAAATTGAAG
*
6626827 TGTTTAAATGTTGTAAATTGAAG
1 TGTTTAAATGCTGTAAATTGAAG
* * * *
6626850 TTTTTAAGTACTGCAAATTGAA
1 TGTTTAAATGCTGTAAATTGAA
6626872 TAGTTTAGTT
Statistics
Matches: 629, Mismatches: 132, Indels: 84
0.74 0.16 0.10
Matches are distributed among these distances:
20 1 0.00
21 2 0.00
22 87 0.14
23 447 0.71
24 91 0.14
25 1 0.00
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.39
Consensus pattern (23 bp):
TGTTTAAATGCTGTAAATTGAAG
Found at i:6626592 original size:230 final size:229
Alignment explanation
Indices: 6626176--6626695 Score: 857
Period size: 230 Copynumber: 2.3 Consensus size: 229
6626166 AAATGTTGTT
* * *
6626176 AATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAATTGCTTAAATG
1 AATTGAAG-TGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATG
*
6626240 TTGTAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTTT
65 TTGTAAATTGAACTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTTT
*
6626305 ATCGCTACAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTACAGCAAATTGAAGTGT
130 ATCACTACAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTACAGCAAATTGAAGTGT
*
6626370 TTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
195 TTAAATGCTGTAAATTGAAGTGTTAAAGTACTGCA
6626405 AATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGT
1 AATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGT
*
6626470 TGTAAATTGAACTGTTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTT
66 TGTAAATTGAACTG-TTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTTT
** *
6626535 ATCACTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGA-TGCAAATTGAAGTG
130 ATCACTACAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGT-ACAGCAAATTGAAGTG
6626599 TTTAAATGCTGTAAATTGAAGTGTTAAAGTACTGCA
194 TTTAAATGCTGTAAATTGAAGTGTTAAAGTACTGCA
* * * *
6626635 AATTGAAGTGTTTGAA-TGTTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAA
1 AATTGAAGTG-TTAAAGTGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAA
6626696 GTACTGCAAA
Statistics
Matches: 273, Mismatches: 14, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
229 72 0.26
230 196 0.72
231 5 0.02
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (229 bp):
AATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGT
TGTAAATTGAACTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTTTA
TCACTACAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTACAGCAAATTGAAGTGTT
TAAATGCTGTAAATTGAAGTGTTAAAGTACTGCA
Found at i:6626820 original size:24 final size:22
Alignment explanation
Indices: 6626772--6626830 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 22
6626762 AAATGTTGTT
*
6626772 AATTGAGATGTTAAAGTGCTGCA
1 AATTGAG-TGTTAAAGTGCTACA
6626795 AATTGAAGTGTTAAAAGTGCTACA
1 AATTG-AGTGTT-AAAGTGCTACA
6626819 AATTGGAGTGTT
1 AATT-GAGTGTT
6626831 TAAATGTTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
23 9 0.28
24 22 0.69
25 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.25, T:0.32
Consensus pattern (22 bp):
AATTGAGTGTTAAAGTGCTACA
Found at i:6626823 original size:230 final size:230
Alignment explanation
Indices: 6626176--6626871 Score: 752
Period size: 230 Copynumber: 3.0 Consensus size: 230
6626166 AAATGTTGTT
** * * *
6626176 AATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAATTGCTTAAATG
1 AATTGAAG-TGTTAAAGTGCTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATA
* * * * * *
6626240 TTGTAAATTGAAGTG-TTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGAAAATTGAGATGTTT
65 CTGCAAATTGAACTGTTTTAAGTACTGCAAATTGAAGTGTTTAGTCGCTGGAAATTGAGATGTTA
* * ** * * ** *
6626304 TATCGCTACAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGT-ACAGCAAATTGAAGT
130 AATCACTGTAATTGAGATGTATAAATGCTGCAAATTGAGATGTTAAAGTGATA-CAAATTGAAGT
*
6626368 GTTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCA
194 GTTTAAATGCTGTAAATTGAAGTGTTAAAGTACTGCA
* **
6626405 AATTGAAGTGTTAAAGTGCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATGT
1 AATTGAAGTGTTAAAGTGCTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATAC
* * **
6626470 TGTAAATTGAACTGTTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTGAGATGTTTT
66 TGCAAATTGAACTGTTTTAAGTACTGCAAATTGAAGTGTTTAGTCGCTGGAAATTGAGATGTTAA
* * ** *
6626535 ATCACTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGATGCAAATTGAAGTGT
131 ATCACTGTAATTGAGATGTATAAATGCTGCAAATTGAGATGTTAAAGTGATACAAATTGAAGTGT
6626600 TTAAATGCTGTAAATTGAAGTGTTAAAGTACTGCA
196 TTAAATGCTGTAAATTGAAGTGTTAAAGTACTGCA
* * * *
6626635 AATTGAAGTGTTTGAA-TGTTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGTTTAAGTA
1 AATTGAAGTG-TTAAAGTGCTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATA
* ** * *
6626699 CTGCAAATTGAAGTG-TTT-AGTTGTTGGAAATTG-AGATGTTTTA-TCGCT-GTAATTGAGGA-
65 CTGCAAATTGAACTGTTTTAAG-TACTGCAAATTGAAG-TG-TTTAGTCGCTGGAAATTGA-GAT
** *
6626758 GTATAAAT-GTTGTTAATTGAGATGT-TAAAGTGCTGCAAATTGA-AGTGTTAAAAGTGCTACAA
126 GT-TAAATCACTG-TAATTGAGATGTATAAA-TGCTGCAAATTGAGA-TGTT-AAAGTGATACAA
* * * *
6626820 ATTGGAGTGTTTAAATGTTGTAAATTGAAGTTTTTAAGTACTGCA
186 ATTGAAGTGTTTAAATGCTGTAAATTGAAGTGTTAAAGTACTGCA
6626865 AATTGAA
1 AATTGAA
6626872 TAGTTTAGTT
Statistics
Matches: 415, Mismatches: 39, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
228 20 0.05
229 120 0.29
230 270 0.65
231 5 0.01
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.38
Consensus pattern (230 bp):
AATTGAAGTGTTAAAGTGCTATAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTGCTTAAATAC
TGCAAATTGAACTGTTTTAAGTACTGCAAATTGAAGTGTTTAGTCGCTGGAAATTGAGATGTTAA
ATCACTGTAATTGAGATGTATAAATGCTGCAAATTGAGATGTTAAAGTGATACAAATTGAAGTGT
TTAAATGCTGTAAATTGAAGTGTTAAAGTACTGCA
Found at i:6627624 original size:42 final size:42
Alignment explanation
Indices: 6627525--6627690 Score: 224
Period size: 42 Copynumber: 3.9 Consensus size: 42
6627515 GGTTTTGGAA
* * * ** *
6627525 AAAGCGCCGCTAAAAGTCAGGTTTTTTAGCGGCGCCTGTGGAG
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTGG-G
* *
6627568 AAAGTGCCGCTAAAGGTCATGTTCTTTAGCAGCGTTTTTGGG
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTGGG
6627610 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTGGG
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTGGG
* * *
6627652 AAAGCACTGCTAAAGGCCATGTTCTTTAGCGGCGTTTTT
1 AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTT
6627691 TCACATAAAC
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
42 77 0.70
43 33 0.30
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGGTCATGTTCTTTAGCGGCGTTTTTGGG
Found at i:6628479 original size:36 final size:36
Alignment explanation
Indices: 6628432--6628505 Score: 103
Period size: 36 Copynumber: 2.1 Consensus size: 36
6628422 CATTTTGCTC
* *
6628432 ATGTAAAGGAGCATTGACATTCGGCCTACTTGGCCT
1 ATGTAAAGGAGCATAGACATTCAGCCTACTTGGCCT
* * *
6628468 ATGTATAGGAGCATAGGCATTCAGCCTATTTGGCCT
1 ATGTAAAGGAGCATAGACATTCAGCCTACTTGGCCT
6628504 AT
1 AT
6628506 AGGATGTAGG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (36 bp):
ATGTAAAGGAGCATAGACATTCAGCCTACTTGGCCT
Found at i:6630440 original size:18 final size:18
Alignment explanation
Indices: 6630417--6630451 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
6630407 AGCTTTTCTT
*
6630417 CCAGAAGTGCTTTTGAAG
1 CCAGAAATGCTTTTGAAG
6630435 CCAGAAATGCTTTTGAA
1 CCAGAAATGCTTTTGAA
6630452 AAGCAATGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (18 bp):
CCAGAAATGCTTTTGAAG
Found at i:6631741 original size:4 final size:4
Alignment explanation
Indices: 6631732--6631767 Score: 56
Period size: 4 Copynumber: 9.0 Consensus size: 4
6631722 TTAAACTAAG
6631732 TAAA TAAA TAAA TAAA TAAA TAAA TATAA -AAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TA-AA TAAA TAAA
6631768 ACTTTACAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 2 0.07
4 26 0.87
5 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:6633167 original size:23 final size:22
Alignment explanation
Indices: 6633115--6633167 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
6633105 TCCACGTCTT
*
6633115 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
6633137 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
6633160 TTTCTTTT
1 TTTCTTTT
6633168 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:6633192 original size:27 final size:27
Alignment explanation
Indices: 6633162--6633213 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
6633152 TTCTTCAATT
6633162 TCTTTTTCACTCTCAATCTCTTTTTGC
1 TCTTTTTCACTCTCAATCTCTTTTTGC
* **
6633189 TCTTTTTCATTCTCTTTCTCTTTTT
1 TCTTTTTCACTCTCAATCTCTTTTT
6633214 CCTCACTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.08, C:0.27, G:0.02, T:0.63
Consensus pattern (27 bp):
TCTTTTTCACTCTCAATCTCTTTTTGC
Found at i:6642606 original size:2 final size:2
Alignment explanation
Indices: 6642599--6642626 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6642589 ATGAACTCCA
6642599 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
6642627 GTGAGAGGAG
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:6643045 original size:2 final size:2
Alignment explanation
Indices: 6643032--6643062 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6643022 TCGAATTAAG
*
6643032 AT AT AT AG AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6643063 AGAAATGAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:6643357 original size:20 final size:19
Alignment explanation
Indices: 6643334--6643380 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
6643324 AAGTTAATTC
6643334 AATAATTTAAAATATAAAAT
1 AATAATTTAAAATA-AAAAT
*
6643354 AATAAATT-AAATAAAAAT
1 AATAATTTAAAATAAAAAT
6643372 -ATAATTTAA
1 AATAATTTAA
6643381 TTCAATTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 6 0.25
18 6 0.25
19 5 0.21
20 7 0.29
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAATTTAAAATAAAAAT
Found at i:6643380 original size:17 final size:19
Alignment explanation
Indices: 6643334--6643380 Score: 62
Period size: 17 Copynumber: 2.5 Consensus size: 19
6643324 AAGTTAATTC
6643334 AATAATTTAAAATATAAAAT
1 AATAATTT-AAATATAAAAT
*
6643354 AATAAATTAAATA-AAAAT
1 AATAATTTAAATATAAAAT
6643372 -ATAATTTAA
1 AATAATTTAA
6643381 TTCAATTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 8 0.32
18 5 0.20
19 5 0.20
20 7 0.28
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAATTTAAATATAAAAT
Found at i:6645978 original size:16 final size:15
Alignment explanation
Indices: 6645959--6646004 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
6645949 AAAAATATAA
6645959 AAAGAAAAGGAGAAAG
1 AAAGAAAAGGA-AAAG
6645975 AAAGAACAAGGAAAAG
1 AAAGAA-AAGGAAAAG
* *
6645991 AACGAAAAAGAAAA
1 AAAGAAAAGGAAAA
6646005 AGAAGAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 7 0.26
16 15 0.56
17 5 0.19
ACGTcount: A:0.72, C:0.04, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGGAAAAG
Found at i:6655564 original size:17 final size:17
Alignment explanation
Indices: 6655512--6655564 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 17
6655502 TATGGAAACA
6655512 TAATCTTTA-AAGATATG
1 TAATC-TTAGAAGATATG
* *
6655529 CAATTTTAGATATGATATG
1 TAATCTTAGA-A-GATATG
6655548 TAATCTTAGAAGATATG
1 TAATCTTAGAAGATATG
6655565 ATTCTGTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
16 3 0.10
17 10 0.34
18 2 0.07
19 14 0.48
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (17 bp):
TAATCTTAGAAGATATG
Found at i:6655564 original size:22 final size:21
Alignment explanation
Indices: 6655536--6655598 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 21
6655526 ATGCAATTTT
*
6655536 AGATATGATATGTAATCTTAG
1 AGATATGATATGTAATATTAG
*
6655557 AAGATATGATTCTGTAATATTAG
1 -AGATATGA-TATGTAATATTAG
* *
6655580 AGATTTGATTTGTAGATAT
1 AGATATGATATGTA-ATAT
6655599 CTTTTAATCG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 5 0.14
22 19 0.54
23 11 0.31
ACGTcount: A:0.37, C:0.03, G:0.19, T:0.41
Consensus pattern (21 bp):
AGATATGATATGTAATATTAG
Found at i:6658619 original size:5 final size:5
Alignment explanation
Indices: 6658611--6658637 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
6658601 AAAATAAAAA
6658611 ATAAT ATAAT ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT
6658638 CCCAACTACC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:6661772 original size:42 final size:42
Alignment explanation
Indices: 6661717--6661826 Score: 193
Period size: 42 Copynumber: 2.6 Consensus size: 42
6661707 GTGTTTATGG
* *
6661717 AAAAAAATTAATTAAATTAGGGTTTAAATTAACTATTAATTT
1 AAAAAAATCAATTAAATTAAGGTTTAAATTAACTATTAATTT
*
6661759 TAAAAAATCAATTAAATTAAGGTTTAAATTAACTATTAATTT
1 AAAAAAATCAATTAAATTAAGGTTTAAATTAACTATTAATTT
6661801 AAAAAAATCAATTAAATTAAGGTTTA
1 AAAAAAATCAATTAAATTAAGGTTTA
6661827 GGGTTTTTAG
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.38
Consensus pattern (42 bp):
AAAAAAATCAATTAAATTAAGGTTTAAATTAACTATTAATTT
Found at i:6661991 original size:126 final size:125
Alignment explanation
Indices: 6661854--6662169 Score: 454
Period size: 125 Copynumber: 2.5 Consensus size: 125
6661844 TAATTAAATT
* * *
6661854 AGGATGTACTGTCAGCAAAATTTACT-AAAAAAGCTTCCACGTGGATGCTATTTTGCTACAGTAG
1 AGGATGCACTGTCAGCAAAA-TTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAG
* * *
6661918 TATCTGAAAAAATAATTTTGAGAAAATATTTCTAAACAAATAGTGTCCAAAATGCTTCAAGC
65 TATCTG-AAAAATAATTTTGAGAAAACATTTCTAAACAAATAGTGTCCAAAACGCATCAAGC
* * * *
6661980 AGGATGCACTGTCAGCAAAATTATTGAAAAAACCTTCCACGTGGACGCTCTTTTGCTATAATAGT
1 AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGT
* * * * * *
6662045 ATTTGAAAAATAATTTTGAGAAGACGTTTTTGAACAAATAGTGTCCAAAACGCATCAAGT
66 ATCTGAAAAATAATTTTGAGAAAACATTTCTAAACAAATAGTGTCCAAAACGCATCAAGC
*
6662105 AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGT
1 AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGT
6662170 TCCTATTTGG
Statistics
Matches: 168, Mismatches: 21, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
125 111 0.66
126 57 0.34
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (125 bp):
AGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTTCCACGTGGACGCTCTTTTGCTACAGTAGT
ATCTGAAAAATAATTTTGAGAAAACATTTCTAAACAAATAGTGTCCAAAACGCATCAAGC
Found at i:6667621 original size:11 final size:10
Alignment explanation
Indices: 6667571--6667620 Score: 66
Period size: 11 Copynumber: 4.9 Consensus size: 10
6667561 TAAAGAGAGC
*
6667571 TTTGAGAAAA
1 TTTGAGAGAA
6667581 TTTGAGAGAAA
1 TTTGAGAG-AA
6667592 TTTGAGAGAA
1 TTTGAGAGAA
6667602 TTTGGAGAGAA
1 TTT-GAGAGAA
6667613 TTT-AGAGA
1 TTTGAGAGA
6667621 GGACTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
9 5 0.14
10 12 0.32
11 20 0.54
ACGTcount: A:0.42, C:0.00, G:0.28, T:0.30
Consensus pattern (10 bp):
TTTGAGAGAA
Found at i:6667621 original size:22 final size:21
Alignment explanation
Indices: 6667571--6667621 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
6667561 TAAAGAGAGC
*
6667571 TTTGAGAAAATTTGAGAGAAA
1 TTTGAGAGAATTTGAGAGAAA
6667592 TTTGAGAGAATTTG-GAGAGAA
1 TTTGAGAGAATTTGAGAGA-AA
6667613 TTTAGAGAG
1 TTT-GAGAG
6667622 GACTTTTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 4 0.15
21 18 0.67
22 5 0.19
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (21 bp):
TTTGAGAGAATTTGAGAGAAA
Found at i:6672370 original size:66 final size:66
Alignment explanation
Indices: 6672287--6672457 Score: 202
Period size: 66 Copynumber: 2.6 Consensus size: 66
6672277 AAATATTAGA
* * *
6672287 TCTTCCCAAACTCCTAAATGAGATATCATGTATTCTCAATCCCAA-ACTCTTGAACGCGAAATCG
1 TCTTCCCAAGCTCCTAAATGAGATATCAAGTATTCTCAATCCCAAGACTC-TGAACGAGAAATCG
6672351 AG
65 AG
* * * * *
6672353 TCTTCCCAAGCTCCTAAACGAGATATCAGGTCA-TCTCAATCCCAAGATTCTGAATGAGATATCG
1 TCTTCCCAAGCTCCTAAATGAGATATCAAGT-ATTCTCAATCCCAAGACTCTGAACGAGAAATCG
6672417 AG
65 AG
* * * *
6672419 TCTTCCCAAGCTCTTGAATGAGATAGCAAGTCTTCTCAA
1 TCTTCCCAAGCTCCTAAATGAGATATCAAGTATTCTCAA
6672458 GTTCTTGAAC
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
66 85 0.96
67 4 0.04
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.27
Consensus pattern (66 bp):
TCTTCCCAAGCTCCTAAATGAGATATCAAGTATTCTCAATCCCAAGACTCTGAACGAGAAATCGA
G
Found at i:6672464 original size:30 final size:30
Alignment explanation
Indices: 6672392--6672466 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
6672382 GTCATCTCAA
* *
6672392 TCCCAAGATTC-TGAATGAGATATCGAGTCT
1 TCCCAAG-TTCTTGAATGAGATAGCAAGTCT
*
6672422 TCCCAAGCTCTTGAATGAGATAGCAAGTCT
1 TCCCAAGTTCTTGAATGAGATAGCAAGTCT
*
6672452 TCTCAAGTTCTTGAA
1 TCCCAAGTTCTTGAA
6672467 CGTCCTCATA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
29 2 0.05
30 37 0.95
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (30 bp):
TCCCAAGTTCTTGAATGAGATAGCAAGTCT
Found at i:6676618 original size:107 final size:106
Alignment explanation
Indices: 6676472--6676680 Score: 339
Period size: 107 Copynumber: 2.0 Consensus size: 106
6676462 TTCCTAAGTA
6676472 AGGCAATATTTCGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACGCGCTGGGTTTCGATTTCTC
1 AGGCAATATTTCGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACGCGCTGGGTTTCGATTTCTC
*
6676537 GTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTCAAAACG
66 GTTCGACCAAATAGCCAAATAT-CTTCTT-AACTTTCAAAACG
* * * *
6676580 AGGCAATGTTTTGCGTTTGG-AAATTCGAGAGAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
1 AGGCAATATTTCGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACGCGCTGGGTTTCGATTTCTC
*
6676644 GTTCGACCAAATAGCTAAATATCTTCTTAACTTTCAA
66 GTTCGACCAAATAGCCAAATATCTTCTTAACTTTCAA
6676681 TCAATATTAT
Statistics
Matches: 95, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
105 9 0.09
106 5 0.05
107 63 0.66
108 18 0.19
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (106 bp):
AGGCAATATTTCGCGTTTGGAAAATTCGAGAAAACGTGCCCTAACGCGCTGGGTTTCGATTTCTC
GTTCGACCAAATAGCCAAATATCTTCTTAACTTTCAAAACG
Found at i:6691036 original size:45 final size:45
Alignment explanation
Indices: 6690972--6691062 Score: 164
Period size: 45 Copynumber: 2.0 Consensus size: 45
6690962 TTTGCCACTT
6690972 ATTTAGAAATACAATCTAACTTGACTCCAAATATAGTTAAGACTA
1 ATTTAGAAATACAATCTAACTTGACTCCAAATATAGTTAAGACTA
* *
6691017 ATTTAGAAATCCAATCTAACTTGACTCTAAATATAGTTAAGACTA
1 ATTTAGAAATACAATCTAACTTGACTCCAAATATAGTTAAGACTA
6691062 A
1 A
6691063 CGTGTTAATT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (45 bp):
ATTTAGAAATACAATCTAACTTGACTCCAAATATAGTTAAGACTA
Found at i:6693109 original size:18 final size:18
Alignment explanation
Indices: 6693088--6693524 Score: 106
Period size: 18 Copynumber: 24.6 Consensus size: 18
6693078 GAAAGTTTTT
* *
6693088 TTTTTTAAAATACGAGAA
1 TTTTTGAAAACACGAGAA
6693106 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAGAA
*
6693124 --TTTGTAAACAC--GAA
1 TTTTTGAAAACACGAGAA
* *
6693138 TATTT-AGAAACACGAAAA
1 TTTTTGA-AAACACGAGAA
*
6693156 TTTTTGGAAAAAAACGA-AA
1 TTTTT-G-AAAACACGAGAA
* * *
6693175 TTTTCTTAAAACACGACATTT
1 TTTT-TGAAAACACGAGA--A
*
6693196 TTTTTG-AAACACGGGAA
1 TTTTTGAAAACACGAGAA
* * *
6693213 TTTTT-AAAACAAGACATT
1 TTTTTGAAAACACGAGA-A
6693231 TTTTTG-AAACA--A-AA
1 TTTTTGAAAACACGAGAA
*
6693245 TTTTTTCTTAAAA-A--A-AA
1 --TTTT-TGAAAACACGAGAA
* *
6693262 ATTTT--AAATACGAGAA
1 TTTTTGAAAACACGAGAA
*
6693278 TTTTT-AAAACACGAAAA
1 TTTTTGAAAACACGAGAA
*
6693295 TTTTT-AAAACACGGAAATA
1 TTTTTGAAAACAC-GAGA-A
* *
6693314 TTTTTTTTAAAACACGA-ATTTTTT
1 --TTTTTGAAAACACGAGA-----A
* *
6693338 TTTTTGAAAACAAGAAAA
1 TTTTTGAAAACACGAGAA
*
6693356 TTTTTG-AAACACTAGAA
1 TTTTTGAAAACACGAGAA
6693373 -TTTTGAAAACACGA-AGA
1 TTTTTGAAAACACGAGA-A
*
6693390 TTTTTG-AAACATGAGAA
1 TTTTTGAAAACACGAGAA
*
6693407 TTTTT-AAAAGCACGAGGA
1 TTTTTGAAAA-CACGAGAA
* *
6693425 TTATTGAAAGCACGA-AGA
1 TTTTTGAAAACACGAGA-A
* * *
6693443 TTTAT-AAAAAACGACAA
1 TTTTTGAAAACACGAGAA
*
6693460 TTTTTG-AAATACGAGAAA
1 TTTTTGAAAACACGAG-AA
* * *
6693478 TTTTT-TAAACGCGAAAA
1 TTTTTGAAAACACGAGAA
** *
6693495 TTTTTTTCAAACACGAAAA
1 -TTTTTGAAAACACGAGAA
*
6693514 CTTTTGAAAAC
1 TTTTTGAAAAC
6693525 GCGAAAATTC
Statistics
Matches: 318, Mismatches: 53, Indels: 96
0.68 0.11 0.21
Matches are distributed among these distances:
12 3 0.01
13 1 0.00
14 4 0.01
15 5 0.02
16 36 0.11
17 91 0.29
18 105 0.33
19 29 0.09
20 10 0.03
21 12 0.04
22 20 0.06
23 1 0.00
24 1 0.00
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAGAA
Found at i:6693127 original size:16 final size:16
Alignment explanation
Indices: 6693094--6693158 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
6693084 TTTTTTTTTT
*
6693094 AAAATACGAGAATTTTTG
1 AAAACACGAGAA--TTTG
6693112 AAAACACGAGAATTTG
1 AAAACACGAGAATTTG
*
6693128 TAAACACGA-ATATTT-
1 AAAACACGAGA-ATTTG
*
6693143 AGAAACACGAAAATTT
1 A-AAACACGAGAATTT
6693159 TTGGAAAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
15 1 0.02
16 28 0.68
17 1 0.02
18 11 0.27
ACGTcount: A:0.49, C:0.11, G:0.14, T:0.26
Consensus pattern (16 bp):
AAAACACGAGAATTTG
Found at i:6693296 original size:17 final size:17
Alignment explanation
Indices: 6693258--6693533 Score: 140
Period size: 17 Copynumber: 15.4 Consensus size: 17
6693248 TTTCTTAAAA
* *
6693258 AAAAATTTT-AAATACG
1 AAAATTTTTAAAACACG
*
6693274 AGAATTTTTAAAACACG
1 AAAATTTTTAAAACACG
6693291 AAAATTTTTAAAACACGG
1 AAAATTTTTAAAACAC-G
6693309 AAATATTTTTTTTAAAACACG
1 AAA-A---TTTTTAAAACACG
** *
6693330 AATTTTTTTTTTTGAAAACAAG
1 AA----AATTTTT-AAAACACG
* *
6693352 AAAATTTTTGAAACACT
1 AAAATTTTTAAAACACG
* *
6693369 AGAATTTTGAAAACACG
1 AAAATTTTTAAAACACG
* * *
6693386 AAGATTTTTGAAACATG
1 AAAATTTTTAAAACACG
*
6693403 AGAATTTTTAAAAGCACG
1 AAAATTTTTAAAA-CACG
** * *
6693421 AGGATTATTGAAAGCACG
1 AAAATT-TTTAAAACACG
* * *
6693439 AAGATTTATAAAAAACG
1 AAAATTTTTAAAACACG
* * *
6693456 ACAATTTTTGAAATACG
1 AAAATTTTTAAAACACG
* *
6693473 AGAAATTTTTTAAACGCG
1 A-AAATTTTTAAAACACG
*
6693491 AAAATTTTTTTCAAACACG
1 AAAA--TTTTTAAAACACG
* *
6693510 AAAACTTTTGAAAACGCG
1 AAAA-TTTTTAAAACACG
6693528 AAAATT
1 AAAATT
6693534 CGAAAATTTC
Statistics
Matches: 196, Mismatches: 48, Indels: 31
0.71 0.17 0.11
Matches are distributed among these distances:
16 7 0.04
17 86 0.44
18 53 0.27
19 21 0.11
21 8 0.04
22 21 0.11
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.32
Consensus pattern (17 bp):
AAAATTTTTAAAACACG
Found at i:6693322 original size:22 final size:21
Alignment explanation
Indices: 6693278--6693360 Score: 86
Period size: 22 Copynumber: 4.1 Consensus size: 21
6693268 AATACGAGAA
6693278 TTTTTAAAACACGAAA-A---
1 TTTTTAAAACACGAAATATTT
6693295 TTTTTAAAACACGGAAATATTT
1 TTTTTAAAACAC-GAAATATTT
* *
6693317 TTTTTAAAACACGAATTTTTT
1 TTTTTAAAACACGAAATATTT
*
6693338 TTTTTGAAAACAAGAAA-ATTT
1 TTTTT-AAAACACGAAATATTT
6693359 TT
1 TT
6693361 GAAACACTAG
Statistics
Matches: 55, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
17 12 0.22
18 4 0.07
19 1 0.02
21 17 0.31
22 21 0.38
ACGTcount: A:0.42, C:0.08, G:0.07, T:0.42
Consensus pattern (21 bp):
TTTTTAAAACACGAAATATTT
Found at i:6693500 original size:19 final size:19
Alignment explanation
Indices: 6693478--6693533 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 19
6693468 ATACGAGAAA
6693478 TTTTTT-AAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
* *
6693496 TTTTTTCAAACACGAAAA-
1 TTTTTTAAAACGCGAAAAT
* *
6693514 CTTTTGAAAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
6693533 T
1 T
6693534 CGAAAATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 20 0.67
19 10 0.33
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (19 bp):
TTTTTTAAAACGCGAAAAT
Found at i:6693577 original size:18 final size:17
Alignment explanation
Indices: 6693528--6693578 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
6693518 TGAAAACGCG
6693528 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
6693545 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
6693563 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
6693579 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:6694095 original size:7 final size:7
Alignment explanation
Indices: 6694083--6694132 Score: 82
Period size: 7 Copynumber: 6.9 Consensus size: 7
6694073 TTTTTCTTCT
6694083 TTTTTTC
1 TTTTTTC
6694090 TTTTTTC
1 TTTTTTC
6694097 TTTTTTCC
1 TTTTTT-C
6694105 TTTTTTC
1 TTTTTTC
6694112 TTTTTTC
1 TTTTTTC
6694119 TTTTTTC
1 TTTTTTC
6694126 TTCTTTT
1 TT-TTTT
6694133 TCTTCCTTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
7 30 0.73
8 11 0.27
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTTTTC
Found at i:6694099 original size:15 final size:15
Alignment explanation
Indices: 6694074--6694136 Score: 92
Period size: 15 Copynumber: 4.1 Consensus size: 15
6694064 TGAACCCCCT
6694074 TTTTCTTCTTTTTTTC
1 TTTT-TTCTTTTTTTC
*
6694090 TTTTTTCTTTTTTCC
1 TTTTTTCTTTTTTTC
6694105 TTTTTTC-TTTTTTC
1 TTTTTTCTTTTTTTC
6694119 TTTTTTCTTCTTTTTC
1 TTTTTTCTT-TTTTTC
6694135 TT
1 TT
6694137 CCTTTTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.30
15 18 0.42
16 12 0.28
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:6694111 original size:22 final size:21
Alignment explanation
Indices: 6694074--6694148 Score: 82
Period size: 22 Copynumber: 3.5 Consensus size: 21
6694064 TGAACCCCCT
6694074 TTTTCTTCTTTTTTTCTTTTTTC
1 TTTT-TTC-TTTTTTCTTTTTTC
6694097 TTTTTTCCTTTTTTCTTTTTTC
1 TTTTTT-CTTTTTTCTTTTTTC
* * *
6694119 TTTTTTCTTCTTT-TTCTTCC
1 TTTTTTCTTTTTTCTTTTTTC
6694139 TTTTTT-TTTT
1 TTTTTTCTTTT
6694149 GCTGGGCTGC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
19 3 0.06
20 11 0.23
21 6 0.13
22 22 0.47
23 5 0.11
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (21 bp):
TTTTTTCTTTTTTCTTTTTTC
Found at i:6694147 original size:15 final size:13
Alignment explanation
Indices: 6694073--6694148 Score: 71
Period size: 14 Copynumber: 5.5 Consensus size: 13
6694063 TTGAACCCCC
*
6694073 TTTTTCTTCTTTTT
1 TTTTTTTTC-TTTT
6694087 TTCTTTTTTCTTTT
1 TT-TTTTTTCTTTT
6694101 TTCCTTTTTTCTTTT
1 TT--TTTTTTCTTTT
*
6694116 TTCTTTTTTCTTCT
1 TT-TTTTTTCTTTT
* *
6694130 TTTTCTTCCTTTT
1 TTTTTTTTCTTTT
6694143 TTTTTT
1 TTTTTT
6694149 GCTGGGCTGC
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
13 13 0.24
14 21 0.39
15 20 0.37
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTTTCTTTT
Found at i:6694438 original size:3 final size:3
Alignment explanation
Indices: 6694432--6694477 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
6694422 TTTTCTTTCT
*
6694432 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
6694478 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:6694445 original size:13 final size:13
Alignment explanation
Indices: 6694429--6694477 Score: 52
Period size: 13 Copynumber: 3.9 Consensus size: 13
6694419 TTTTTTTCTT
6694429 TCTTTCTTCTTCC
1 TCTTTCTTCTTCC
6694442 TCTTTTCTTCTT-C
1 TC-TTTCTTCTTCC
6694455 -C-TTCTTCTTCC
1 TCTTTCTTCTTCC
6694466 T-TCTTCTTCTTC
1 TCT-TTCTTCTTC
6694478 AAAGTCTAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
10 8 0.26
11 1 0.03
12 1 0.03
13 12 0.39
14 9 0.29
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TCTTTCTTCTTCC
Found at i:6694461 original size:10 final size:10
Alignment explanation
Indices: 6694446--6694474 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
6694436 TCTTCCTCTT
6694446 TTCTTCTTCC
1 TTCTTCTTCC
6694456 TTCTTCTTCC
1 TTCTTCTTCC
6694466 TTCTTCTTC
1 TTCTTCTTC
6694475 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:6694568 original size:10 final size:10
Alignment explanation
Indices: 6694533--6694582 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
6694523 ACGCCGGTAC
6694533 TCTT-TCTTT
1 TCTTCTCTTT
* *
6694542 TCTTCTCCTC
1 TCTTCTCTTT
6694552 T-TTCTCTTT
1 TCTTCTCTTT
6694561 TCTTCTCTTT
1 TCTTCTCTTT
*
6694571 TCTTCTTTTT
1 TCTTCTCTTT
6694581 TC
1 TC
6694583 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:6694580 original size:19 final size:19
Alignment explanation
Indices: 6694537--6694579 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
6694527 CGGTACTCTT
6694537 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
6694556 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
6694573 TTCTTTT
1 -TCTTTT
6694580 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:6694859 original size:29 final size:29
Alignment explanation
Indices: 6694826--6694942 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
6694816 TGTAATTTTT
*
6694826 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
6694855 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
6694885 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
6694914 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
6694943 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:6694881 original size:30 final size:30
Alignment explanation
Indices: 6694841--6694942 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
6694831 ATTTAGGATT
*
6694841 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
6694871 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
6694901 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
6694931 AAAATGCAATTT
1 AAAATGAAATTT
6694943 TTATTTTTAA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:6694964 original size:15 final size:16
Alignment explanation
Indices: 6694940--6694973 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
6694930 CAAAATGCAA
6694940 TTTTTATTTTT-AAAT
1 TTTTTATTTTTGAAAT
*
6694955 TTTTTTTTTTTGAAAT
1 TTTTTATTTTTGAAAT
6694971 TTT
1 TTT
6694974 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTTATTTTTGAAAT
Found at i:6694965 original size:16 final size:16
Alignment explanation
Indices: 6694940--6694973 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6694930 CAAAATGCAA
*
6694940 TTTTTATTTTTAAATT
1 TTTTTATTTTGAAATT
*
6694956 TTTTTTTTTTGAAATT
1 TTTTTATTTTGAAATT
6694972 TT
1 TT
6694974 GAAAATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (16 bp):
TTTTTATTTTGAAATT
Found at i:6695433 original size:53 final size:54
Alignment explanation
Indices: 6695215--6695464 Score: 386
Period size: 53 Copynumber: 4.7 Consensus size: 54
6695205 CACGTGAGCC
* *
6695215 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
*
6695270 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
6695320 AAGGCTCAACTCACCTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
6695374 AAGGCTCAACTCACCTCTCGCAATATGA-TTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
6695427 AAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
6695465 TTTTTTGAAA
Statistics
Matches: 182, Mismatches: 7, Indels: 13
0.90 0.03 0.06
Matches are distributed among these distances:
50 48 0.26
52 1 0.01
53 50 0.27
54 39 0.21
55 38 0.21
56 6 0.03
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:6695515 original size:13 final size:13
Alignment explanation
Indices: 6695476--6695507 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
6695466 TTTTTGAAAC
6695476 ACAGAAATTAAAA
1 ACAGAAATTAAAA
*
6695489 ATAGAAATTAAAA
1 ACAGAAATTAAAA
6695502 ACAGAA
1 ACAGAA
6695508 TTTGAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.69, C:0.06, G:0.09, T:0.16
Consensus pattern (13 bp):
ACAGAAATTAAAA
Found at i:6695779 original size:72 final size:72
Alignment explanation
Indices: 6695591--6697264 Score: 2893
Period size: 72 Copynumber: 23.1 Consensus size: 72
6695581 ATTAGTAAAG
* * * *
6695591 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
6695655 TTTGAAAA
65 TTTGAAAA
* *
6695663 GCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
6695728 TTTGAAAA
65 TTTGAAAA
6695736 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
6695801 TTGAGAAG
66 TTGA-AAA
*
6695809 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6695874 TTGAAAA
66 TTGAAAA
6695881 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
6695946 TTGAGAAG
66 TTGA-AAA
*
6695954 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696019 TTGAAAA
66 TTGAAAA
6696026 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696091 TTGAAAA
66 TTGAAAA
6696098 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
6696163 TTGAGAAG
66 TTGA-AAA
*
6696171 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696236 TTGAAAA
66 TTGAAAA
6696243 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696308 TTGAAAA
66 TTGAAAA
6696315 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696380 TTGAAAA
66 TTGAAAA
* * *
6696387 GCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
*
6696452 TTTGAGAAG
65 TTTGA-AAA
*
6696461 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696526 TTGAAAA
66 TTGAAAA
6696533 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
6696598 TTGAGAA
66 TTGAAAA
*
6696605 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696670 TTGAAAA
66 TTGAAAA
6696677 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696742 TTGAAAA
66 TTGAAAA
6696749 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
6696814 TTGAGAAG
66 TTGA-AAA
*
6696822 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696887 TTGAAAA
66 TTGAAAA
6696894 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696959 TTGAAAA
66 TTGAAAA
6696966 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6697031 TTGAAAA
66 TTGAAAA
* * * *
6697038 GCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
6697103 TTTGAAAA
65 TTTGAAAA
* * *
6697111 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT
*
6697176 TTTTAACAA
65 TTTGAA-AA
* * * ** * *
6697185 CAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAATTG-ATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6697249 TTGAAAAA
66 TTG-AAAA
*
6697257 CATAAATT
1 CAGAAATT
6697265 AAAAGGCTTA
Statistics
Matches: 1540, Mismatches: 50, Indels: 23
0.95 0.03 0.01
Matches are distributed among these distances:
72 924 0.60
73 554 0.36
74 62 0.04
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (72 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAA
Found at i:6695842 original size:145 final size:144
Alignment explanation
Indices: 6695591--6697264 Score: 2893
Period size: 145 Copynumber: 11.6 Consensus size: 144
6695581 ATTAGTAAAG
* * * *
6695591 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
* *
6695655 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
6695720 AGTTGAATTTTGAAAA
129 AGTTGAATTTTGAAAA
6695736 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* *
6695801 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
6695866 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
6695881 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* *
6695946 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
6696011 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
6696026 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696091 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
6696156 TTGAATTTTGAGAAG
131 TTGAATTTTGA-AAA
*
6696171 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696236 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
6696301 TTGAATTTTGAAAA
131 TTGAATTTTGAAAA
6696315 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* * *
6696380 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
*
6696445 GTTGAATTTTGAGAAG
130 GTTGAATTTTGA-AAA
*
6696461 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696526 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
6696591 TTGAATTTTGAGAA
131 TTGAATTTTGAAAA
*
6696605 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696670 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
6696735 TTGAATTTTGAAAA
131 TTGAATTTTGAAAA
6696749 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* *
6696814 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
6696879 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
6696894 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696959 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
6697024 TTGAATTTTGAAAA
131 TTGAATTTTGAAAA
* * * *
6697038 GCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAAGTTGAAT
1 -CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
* *
6697103 TTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGA
65 TTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
* *
6697168 GTTGATTTTTTTAACAA
130 GTTGA-ATTTTGAA-AA
* * * ** * *
6697185 CAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATGAATTG-ATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
6697249 TTGAAAAACATAAATT
66 TTG-AAAACAGAAATT
6697265 AAAAGGCTTA
Statistics
Matches: 1475, Mismatches: 44, Indels: 19
0.96 0.03 0.01
Matches are distributed among these distances:
144 428 0.29
145 897 0.61
146 148 0.10
147 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (144 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGAATTTTGAAAA
Found at i:6696045 original size:217 final size:217
Alignment explanation
Indices: 6695591--6697252 Score: 2972
Period size: 217 Copynumber: 7.6 Consensus size: 217
6695581 ATTAGTAAAG
* * * *
6695591 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
* *
6695655 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
* *
6695720 AGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
129 AGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
*
6695784 GCAATATGAGTTGAATTTTGAGAAG
194 GCAATATGAGTTGAATTTTGA-AAA
*
6695809 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6695874 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
6695939 TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
131 TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
6696004 AATATGAGTTGAATTTTGAAAA
196 AATATGAGTTGAATTTTGAAAA
6696026 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696091 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
6696156 TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
131 TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
6696221 AATATGAGTTGAATTTTGAAAA
196 AATATGAGTTGAATTTTGAAAA
6696243 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696308 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
* * *
6696373 TTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGC
131 TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
*
6696438 AATATGAGTTGAATTTTGAGAAG
196 AATATGAGTTGAATTTTGA-AAA
*
6696461 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696526 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
6696591 TTGAATTTTGAGAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
131 TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
6696655 AATATGAGTTGAATTTTGAAAA
196 AATATGAGTTGAATTTTGAAAA
6696677 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696742 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
6696807 TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
131 TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
6696872 AATATGAGTTGAATTTTGAAAA
196 AATATGAGTTGAATTTTGAAAA
6696894 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
6696959 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
* * *
6697024 TTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGC
131 TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
*
6697089 AATATAAGTTGAATTTTGAAAA
196 AATATGAGTTGAATTTTGAAAA
* * *
6697111 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT
* * * * ** *
6697176 TTTTAACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATATG
65 TTTGAA-AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
*
6697241 AATTG-ATTTTGA
129 AGTTGAATTTTGA
6697253 AAAACATAAA
Statistics
Matches: 1404, Mismatches: 34, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
216 145 0.10
217 908 0.65
218 293 0.21
219 58 0.04
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (217 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
AATATGAGTTGAATTTTGAAAA
Found at i:6698255 original size:45 final size:45
Alignment explanation
Indices: 6698194--6698306 Score: 113
Period size: 46 Copynumber: 2.5 Consensus size: 45
6698184 GTTTCATTAG
*
6698194 GACGCCC-TCTCGGGTTTTCATCCTAAT-CTTTTTGTATTAATCAA
1 GACGCCCTTTTCGGGTTTTCATCCTAATCCTTTTT-TATTAATCAA
** * * ** *
6698238 GACGCCCTTTTCGGGTTTTCGCCCTGATCCCTTTTTTTTTTTTTAA
1 GACGCCCTTTTCGGGTTTTCATCCTAAT-CCTTTTTTATTAATCAA
*
6698284 GATGCCCTTTTCGGGTTTTCATC
1 GACGCCCTTTTCGGGTTTTCATC
6698307 TTAAGCATAA
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
44 7 0.13
45 16 0.29
46 26 0.47
47 6 0.11
ACGTcount: A:0.13, C:0.26, G:0.16, T:0.45
Consensus pattern (45 bp):
GACGCCCTTTTCGGGTTTTCATCCTAATCCTTTTTTATTAATCAA
Found at i:6705513 original size:18 final size:18
Alignment explanation
Indices: 6705492--6705931 Score: 110
Period size: 18 Copynumber: 24.6 Consensus size: 18
6705482 GAAAGTTTTT
* *
6705492 TTTTTTAAAATACGAGAA
1 TTTTTGAAAACACGAGAA
6705510 TTTTTGAAAACACGAGAA
1 TTTTTGAAAACACGAGAA
*
6705528 --TTTGTAAACACGA-ATA
1 TTTTTGAAAACACGAGA-A
* *
6705544 TTTTAG-AAACACGAAAA
1 TTTTTGAAAACACGAGAA
*
6705561 TTTTTGGAAAAAAACGA-AA
1 TTTTT-G-AAAACACGAGAA
* * *
6705580 TTTTCTTAAAACACGACATTTT
1 TTTT-TGAAAACACGAGA---A
*
6705602 TTTTTG-AAACACGGGAA
1 TTTTTGAAAACACGAGAA
* * *
6705619 TTTTT-AAAACAAGACATT
1 TTTTTGAAAACACGAGA-A
6705637 TTTTTG-AAACA--A-AA
1 TTTTTGAAAACACGAGAA
*
6705651 TTTTTTCTTAAAA-A--A-AA
1 --TTTT-TGAAAACACGAGAA
* *
6705668 ATTTT--AAATACGAGAA
1 TTTTTGAAAACACGAGAA
*
6705684 TTTTT-AAAACACGAAAAA
1 TTTTTGAAAACACG-AGAA
*
6705702 TTTTT-AAAACACGGAAATA
1 TTTTTGAAAACAC-GAGA-A
*
6705721 TTTTTTTTAAAACACGA-AA
1 --TTTTTGAAAACACGAGAA
* *
6705740 TTTTTTTTTTGAAAACAAGAAAA
1 -----TTTTTGAAAACACGAGAA
*
6705763 TTTTTG-AAACACTAGAA
1 TTTTTGAAAACACGAGAA
6705780 -TTTTGAAAACACGA-AGA
1 TTTTTGAAAACACGAGA-A
*
6705797 TTTTTG-AAACATGAGAA
1 TTTTTGAAAACACGAGAA
*
6705814 TTTTT-AAAAGCACGAGGA
1 TTTTTGAAAA-CACGAGAA
* *
6705832 TTATTGAAAGCACGA-AGA
1 TTTTTGAAAACACGAGA-A
* * *
6705850 TTTAT-AAAAAACGACAA
1 TTTTTGAAAACACGAGAA
*
6705867 TTTTTG-AAATACGAGAAA
1 TTTTTGAAAACACGAG-AA
* * *
6705885 TTTTT-TAAACGCGAAAA
1 TTTTTGAAAACACGAGAA
** *
6705902 TTTTTTTCAAACACGAAAA
1 -TTTTTGAAAACACGAGAA
*
6705921 CTTTTGAAAAC
1 TTTTTGAAAAC
6705932 GCGAAAATTC
Statistics
Matches: 324, Mismatches: 50, Indels: 96
0.69 0.11 0.20
Matches are distributed among these distances:
12 3 0.01
13 1 0.00
14 1 0.00
15 6 0.02
16 30 0.09
17 89 0.27
18 118 0.36
19 23 0.07
20 17 0.05
21 8 0.02
22 26 0.08
23 2 0.01
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (18 bp):
TTTTTGAAAACACGAGAA
Found at i:6705531 original size:16 final size:16
Alignment explanation
Indices: 6705498--6705563 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
6705488 TTTTTTTTTT
*
6705498 AAAATACGAGAATTTTTG
1 AAAACACGAGAA--TTTG
6705516 AAAACACGAGAATTTG
1 AAAACACGAGAATTTG
* *
6705532 TAAACACGA-ATATTTT
1 AAAACACGAGA-ATTTG
*
6705548 AGAAACACGAAAATTT
1 A-AAACACGAGAATTT
6705564 TTGGAAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
15 1 0.02
16 16 0.39
17 12 0.29
18 12 0.29
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (16 bp):
AAAACACGAGAATTTG
Found at i:6705730 original size:22 final size:21
Alignment explanation
Indices: 6705684--6705767 Score: 95
Period size: 22 Copynumber: 4.1 Consensus size: 21
6705674 AATACGAGAA
*
6705684 TTTTTAAAACACGAAA-A--A
1 TTTTTAAAACACGAAATATTT
6705702 TTTTTAAAACACGGAAATATTT
1 TTTTTAAAACAC-GAAATATTT
*
6705724 TTTTTAAAACACGAAATTTTT
1 TTTTTAAAACACGAAATATTT
*
6705745 TTTTTGAAAACAAGAAA-ATTT
1 TTTTT-AAAACACGAAATATTT
6705766 TT
1 TT
6705768 GAAACACTAG
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
18 12 0.21
19 4 0.07
20 1 0.02
21 18 0.32
22 22 0.39
ACGTcount: A:0.44, C:0.08, G:0.07, T:0.40
Consensus pattern (21 bp):
TTTTTAAAACACGAAATATTT
Found at i:6705785 original size:16 final size:16
Alignment explanation
Indices: 6705764--6705817 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
6705754 ACAAGAAAAT
6705764 TTTTGAAACACTAGAA
1 TTTTGAAACACTAGAA
* *
6705780 TTTTGAAAACACGAAGAT
1 TTTTG-AAACAC-TAGAA
6705798 TTTTGAAACA-TGAGAA
1 TTTTGAAACACT-AGAA
6705814 TTTT
1 TTTT
6705818 TAAAAGCACG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 12 0.39
17 11 0.35
18 8 0.26
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (16 bp):
TTTTGAAACACTAGAA
Found at i:6705789 original size:34 final size:34
Alignment explanation
Indices: 6705746--6705822 Score: 111
Period size: 34 Copynumber: 2.3 Consensus size: 34
6705736 GAAATTTTTT
6705746 TTTTGAAAACAAGAAAATTTTTGAAACACT-AGAA
1 TTTTGAAAACAAGAAAATTTTTGAAACA-TGAGAA
* *
6705780 TTTTGAAAACACGAAGATTTTTGAAACATGAGAA
1 TTTTGAAAACAAGAAAATTTTTGAAACATGAGAA
*
6705814 TTTTTAAAA
1 TTTTGAAAA
6705823 GCACGAGGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
33 1 0.03
34 38 0.97
ACGTcount: A:0.47, C:0.08, G:0.13, T:0.32
Consensus pattern (34 bp):
TTTTGAAAACAAGAAAATTTTTGAAACATGAGAA
Found at i:6705936 original size:18 final size:19
Alignment explanation
Indices: 6705891--6705939 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
6705881 GAAATTTTTT
* **
6705891 AAACGCGAAAATTTTTTTC
1 AAACGCGAAAATCTTTTGA
*
6705910 AAACACGAAAA-CTTTTGA
1 AAACGCGAAAATCTTTTGA
6705928 AAACGCGAAAAT
1 AAACGCGAAAAT
6705940 TCGAAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.47, C:0.16, G:0.12, T:0.24
Consensus pattern (19 bp):
AAACGCGAAAATCTTTTGA
Found at i:6705984 original size:18 final size:17
Alignment explanation
Indices: 6705935--6705985 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
6705925 TGAAAACGCG
6705935 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
6705952 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
6705970 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
6705986 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:6706498 original size:8 final size:8
Alignment explanation
Indices: 6706480--6706545 Score: 84
Period size: 7 Copynumber: 8.4 Consensus size: 8
6706470 ATTGAACCCC
6706480 CTTTTTCTT
1 CTTTTT-TT
6706489 CTTTTTTT
1 CTTTTTTT
6706497 CTTTTTTT
1 CTTTTTTT
6706505 C-TTTTTT
1 CTTTTTTT
*
6706512 CCTTTTTT
1 CTTTTTTT
6706520 C-TTTTTT
1 CTTTTTTT
6706527 C-TTTTTT
1 CTTTTTTT
6706534 CTTCTTTTT
1 CTT-TTTTT
6706543 CTT
1 CTT
6706546 CCTTTTTTTT
Statistics
Matches: 54, Mismatches: 0, Indels: 6
0.90 0.00 0.10
Matches are distributed among these distances:
7 21 0.39
8 19 0.35
9 14 0.26
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (8 bp):
CTTTTTTT
Found at i:6706506 original size:16 final size:15
Alignment explanation
Indices: 6706482--6706558 Score: 86
Period size: 14 Copynumber: 5.1 Consensus size: 15
6706472 TGAACCCCCT
6706482 TTTTCTTCTTTTTTTC
1 TTTT-TTCTTTTTTTC
*
6706498 TTTTTTTCTTTTTTCC
1 -TTTTTTCTTTTTTTC
6706514 TTTTTTC-TTTTTTC
1 TTTTTTCTTTTTTTC
6706528 TTTTTTCTTCTTTTTC
1 TTTTTTCTT-TTTTTC
**
6706544 TTCCTT-TTTTTTTC
1 TTTTTTCTTTTTTTC
6706558 T
1 T
6706559 GCTGGGCTGC
Statistics
Matches: 54, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
14 20 0.37
15 10 0.19
16 20 0.37
17 4 0.07
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTCTTTTTTTC
Found at i:6706517 original size:14 final size:15
Alignment explanation
Indices: 6706491--6706541 Score: 77
Period size: 15 Copynumber: 3.4 Consensus size: 15
6706481 TTTTTCTTCT
*
6706491 TTTTTTCTTTTTTTC
1 TTTTTTCCTTTTTTC
6706506 TTTTTTCCTTTTTTC
1 TTTTTTCCTTTTTTC
6706521 TTTTTT-CTTTTTTC
1 TTTTTTCCTTTTTTC
6706535 TTCTTTT
1 TT-TTTT
6706542 TCTTCCTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
14 10 0.29
15 24 0.71
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTCCTTTTTTC
Found at i:6706521 original size:23 final size:22
Alignment explanation
Indices: 6706487--6706558 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 22
6706477 CCCCTTTTTC
6706487 TTCTTTTTTTCTTTTTTTCTTTT
1 TTCTTTTTTTC-TTTTTTCTTTT
*
6706510 TTCCTTTTTTCTTTTTTCTTTT
1 TTCTTTTTTTCTTTTTTCTTTT
*
6706532 TTCTTCTTTTTCTTCCTTT-TTTT
1 TTCTT-TTTTTCTT-TTTTCTTTT
6706555 TTCT
1 TTCT
6706559 GCTGGGCTGC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
22 15 0.34
23 26 0.59
24 3 0.07
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (22 bp):
TTCTTTTTTTCTTTTTTCTTTT
Found at i:6706713 original size:16 final size:16
Alignment explanation
Indices: 6706694--6706724 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6706684 CTTCTTTTTT
*
6706694 TTTGCTTTTTTTTTGC
1 TTTGATTTTTTTTTGC
6706710 TTTGATTTTTTTTTG
1 TTTGATTTTTTTTTG
6706725 GGCTTGTTTC
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:0.03, C:0.06, G:0.13, T:0.77
Consensus pattern (16 bp):
TTTGATTTTTTTTTGC
Found at i:6706724 original size:11 final size:11
Alignment explanation
Indices: 6706687--6706712 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
6706677 TCTTTCCCTT
6706687 CTTTTTTTTTG
1 CTTTTTTTTTG
6706698 CTTTTTTTTTG
1 CTTTTTTTTTG
6706709 CTTT
1 CTTT
6706713 GATTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.12, G:0.08, T:0.81
Consensus pattern (11 bp):
CTTTTTTTTTG
Found at i:6706852 original size:3 final size:3
Alignment explanation
Indices: 6706846--6706891 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
6706836 TTTTCTTTCT
*
6706846 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
6706892 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:6706875 original size:10 final size:10
Alignment explanation
Indices: 6706860--6706888 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
6706850 TCTTCCTCTT
6706860 TTCTTCTTCC
1 TTCTTCTTCC
6706870 TTCTTCTTCC
1 TTCTTCTTCC
6706880 TTCTTCTTC
1 TTCTTCTTC
6706889 TTCAAAGTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:6706876 original size:13 final size:13
Alignment explanation
Indices: 6706846--6706891 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
6706836 TTTTCTTTCT
6706846 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
6706858 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
6706870 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
6706883 TTCTTCTTC
1 TTCTTCTTC
6706892 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:6706982 original size:10 final size:10
Alignment explanation
Indices: 6706947--6706996 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
6706937 ACGCCGGTAC
6706947 TCTT-TCTTT
1 TCTTCTCTTT
* *
6706956 TCTTCTCCTC
1 TCTTCTCTTT
6706966 T-TTCTCTTT
1 TCTTCTCTTT
6706975 TCTTCTCTTT
1 TCTTCTCTTT
*
6706985 TCTTCTTTTT
1 TCTTCTCTTT
6706995 TC
1 TC
6706997 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:6706994 original size:19 final size:19
Alignment explanation
Indices: 6706951--6706993 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
6706941 CGGTACTCTT
6706951 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
6706970 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
6706987 TTCTTTT
1 -TCTTTT
6706994 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:6707275 original size:29 final size:29
Alignment explanation
Indices: 6707242--6707358 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
6707232 TGTAATTTTT
*
6707242 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
6707271 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
6707301 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
6707330 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
6707359 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:6707297 original size:30 final size:30
Alignment explanation
Indices: 6707257--6707358 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
6707247 ATTTAGGATT
*
6707257 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
6707287 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
6707317 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
6707347 AAAATGCAATTT
1 AAAATGAAATTT
6707359 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:6707383 original size:18 final size:19
Alignment explanation
Indices: 6707356--6707393 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
6707346 CAAAATGCAA
6707356 TTTTTATTTTTT-AAATTT
1 TTTTTATTTTTTGAAATTT
*
6707374 TTTTTTTTTTTTGAAATTT
1 TTTTTATTTTTTGAAATTT
6707393 T
1 T
6707394 GAAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTTTATTTTTTGAAATTT
Found at i:6707384 original size:19 final size:19
Alignment explanation
Indices: 6707356--6707393 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
6707346 CAAAATGCAA
*
6707356 TTTTTATTTTTTAAATTTT
1 TTTTTATTTTTGAAATTTT
*
6707375 TTTTTTTTTTTGAAATTTT
1 TTTTTATTTTTGAAATTTT
6707394 GAAAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTTTATTTTTGAAATTTT
Found at i:6719233 original size:32 final size:32
Alignment explanation
Indices: 6719192--6719255 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
6719182 CCTACGCTTT
*
6719192 CGCCTCCGTACTCCTCACGCCAAACGCCAGCA
1 CGCCTCCGTACCCCTCACGCCAAACGCCAGCA
*
6719224 CGCCTCCGTACCCCTCACGCCAAGCGCCAGCA
1 CGCCTCCGTACCCCTCACGCCAAACGCCAGCA
6719256 TGACCCCCGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.20, C:0.52, G:0.17, T:0.11
Consensus pattern (32 bp):
CGCCTCCGTACCCCTCACGCCAAACGCCAGCA
Found at i:6722402 original size:22 final size:22
Alignment explanation
Indices: 6722374--6722418 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
6722364 GATCCTTAAC
6722374 TTTGAAAGCAATTTAATGAAAT
1 TTTGAAAGCAATTTAATGAAAT
*
6722396 TTTGAAAGTAATTTAATGAAAT
1 TTTGAAAGCAATTTAATGAAAT
6722418 T
1 T
6722419 CAAGCTTAGT
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:0.44, C:0.02, G:0.13, T:0.40
Consensus pattern (22 bp):
TTTGAAAGCAATTTAATGAAAT
Found at i:6722651 original size:26 final size:28
Alignment explanation
Indices: 6722586--6722657 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
6722576 ATAAGAAAAT
* *
6722586 TTATTATTAAGAATTTTATGAAATTATATA
1 TTATTATT-A-AATTATATGAAATAATATA
*
6722616 TTATTATTAAATTATATGTAATAATA-A
1 TTATTATTAAATTATATGAAATAATATA
6722643 TTATT-TTAAATTATA
1 TTATTATTAAATTATA
6722658 CAAATTCATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 6 0.15
28 14 0.36
29 1 0.03
30 8 0.21
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (28 bp):
TTATTATTAAATTATATGAAATAATATA
Found at i:6722839 original size:17 final size:17
Alignment explanation
Indices: 6722819--6722852 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6722809 ATTATTAAGA
6722819 ATTTTA-TTAAATTATAT
1 ATTTTAGTTAAA-TATAT
6722836 ATTTTAGTTAAATATAT
1 ATTTTAGTTAAATATAT
6722853 TAAATAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
ATTTTAGTTAAATATAT
Found at i:6722853 original size:27 final size:27
Alignment explanation
Indices: 6722823--6722894 Score: 85
Period size: 27 Copynumber: 2.7 Consensus size: 27
6722813 TTAAGAATTT
6722823 TATTAAATTATATATTTTAG-TTAAATA
1 TATTAAATTATATATTTT-GTTTAAATA
* *
6722850 TATTAAATAATA-ATTATGTTTAAATA
1 TATTAAATTATATATTTTGTTTAAATA
*
6722876 TGATTAAATTATTTATTTT
1 T-ATTAAATTATATATTTT
6722895 TGATAATAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
25 1 0.03
26 12 0.32
27 20 0.54
28 4 0.11
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (27 bp):
TATTAAATTATATATTTTGTTTAAATA
Found at i:6723063 original size:44 final size:45
Alignment explanation
Indices: 6723014--6723108 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
6723004 TTACACCTCT
* *
6723014 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
6723058 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
6723103 ATTACA
1 ATTACA
6723109 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:6723108 original size:16 final size:16
Alignment explanation
Indices: 6723089--6723140 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
6723079 GATTTGCTAT
* *
6723089 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
6723105 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6723121 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6723137 TACA
1 TACA
6723141 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:6724073 original size:13 final size:14
Alignment explanation
Indices: 6724055--6724083 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6724045 TTAGATTCAT
6724055 TTCATGTTT-TTTA
1 TTCATGTTTATTTA
6724068 TTCATGTTTATTTA
1 TTCATGTTTATTTA
6724082 TT
1 TT
6724084 TGTACAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.17, C:0.07, G:0.07, T:0.69
Consensus pattern (14 bp):
TTCATGTTTATTTA
Found at i:6725552 original size:131 final size:131
Alignment explanation
Indices: 6725376--6725870 Score: 437
Period size: 131 Copynumber: 3.8 Consensus size: 131
6725366 ATTCAACAAT
* * * * *
6725376 TCTTCAAAACAAAGACGAGATTCGATGTTCGGCAATTCGCGGAATCGTGCCCTAACGTGTTGGGT
1 TCTTCAAAACGAAGACGAGATTCGATATT-TGCAATTCGCAGAATCGTGCCCTAACGTGCTGGGT
* * *
6725441 TGCAATTTCGCGCTTGCTCAAAATAATCGAATATCACTTCAAAATTTCATTCATGTCTT-TTAAA
65 TGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCATTCATATCTTCTAAAA
6725505 AC
130 AC
* *
6725507 TCTTCAAAACGAAGACGAGATTCGATATTTAGTAATTCGCAGAATCGTGCCCTAACGCGCTGGGT
1 TCTTCAAAACGAAGACGAGATTCGATATTT-GCAATTCGCAGAATCGTGCCCTAACGTGCTGGGT
* * *
6725572 TGCAATTTCGCGTTTGCTCAAAATAATCGAGTATCCCTTCAAGATTTCATTCATATCTTCTAAAA
65 TGCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCATTCATATCTTCTAAAA
*
6725637 AT
130 AC
* * * * * ** * *
6725639 TATTTAAAACGAAGGCAATATTCGGCATTTGACAATTCG-AGAATCATGCCCTATCGTGCTGGGT
1 TCTTCAAAACGAAGACGAGATTCGATATTTG-CAATTCGCAGAATCGTGCCCTAACGTGCTGGGT
** * * * * * * * *
6725703 TGTGATTTCTCGTTTGCTCAAAATGATCGAACATTC-CTT-TACATTCTCACTCATGT-TTATAA
65 TGCAATTTCGCGTTTGCTCAAAATAATCGAATA-TCACTTCAAAATT-TCATTCATATCTTCT--
*
6725765 AAAAAA
126 AAAAAC
* * * * * * *
6725771 TACTTAAAAACGAAGACGATATTCAATATTTGGCGATTTG-AGAATCGAGCCCTATCGTGCTGGG
1 T-CTTCAAAACGAAGACGAGATTCGATATTT-GCAATTCGCAGAATCGTGCCCTAACGTGCTGGG
** ** *
6725835 TTGCGCTTTTTCATTTG-TCCAAAATAATCGAATATC
64 TTGCAATTTCGCGTTTGCT-CAAAATAATCGAATATC
6725871 TCCACGGAAT
Statistics
Matches: 300, Mismatches: 54, Indels: 19
0.80 0.14 0.05
Matches are distributed among these distances:
130 7 0.02
131 172 0.57
132 45 0.15
133 75 0.25
134 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (131 bp):
TCTTCAAAACGAAGACGAGATTCGATATTTGCAATTCGCAGAATCGTGCCCTAACGTGCTGGGTT
GCAATTTCGCGTTTGCTCAAAATAATCGAATATCACTTCAAAATTTCATTCATATCTTCTAAAAA
C
Found at i:6727600 original size:18 final size:18
Alignment explanation
Indices: 6727577--6727612 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
6727567 TGAAGTAGGA
6727577 GTCTTGAACCCATCGTTG
1 GTCTTGAACCCATCGTTG
6727595 GTCTTGAACCCATCGTTG
1 GTCTTGAACCCATCGTTG
6727613 TCGTTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.28, G:0.22, T:0.33
Consensus pattern (18 bp):
GTCTTGAACCCATCGTTG
Found at i:6741367 original size:21 final size:21
Alignment explanation
Indices: 6741330--6741383 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 21
6741320 TTTTTTATTT
* *
6741330 TTAATAAAAAAGTAAAATTAA
1 TTAATAAAAAAGCAAAATAAA
6741351 TT-ATAAAAAAGACAAAATAAA
1 TTAATAAAAAAG-CAAAATAAA
6741372 TTAAATAAAAAA
1 TT-AATAAAAAA
6741384 TGAAGGGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 9 0.32
21 11 0.39
23 8 0.29
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (21 bp):
TTAATAAAAAAGCAAAATAAA
Found at i:6743010 original size:3 final size:3
Alignment explanation
Indices: 6742998--6743058 Score: 113
Period size: 3 Copynumber: 20.3 Consensus size: 3
6742988 GTTGTTGTTG
*
6742998 TTA TTG 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
6743046 TTA TTA TTA TTA T
1 TTA TTA TTA TTA T
6743059 GTAATCACCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6743531 original size:21 final size:21
Alignment explanation
Indices: 6743507--6743547 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6743497 TATGGTTAGT
*
6743507 CAAGTGGTTAGTTTTTGTTAC
1 CAAGTGGTTAGTGTTTGTTAC
6743528 CAAGTGGTTAGTGTTTGTTA
1 CAAGTGGTTAGTGTTTGTTA
6743548 TCACTCACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.07, G:0.27, T:0.46
Consensus pattern (21 bp):
CAAGTGGTTAGTGTTTGTTAC
Found at i:6743748 original size:41 final size:42
Alignment explanation
Indices: 6743687--6743794 Score: 157
Period size: 41 Copynumber: 2.6 Consensus size: 42
6743677 ACGACAAGGA
* *
6743687 AAGAAGGGAGCATCACAGGGTCTTTAGAGATACTTGCAGGTG
1 AAGAAGGGAGCAGCACAGGGTCCTTAGAGATACTTGCAGGTG
*
6743729 AAGAA-GGAGCAGCATAGGGTCCTTAGAGATACTTGCAGGTG
1 AAGAAGGGAGCAGCACAGGGTCCTTAGAGATACTTGCAGGTG
*
6743770 AAGAATGGAGCAGCAC-GTGGTCCTT
1 AAGAAGGGAGCAGCACAG-GGTCCTT
6743795 TTCAAATAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
41 39 0.65
42 21 0.35
ACGTcount: A:0.31, C:0.16, G:0.33, T:0.20
Consensus pattern (42 bp):
AAGAAGGGAGCAGCACAGGGTCCTTAGAGATACTTGCAGGTG
Found at i:6746660 original size:21 final size:21
Alignment explanation
Indices: 6746636--6746676 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6746626 TATGGTTAGT
6746636 CAAGTGGTTAGTATTTGTTAC
1 CAAGTGGTTAGTATTTGTTAC
*
6746657 CAAGTGGTTAGTGTTTGTTA
1 CAAGTGGTTAGTATTTGTTA
6746677 TCACTCACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.07, G:0.27, T:0.44
Consensus pattern (21 bp):
CAAGTGGTTAGTATTTGTTAC
Found at i:6749328 original size:3 final size:3
Alignment explanation
Indices: 6749322--6749393 Score: 108
Period size: 3 Copynumber: 24.0 Consensus size: 3
6749312 ATGTGAAATG
* * * *
6749322 TAT TAT TAT TAT TCT TAT CAT TAT CAT TAT CAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6749370 TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
6749394 GTAATCTCCG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 61 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:6749866 original size:21 final size:21
Alignment explanation
Indices: 6749842--6749886 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
6749832 ATATGGCTAT
*
6749842 TCAAGTGGTTAGTATTTGTTA
1 TCAAGTGGTTAGTATTTATTA
*
6749863 TCAAGTGGTTAGTGTTTATTA
1 TCAAGTGGTTAGTATTTATTA
6749884 TCA
1 TCA
6749887 CTCACTAATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.07, G:0.22, T:0.47
Consensus pattern (21 bp):
TCAAGTGGTTAGTATTTATTA
Found at i:6750087 original size:42 final size:42
Alignment explanation
Indices: 6750023--6750119 Score: 122
Period size: 42 Copynumber: 2.3 Consensus size: 42
6750013 ACGAAAAGGA
* * * *
6750023 AAGAAGGGAGCAGCATAGGGTCCTTAGATATACTTACAAGTG
1 AAGAAGGGAGCAGCACAAGGTCCTTAGAGAAACTTACAAGTG
* * *
6750065 AAGAAGGGAGCAGCCCAAGGTCCTTAGAGAAACTTGCAGGTG
1 AAGAAGGGAGCAGCACAAGGTCCTTAGAGAAACTTACAAGTG
*
6750107 AAGAATGGAGCAG
1 AAGAAGGGAGCAG
6750120 TATGTGGTCC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.36, C:0.15, G:0.32, T:0.16
Consensus pattern (42 bp):
AAGAAGGGAGCAGCACAAGGTCCTTAGAGAAACTTACAAGTG
Found at i:6753863 original size:155 final size:155
Alignment explanation
Indices: 6753627--6753937 Score: 568
Period size: 155 Copynumber: 2.0 Consensus size: 155
6753617 GTTTATTCCT
*
6753627 GGTTGGGTTGGGTTCATTGATTTGTTGCTGGGATTATTTTGATTGTGTGTGAGTTGTGTAATGGG
1 GGTTGGGTTGGGTTCATTGATTTGCTGCTGGGATTATTTTGATTGTGTGTGAGTTGTGTAATGGG
*
6753692 GTTTTTGGCTGTGGGTCATCTTGAAGGTGGCCTTTTTTCCTGGTTGTTTGCTGGGTTTATTTTCT
66 GTTTTTGGCTGCGGGTCATCTTGAAGGTGGCCTTTTTTCCTGGTTGTTTGCTGGGTTTATTTTCT
6753757 GGTTATCGTGCAGAGGAGATCATGG
131 GGTTATCGTGCAGAGGAGATCATGG
* *
6753782 GGTTGGTTTGGGTTCATTGATTTGCTGTTGGGATTATTTTGATTGTGTGTGAGTTGTGTAATGGG
1 GGTTGGGTTGGGTTCATTGATTTGCTGCTGGGATTATTTTGATTGTGTGTGAGTTGTGTAATGGG
* *
6753847 GTTTTTGGTTGCGGGTCATCTTGAGGGTGGCCTTTTTTCCTGGTTGTTTGCTGGGTTTATTTTCT
66 GTTTTTGGCTGCGGGTCATCTTGAAGGTGGCCTTTTTTCCTGGTTGTTTGCTGGGTTTATTTTCT
6753912 GGTTATCGTGCAGAGGAGATCATGG
131 GGTTATCGTGCAGAGGAGATCATGG
6753937 G
1 G
6753938 AAGTGCAGTC
Statistics
Matches: 150, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
155 150 1.00
ACGTcount: A:0.11, C:0.09, G:0.35, T:0.45
Consensus pattern (155 bp):
GGTTGGGTTGGGTTCATTGATTTGCTGCTGGGATTATTTTGATTGTGTGTGAGTTGTGTAATGGG
GTTTTTGGCTGCGGGTCATCTTGAAGGTGGCCTTTTTTCCTGGTTGTTTGCTGGGTTTATTTTCT
GGTTATCGTGCAGAGGAGATCATGG
Found at i:6754661 original size:15 final size:15
Alignment explanation
Indices: 6754629--6754657 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
6754619 CATGTGTCAC
6754629 ATTTTTTAAATATTT
1 ATTTTTTAAATATTT
6754644 ATTTTTT-AATATTT
1 ATTTTTTAAATATTT
6754658 TATTATACCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTTAAATATTT
Found at i:6755284 original size:9 final size:8
Alignment explanation
Indices: 6755263--6755301 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
6755253 AAAAAAAATG
6755263 TAATTTTA
1 TAATTTTA
6755271 TAATTTTAA
1 TAATTTT-A
6755280 TAA-TTTA
1 TAATTTTA
*
6755287 TATTTTTA
1 TAATTTTA
6755295 TAATTTT
1 TAATTTT
6755302 GAAAGGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 3 0.11
8 20 0.74
9 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TAATTTTA
Found at i:6755297 original size:15 final size:16
Alignment explanation
Indices: 6755267--6755300 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
6755257 AAAATGTAAT
6755267 TTTATAATTTTAATAA
1 TTTATAATTTTAATAA
*
6755283 TTTAT-ATTTTTATAA
1 TTTATAATTTTAATAA
6755298 TTT
1 TTT
6755301 TGAAAGGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTATAATTTTAATAA
Found at i:6755986 original size:17 final size:17
Alignment explanation
Indices: 6755964--6755996 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
6755954 TAATTATAAT
6755964 TTTTTGGAT-TTTTTATA
1 TTTTT-GATATTTTTATA
6755981 TTTTTGATATTTTTAT
1 TTTTTGATATTTTTAT
6755997 TTATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (17 bp):
TTTTTGATATTTTTATA
Found at i:6756616 original size:15 final size:14
Alignment explanation
Indices: 6756568--6756616 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 14
6756558 ATTCAAACAC
*
6756568 TAAAAAA-TATTTA
1 TAAAAAATTATTTT
*
6756581 AAAAAAATTATTTT
1 TAAAAAATTATTTT
*
6756595 TCAAAAATTATTTT
1 TAAAAAATTATTTT
6756609 TAATAAAA
1 TAA-AAAA
6756617 CATACATAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
13 6 0.21
14 19 0.66
15 4 0.14
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAAAATTATTTT
Found at i:6758085 original size:20 final size:20
Alignment explanation
Indices: 6758062--6758101 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
6758052 TGAAATTTTA
6758062 AAAGATAAAT-ACAAATAAAT
1 AAAGATAAATGA-AAATAAAT
6758082 AAAGATAAATGAAAATAAAT
1 AAAGATAAATGAAAATAAAT
6758102 CCTAGAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.03, G:0.07, T:0.20
Consensus pattern (20 bp):
AAAGATAAATGAAAATAAAT
Found at i:6759738 original size:18 final size:17
Alignment explanation
Indices: 6759705--6759752 Score: 66
Period size: 15 Copynumber: 2.9 Consensus size: 17
6759695 TTAATATCTG
6759705 AAAATAATAAAT--AAT
1 AAAATAATAAATAAAAT
6759720 AAAATAATAAGATAAAAT
1 AAAATAATAA-ATAAAAT
6759738 AAAATAA-AAATAAAA
1 AAAATAATAAATAAAA
6759753 ATTGGGTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
15 10 0.33
16 8 0.27
17 2 0.07
18 10 0.33
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (17 bp):
AAAATAATAAATAAAAT
Found at i:6766958 original size:14 final size:14
Alignment explanation
Indices: 6766936--6766984 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
6766926 AAGTGATAAA
6766936 AAAACTACAAAAAAT
1 AAAA-TACAAAAAAT
6766951 AAAATACAAAAAAAAT
1 AAAATAC--AAAAAAT
* *
6766967 AAAAAATAAAAAAT
1 AAAATACAAAAAAT
6766981 AAAA
1 AAAA
6766985 AATTCTGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 14 0.47
15 4 0.13
16 12 0.40
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAATACAAAAAAT
Found at i:6766961 original size:7 final size:7
Alignment explanation
Indices: 6766944--6766987 Score: 61
Period size: 7 Copynumber: 6.0 Consensus size: 7
6766934 AAAAAACTAC
6766944 AAAAAAT
1 AAAAAAT
*
6766951 AAAATACAA
1 AAAA-A-AT
6766960 AAAAAAT
1 AAAAAAT
6766967 AAAAAAT
1 AAAAAAT
6766974 AAAAAAT
1 AAAAAAT
6766981 AAAAAAT
1 AAAAAAT
6766988 TCTGTGGGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
7 26 0.79
8 2 0.06
9 5 0.15
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:6771369 original size:16 final size:17
Alignment explanation
Indices: 6771348--6771385 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
6771338 TTTAATTTTC
*
6771348 AAAATTTCAAAAAAA-A
1 AAAATTTAAAAAAAATA
6771364 AAAA-TTAAAAAAAATA
1 AAAATTTAAAAAAAATA
6771380 AAAATT
1 AAAATT
6771386 GCATTTTGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 9 0.47
16 9 0.47
17 1 0.05
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
AAAATTTAAAAAAAATA
Found at i:6771421 original size:30 final size:29
Alignment explanation
Indices: 6771381--6771496 Score: 117
Period size: 30 Copynumber: 3.9 Consensus size: 29
6771371 AAAAAAATAA
* *
6771381 AAATTGCATTTTGACACCTAAACTTTTC-CT
1 AAATTTCATTTTGAC-CCTAAAC-TTTCATT
*
6771411 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCC-TAAACTTTCATT
* *
6771441 AAATTTCACTTAGACCCCTAAACTTTCATT
1 AAATTTCATTTTGA-CCCTAAACTTTCATT
* * *
6771471 AAATTTCATTTTAATCCTAAATTTTC
1 AAATTTCATTTTGACCCTAAACTTTC
6771497 TAAAAATTAC
Statistics
Matches: 73, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
29 16 0.22
30 54 0.74
31 3 0.04
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.44
Consensus pattern (29 bp):
AAATTTCATTTTGACCCTAAACTTTCATT
Found at i:6771865 original size:3 final size:3
Alignment explanation
Indices: 6771850--6771901 Score: 59
Period size: 3 Copynumber: 16.0 Consensus size: 3
6771840 GCTCGGTTTT
*
6771850 GAA GAA AAA GAA GAA GGAA GAA GAA GAA GAA GAAA GAAA GAGA GAA GAA
1 GAA GAA GAA GAA GAA -GAA GAA GAA GAA GAA G-AA G-AA GA-A GAA GAA
6771899 GAA
1 GAA
6771902 AGAGAAAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
3 31 0.70
4 13 0.30
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Done.