Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 292 of 352
Found at i:95981773 original size:3 final size:3
Alignment explanation
Indices: 95981765--95981792 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
95981755 AACCAACGTG
95981765 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
95981793 AATAAGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:95984826 original size:46 final size:45
Alignment explanation
Indices: 95984782--95985091 Score: 377
Period size: 46 Copynumber: 6.8 Consensus size: 45
95984772 ATGAAATGTG
**
95984782 TAAGACCATGGTTGAAAGATACCATGGCAACATGATACGAAATGTG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GAAATGAA
* *
95984828 TAAGACTATGGTTGAAAGATACCATGGCAACATGATGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAT-AGAAATGAA
* * * *
95984874 TAAGACCATGGTTGAAAGATACTATGGCAGCGTGACATGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATA-GAAATGAA
* **
95984920 TAAGACCATGGTTGAAAGATACCAAGGCAATGTGATAGAAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAG-AAATGAA
* *
95984966 TAAGACCATGGTTAAAAGATACCATGGCAACATGATGGGAAATGAA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGAT-AGAAATGAA
* * * *
95985012 TAAAACCATGGTTGAAAGATACAATGGCAACATGACAGAAAATGAG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGATAG-AAATGAA
* * * *
95985058 TAAGACCATAGTTGAAAGACACTATGGCATCATG
1 TAAGACCATGGTTGAAAGATACCATGGCAACATG
95985092 TCGAAGATAA
Statistics
Matches: 228, Mismatches: 31, Indels: 10
0.85 0.12 0.04
Matches are distributed among these distances:
45 2 0.01
46 225 0.99
47 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (45 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGATAGAAATGAA
Found at i:95985020 original size:138 final size:138
Alignment explanation
Indices: 95984772--95985076 Score: 452
Period size: 138 Copynumber: 2.2 Consensus size: 138
95984762 GCTTTCTAAA
* * ** *
95984772 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGATACGAAATGTGTAAGACTAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCAAGGCAACATGATACGAAATGAATAAGACCAT
* * *
95984837 GGTTGAAAGATACCATGGCAACATGATGGGAAATGAATAAGACCATGGTTGAAAGATACTATGGC
66 GGTTAAAAGATACCATGGCAACATGATGGGAAATGAATAAAACCATGGTTGAAAGATACAATGGC
* *
95984902 AGCGTGAC
131 AACATGAC
* **
95984910 ATGAAATGAATAAGACCATGGTTGAAAGATACCAAGGCAATGTGATA-GAAAATGAATAAGACCA
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCAAGGCAACATGATACG-AAATGAATAAGACCA
95984974 TGGTTAAAAGATACCATGGCAACATGATGGGAAATGAATAAAACCATGGTTGAAAGATACAATGG
65 TGGTTAAAAGATACCATGGCAACATGATGGGAAATGAATAAAACCATGGTTGAAAGATACAATGG
95985039 CAACATGAC
130 CAACATGAC
*
95985048 A-GAAAATGAGTAAGACCATAGTTGAAAGA
1 ATG-AAATGAGTAAGACCATGGTTGAAAGA
95985077 CACTATGGCA
Statistics
Matches: 150, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
137 2 0.01
138 148 0.99
ACGTcount: A:0.43, C:0.12, G:0.24, T:0.21
Consensus pattern (138 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCAAGGCAACATGATACGAAATGAATAAGACCAT
GGTTAAAAGATACCATGGCAACATGATGGGAAATGAATAAAACCATGGTTGAAAGATACAATGGC
AACATGAC
Found at i:95987013 original size:45 final size:46
Alignment explanation
Indices: 95986850--95987024 Score: 216
Period size: 45 Copynumber: 3.8 Consensus size: 46
95986840 TGGTTGAGCA
*
95986850 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
95986896 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
95986941 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
95986989 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
95987025 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 37 0.33
46 29 0.26
47 29 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:95988746 original size:21 final size:21
Alignment explanation
Indices: 95988720--95988777 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
95988710 TATACGGCCT
95988720 GACCACACGGGCGTGTCCCTA
1 GACCACACGGGCGTGTCCCTA
95988741 GACCACACGGGCGTGTCCCTA
1 GACCACACGGGCGTGTCCCTA
95988762 GACCACACGGGCGTGT
1 GACCACACGGGCGTGT
95988778 GAGCCCTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.19, C:0.36, G:0.31, T:0.14
Consensus pattern (21 bp):
GACCACACGGGCGTGTCCCTA
Found at i:95990699 original size:24 final size:24
Alignment explanation
Indices: 95990650--95990699 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
95990640 TTATGGGGGG
** *
95990650 AAAAATCAAATAAATTATAAATAA
1 AAAAATCAAATAAAACATAAACAA
95990674 AAAAATCAAATCAAAACA-AAACAA
1 AAAAATCAAAT-AAAACATAAACAA
95990698 AA
1 AA
95990700 GAGGGAGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.16
Consensus pattern (24 bp):
AAAAATCAAATAAAACATAAACAA
Found at i:95993134 original size:75 final size:73
Alignment explanation
Indices: 95992999--95993174 Score: 255
Period size: 75 Copynumber: 2.4 Consensus size: 73
95992989 ACGGAAGTTA
* * *
95992999 CGCCCAGCGCTAGTCGGATATACCGACGAATAATCAAGGAGCCCAGCTCTAGTTGGATAAATCAA
1 CGCCCAGCGCTAGTCGGATAAACCGACGAATAAT-AAGGAGCCCAACTCTAGTTGGATAAACCAA
95993064 CGATATTTG
65 CGATATTTG
* *
95993073 CGCTCAGCGCTAGTCGGATAAACTGACGATATAAGT-AGTGAGCCCAACTCTAGTTGGATAAACC
1 CGCCCAGCGCTAGTCGGATAAACCGACGA-ATAA-TAAG-GAGCCCAACTCTAGTTGGATAAACC
95993137 AACGATATTTG
63 AACGATATTTG
*
95993148 CGCCCAGCGCTAGTCAGATAAACCGAC
1 CGCCCAGCGCTAGTCGGATAAACCGAC
95993175 AAATGTGTGC
Statistics
Matches: 91, Mismatches: 8, Indels: 5
0.88 0.08 0.05
Matches are distributed among these distances:
74 28 0.31
75 62 0.68
76 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (73 bp):
CGCCCAGCGCTAGTCGGATAAACCGACGAATAATAAGGAGCCCAACTCTAGTTGGATAAACCAAC
GATATTTG
Found at i:95993171 original size:35 final size:35
Alignment explanation
Indices: 95992926--95993222 Score: 150
Period size: 35 Copynumber: 8.3 Consensus size: 35
95992916 CACAAAAGAG
*
95992926 TTTGCGCCCAGCGCTAGTCAGATAAACCGAC-AAA
1 TTTGCGCCCAGCGCTAGTCAGATAAACCGACGATA
* * * * * **
95992960 TGTGTGCCTAGCACTAGTCAAATAAATTGACGGA-A
1 TTTGCGCCCAGCGCTAGTCAGATAAACCGAC-GATA
* * * *
95992995 GTTACGCCCAGCGCTAGTCGGATATACCGACGAATAA
1 TTTGCGCCCAGCGCTAGTCAGATAAACCGACG-AT-A
** * * ** * *
95993032 TCAAGGAGCCCAGCTCTAGTTGGATAAATCAACGATA
1 T--TTGCGCCCAGCGCTAGTCAGATAAACCGACGATA
* * *
95993069 TTTGCGCTCAGCGCTAGTCGGATAAACTGACGATA
1 TTTGCGCCCAGCGCTAGTCAGATAAACCGACGATA
* * * ** *
95993104 TAAGTAGTGAGCCCAACTCTAGTTGGATAAACCAACGATA
1 T---T--TGCGCCCAGCGCTAGTCAGATAAACCGACGATA
*
95993144 TTTGCGCCCAGCGCTAGTCAGATAAACCGAC-AAA
1 TTTGCGCCCAGCGCTAGTCAGATAAACCGACGATA
* * * * * *
95993178 TGTGTGCCCAGCACTAGTCAGATAAACTGATGAAA
1 TTTGCGCCCAGCGCTAGTCAGATAAACCGACGATA
*
95993213 GTTGCGCCCA
1 TTTGCGCCCA
95993223 ATACTAGCCG
Statistics
Matches: 191, Mismatches: 59, Indels: 25
0.69 0.21 0.09
Matches are distributed among these distances:
34 53 0.28
35 81 0.42
36 1 0.01
37 4 0.02
38 3 0.02
39 22 0.12
40 27 0.14
ACGTcount: A:0.32, C:0.24, G:0.23, T:0.22
Consensus pattern (35 bp):
TTTGCGCCCAGCGCTAGTCAGATAAACCGACGATA
Found at i:95993333 original size:37 final size:37
Alignment explanation
Indices: 95993290--95993360 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
95993280 ATTTCATAAT
95993290 CTCAATATCACATTCACTTCAATTATCTATTAATCAA
1 CTCAATATCACATTCACTTCAATTATCTATTAATCAA
*
95993327 CTCAATATCATATTCACTTCAATTATCTATTAAT
1 CTCAATATCACATTCACTTCAATTATCTATTAAT
95993361 GATTCATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.41
Consensus pattern (37 bp):
CTCAATATCACATTCACTTCAATTATCTATTAATCAA
Found at i:95993357 original size:17 final size:17
Alignment explanation
Indices: 95993301--95993357 Score: 55
Period size: 17 Copynumber: 3.2 Consensus size: 17
95993291 TCAATATCAC
95993301 ATTCACTTCAATTATCT
1 ATTCACTTCAATTATCT
95993318 ATTAATCAAC-TCAA-TATCAT
1 A-T--TC-ACTTCAATTATC-T
95993338 ATTCACTTCAATTATCT
1 ATTCACTTCAATTATCT
95993355 ATT
1 ATT
95993358 AATGATTCAT
Statistics
Matches: 33, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
16 2 0.06
17 11 0.33
18 5 0.15
19 5 0.15
20 8 0.24
21 2 0.06
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTCACTTCAATTATCT
Found at i:95993830 original size:37 final size:37
Alignment explanation
Indices: 95993789--95993865 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
95993779 AATATAAATA
* *
95993789 AAATTCTAATATATTGGGTTGCTCAGACAGTATAATC
1 AAATTCTAATATATTGGGCTGCTCAAACAGTATAATC
95993826 AAATTCTAATATATTGGGCTGCTCAAACAGTATAATC
1 AAATTCTAATATATTGGGCTGCTCAAACAGTATAATC
95993863 AAA
1 AAA
95993866 ATATATAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (37 bp):
AAATTCTAATATATTGGGCTGCTCAAACAGTATAATC
Found at i:95993882 original size:14 final size:14
Alignment explanation
Indices: 95993863--95993890 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
95993853 CAGTATAATC
95993863 AAAATATATAAATA
1 AAAATATATAAATA
95993877 AAAATATATAAATA
1 AAAATATATAAATA
95993891 GGCTATTTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAATATATAAATA
Found at i:95994981 original size:11 final size:12
Alignment explanation
Indices: 95994955--95995003 Score: 59
Period size: 11 Copynumber: 4.2 Consensus size: 12
95994945 AGCCGTGCGA
95994955 TTTCTTCTCTCTT
1 TTTCTT-TCTCTT
95994968 TTTCTTTC-CTT
1 TTTCTTTCTCTT
95994979 TTTCTTTCTCTCT
1 TTTCTTTCTCT-T
95994992 TTT-TTT-TCTT
1 TTTCTTTCTCTT
95995002 TT
1 TT
95995004 GTTTGCGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
10 3 0.09
11 14 0.41
12 7 0.21
13 10 0.29
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTCTTTCTCTT
Found at i:95995002 original size:23 final size:24
Alignment explanation
Indices: 95994955--95995003 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
95994945 AGCCGTGCGA
95994955 TTTCTTCTCTCTTTTTCTTTCCTT
1 TTTCTTCTCTCTTTTTCTTTCCTT
95994979 TTTCTTTCTCTCTTTTT-TTT-CTT
1 TTTC-TTCTCTCTTTTTCTTTCCTT
95995002 TT
1 TT
95995004 GTTTGCGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 5 0.21
24 7 0.29
25 12 0.50
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTCTTCTCTCTTTTTCTTTCCTT
Found at i:96003916 original size:17 final size:17
Alignment explanation
Indices: 96003894--96003929 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
96003884 GCTGAAATTT
96003894 CAAAAA-AAAGAATAAAA
1 CAAAAACAAA-AATAAAA
96003911 CAAAAACAAAAATAAAA
1 CAAAAACAAAAATAAAA
96003928 CA
1 CA
96003930 TGATAACTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.81, C:0.11, G:0.03, T:0.06
Consensus pattern (17 bp):
CAAAAACAAAAATAAAA
Found at i:96006807 original size:73 final size:75
Alignment explanation
Indices: 96006625--96006812 Score: 240
Period size: 76 Copynumber: 2.5 Consensus size: 75
96006615 TTTTTGGTAA
* * *
96006625 ATTGTAAATATTGATATATTATTGATGTACAATATAATAGAATAAATATAAATATATTTTTTTTA
1 ATTGTAAATA-AGATATATTATTGATGTAAAATATAATAGAATAAATATAAATATATTTTTTATA
96006690 TTTTTTCTTAG
65 TTTTTTCTTAG
* * *
96006701 ATTGTAAATAAGTATATATTATTGATATGAAATACAATAGAATACAATA-AAA-ATATTTTTTA-
1 ATTGTAAATAAG-ATATATTATTGATGTAAAATATAATAGAATA-AATATAAATATATTTTTTAT
*
96006763 ATTTTTTTCTTAT
64 A-TTTTTTCTTAG
*
96006776 ATTGTAAATGAG-TATATTATTGATGTAAAATATAATA
1 ATTGTAAATAAGATATATTATTGATGTAAAATATAATA
96006813 CAACAACTTT
Statistics
Matches: 98, Mismatches: 11, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
73 22 0.22
74 1 0.01
75 31 0.32
76 40 0.41
77 4 0.04
ACGTcount: A:0.43, C:0.03, G:0.09, T:0.46
Consensus pattern (75 bp):
ATTGTAAATAAGATATATTATTGATGTAAAATATAATAGAATAAATATAAATATATTTTTTATAT
TTTTTCTTAG
Found at i:96010632 original size:24 final size:24
Alignment explanation
Indices: 96010598--96010649 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
96010588 TTTCTAGAGG
* *
96010598 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
96010622 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
96010646 ATTT
1 ATTT
96010650 GACCTACAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:96010771 original size:14 final size:14
Alignment explanation
Indices: 96010749--96010778 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
96010739 AATTTTGTGT
96010749 TTATGTTTTGAGGG
1 TTATGTTTTGAGGG
*
96010763 TTATTTTTTGAGGG
1 TTATGTTTTGAGGG
96010777 TT
1 TT
96010779 TCAGGGTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.13, C:0.00, G:0.30, T:0.57
Consensus pattern (14 bp):
TTATGTTTTGAGGG
Found at i:96012490 original size:7 final size:7
Alignment explanation
Indices: 96012478--96012503 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
96012468 ACACACATTT
96012478 ATTTCCC
1 ATTTCCC
96012485 ATTTCCC
1 ATTTCCC
96012492 ATTTCCC
1 ATTTCCC
96012499 ATTTC
1 ATTTC
96012504 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.38, G:0.00, T:0.46
Consensus pattern (7 bp):
ATTTCCC
Found at i:96028793 original size:39 final size:39
Alignment explanation
Indices: 96028739--96028818 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
96028729 CTGTCATGAT
*
96028739 CTTTAGCTAATTTACTAATGGACTGAGACATCATAGCTA
1 CTTTAGCTAATTTACTAATGGACTGAGACACCATAGCTA
96028778 CTTTAGCTAATTTACTAATGGACTGAGACACCATAGCTA
1 CTTTAGCTAATTTACTAATGGACTGAGACACCATAGCTA
96028817 CT
1 CT
96028819 ACAACCTGTC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (39 bp):
CTTTAGCTAATTTACTAATGGACTGAGACACCATAGCTA
Found at i:96029451 original size:3 final size:3
Alignment explanation
Indices: 96029443--96029471 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
96029433 TCCTTTCATT
96029443 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
96029472 CGAGCTTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:96031356 original size:15 final size:14
Alignment explanation
Indices: 96031316--96031371 Score: 51
Period size: 15 Copynumber: 3.9 Consensus size: 14
96031306 TTTATAACAA
96031316 AAAATATATATTAAT
1 AAAAT-TATATTAAT
* *
96031331 AATATTTTATTAAAT
1 AAAATTATATT-AAT
*
96031346 AAAATTATATTTAT
1 AAAATTATATTAAT
*
96031360 -AAATTTTATTAA
1 AAAATTATATTAA
96031372 AGATACCATT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
13 10 0.30
14 7 0.21
15 16 0.48
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAAATTATATTAAT
Found at i:96031371 original size:28 final size:30
Alignment explanation
Indices: 96031303--96031372 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
96031293 CTCAGTCTAT
*
96031303 TATTTTA-TAACAAAAAATATATATTAATAA
1 TATTTTATTAA-ATAAAATATATATTAATAA
*
96031333 TATTTTATTAAATAAAAT-TATATTTATAA
1 TATTTTATTAAATAAAATATATATTAATAA
96031362 -ATTTTATTAAA
1 TATTTTATTAAA
96031373 GATACCATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 11 0.30
29 10 0.27
30 13 0.35
31 3 0.08
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (30 bp):
TATTTTATTAAATAAAATATATATTAATAA
Found at i:96033401 original size:16 final size:16
Alignment explanation
Indices: 96033382--96033415 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
96033372 TCTCCTTTGC
*
96033382 ATGTTTTATCATAAAA
1 ATGTTATATCATAAAA
*
96033398 ATGTTATCTCATAAAA
1 ATGTTATATCATAAAA
96033414 AT
1 AT
96033416 ATTAATAGAA
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:0.44, C:0.09, G:0.06, T:0.41
Consensus pattern (16 bp):
ATGTTATATCATAAAA
Found at i:96043707 original size:19 final size:19
Alignment explanation
Indices: 96043683--96043780 Score: 101
Period size: 19 Copynumber: 5.2 Consensus size: 19
96043673 AATCTTTAAG
*
96043683 GATATGAAATCTTAAATAT
1 GATATGCAATCTTAAATAT
* * *
96043702 GATATGCGATATTAGATAT
1 GATATGCAATCTTAAATAT
*
96043721 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAAATAT
* *
96043738 GACATGCAATCTTACATAT
1 GATATGCAATCTTAAATAT
96043757 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT-AA-ATAT
96043778 GAT
1 GAT
96043781 CTTGTAATCT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
17 14 0.22
19 43 0.66
20 1 0.02
21 7 0.11
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAAATAT
Found at i:96043732 original size:36 final size:37
Alignment explanation
Indices: 96043690--96043780 Score: 103
Period size: 36 Copynumber: 2.4 Consensus size: 37
96043680 AAGGATATGA
* *
96043690 AATCTTAAATATGATATGCGATATTAGATATGATA-C
1 AATCTTAAATATGATATGCAATATTACATATGATAGC
* * *
96043726 AATCTTAGATATGACATGCAATCTTACATATGATATGC
1 AATCTTAAATATGATATGCAATATTACATATGATA-GC
96043764 AATCTTGAAGATATGAT
1 AATCTT-AA-ATATGAT
96043781 CTTGTAATCT
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
36 30 0.68
38 7 0.16
39 1 0.02
40 6 0.14
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (37 bp):
AATCTTAAATATGATATGCAATATTACATATGATAGC
Found at i:96045548 original size:32 final size:32
Alignment explanation
Indices: 96045512--96045576 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
96045502 TGTATGCATT
96045512 TTAGCAATTTAATAGTTAATGGATGATGGGCA
1 TTAGCAATTTAATAGTTAATGGATGATGGGCA
*
96045544 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCAATTTAATAGTTAATGGATGATGGGCA
96045576 T
1 T
96045577 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.37
Consensus pattern (32 bp):
TTAGCAATTTAATAGTTAATGGATGATGGGCA
Found at i:96048697 original size:12 final size:12
Alignment explanation
Indices: 96048680--96048710 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
96048670 ACTCGGGGAA
96048680 GAGGCCGTGGTC
1 GAGGCCGTGGTC
96048692 GAGGCCGTGGTC
1 GAGGCCGTGGTC
96048704 GAGGCCG
1 GAGGCCG
96048711 AAGTAGTACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.10, C:0.26, G:0.52, T:0.13
Consensus pattern (12 bp):
GAGGCCGTGGTC
Found at i:96053571 original size:32 final size:32
Alignment explanation
Indices: 96053535--96053595 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
96053525 TGTATGCATT
96053535 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
96053567 TTAGCATTTTAATAGTTAATGGATGATGG
1 TTAGCATTTTAATAGTTAATGGATGATGG
96053596 CATGGTAAGC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.31, C:0.05, G:0.25, T:0.39
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:96157959 original size:7 final size:7
Alignment explanation
Indices: 96157947--96157971 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
96157937 TTGTCAAGTA
96157947 TTTCAAT
1 TTTCAAT
96157954 TTTCAAT
1 TTTCAAT
96157961 TTTCAAT
1 TTTCAAT
96157968 TTTC
1 TTTC
96157972 TTGTATTCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.00, T:0.60
Consensus pattern (7 bp):
TTTCAAT
Found at i:96163628 original size:19 final size:19
Alignment explanation
Indices: 96163604--96163641 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
96163594 TACTTCAAAA
96163604 TTAATAAAAATTAAATATG
1 TTAATAAAAATTAAATATG
96163623 TTAATAAAAATTAAATATG
1 TTAATAAAAATTAAATATG
96163642 ATATATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (19 bp):
TTAATAAAAATTAAATATG
Found at i:96163951 original size:26 final size:25
Alignment explanation
Indices: 96163917--96163987 Score: 92
Period size: 25 Copynumber: 2.8 Consensus size: 25
96163907 TTTAGGGTTT
* *
96163917 TTTTA-GGTTTAGGATTTTTGGTGGG
1 TTTTAGGGTTTAGGGTTTTTAGT-GG
96163942 TTTTAGGGTTTAGGGTTTTTAGTGG
1 TTTTAGGGTTTAGGGTTTTTAGTGG
96163967 -TTTAGGGTTTTAGGGTTTTTA
1 TTTTAGGG-TTTAGGGTTTTTA
96163988 AGGGAAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.17
25 20 0.48
26 15 0.36
ACGTcount: A:0.13, C:0.00, G:0.34, T:0.54
Consensus pattern (25 bp):
TTTTAGGGTTTAGGGTTTTTAGTGG
Found at i:96163952 original size:8 final size:8
Alignment explanation
Indices: 96163939--96163985 Score: 62
Period size: 8 Copynumber: 5.9 Consensus size: 8
96163929 GATTTTTGGT
96163939 GGGTTTTA
1 GGGTTTTA
96163947 GGG-TTTA
1 GGGTTTTA
96163954 GGGTTTTTA
1 GGG-TTTTA
96163963 GTGG-TTTA
1 G-GGTTTTA
96163971 GGGTTTTA
1 GGGTTTTA
96163979 GGGTTTT
1 GGGTTTT
96163986 TAAGGGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
7 9 0.26
8 19 0.54
9 5 0.14
10 2 0.06
ACGTcount: A:0.11, C:0.00, G:0.38, T:0.51
Consensus pattern (8 bp):
GGGTTTTA
Found at i:96163970 original size:17 final size:16
Alignment explanation
Indices: 96163898--96163984 Score: 73
Period size: 17 Copynumber: 5.8 Consensus size: 16
96163888 TTGCCCCCCT
*
96163898 TTTTTAAGGTTTAGGG
1 TTTTTAGGGTTTAGGG
*
96163914 TTTTTTTA-GGTTTAGGA
1 --TTTTTAGGGTTTAGGG
96163931 TTTTT--GG--T-GGG
1 TTTTTAGGGTTTAGGG
96163942 -TTTTAGGGTTTAGGG
1 TTTTTAGGGTTTAGGG
96163957 TTTTTAGTGGTTTAGGG
1 TTTTTAG-GGTTTAGGG
96163974 -TTTTAGGGTTT
1 TTTTTAGGGTTT
96163985 TTAAGGGAAA
Statistics
Matches: 60, Mismatches: 2, Indels: 17
0.76 0.03 0.22
Matches are distributed among these distances:
10 4 0.07
11 2 0.03
12 3 0.05
14 3 0.05
15 13 0.22
16 12 0.20
17 17 0.28
18 6 0.10
ACGTcount: A:0.13, C:0.00, G:0.33, T:0.54
Consensus pattern (16 bp):
TTTTTAGGGTTTAGGG
Found at i:96163987 original size:17 final size:15
Alignment explanation
Indices: 96163939--96163984 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 15
96163929 GATTTTTGGT
96163939 GGGTTTTAGGGTTTA
1 GGGTTTTAGGGTTTA
96163954 GGGTTTTTAGTGGTTTA
1 GGG-TTTTAG-GGTTTA
96163971 GGGTTTTAGGGTTT
1 GGGTTTTAGGGTTT
96163985 TTAAGGGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
15 8 0.28
16 12 0.41
17 9 0.31
ACGTcount: A:0.11, C:0.00, G:0.39, T:0.50
Consensus pattern (15 bp):
GGGTTTTAGGGTTTA
Found at i:96164110 original size:16 final size:17
Alignment explanation
Indices: 96164064--96164121 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
96164054 ATTAATTAAA
*
96164064 TTAG-GGTTTCAAGTTTT
1 TTAGTGGTTT-AAGGTTT
96164081 TTAG-GG-TTAAGG-TT
1 TTAGTGGTTTAAGGTTT
*
96164095 TTAGTGGTTTAGGGTTT
1 TTAGTGGTTTAAGGTTT
96164112 TTAGTGGTTT
1 TTAGTGGTTT
96164122 TTAAGGGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
14 6 0.17
15 5 0.14
16 7 0.19
17 18 0.50
ACGTcount: A:0.16, C:0.02, G:0.31, T:0.52
Consensus pattern (17 bp):
TTAGTGGTTTAAGGTTT
Found at i:96164173 original size:137 final size:137
Alignment explanation
Indices: 96163958--96164227 Score: 431
Period size: 137 Copynumber: 2.0 Consensus size: 137
96163948 GGTTTAGGGT
96163958 TTTTAGTGGTTTAGGG-TTTTAGGGTTTTTAAGGGAAAAATTAATGAACACTTAAAGTTGAGGTT
1 TTTTAGTGGTTTAGGGTTTTTAGGGTTTTTAAGGGAAAAATTAATGAACACTTAAAGTTGAGGTT
* *
96164022 TAATTAATTAAATTAACTATGAGAAT-AAAAAAATTAATTAAATTAGGG-TTTCAAGTTTTTTAG
66 TAATTAATTAAATTAACTATGAGAATAAAAAAAATCAATTAAATTAGGGTTTTCAA-TTTTTTAA
96164085 GGTTAAGG
130 GGTTAAGG
* * *
96164093 TTTTAGTGGTTTAGGGTTTTTAGTGGTTTTTAAGGGAGAAATTAATGAACATTTAGAGTTGAGAG
1 TTTTAGTGGTTTAGGGTTTTTAG-GGTTTTTAAGGGAAAAATTAATGAACACTTAAAGTTGAG-G
*
96164158 -TTAATTAATTAAATTAACTATGAGAATAAAAAAAATCAATTAAATTAGGGTTTTGAATTTTTTA
64 TTTAATTAATTAAATTAACTATGAGAATAAAAAAAATCAATTAAATTAGGGTTTTCAATTTTTTA
96164222 AGGTTA
129 AGGTTA
96164228 GGGGTTTTGA
Statistics
Matches: 124, Mismatches: 6, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
135 16 0.13
136 6 0.05
137 63 0.51
138 34 0.27
139 5 0.04
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.40
Consensus pattern (137 bp):
TTTTAGTGGTTTAGGGTTTTTAGGGTTTTTAAGGGAAAAATTAATGAACACTTAAAGTTGAGGTT
TAATTAATTAAATTAACTATGAGAATAAAAAAAATCAATTAAATTAGGGTTTTCAATTTTTTAAG
GTTAAGG
Found at i:96164234 original size:24 final size:23
Alignment explanation
Indices: 96164202--96164258 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 23
96164192 ATCAATTAAA
96164202 TTAGGGTTTTGAATT-TTTTA-AGG
1 TTAGGGTTTTG-ATTGTTTTAGA-G
96164225 TTAGGGGTTTTGATTGTTTTAGAG
1 TTA-GGGTTTTGATTGTTTTAGAG
96164249 TTAGGGTTTT
1 TTAGGGTTTT
96164259 AGTGGTTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
23 13 0.42
24 17 0.55
25 1 0.03
ACGTcount: A:0.18, C:0.00, G:0.30, T:0.53
Consensus pattern (23 bp):
TTAGGGTTTTGATTGTTTTAGAG
Found at i:96164270 original size:16 final size:17
Alignment explanation
Indices: 96164249--96164283 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
96164239 TGTTTTAGAG
96164249 TTAGGG-TTTTAGTGGT
1 TTAGGGTTTTTAGTGGT
96164265 TTAGGGTTTTTAGTGGT
1 TTAGGGTTTTTAGTGGT
96164282 TT
1 TT
96164284 TTAAGGGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.11, C:0.00, G:0.34, T:0.54
Consensus pattern (17 bp):
TTAGGGTTTTTAGTGGT
Found at i:96164515 original size:126 final size:126
Alignment explanation
Indices: 96164326--96164777 Score: 667
Period size: 126 Copynumber: 3.6 Consensus size: 126
96164316 AATGAACACA
* * * *
96164326 TTCAAGAATGATGCACTTTCAGCAAAATTTCGGAAAAAAGCTTCCATATGGACGCTCTTTTGCTA
1 TTCAAGAAGGATGCACTTTCAGCAAAATTTCGAAAAAAAGATTCCACATGGACGCTCTTTTGCTA
* *
96164391 CAGTGGTATTAGATAAAATAATTTTGAGAAGATGTTTATGAACAAATAGTGTTAAAAACGC
66 CAGTGGTATTAGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGC
* * * * *
96164452 TTCAAGAATGATGTACTTTCAGCAAAATTTCGGAAAAAAGATTCCACGTGAACGCTCTTTTGCTA
1 TTCAAGAAGGATGCACTTTCAGCAAAATTTCGAAAAAAAGATTCCACATGGACGCTCTTTTGCTA
96164517 CAGTGGTATCT-GATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGC
66 CAGTGGTAT-TAGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGC
** * * *
96164578 TTCAAGAAGGATGCACTTTCATTAAAATTTC-AAAAAAAAACTCCTACGTGGACGCTCTTTTGCT
1 TTCAAGAAGGATGCACTTTCAGCAAAATTTCGAAAAAAAGATTCC-ACATGGACGCTCTTTTGCT
*
96164642 ACAGTGGT-CTATGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGC
65 ACAGTGGTATTA-GATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGC
* * * *
96164704 TTCAAAAAGGATGCACTTTCAGCAAAATTTTGAAAAAAAGCTCCCACATGGACGCTCTTTTGCTA
1 TTCAAGAAGGATGCACTTTCAGCAAAATTTCGAAAAAAAGATTCCACATGGACGCTCTTTTGCTA
96164769 CAGTGGTAT
66 CAGTGGTAT
96164778 CTAAAAAAGC
Statistics
Matches: 294, Mismatches: 26, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
124 1 0.00
125 10 0.03
126 273 0.93
127 10 0.03
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (126 bp):
TTCAAGAAGGATGCACTTTCAGCAAAATTTCGAAAAAAAGATTCCACATGGACGCTCTTTTGCTA
CAGTGGTATTAGATAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGC
Found at i:96170562 original size:23 final size:23
Alignment explanation
Indices: 96170536--96170580 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
96170526 TGGGTATGTG
*
96170536 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
96170559 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
96170581 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:96171340 original size:18 final size:18
Alignment explanation
Indices: 96171314--96171355 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
96171304 GACTGGGAAA
* *
96171314 AGGAAACATAAAAGGGTT
1 AGGATACATAAAAGGGCT
*
96171332 AGGATACATATAAGGGCT
1 AGGATACATAAAAGGGCT
96171350 AGGATA
1 AGGATA
96171356 TGCACCTGGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.45, C:0.07, G:0.29, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:96173186 original size:22 final size:22
Alignment explanation
Indices: 96173139--96173187 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
96173129 AACACAGCTT
96173139 TTTTG-CAAAAATAAGAGACAA
1 TTTTGACAAAAATAAGAGACAA
* *
96173160 CTTTGACAAAAATTGAGAGA-AA
1 TTTTGACAAAAA-TAAGAGACAA
96173182 TTTTGA
1 TTTTGA
96173188 GAGAATTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 4 0.17
22 13 0.57
23 6 0.26
ACGTcount: A:0.47, C:0.08, G:0.16, T:0.29
Consensus pattern (22 bp):
TTTTGACAAAAATAAGAGACAA
Found at i:96179787 original size:23 final size:22
Alignment explanation
Indices: 96179735--96179787 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 22
96179725 TTATTAAGAA
* *
96179735 AATT-TTATATATTTTTATTTT
1 AATTGTTATACATGTTTATTTT
96179756 AATTG-TATACATGTTTATCTTT
1 AATTGTTATACATGTTTAT-TTT
*
96179778 TATTGTTATA
1 AATTGTTATA
96179788 ACTAAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 15 0.58
22 7 0.27
23 4 0.15
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.62
Consensus pattern (22 bp):
AATTGTTATACATGTTTATTTT
Found at i:96181776 original size:17 final size:17
Alignment explanation
Indices: 96181746--96181784 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
96181736 ACATGACTAG
*
96181746 ATTTTATATGATTTTCT
1 ATTTTATATAATTTTCT
*
96181763 ATTTTTTATAATTTTCT
1 ATTTTATATAATTTTCT
96181780 ATTTT
1 ATTTT
96181785 CTATTTTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.69
Consensus pattern (17 bp):
ATTTTATATAATTTTCT
Found at i:96181784 original size:24 final size:22
Alignment explanation
Indices: 96181756--96181799 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 22
96181746 ATTTTATATG
96181756 ATTTTCTATTTTTTATAATTTTCT
1 ATTTTCTA--TTTTATAATTTTCT
96181780 ATTTTCTATTTTATAATTTT
1 ATTTTCTATTTTATAATTTT
96181800 ATATAGGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 12 0.60
24 8 0.40
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (22 bp):
ATTTTCTATTTTATAATTTTCT
Found at i:96183789 original size:3 final size:3
Alignment explanation
Indices: 96183777--96184070 Score: 128
Period size: 3 Copynumber: 98.7 Consensus size: 3
96183767 GTCCTTTTGC
* * *
96183777 TAT T-T TAT TAT TAA AAT TGAT TTAT T-T TAT T-T TAT TGT TAAT T-T
1 TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT TAT TAT TAT T-AT TAT
** * *
96183821 TAT TAT TAT TGC CAT TAT TAT TAT TAT TACT T-T TAT TCT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * * * * * * *
96183865 TAC TAT TAT TGT TAC GAT T-T CTCT TGT TGT TTT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* *
96183909 ATAT TAT TGT TAT TAT TAT TAT TAT TAT TCCT TAT T-T TAT TAT TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
* * * * * * *
96183955 TAT TTT CTAG TAT TGT TAT TAT TAA TA- TAC TAT TAT TAT TCT GAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
96184000 TAAT GTAT TAT TAT TAT TAT TTT CTAC T-T TAT TAT TAT TA- TAT TAT
1 T-AT -TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
96184046 TAC TAT TGT TAT CAT CA- TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
96184071 AACTAATTAA
Statistics
Matches: 217, Mismatches: 50, Indels: 48
0.69 0.16 0.15
Matches are distributed among these distances:
2 22 0.10
3 175 0.81
4 18 0.08
5 2 0.01
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:96190284 original size:32 final size:32
Alignment explanation
Indices: 96190247--96190307 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
96190237 CTTACCATGC
96190247 CCATCATCCATTAACTATTAAAATGCTAATGT
1 CCATCATCCATTAACTATTAAAATGCTAATGT
96190279 CCATCATCCATTAACTATTAAAATGCTAA
1 CCATCATCCATTAACTATTAAAATGCTAA
96190308 AATGCATACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.39, C:0.23, G:0.05, T:0.33
Consensus pattern (32 bp):
CCATCATCCATTAACTATTAAAATGCTAATGT
Found at i:96190327 original size:32 final size:32
Alignment explanation
Indices: 96190247--96190328 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 32
96190237 CTTACCATGC
* **
96190247 CCATCATCCATTAACTATTAAAATGCTAATGT
1 CCATCATCCATCAACTATTAAAATGCTAAAAT
*
96190279 CCATCATCCATTAACTATTAAAATGCTAAAAT
1 CCATCATCCATCAACTATTAAAATGCTAAAAT
* *
96190311 GCATACAT-TATCAACTAT
1 CCAT-CATCCATCAACTAT
96190329 CCATCACCTT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
32 41 0.93
33 3 0.07
ACGTcount: A:0.40, C:0.22, G:0.05, T:0.33
Consensus pattern (32 bp):
CCATCATCCATCAACTATTAAAATGCTAAAAT
Found at i:96195886 original size:44 final size:44
Alignment explanation
Indices: 96195830--96196599 Score: 479
Period size: 44 Copynumber: 16.6 Consensus size: 44
96195820 GAAGACGGTG
* * * *
96195830 AATCTTATCTCCCTGAAGTTGCAGTGGATCAGATTAAAGCCACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * *
96195874 AACCTTATCTCCCTGAAGTTGTAGTGGAGTAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* *
96195918 AATTACAAACCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAGCCACA
1 AA-T------CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* ** * * * *
96195969 AACCTTATCTTTCTGAAGTTGCAGTGGGGTA-AGTTGAAGTTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGCTACA
* * * * * * *
96196013 AGTCTTATCTCCCTAAAGTTGTAGTGGAGCA-AGCTAAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGCTA-CA
* * *
96196058 AATCTTATCTCTCTGAAGTTACAGTGGAACAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * *
96196102 AATCACAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACA
1 AAT-------CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * *
96196153 AGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CA
* *
96196198 AATCTTATCTCCATGAAGTTGCAGTGGAGTAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * *
96196242 AATCACAAACCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACA
1 AAT-------CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * *
96196293 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CA
* * * *
96196338 AATCTTATCTCTCTGAAGTTACAGTGAAGTAGATTGAAGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * * *
96196382 AATCACAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCG
1 AAT-------CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-CA
* * * *
96196434 AATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * * * * *
96196478 AATCCTATAC-CTCTGAAGTTACAGTAGG-TCAGA-TCATATCTACCA
1 AATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGA-AGCTA-CA
* ** * *
96196523 TGGTGAATCTTATCTCCTTGAAGTTATAGTGGAGTAGATTGAAGCCACA
1 -----AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
* * *
96196572 AACCTCATCTCCCTGAAGTTACAGTGGA
1 AATCTTATCTCCCTGAAGTTGCAGTGGA
96196600 ACAGGTTAAA
Statistics
Matches: 564, Mismatches: 116, Indels: 92
0.73 0.15 0.12
Matches are distributed among these distances:
43 3 0.01
44 235 0.42
45 142 0.25
46 1 0.00
49 5 0.01
50 25 0.04
51 149 0.26
52 4 0.01
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCTACA
Found at i:96196161 original size:140 final size:140
Alignment explanation
Indices: 96195965--96196466 Score: 724
Period size: 140 Copynumber: 3.6 Consensus size: 140
96195955 AGATTGAAGC
** * * * * *
96195965 CACAAACCTTATCTTTCTGAAGTTGCAGTGGGGTAAGTTGAAGTTATAAGTCTTATCTCCCTAAA
1 CACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAA
* * *
96196030 GTTGTAGTGGAGCA-AGCTAAAGATAGCGAATCTTATCTCTCTGAAGTTACAGTGGAACAGATTG
66 GTTGCAGTGGAGCAGA-CTGAAGATAGCGAATCTTATCTCTCTGAAGTTACAGTGGAATAGATTG
96196094 AAGCTACAAAT
130 AAGCTACAAAT
* *
96196105 CACAAACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTTTTATCTCCCTGAA
1 CACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAA
* *
96196170 GTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTC-CATGAAGTTGCAGTGGAGTAGATTG
66 GTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTCTC-TGAAGTTACAGTGGAATAGATTG
96196234 AAGCTACAAAT
130 AAGCTACAAAT
*
96196245 CACAAACCTTATCTCCTTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAA
1 CACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAA
96196310 GTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTCTCTGAAGTTACAGT-GAAGTAGATTG
66 GTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTCTCTGAAGTTACAGTGGAA-TAGATTG
96196374 AAGCTACAAAT
130 AAGCTACAAAT
* *** * * *
96196385 CACAAACCTTATCTCTCTGAAGTTGCAGTGGAGCAAACTAAAGATAGCGAA-TCTTATCTCTCTG
1 CACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTA-C-AAGTCTTATCTCCCTG
*
96196449 AAGTTGCAGTAGAGCAGA
64 AAGTTGCAGTGGAGCAGA
96196467 TTAAAGCTAT
Statistics
Matches: 328, Mismatches: 28, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
139 3 0.01
140 291 0.89
141 32 0.10
142 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.28
Consensus pattern (140 bp):
CACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAA
GTTGCAGTGGAGCAGACTGAAGATAGCGAATCTTATCTCTCTGAAGTTACAGTGGAATAGATTGA
AGCTACAAAT
Found at i:96198137 original size:3 final size:3
Alignment explanation
Indices: 96198125--96198418 Score: 137
Period size: 3 Copynumber: 98.7 Consensus size: 3
96198115 GTCCTTTTGC
* * *
96198125 TAT T-T TAT TAT TAA AAT TGAT TTAT T-T TAT T-T TAT TGT TAAT T-T
1 TAT TAT TAT TAT TAT TAT T-AT -TAT TAT TAT TAT TAT TAT T-AT TAT
** * *
96198169 TAT TAT TAT TGC CAT TAT TAT TAT TAT TACT T-T TAT TCT T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT
* * * * * * * *
96198213 TAC TAT TAT TGT TAC GAT T-T CTCT TGT TGT TTT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* *
96198257 ATAT TAT TGT TAT TAT TAT TAT TAT TAT TCCT TAT T-T TAT TAT TAT
1 -TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT
* * * * * *
96198303 TAT TTT CTAT TAT TGT TAT TAT TAA TA- TAC TAT TAT TAT TCT GAT
1 TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
96198348 TAAT GTAT TAT TAT TAT TAT TTT CTAC T-T TAT TAT TAT TA- TAT TAT
1 T-AT -TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * * *
96198394 TAC TAT TGT TAT CAT CA- TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
96198419 AACTAATTAA
Statistics
Matches: 219, Mismatches: 48, Indels: 48
0.70 0.15 0.15
Matches are distributed among these distances:
2 22 0.10
3 176 0.80
4 19 0.09
5 2 0.01
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:96198266 original size:24 final size:25
Alignment explanation
Indices: 96198239--96198394 Score: 113
Period size: 26 Copynumber: 6.1 Consensus size: 25
96198229 ATTTCTCTTG
*
96198239 TTGTTTTTATTATTA-TTTATATTA
1 TTGTTATTATTATTATTTTATATTA
*
96198263 TTGTTATTATTATTATTATTATTCCTTA
1 TTGTTATTATTATTATT-TTA-T-ATTA
*
96198291 TT-TTATTATTATTATTTTCTATTA
1 TTGTTATTATTATTATTTTATATTA
* **
96198315 TTGTTATTATTAATATACTATTATTA
1 TTGTTATTATTATTATTTTA-TATTA
* * *
96198341 TTCTGATTAATGTATTATTAT-TATTA
1 TTGTTATT-AT-TATTATTTTATATTA
* *
96198367 TTTTCTACT-TTATTATTATTATATTA
1 TTGT-TATTATTATTATT-TTATATTA
96198393 TT
1 TT
96198395 ACTATTGTTA
Statistics
Matches: 104, Mismatches: 17, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
24 26 0.25
25 17 0.16
26 31 0.30
27 19 0.18
28 11 0.11
ACGTcount: A:0.28, C:0.04, G:0.03, T:0.65
Consensus pattern (25 bp):
TTGTTATTATTATTATTTTATATTA
Found at i:96203303 original size:23 final size:21
Alignment explanation
Indices: 96203272--96203327 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 21
96203262 CTTGCTTTTA
*
96203272 TATTCTATATTGTAAAATTATTT
1 TATTATATATT-TAAAATTA-TT
*
96203295 TATTATATATATTAATATTATT
1 TATTATATAT-TTAAAATTATT
*
96203317 TATTATCTATT
1 TATTATATATT
96203328 ATTTTTCACA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 1 0.03
22 11 0.38
23 16 0.55
24 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (21 bp):
TATTATATATTTAAAATTATT
Found at i:96203377 original size:34 final size:35
Alignment explanation
Indices: 96203288--96203400 Score: 104
Period size: 37 Copynumber: 3.1 Consensus size: 35
96203278 ATATTGTAAA
* *
96203288 ATTATTTTATTATATATATTAATATTA-TTTATTATCT
1 ATTATTTT-TTATAT-TATTATTATTATTTTA-CATCT
* *
96203325 ATTATTTTTCACAAATTATTATTATTATTTTACATC-
1 ATTATTTTT--TATATTATTATTATTATTTTACATCT
* * *
96203361 ATTATTTTTTATATTATTATTATAATTTTACTTGT
1 ATTATTTTTTATATTATTATTATTATTTTACATCT
96203396 ATTAT
1 ATTAT
96203401 ATATTTATTA
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
34 20 0.32
35 5 0.08
36 10 0.16
37 21 0.33
38 7 0.11
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (35 bp):
ATTATTTTTTATATTATTATTATTATTTTACATCT
Found at i:96203410 original size:34 final size:34
Alignment explanation
Indices: 96203339--96203416 Score: 86
Period size: 34 Copynumber: 2.3 Consensus size: 34
96203329 TTTTTCACAA
* * *
96203339 ATTATTATTATTATTTTACATCATTATTTTTTAT
1 ATTATTATTATAATTTTACATCATTATATATTAT
* *
96203373 ATTATTATTATAATTTTACTTGTATTATATATT-T
1 ATTATTATTATAATTTTACAT-CATTATATATTAT
96203407 ATTAATTATT
1 ATT-ATTATT
96203417 TATATATATT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 23 0.62
35 14 0.38
ACGTcount: A:0.32, C:0.04, G:0.01, T:0.63
Consensus pattern (34 bp):
ATTATTATTATAATTTTACATCATTATATATTAT
Found at i:96203722 original size:19 final size:19
Alignment explanation
Indices: 96203696--96203759 Score: 55
Period size: 18 Copynumber: 3.5 Consensus size: 19
96203686 TAAATTATTA
96203696 ATTA-TTTATTTATTATGT
1 ATTATTTTATTTATTATGT
**
96203714 ATTATTTTACTTTAAAATG-
1 ATTATTTTA-TTTATTATGT
*
96203733 A-TATTTT-TATATTATGT
1 ATTATTTTATTTATTATGT
*
96203750 GTTATTTTAT
1 ATTATTTTAT
96203760 AAATTCTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 9
0.70 0.12 0.18
Matches are distributed among these distances:
16 6 0.17
18 16 0.46
19 6 0.17
20 7 0.20
ACGTcount: A:0.30, C:0.02, G:0.06, T:0.62
Consensus pattern (19 bp):
ATTATTTTATTTATTATGT
Found at i:96204093 original size:33 final size:33
Alignment explanation
Indices: 96204054--96204122 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
96204044 TTGTATTACT
*
96204054 CTTTTTTGTATATCATGCATTATTTAATTTTTA
1 CTTTTTTGTATATCATGCATTATTTAATTATTA
96204087 CTTTTTTGTATATCATGCATTATTTAATTATTA
1 CTTTTTTGTATATCATGCATTATTTAATTATTA
96204120 CTT
1 CTT
96204123 CGTATGTTTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.25, C:0.10, G:0.06, T:0.59
Consensus pattern (33 bp):
CTTTTTTGTATATCATGCATTATTTAATTATTA
Found at i:96206785 original size:3 final size:3
Alignment explanation
Indices: 96206779--96206810 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
96206769 ATTTTTTTAA
96206779 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
96206811 GGAGGAATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:96214698 original size:26 final size:24
Alignment explanation
Indices: 96214659--96214715 Score: 60
Period size: 26 Copynumber: 2.3 Consensus size: 24
96214649 GCAATTAACT
* *
96214659 TTTTCACTAATTATTAAATAAATCAA
1 TTTTCATTAATTATGAAA-AAAT-AA
*
96214685 TTTTCATTACTTATGAAAAAATAA
1 TTTTCATTAATTATGAAAAAATAA
*
96214709 CTTTCAT
1 TTTTCAT
96214716 AAAAATGTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 8 0.30
25 4 0.15
26 15 0.56
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (24 bp):
TTTTCATTAATTATGAAAAAATAA
Found at i:96216691 original size:5 final size:5
Alignment explanation
Indices: 96216681--96216708 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
96216671 AATTATTGGG
96216681 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
96216709 GAACACACAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:96221958 original size:27 final size:26
Alignment explanation
Indices: 96221918--96221968 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 26
96221908 AATACTTATA
96221918 TTTATATAATTAAAATAT-TCATATT
1 TTTATATAATTAAAATATGTCATATT
96221943 TTTATACTAGATTAAAATATGTCATA
1 TTTATA-TA-ATTAAAATATGTCATA
96221969 AGTCCTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 6 0.26
26 2 0.09
27 10 0.43
28 5 0.22
ACGTcount: A:0.43, C:0.06, G:0.04, T:0.47
Consensus pattern (26 bp):
TTTATATAATTAAAATATGTCATATT
Found at i:96222377 original size:15 final size:15
Alignment explanation
Indices: 96222322--96222432 Score: 70
Period size: 15 Copynumber: 7.5 Consensus size: 15
96222312 TTTATACTAC
*
96222322 AAAATATTTACTATT
1 AAAATATTTATTATT
* *
96222337 AATATATTTATAATTGT
1 AAAATATTTATTA-T-T
96222354 AATAAATATTTATTATT
1 -A-AAATATTTATTATT
*
96222371 AAAATA-TTAATA-T
1 AAAATATTTATTATT
** * *
96222384 GGAATATTTTTTAAT
1 AAAATATTTATTATT
96222399 AAAATA-TTATT-TT
1 AAAATATTTATTATT
*
96222412 TAAA-ATTTATTATT
1 AAAATATTTATTATT
96222426 AAAATAT
1 AAAATAT
96222433 ATTTTATAAG
Statistics
Matches: 71, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
12 1 0.01
13 14 0.20
14 18 0.25
15 22 0.31
16 2 0.03
17 2 0.03
18 2 0.03
19 10 0.14
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.50
Consensus pattern (15 bp):
AAAATATTTATTATT
Found at i:96222390 original size:28 final size:27
Alignment explanation
Indices: 96222358--96222432 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
96222348 AATTGTAATA
96222358 AATATTTATTATTAAAATATTAATATGG
1 AATATTTATTATTAAAATATT-ATATGG
* * * **
96222386 AATATTTTTTAATAAAATATTATTTTT
1 AATATTTATTATTAAAATATTATATGG
*
96222413 AAAATTTATTATTAAAATAT
1 AATATTTATTATTAAAATAT
96222433 ATTTTATAAG
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
27 20 0.51
28 19 0.49
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.51
Consensus pattern (27 bp):
AATATTTATTATTAAAATATTATATGG
Found at i:96222427 original size:13 final size:13
Alignment explanation
Indices: 96222356--96222435 Score: 61
Period size: 14 Copynumber: 5.8 Consensus size: 13
96222346 ATAATTGTAA
96222356 TAAATATTTATTAT
1 TAAA-ATTTATTAT
*
96222370 TAAAATATTAATAT
1 TAAAAT-TTATTAT
* * * *
96222384 GGAATATTTTTTAA
1 -TAAAATTTATTAT
*
96222398 TAAAATATTATTTT
1 TAAAAT-TTATTAT
96222412 TAAAATTTATTAT
1 TAAAATTTATTAT
*
96222425 TAAAATATATT
1 TAAAATTTATT
96222436 TTATAAGAAG
Statistics
Matches: 50, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
13 22 0.44
14 24 0.48
15 4 0.08
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (13 bp):
TAAAATTTATTAT
Found at i:96232795 original size:46 final size:44
Alignment explanation
Indices: 96232691--96232798 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
96232681 TGTCTTTGAC
** * * *
96232691 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
96232735 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
96232781 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
96232799 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:96250970 original size:25 final size:25
Alignment explanation
Indices: 96250940--96250999 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
96250930 TCATAGCTCG
96250940 TGTGAGCATTTA-CAGTCACAAATCA
1 TGTGAGCATTTATC-GTCACAAATCA
* ** *
96250965 TGTGAGAATTTATCGTCACAGCTTA
1 TGTGAGCATTTATCGTCACAAATCA
96250990 TGTGAGCATT
1 TGTGAGCATT
96251000 GTTCTCGCGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
25 28 0.97
26 1 0.03
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (25 bp):
TGTGAGCATTTATCGTCACAAATCA
Found at i:96251420 original size:18 final size:17
Alignment explanation
Indices: 96251379--96251420 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
96251369 AAATGTTGAG
96251379 TTTT-AATAGCTAAAAA
1 TTTTAAATAGCTAAAAA
* *
96251395 TATTAAATAGCTATAGAA
1 TTTTAAATAGCTA-AAAA
96251413 TTTTAAAT
1 TTTTAAAT
96251421 TGGAGGTCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 3 0.14
17 8 0.38
18 10 0.48
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (17 bp):
TTTTAAATAGCTAAAAA
Found at i:96252441 original size:25 final size:25
Alignment explanation
Indices: 96252396--96252460 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
96252386 TCCAGCTCTT
* *
96252396 ATGAGCTTCCCCGATACTCAGGTCGC
1 ATGAGCTT-CCCGTTACTCAGCTCGC
* * *
96252422 ATGAGCTTCCCGTTATTCAGCTTGG
1 ATGAGCTTCCCGTTACTCAGCTCGC
*
96252447 ATGAGCTTACCGTT
1 ATGAGCTTCCCGTT
96252461 TATAACTCGT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 25 0.76
26 8 0.24
ACGTcount: A:0.18, C:0.28, G:0.23, T:0.31
Consensus pattern (25 bp):
ATGAGCTTCCCGTTACTCAGCTCGC
Found at i:96255230 original size:142 final size:142
Alignment explanation
Indices: 96255056--96255332 Score: 457
Period size: 142 Copynumber: 2.0 Consensus size: 142
96255046 TGAATAATGA
*
96255056 ATGACTATTTATAATTGATGATTAAATTAAATTTTAAATTTTAATGATATATTATTTGAACTGTT
1 ATGACTATTTATAATTGATGATTAAATTAAATTCTAAATTTTAATGATATATTATTTGAACTGTT
* *
96255121 AATTGTCGTAGCATCCCGTAACCCTAATTCA-GCAACAGAGATGGGTTCAAGGTGTTATGAACCC
66 AATTGTCGTAGCATCCCGTAACCCTAA-TCAGGCAACAGAGACGGGTTCAAGGTGTTACGAACCC
96255185 AATCCCCGGAGAT
130 AATCCCCGGAGAT
*
96255198 ATGACTATTTATAATTGATGATTAAATTAAATTCTAAATTTTAATGATATATTATTTGAATTGTT
1 ATGACTATTTATAATTGATGATTAAATTAAATTCTAAATTTTAATGATATATTATTTGAACTGTT
* * ** *
96255263 AATTGTCGTAGCATTCCGTAACCCTAATCAGGCGACAGAGACGGGTTCGGGGTGTTACGAACCTA
66 AATTGTCGTAGCATCCCGTAACCCTAATCAGGCAACAGAGACGGGTTCAAGGTGTTACGAACCCA
96255328 ATCCC
131 ATCCC
96255333 AAGAGATCGA
Statistics
Matches: 125, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
141 3 0.02
142 122 0.98
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (142 bp):
ATGACTATTTATAATTGATGATTAAATTAAATTCTAAATTTTAATGATATATTATTTGAACTGTT
AATTGTCGTAGCATCCCGTAACCCTAATCAGGCAACAGAGACGGGTTCAAGGTGTTACGAACCCA
ATCCCCGGAGAT
Found at i:96270357 original size:43 final size:43
Alignment explanation
Indices: 96270296--96270384 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
96270286 TCACGATTAT
96270296 ACAAGGAAGCAACGAAGCGCCGCCATAATGCTCGTTTAAAGCA
1 ACAAGGAAGCAACGAAGCGCCGCCATAATGCTCGTTTAAAGCA
96270339 ACAAGGAAGCAACGAAGCGCCGCCATAATGCTCGTTTAAAGCA
1 ACAAGGAAGCAACGAAGCGCCGCCATAATGCTCGTTTAAAGCA
96270382 ACA
1 ACA
96270385 CAAGCAATTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.38, C:0.26, G:0.22, T:0.13
Consensus pattern (43 bp):
ACAAGGAAGCAACGAAGCGCCGCCATAATGCTCGTTTAAAGCA
Found at i:96271862 original size:13 final size:14
Alignment explanation
Indices: 96271838--96271866 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
96271828 TCTTCATTTC
96271838 TTTTACTTTCTTTA
1 TTTTACTTTCTTTA
96271852 TTTTA-TTTCTTTA
1 TTTTACTTTCTTTA
96271865 TT
1 TT
96271867 CATTTAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTACTTTCTTTA
Found at i:96285119 original size:5 final size:5
Alignment explanation
Indices: 96285079--96285103 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
96285069 CTATATGGAT
96285079 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
96285104 CCACTGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:96286092 original size:36 final size:36
Alignment explanation
Indices: 96286045--96286118 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
96286035 GTCGTAAGCT
*
96286045 TTACTCATGTCAAGCTTTACTGCCATATATCTTTTC
1 TTACTCATGTCAAGCTTTACTGCCATATATCCTTTC
96286081 TTACTCATGTCAAGCTTTACTGCCATATATCCTTTC
1 TTACTCATGTCAAGCTTTACTGCCATATATCCTTTC
96286117 TT
1 TT
96286119 CCCTATTCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.22, C:0.26, G:0.08, T:0.45
Consensus pattern (36 bp):
TTACTCATGTCAAGCTTTACTGCCATATATCCTTTC
Found at i:96295470 original size:30 final size:29
Alignment explanation
Indices: 96295431--96295532 Score: 87
Period size: 30 Copynumber: 3.3 Consensus size: 29
96295421 AGATTTTATT
96295431 AATATAATTGGCATAGGTTCAAATCTCAC
1 AATATAATTGGCATAGGTTCAAATCTCAC
** ** * * * *
96295460 AATATCAATTGAGGGTAAATTTAAGATTTTATT
1 AATAT-AATTG-GCATAGGTTCAA-ATCTCA-C
96295493 AATATAATTGGCATAGGTTCAAATCTCAC
1 AATATAATTGGCATAGGTTCAAATCTCAC
96295522 AATATCAATTG
1 AATAT-AATTG
96295533 TTTTTATTTT
Statistics
Matches: 52, Mismatches: 16, Indels: 9
0.68 0.21 0.12
Matches are distributed among these distances:
29 10 0.19
30 14 0.27
31 14 0.27
32 9 0.17
33 5 0.10
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (29 bp):
AATATAATTGGCATAGGTTCAAATCTCAC
Found at i:96295545 original size:62 final size:62
Alignment explanation
Indices: 96295408--96295532 Score: 250
Period size: 62 Copynumber: 2.0 Consensus size: 62
96295398 GCTTTGGTCC
96295408 GAGGGTAAATTTAAGATTTTATTAATATAATTGGCATAGGTTCAAATCTCACAATATCAATT
1 GAGGGTAAATTTAAGATTTTATTAATATAATTGGCATAGGTTCAAATCTCACAATATCAATT
96295470 GAGGGTAAATTTAAGATTTTATTAATATAATTGGCATAGGTTCAAATCTCACAATATCAATT
1 GAGGGTAAATTTAAGATTTTATTAATATAATTGGCATAGGTTCAAATCTCACAATATCAATT
96295532 G
1 G
96295533 TTTTTATTTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 63 1.00
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.37
Consensus pattern (62 bp):
GAGGGTAAATTTAAGATTTTATTAATATAATTGGCATAGGTTCAAATCTCACAATATCAATT
Found at i:96300221 original size:78 final size:78
Alignment explanation
Indices: 96300134--96300289 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 78
96300124 AAAGCGTAGT
* *
96300134 GGTTGGTTTAAAAAGAGGAAAAGATTTTGTGATTAAGCAATTGATGTGTCAGCAGGTAAATGTCA
1 GGTTGGTTTAAAAAGAGGAAAAGATTTTATGATTAAGAAATTGATGTGTCAGCAGGTAAATGTCA
96300199 AGGACAAAATTTC
66 AGGACAAAATTTC
*
96300212 GGTTGGTTTAAAAAGAGGAAAAGATTTTATGATTAAGAAATTGATTTGTCAGCAGGTAAATGTCA
1 GGTTGGTTTAAAAAGAGGAAAAGATTTTATGATTAAGAAATTGATGTGTCAGCAGGTAAATGTCA
*
96300277 AGGACGAAATTTC
66 AGGACAAAATTTC
96300290 TTTAAGGAGA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (78 bp):
GGTTGGTTTAAAAAGAGGAAAAGATTTTATGATTAAGAAATTGATGTGTCAGCAGGTAAATGTCA
AGGACAAAATTTC
Found at i:96304027 original size:38 final size:37
Alignment explanation
Indices: 96303977--96304048 Score: 108
Period size: 38 Copynumber: 1.9 Consensus size: 37
96303967 TTAATTCATA
* *
96303977 TAATAATAATTATATTAAGAATGTTATTAAATTATATT
1 TAATAATAATTATATTAA-AATATGATTAAATTATATT
*
96304015 TAATAATAATTATTTTAAAATATGATTAAATTAT
1 TAATAATAATTATATTAAAATATGATTAAATTAT
96304049 TTATTATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 14 0.45
38 17 0.55
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (37 bp):
TAATAATAATTATATTAAAATATGATTAAATTATATT
Found at i:96304296 original size:16 final size:16
Alignment explanation
Indices: 96304277--96304330 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
96304267 CCTTATTTCC
96304277 TTACAGCTCTATTCAA
1 TTACAGCTCTATTCAA
*
96304293 TTACAACTCTATTCAA
1 TTACAGCTCTATTCAA
*
96304309 TTACAGC-CTTATTCCA
1 TTACAGCTC-TATTCAA
96304325 TTACAG
1 TTACAG
96304331 TGAACCAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
15 1 0.03
16 33 0.97
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (16 bp):
TTACAGCTCTATTCAA
Found at i:96308095 original size:41 final size:41
Alignment explanation
Indices: 96308038--96308120 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
96308028 TCAATTTCGT
96308038 TACCTAATCTATACCCATACTTTAAAAATATCCCAAAATAA
1 TACCTAATCTATACCCATACTTTAAAAATATCCCAAAATAA
*
96308079 TACCTAATCTATACCCATACTTTAAAACTATCCCAAAATAA
1 TACCTAATCTATACCCATACTTTAAAAATATCCCAAAATAA
96308120 T
1 T
96308121 GGGATTATAG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.45, C:0.25, G:0.00, T:0.30
Consensus pattern (41 bp):
TACCTAATCTATACCCATACTTTAAAAATATCCCAAAATAA
Found at i:96312452 original size:64 final size:64
Alignment explanation
Indices: 96312351--96312479 Score: 258
Period size: 64 Copynumber: 2.0 Consensus size: 64
96312341 ACATGTATTC
96312351 ATAATTTTGGCATGAATAAAAACACCAAAGCAATTCACGCACATACATGTATTCATAATCAAAT
1 ATAATTTTGGCATGAATAAAAACACCAAAGCAATTCACGCACATACATGTATTCATAATCAAAT
96312415 ATAATTTTGGCATGAATAAAAACACCAAAGCAATTCACGCACATACATGTATTCATAATCAAAT
1 ATAATTTTGGCATGAATAAAAACACCAAAGCAATTCACGCACATACATGTATTCATAATCAAAT
96312479 A
1 A
96312480 GAAAAACTTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 65 1.00
ACGTcount: A:0.46, C:0.19, G:0.09, T:0.26
Consensus pattern (64 bp):
ATAATTTTGGCATGAATAAAAACACCAAAGCAATTCACGCACATACATGTATTCATAATCAAAT
Found at i:96313792 original size:22 final size:22
Alignment explanation
Indices: 96313744--96313793 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
96313734 AAGTCCATAA
*
96313744 AATTAAAAAAGAAAAATGAATC
1 AATTCAAAAAGAAAAATGAATC
*
96313766 AATTCAAAAATAATAAA-GAATC
1 AATTCAAAAAGAA-AAATGAATC
96313788 AATTCA
1 AATTCA
96313794 TTCTCAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 22 0.88
23 3 0.12
ACGTcount: A:0.64, C:0.08, G:0.06, T:0.22
Consensus pattern (22 bp):
AATTCAAAAAGAAAAATGAATC
Found at i:96316140 original size:31 final size:31
Alignment explanation
Indices: 96316095--96316180 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
96316085 AACCCTTCAT
* *
96316095 GCATTAAATCCAACCAAAAACAACAAATATA
1 GCATAAAATACAACCAAAAACAACAAATATA
* * * *
96316126 GCATGAAATGCAACCAAAAACAGCAAATTTA
1 GCATAAAATACAACCAAAAACAACAAATATA
*
96316157 ACATAAAAAATACAACCAAAAACA
1 GCAT--AAAATACAACCAAAAACA
96316181 TTAAATCTAA
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
31 30 0.65
33 16 0.35
ACGTcount: A:0.59, C:0.21, G:0.06, T:0.14
Consensus pattern (31 bp):
GCATAAAATACAACCAAAAACAACAAATATA
Found at i:96316433 original size:21 final size:21
Alignment explanation
Indices: 96316409--96316479 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
96316399 TCTATTGCCA
* *
96316409 TCGCTGCTGCCTCTGCCTCTC
1 TCGCTGCTGTCGCTGCCTCTC
* *
96316430 TCGCTGCTATCGCTGCCTCCC
1 TCGCTGCTGTCGCTGCCTCTC
* *
96316451 TTGCTGCTGTCGCTACCTCTC
1 TCGCTGCTGTCGCTGCCTCTC
*
96316472 TCTCTGCT
1 TCGCTGCT
96316480 ACTTCTGCTC
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.03, C:0.44, G:0.18, T:0.35
Consensus pattern (21 bp):
TCGCTGCTGTCGCTGCCTCTC
Found at i:96319608 original size:17 final size:17
Alignment explanation
Indices: 96319586--96319618 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
96319576 GATATGATAC
96319586 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
96319603 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
96319619 AATCCGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:96319619 original size:18 final size:17
Alignment explanation
Indices: 96319586--96319619 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
96319576 GATATGATAC
*
96319586 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
96319603 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
96319620 ATCCGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:96321099 original size:26 final size:26
Alignment explanation
Indices: 96321069--96321120 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
96321059 CACCACTGAA
*
96321069 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
96321095 TCGGGGAATCAGCACATAGCAACCCC
1 TCGGGGAATCAGCACATAGCAACCCC
96321121 CTTTCATTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.23, T:0.13
Consensus pattern (26 bp):
TCGGGGAATCAGCACATAGCAACCCC
Found at i:96321304 original size:104 final size:104
Alignment explanation
Indices: 96321037--96321399 Score: 600
Period size: 104 Copynumber: 3.6 Consensus size: 104
96321027 TAACCGTTAT
* *
96321037 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTC-GGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
96321101 AATCAGCACATAGCAACCCCCTTT--CATTTC-AA-A-A
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
96321135 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
96321199 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
*
96321238 TGGTGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
96321303 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
* **
96321342 TGGTGGATCA-CGCACATAGCACCACC-ATGAATCGGGGAATCAGCACACAGCAACCCCT
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
96321400 TTATATACAA
Statistics
Matches: 251, Mismatches: 6, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
97 27 0.11
98 58 0.23
100 6 0.02
101 2 0.01
102 1 0.00
103 62 0.25
104 94 0.37
105 1 0.00
ACGTcount: A:0.30, C:0.31, G:0.20, T:0.19
Consensus pattern (104 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
Found at i:96321756 original size:29 final size:29
Alignment explanation
Indices: 96321723--96321786 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
96321713 TAATCCACCA
96321723 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
96321752 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
96321782 CCCAA
1 CCCAA
96321787 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:96321760 original size:30 final size:30
Alignment explanation
Indices: 96321730--96321786 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
96321720 CCACCCAACT
96321730 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
96321759 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
96321787 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:96328668 original size:25 final size:25
Alignment explanation
Indices: 96328640--96328689 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
96328630 CACCACTGAA
*
96328640 TCGGGGAATCAGCACTTAGCAACCC
1 TCGGGGAATCAGCACATAGCAACCC
96328665 TCGGGGAATCAGCACATAGCAACCC
1 TCGGGGAATCAGCACATAGCAACCC
96328690 CCTTTCACAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (25 bp):
TCGGGGAATCAGCACATAGCAACCC
Found at i:96328768 original size:25 final size:25
Alignment explanation
Indices: 96328740--96328788 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
96328730 ACCAATGAAC
*
96328740 CGGGGAATCAGCACTTAGCAACCCT
1 CGGGGAATCAGCACATAGCAACCCT
96328765 CGGGGAATCAGCACATAGCAACCC
1 CGGGGAATCAGCACATAGCAACCC
96328789 CCTTTTCACA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.12
Consensus pattern (25 bp):
CGGGGAATCAGCACATAGCAACCCT
Found at i:96328871 original size:25 final size:25
Alignment explanation
Indices: 96328842--96328890 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
96328832 CACCAATGAA
*
96328842 CGGGGAATCAGCACTTAGCAACCCT
1 CGGGGAATCAGCACATAGCAACCCT
96328867 CGGGGAATCAGCACATAGCAACCC
1 CGGGGAATCAGCACATAGCAACCC
96328891 CCTTTTACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.31, C:0.33, G:0.24, T:0.12
Consensus pattern (25 bp):
CGGGGAATCAGCACATAGCAACCCT
Found at i:96328892 original size:102 final size:103
Alignment explanation
Indices: 96328608--96328967 Score: 608
Period size: 99 Copynumber: 3.6 Consensus size: 103
96328598 TAACCGTTAT
* *
96328608 TGGTGGATCTCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCTCGGGGAA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCTCGGGGAA
96328673 TCAGCACATAGCAACCCCC-TTTCACATTTCAAAGATA
66 TCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
*
96328710 ---TGGATATCGCACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCTCGGGGAA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCTCGGGGAA
96328772 TCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
66 TCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
96328810 TGGTGGATATCGCACTTAGCACCACCAATGAA-CGGGGAATCAGCACTTAGCAACCCTCGGGGAA
1 TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCTCGGGGAA
96328874 TCAGCACATAGCAACCCCCTTTT-ACATTTCAAAGATA
66 TCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
* **
96328911 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCC
1 TGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCC
96328968 CTTTATATAC
Statistics
Matches: 246, Mismatches: 6, Indels: 12
0.93 0.02 0.05
Matches are distributed among these distances:
99 78 0.32
100 18 0.07
101 43 0.17
102 78 0.32
103 29 0.12
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (103 bp):
TGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCTCGGGGAA
TCAGCACATAGCAACCCCCTTTTCACATTTCAAAGATA
Found at i:96329330 original size:29 final size:30
Alignment explanation
Indices: 96329296--96329359 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
96329286 TAATCCACCA
*
96329296 CCCAAATTTTTG-AAAATTACAATTTTGCC
1 CCCAAACTTTTGCAAAATTACAATTTTGCC
* * *
96329325 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCCAAACTTTTGCAAAATTACAATTTTGCC
96329355 CCCAA
1 CCCAA
96329360 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 11 0.37
30 19 0.63
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (30 bp):
CCCAAACTTTTGCAAAATTACAATTTTGCC
Found at i:96330257 original size:22 final size:21
Alignment explanation
Indices: 96330222--96330303 Score: 66
Period size: 22 Copynumber: 4.0 Consensus size: 21
96330212 AAAAGGTATC
* *
96330222 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
96330243 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
96330266 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
96330285 TGC-AATCATAT-T-TAAGAT
1 TACAAATCATATCTCTAAGAT
96330303 T
1 T
96330304 GTATCATATC
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
18 13 0.25
19 12 0.23
21 3 0.06
22 15 0.28
23 10 0.19
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:96330312 original size:35 final size:37
Alignment explanation
Indices: 96330251--96330348 Score: 141
Period size: 35 Copynumber: 2.7 Consensus size: 37
96330241 ATTACAAAAT
96330251 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
*
96330287 CA-ATCATATTTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
96330322 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
96330349 TGAAGATTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
35 22 0.40
36 18 0.33
37 9 0.16
38 6 0.11
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.39
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:96330356 original size:17 final size:19
Alignment explanation
Indices: 96330258--96330348 Score: 152
Period size: 19 Copynumber: 4.9 Consensus size: 19
96330248 AATCATATCT
96330258 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
96330277 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
*
96330295 TTTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
96330312 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
96330331 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
96330349 TGAAGATTAT
Statistics
Matches: 67, Mismatches: 2, Indels: 6
0.89 0.03 0.08
Matches are distributed among these distances:
17 15 0.22
18 15 0.22
19 37 0.55
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:96330684 original size:14 final size:14
Alignment explanation
Indices: 96330662--96330695 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
96330652 TTAGTATACA
96330662 ATATAATTTTACATC
1 ATAT-ATTTTACATC
*
96330677 ATATATTTTACTTC
1 ATATATTTTACATC
96330691 ATATA
1 ATATA
96330696 ATTATTATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (14 bp):
ATATATTTTACATC
Found at i:96332326 original size:37 final size:36
Alignment explanation
Indices: 96332272--96332380 Score: 119
Period size: 37 Copynumber: 2.9 Consensus size: 36
96332262 CTATGTAGTA
*
96332272 GATGCACGGGGCGAAGGCGATGGAGGAGATGGGTTAC
1 GATGCAC-GGGCAAAGGCGATGGAGGAGATGGGTTAC
* * *
96332309 GATGCACAGGGCAAAGGCGATGGAGGGGATGGTTTGC
1 GATGCAC-GGGCAAAGGCGATGGAGGAGATGGGTTAC
* ** *
96332346 GATGCACGGGGAGAAGGCGACAGAGTAGATGGGTT
1 GATGCACGGGCA-AAGGCGATGGAGGAGATGGGTT
96332381 GTAATGCACG
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
36 4 0.07
37 56 0.93
ACGTcount: A:0.26, C:0.13, G:0.47, T:0.15
Consensus pattern (36 bp):
GATGCACGGGCAAAGGCGATGGAGGAGATGGGTTAC
Found at i:96333346 original size:7 final size:7
Alignment explanation
Indices: 96333264--96333346 Score: 69
Period size: 7 Copynumber: 11.9 Consensus size: 7
96333254 AAAAATATAG
96333264 CCTAAAC
1 CCTAAAC
*
96333271 CCGAAAC
1 CCTAAAC
96333278 CCTAAAC
1 CCTAAAC
* *
96333285 CCAAAAT
1 CCTAAAC
*
96333292 CATAAAC
1 CCTAAAC
*
96333299 ACTAAAC
1 CCTAAAC
* *
96333306 CATGAAC
1 CCTAAAC
96333313 ACC-AAAC
1 -CCTAAAC
96333320 CCTAAAC
1 CCTAAAC
96333327 CCTAAAC
1 CCTAAAC
**
96333334 TTTAAAC
1 CCTAAAC
96333341 CCTAAA
1 CCTAAA
96333347 ATCATATATA
Statistics
Matches: 56, Mismatches: 18, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
6 2 0.04
7 53 0.95
8 1 0.02
ACGTcount: A:0.48, C:0.35, G:0.02, T:0.14
Consensus pattern (7 bp):
CCTAAAC
Found at i:96333822 original size:15 final size:15
Alignment explanation
Indices: 96333802--96333859 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
96333792 ATATTAATAT
*
96333802 TAAAACCCTAAACCC
1 TAAAACACTAAACCC
*
96333817 TAAAACAATAAACCC
1 TAAAACACTAAACCC
* * *
96333832 CAAAACTC-AAACAC
1 TAAAACACTAAACCC
96333846 TAAAACA-TAAACCC
1 TAAAACACTAAACCC
96333860 ATACCCCAAA
Statistics
Matches: 33, Mismatches: 9, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
14 15 0.45
15 18 0.55
ACGTcount: A:0.55, C:0.33, G:0.00, T:0.12
Consensus pattern (15 bp):
TAAAACACTAAACCC
Found at i:96334084 original size:39 final size:39
Alignment explanation
Indices: 96333966--96334085 Score: 100
Period size: 39 Copynumber: 3.0 Consensus size: 39
96333956 ATATATTTTT
* ** * * *
96333966 TTGCGGCGTTTTTACAAAAAACGCCACTAATTATTAACATT
1 TTGCGGCG-TTTTACAACAAACGCCACTAA-TCCTGATATA
* *
96334007 TTGCGGCGTTTTACAACAAACGCCGCTAATTCTGATATA
1 TTGCGGCGTTTTACAACAAACGCCACTAATCCTGATATA
* *
96334046 TTGCGGTGTTTTATATA-AAACGCCACTAATGCCT-ATATA
1 TTGCGGCGTTTTACA-ACAAACGCCACTAAT-CCTGATATA
96334085 T
1 T
96334086 AGCTCAACAA
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
39 36 0.55
40 22 0.33
41 8 0.12
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.34
Consensus pattern (39 bp):
TTGCGGCGTTTTACAACAAACGCCACTAATCCTGATATA
Found at i:96334619 original size:11 final size:11
Alignment explanation
Indices: 96334603--96334627 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
96334593 TTTTTTATCC
96334603 AAACGCCGCTA
1 AAACGCCGCTA
96334614 AAACGCCGCTA
1 AAACGCCGCTA
96334625 AAA
1 AAA
96334628 GTTTGTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.32, G:0.16, T:0.08
Consensus pattern (11 bp):
AAACGCCGCTA
Found at i:96336262 original size:9 final size:9
Alignment explanation
Indices: 96336248--96336273 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
96336238 CCAACAGTTA
96336248 CAAGTATTG
1 CAAGTATTG
96336257 CAAGTATTG
1 CAAGTATTG
96336266 CAAGTATT
1 CAAGTATT
96336274 AGCATATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (9 bp):
CAAGTATTG
Found at i:96336768 original size:69 final size:68
Alignment explanation
Indices: 96336688--96336847 Score: 198
Period size: 69 Copynumber: 2.3 Consensus size: 68
96336678 TCTTCCCTGC
* * * * *
96336688 TTTCATAAAAAAGTTAATTTTAATCCCAT-ATTGACTAGAGAATACTCACATAGTTCACTTCTTT
1 TTTCATTAAAAA-TTAATTTTAAT-CCATCATTGACCAAAGAATACTCACATAGCTCAATTCTTT
*
96336752 ACTAT
64 ACTAA
* **
96336757 TTTCATTAAAAATTTAATTTTAATCCTTCATTGACCAAAGAATACTCTTATAGCTCAATTCTTTA
1 TTTCATTAAAAA-TTAATTTTAATCCATCATTGACCAAAGAATACTCACATAGCTCAATTCTTTA
96336822 CTAA
65 CTAA
96336826 TTTCATTAAAAA-TAATTTTAAT
1 TTTCATTAAAAATTAATTTTAAT
96336848 ACTTTAAAAG
Statistics
Matches: 80, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
67 10 0.12
68 3 0.04
69 67 0.84
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.42
Consensus pattern (68 bp):
TTTCATTAAAAATTAATTTTAATCCATCATTGACCAAAGAATACTCACATAGCTCAATTCTTTAC
TAA
Found at i:96339056 original size:16 final size:15
Alignment explanation
Indices: 96339035--96339064 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
96339025 TAAAAAATGC
96339035 GATATGAATACAATAT
1 GATATGAATA-AATAT
96339051 GATATGAATAAATA
1 GATATGAATAAATA
96339065 AACATATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.03, G:0.13, T:0.30
Consensus pattern (15 bp):
GATATGAATAAATAT
Found at i:96344381 original size:41 final size:41
Alignment explanation
Indices: 96344335--96344416 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
96344325 TGCATTAGGC
96344335 TTAAGTTTAAGTTTTAAACATTAAAAAGCTAAATTTTTCTT
1 TTAAGTTTAAGTTTTAAACATTAAAAAGCTAAATTTTTCTT
96344376 TTAAGTTTAAGTTTTAAACATTAAAAAGCTAAATTTTTCTT
1 TTAAGTTTAAGTTTTAAACATTAAAAAGCTAAATTTTTCTT
96344417 ATCTCCCACT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (41 bp):
TTAAGTTTAAGTTTTAAACATTAAAAAGCTAAATTTTTCTT
Found at i:96348160 original size:27 final size:26
Alignment explanation
Indices: 96348130--96348308 Score: 207
Period size: 27 Copynumber: 6.7 Consensus size: 26
96348120 TTAGTTTACC
*
96348130 AAATCACCAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACC-CTGGTTTGTA
**
96348157 AAATTACCAAAATACCCTTATTT-TACA
1 AAATTACCAAAATACCCTGGTTTGT--A
*
96348184 AAATTACCAAAATACCCCTGGTTTATA
1 AAATTACCAAAATA-CCCTGGTTTGTA
96348211 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCC-TGGTTTGTA
*
96348238 AAATTACCAAAATACCCCTGGTCTGTA
1 AAATTACCAAAATA-CCCTGGTTTGTA
* *
96348265 AAATTATCAAAATACCACTGGTTTGTG
1 AAATTACCAAAATACC-CTGGTTTGTA
* *
96348292 AAATTATCGAAATACCC
1 AAATTACCAAAATACCC
96348309 CCGTAGGGTA
Statistics
Matches: 134, Mismatches: 11, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
25 1 0.01
26 11 0.08
27 111 0.83
28 10 0.07
29 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (26 bp):
AAATTACCAAAATACCCTGGTTTGTA
Found at i:96348195 original size:54 final size:54
Alignment explanation
Indices: 96348120--96348280 Score: 232
Period size: 54 Copynumber: 3.0 Consensus size: 54
96348110 TTAGAATACT
* * *
96348120 TTAGTTTACCAAATCACCAAAATACCTCTGGTTTGTAAAATTACCAAAATACCC
1 TTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
* *
96348174 TTATTTTACAAAATTACCAAAATACCCCTGGTTTATAAAATTACCAAAATACCC
1 TTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
* ** * *
96348228 TTGGTTTGTAAAATTACCAAAATACCCCTGGTCTGTAAAATTATCAAAATACC
1 TTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACC
96348281 ACTGGTTTGT
Statistics
Matches: 95, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 95 1.00
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (54 bp):
TTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
Found at i:96348323 original size:27 final size:27
Alignment explanation
Indices: 96348293--96348433 Score: 221
Period size: 27 Copynumber: 5.2 Consensus size: 27
96348283 TGGTTTGTGA
* *
96348293 AATTATCGAAATACCCCCGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
96348320 AATTA-CTAAACTACCCCTGTAGGGTAG
1 AATTACCGAAA-TACCCCTGTAGGGTAG
**
96348347 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
96348374 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
96348401 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
96348428 AATTAC
1 AATTAC
96348434 TAAGATACCT
Statistics
Matches: 106, Mismatches: 6, Indels: 4
0.91 0.05 0.03
Matches are distributed among these distances:
26 4 0.04
27 99 0.93
28 3 0.03
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:96348324 original size:81 final size:82
Alignment explanation
Indices: 96348239--96348432 Score: 200
Period size: 81 Copynumber: 2.4 Consensus size: 82
96348229 TGGTTTGTAA
* ** *
96348239 AATTACCAAAATACCCCTGGT-CTGTAAAATTATCAAAATACCACTGGT-TTGT-GAAATTATCG
1 AATTACCAAAATACCCCTGGTACGGTAAAATTATCAAAATACCACT-GTAGGGTAG-AATTACCG
96348301 AAATACCCCCGTAGGGTAG
64 AAATACCCCCGTAGGGTAG
* * * * ** *
96348320 AATTACTAAACTACCCCT-GTAGGGTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCGAA
1 AATTACCAAAATACCCCTGGTACGGTAAAATTATCAAAATACCACTGTAGGGTAGAATTACCGAA
*
96348384 ATACCCCTGTAGGGTAG
66 ATACCCCCGTAGGGTAG
* * *
96348401 AATTACCGAAATACCCCT-GTAGGGTAGAATTA
1 AATTACCAAAATACCCCTGGTACGGTAAAATTA
96348433 CTAAGATACC
Statistics
Matches: 95, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
80 4 0.04
81 90 0.95
82 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (82 bp):
AATTACCAAAATACCCCTGGTACGGTAAAATTATCAAAATACCACTGTAGGGTAGAATTACCGAA
ATACCCCCGTAGGGTAG
Found at i:96348797 original size:5 final size:5
Alignment explanation
Indices: 96348787--96348814 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
96348777 AATAATTAAG
96348787 TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TAT
96348815 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:96350393 original size:21 final size:23
Alignment explanation
Indices: 96350349--96350393 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
96350339 CAATATTCCG
*
96350349 GGTGTGTTTGGGTTGGATATTCT
1 GGTGTGTTTGGGTTGGATAATCT
96350372 GGTGTGTTTGGG-TGGA-AATCT
1 GGTGTGTTTGGGTTGGATAATCT
96350393 G
1 G
96350394 CGTATCTGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.24
22 4 0.19
23 12 0.57
ACGTcount: A:0.11, C:0.04, G:0.42, T:0.42
Consensus pattern (23 bp):
GGTGTGTTTGGGTTGGATAATCT
Found at i:96351667 original size:22 final size:22
Alignment explanation
Indices: 96351615--96351668 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
96351605 TTAAAGCCTT
* * *
96351615 CTGATTATGGCTTTGTGTCAAC
1 CTGATTATGGCTCTATGCCAAC
*
96351637 CT-ACATATGGCTCTATGCCAAC
1 CTGA-TTATGGCTCTATGCCAAC
96351659 CTGATTATGG
1 CTGATTATGG
96351669 TTGTGTGCCA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 1 0.04
22 23 0.92
23 1 0.04
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.35
Consensus pattern (22 bp):
CTGATTATGGCTCTATGCCAAC
Found at i:96351933 original size:54 final size:53
Alignment explanation
Indices: 96351838--96351939 Score: 123
Period size: 54 Copynumber: 1.9 Consensus size: 53
96351828 ATTCTGTTAA
* * * **
96351838 GTGGCTTTGCCACATTATCTATTTCTGGTGGTTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAGTATCTATATCTGGTGACTATGCCAC-AATATCTGTTCTG
* * *
96351892 GTGGCTCTGCCACAGTATCTGTATCTGGTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAGTATCTATATCTGGTGACTATGCCACAATATCTG
96351940 ATAACTGAGC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 8 0.20
54 32 0.80
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.37
Consensus pattern (53 bp):
GTGGCTCTGCCACAGTATCTATATCTGGTGACTATGCCACAATATCTGTTCTG
Found at i:96351939 original size:27 final size:26
Alignment explanation
Indices: 96351845--96351939 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 26
96351835 TAAGTGGCTT
* * ** *
96351845 TGCCACATTATCTATTTCTGGTGGTTA
1 TGCCACAATATCT-GTTCTGGTGACTC
*
96351872 TGCCACAAATATCTGTTCTGGTGGCTC
1 TGCCAC-AATATCTGTTCTGGTGACTC
*
96351899 TGCCACAGTATCTGTATCTGGTGACTC
1 TGCCACAATATCTGT-TCTGGTGACTC
*
96351926 TGTCACAATATCTG
1 TGCCACAATATCTG
96351940 ATAACTGAGC
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
26 8 0.14
27 44 0.76
28 6 0.10
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.37
Consensus pattern (26 bp):
TGCCACAATATCTGTTCTGGTGACTC
Found at i:96352114 original size:6 final size:6
Alignment explanation
Indices: 96352099--96352193 Score: 79
Period size: 6 Copynumber: 15.8 Consensus size: 6
96352089 ATTCTGTTAC
* * *
96352099 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * * *
96352148 CTGATT GTCA-C CTAATT CTGATT CTGATT CTGATT CT-AGTT CTGAT
1 CTGATT CTGATT CTGATT CTGATT CTGATT CTGATT CTGA-TT CTGAT
96352194 AATGTTTCTT
Statistics
Matches: 71, Mismatches: 12, Indels: 12
0.75 0.13 0.13
Matches are distributed among these distances:
5 5 0.07
6 61 0.86
7 4 0.06
8 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.46
Consensus pattern (6 bp):
CTGATT
Found at i:96352127 original size:31 final size:31
Alignment explanation
Indices: 96352089--96352209 Score: 142
Period size: 31 Copynumber: 4.0 Consensus size: 31
96352079 CTAATTTTTT
*
96352089 ATTCTGTTACCTGATACTGATTCTGATTTTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
96352120 ATTCTGTTACCTGATACTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* * *
96352151 A-T-TGTCACCTAATTCTGATTCTGATTCTG
1 ATTCTGTTACCTGATACTGATTCTGATTCTG
* * *
96352180 ATTCTAGTT--CTGATAATGTTTCTTATTCTG
1 ATTCT-GTTACCTGATACTGATTCTGATTCTG
96352210 TAATGGGTTA
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
29 25 0.32
30 18 0.23
31 32 0.42
32 2 0.03
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (31 bp):
ATTCTGTTACCTGATACTGATTCTGATTCTG
Found at i:96352170 original size:29 final size:29
Alignment explanation
Indices: 96352097--96352182 Score: 109
Period size: 29 Copynumber: 2.9 Consensus size: 29
96352087 TTATTCTGTT
* * *
96352097 ACCTGATACTGATTCTGATTTTGATTCTGTT
1 ACCTAATACTGATTCTGATTCTGA-T-TGTC
*
96352128 ACCTGATACTGATTCTGATTCTGATTGTC
1 ACCTAATACTGATTCTGATTCTGATTGTC
*
96352157 ACCTAATTCTGATTCTGATTCTGATT
1 ACCTAATACTGATTCTGATTCTGATT
96352183 CTAGTTCTGA
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 27 0.53
30 1 0.02
31 23 0.45
ACGTcount: A:0.21, C:0.19, G:0.15, T:0.45
Consensus pattern (29 bp):
ACCTAATACTGATTCTGATTCTGATTGTC
Done.