Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D04
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: 56598092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1600000 characters in sequence are not A, C, G, or T
File 77 of 185
Found at i:23620654 original size:20 final size:20
Alignment explanation
Indices: 23620631--23620684 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
23620621 AGTTTTTCCC
*
23620631 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
23620651 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
23620671 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
23620685 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:23620666 original size:30 final size:30
Alignment explanation
Indices: 23620631--23620704 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
23620621 AGTTTTTCCC
23620631 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
23620661 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
23620691 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
23620705 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:23620694 original size:20 final size:20
Alignment explanation
Indices: 23620631--23620695 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
23620621 AGTTTTTCCC
* * * *
23620631 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
23620651 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
23620670 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
23620691 AGCTC
1 AGCTC
23620696 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:23623874 original size:13 final size:12
Alignment explanation
Indices: 23623856--23623927 Score: 63
Period size: 12 Copynumber: 5.5 Consensus size: 12
23623846 TTGGAGTAAC
23623856 AAAAAAAATCAA
1 AAAAAAAATCAA
23623868 AAAAAAAATCGAA
1 AAAAAAAATC-AA
*
23623881 AAAAAAAATTGATTGA
1 AAAAAAAA-TCA---A
23623897 AAAAAAAATTCAA
1 AAAAAAAA-TCAA
* *
23623910 AAAAAAAGTGAA
1 AAAAAAAATCAA
23623922 AAAAAA
1 AAAAAA
23623928 TCGAGCAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
12 19 0.37
13 19 0.37
14 1 0.02
16 12 0.24
ACGTcount: A:0.76, C:0.04, G:0.07, T:0.12
Consensus pattern (12 bp):
AAAAAAAATCAA
Found at i:23623942 original size:17 final size:17
Alignment explanation
Indices: 23623920--23623959 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
23623910 AAAAAAAGTG
23623920 AAAAAAA-ATCGAGCAAA
1 AAAAAAAGAT-GAGCAAA
*
23623937 AAAAAAAGGTGAGCAAA
1 AAAAAAAGATGAGCAAA
23623954 AAAAAA
1 AAAAAA
23623960 TCAAGTTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 20 0.95
18 1 0.05
ACGTcount: A:0.72, C:0.07, G:0.15, T:0.05
Consensus pattern (17 bp):
AAAAAAAGATGAGCAAA
Found at i:23624908 original size:15 final size:16
Alignment explanation
Indices: 23624888--23624919 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
23624878 AGAAAATGAA
23624888 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
23624903 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
23624919 A
1 A
23624920 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:23625034 original size:17 final size:18
Alignment explanation
Indices: 23625002--23625035 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
23624992 AAAAGAGAGT
*
23625002 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
23625020 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
23625036 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:23626324 original size:20 final size:20
Alignment explanation
Indices: 23626301--23626354 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
23626291 AGTTTTTCCC
*
23626301 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
23626321 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
23626341 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
23626355 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:23626336 original size:30 final size:30
Alignment explanation
Indices: 23626301--23626374 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
23626291 AGTTTTTCCC
23626301 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
23626331 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
23626361 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
23626375 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:23626364 original size:20 final size:20
Alignment explanation
Indices: 23626301--23626365 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
23626291 AGTTTTTCCC
* * * *
23626301 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
23626321 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
23626340 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
23626361 AGCTC
1 AGCTC
23626366 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:23628383 original size:15 final size:16
Alignment explanation
Indices: 23628344--23628384 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
23628334 AACAACACTC
23628344 CTTTCTTTTTCACTTT
1 CTTTCTTTTTCACTTT
* *
23628360 C-ATCCTTTTCA-TTT
1 CTTTCTTTTTCACTTT
23628374 CTTTCTTTTTC
1 CTTTCTTTTTC
23628385 CAACTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
14 4 0.20
15 15 0.75
16 1 0.05
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (16 bp):
CTTTCTTTTTCACTTT
Found at i:23628579 original size:17 final size:15
Alignment explanation
Indices: 23628542--23628580 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
23628532 TATCTCCCAC
23628542 TCATCTTCTTTTTCTT
1 TCAT-TTCTTTTTCTT
23628558 TCATTTCTTTTTCATGT
1 TCATTTCTTTTTC-T-T
23628575 TCATTT
1 TCATTT
23628581 TCTCGTTCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.10, C:0.21, G:0.03, T:0.67
Consensus pattern (15 bp):
TCATTTCTTTTTCTT
Found at i:23629471 original size:24 final size:27
Alignment explanation
Indices: 23629435--23629494 Score: 81
Period size: 26 Copynumber: 2.3 Consensus size: 27
23629425 AATCACTCTT
*
23629435 TTTTTTTTCAATTTCG-A-TTTTTTTC
1 TTTTTTTTCAATTCCGAATTTTTTTTC
23629460 TTTTTTTT-AATTCCGAATTTTTTTTC
1 TTTTTTTTCAATTCCGAATTTTTTTTC
23629486 TTCTTTTTT
1 TT-TTTTTT
23629495 TTTCTTCAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
24 6 0.19
25 9 0.29
26 10 0.32
27 6 0.19
ACGTcount: A:0.12, C:0.12, G:0.03, T:0.73
Consensus pattern (27 bp):
TTTTTTTTCAATTCCGAATTTTTTTTC
Found at i:23629493 original size:13 final size:13
Alignment explanation
Indices: 23629477--23629501 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23629467 TAATTCCGAA
23629477 TTTTTTTTCTTCT
1 TTTTTTTTCTTCT
23629490 TTTTTTTTCTTC
1 TTTTTTTTCTTC
23629502 AATACTAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTTTCTTCT
Found at i:23629559 original size:12 final size:12
Alignment explanation
Indices: 23629542--23629594 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
23629532 GAATACAAAC
23629542 TTTTTTTTGAAT
1 TTTTTTTTGAAT
*
23629554 TTTTTTTCGAAT
1 TTTTTTTTGAAT
* *
23629566 TCTTTTTTCAAGT
1 TTTTTTTTGAA-T
23629579 TTTTTTTT--AT
1 TTTTTTTTGAAT
23629589 TTTTTT
1 TTTTTT
23629595 ATCATACCGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
10 7 0.20
11 1 0.03
12 19 0.54
13 8 0.23
ACGTcount: A:0.13, C:0.06, G:0.06, T:0.75
Consensus pattern (12 bp):
TTTTTTTTGAAT
Found at i:23632467 original size:56 final size:55
Alignment explanation
Indices: 23632351--23632468 Score: 150
Period size: 55 Copynumber: 2.1 Consensus size: 55
23632341 TGCATGCTTT
* * * *
23632351 CATT-AATGCCGTCCATGCATGGTGAATATCCCATTTAATTCATGTTTTGCTTCC
1 CATTAAATGCCGTCCATACATGGTGAACATCCCATTTAATTCATGTTTTGCTGCA
* *
23632405 CTTTAAATGCCGTTCCATACATGG-GAACATCTCATTTAATTCATGTCTTTGCTGCA
1 CATTAAATGCCG-TCCATACATGGTGAACATCCCATTTAATTCATGT-TTTGCTGCA
23632461 CATTAAAT
1 CATTAAAT
23632469 CAGCAAGCAG
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 3 0.06
55 27 0.50
56 24 0.44
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (55 bp):
CATTAAATGCCGTCCATACATGGTGAACATCCCATTTAATTCATGTTTTGCTGCA
Found at i:23636706 original size:22 final size:22
Alignment explanation
Indices: 23636655--23636720 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
23636645 GGTATTTGGG
* *
23636655 AATTGGTTCGAAATAGTATGG-
1 AATTGGTACGAAATGGTATGGT
23636676 AATTGGTACGAAATGGTATGGT
1 AATTGGTACGAAATGGTATGGT
* *
23636698 ATTTGGTACGAATTGGTAATGGT
1 AATTGGTACGAAATGGT-ATGGT
23636721 TCAAAGAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 19 0.49
22 15 0.38
23 5 0.13
ACGTcount: A:0.30, C:0.05, G:0.30, T:0.35
Consensus pattern (22 bp):
AATTGGTACGAAATGGTATGGT
Found at i:23643982 original size:20 final size:20
Alignment explanation
Indices: 23643959--23643997 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23643949 AAGCTCAAAC
23643959 AAGCTAAAGTAAGCTAAATT
1 AAGCTAAAGTAAGCTAAATT
* * *
23643979 AAGCTCATGTGAGCTAAAT
1 AAGCTAAAGTAAGCTAAAT
23643998 CGAGCTGAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.26
Consensus pattern (20 bp):
AAGCTAAAGTAAGCTAAATT
Found at i:23645815 original size:33 final size:33
Alignment explanation
Indices: 23645777--23645839 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
23645767 GATTACTCAC
23645777 TTCACTCG-TTTCTTTT-ATAGACTCTCTTTCTTT
1 TTCACTCGATTTCTTTTCA-AG-CTCTCTTTCTTT
*
23645810 TTCACTTGATTTCTTTTCAAGCTCTCTTTC
1 TTCACTCGATTTCTTTTCAAGCTCTCTTTC
23645840 AATTTCTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.13, C:0.25, G:0.06, T:0.56
Consensus pattern (33 bp):
TTCACTCGATTTCTTTTCAAGCTCTCTTTCTTT
Found at i:23645866 original size:21 final size:21
Alignment explanation
Indices: 23645837--23645892 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
23645827 CAAGCTCTCT
*
23645837 TTCAATTTCTTTTTTCGCTTT-
1 TTCATTTTCTTTTTTC-CTTTC
* ** *
23645858 TTCTTTTTCAATTTTCTTTTC
1 TTCATTTTCTTTTTTCCTTTC
23645879 TTCATTTTCTTTTT
1 TTCATTTTCTTTTT
23645893 CTCTCACTTT
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
20 3 0.12
21 23 0.88
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.71
Consensus pattern (21 bp):
TTCATTTTCTTTTTTCCTTTC
Found at i:23645885 original size:14 final size:14
Alignment explanation
Indices: 23645836--23645892 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
23645826 TCAAGCTCTC
23645836 TTTCAA-TTTCTTT
1 TTTCAATTTTCTTT
**
23645849 TTTCGCTTTT-TCTT
1 TTTCAATTTTCT-TT
23645863 TTTCAATTTTCTTT
1 TTTCAATTTTCTTT
23645877 TCTTC-ATTTTCTTT
1 T-TTCAATTTTCTTT
23645891 TT
1 TT
23645893 CTCTCACTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 6 0.17
14 26 0.72
15 4 0.11
ACGTcount: A:0.09, C:0.18, G:0.02, T:0.72
Consensus pattern (14 bp):
TTTCAATTTTCTTT
Found at i:23645952 original size:18 final size:18
Alignment explanation
Indices: 23645854--23645957 Score: 84
Period size: 18 Copynumber: 5.6 Consensus size: 18
23645844 TCTTTTTTCG
23645854 CTTTTTCTTTTTCAATTTT
1 CTTTTTCTTTTTC-ATTTT
* *
23645873 CTTTTCTTCATTTTCTTTTT
1 C-TTT-TTCTTTTTCATTTT
* **
23645893 CTCTCACTTTTTCGA-TTT
1 CTTTTTCTTTTTC-ATTTT
* *
23645911 CTTTTTCTTTTGCAATTT
1 CTTTTTCTTTTTCATTTT
*
23645929 CTTTTTCTTTTTCGTTTT
1 CTTTTTCTTTTTCATTTT
*
23645947 CTTTTTGTTTT
1 CTTTTTCTTTT
23645958 CTTTCAATTT
Statistics
Matches: 66, Mismatches: 15, Indels: 9
0.73 0.17 0.10
Matches are distributed among these distances:
17 1 0.02
18 46 0.70
19 3 0.05
20 8 0.12
21 8 0.12
ACGTcount: A:0.07, C:0.18, G:0.04, T:0.71
Consensus pattern (18 bp):
CTTTTTCTTTTTCATTTT
Found at i:23645974 original size:6 final size:6
Alignment explanation
Indices: 23645854--23645961 Score: 74
Period size: 6 Copynumber: 17.7 Consensus size: 6
23645844 TCTTTTTTCG
* * * **
23645854 CTTTTT CTTTTT CAATTTT CTTTTCTT CATTTT CTTTTT CTCTCA CTTTTT
1 CTTTTT CTTTTT C-TTTTT C-TTT-TT CTTTTT CTTTTT CTTTTT CTTTTT
** * ** *
23645905 CGATTT CTTTTT CTTTTG CAATTT CTTTTT CTTTTT CGTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
*
23645953 -GTTTT CTTT
1 CTTTTT CTTT
23645962 CAATTTCTTT
Statistics
Matches: 74, Mismatches: 25, Indels: 6
0.70 0.24 0.06
Matches are distributed among these distances:
5 4 0.05
6 58 0.78
7 9 0.12
8 3 0.04
ACGTcount: A:0.06, C:0.19, G:0.04, T:0.71
Consensus pattern (6 bp):
CTTTTT
Found at i:23647025 original size:26 final size:25
Alignment explanation
Indices: 23646995--23647056 Score: 83
Period size: 25 Copynumber: 2.4 Consensus size: 25
23646985 TTTAAACTTG
23646995 ATTTTTTTTTGCTC-ACCTTTTTTTTC
1 ATTTTTTTTTGCTCGA--TTTTTTTTC
23647021 -TTTTTTTTTGCTCGATTTTTTTTC
1 ATTTTTTTTTGCTCGATTTTTTTTC
23647045 ACTTTTTTTTTG
1 A-TTTTTTTTTG
23647057 AATTTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
24 9 0.27
25 13 0.39
26 11 0.33
ACGTcount: A:0.06, C:0.15, G:0.06, T:0.73
Consensus pattern (25 bp):
ATTTTTTTTTGCTCGATTTTTTTTC
Found at i:23648611 original size:20 final size:20
Alignment explanation
Indices: 23648588--23648626 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
23648578 AAGCTCAAAC
23648588 AAGCTAAAGTAAGCTAAATT
1 AAGCTAAAGTAAGCTAAATT
* * *
23648608 AAGCTCATGTGAGCTAAAT
1 AAGCTAAAGTAAGCTAAAT
23648627 CGAGCTGAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.13, G:0.18, T:0.26
Consensus pattern (20 bp):
AAGCTAAAGTAAGCTAAATT
Found at i:23649180 original size:23 final size:22
Alignment explanation
Indices: 23649128--23649180 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
23649118 TCCACGTCTT
*
23649128 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
23649150 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
23649173 TTTCTTTT
1 TTTCTTTT
23649181 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:23656980 original size:13 final size:13
Alignment explanation
Indices: 23656962--23657007 Score: 76
Period size: 13 Copynumber: 3.6 Consensus size: 13
23656952 ACGAGATTGT
23656962 AAAAAAAATTTCA
1 AAAAAAAATTTCA
*
23656975 AAAAAAAATTTGA
1 AAAAAAAATTTCA
23656988 AAAAAAAA-TTCA
1 AAAAAAAATTTCA
23657000 AAAAAAAA
1 AAAAAAAA
23657008 CAAAAAAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
12 11 0.35
13 20 0.65
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.17
Consensus pattern (13 bp):
AAAAAAAATTTCA
Found at i:23657007 original size:12 final size:12
Alignment explanation
Indices: 23656962--23657015 Score: 67
Period size: 12 Copynumber: 4.6 Consensus size: 12
23656952 ACGAGATTGT
*
23656962 AAAAAAAATTTC
1 AAAAAAAAATTC
*
23656974 AAAAAAAAATTTG
1 AAAAAAAAA-TTC
23656987 AAAAAAAAATTC
1 AAAAAAAAATTC
23656999 AAAAAAAAA--C
1 AAAAAAAAATTC
23657009 AAAAAAA
1 AAAAAAA
23657016 GTTTGTATTC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
10 8 0.21
12 19 0.50
13 11 0.29
ACGTcount: A:0.78, C:0.06, G:0.02, T:0.15
Consensus pattern (12 bp):
AAAAAAAAATTC
Found at i:23659128 original size:13 final size:14
Alignment explanation
Indices: 23659102--23659155 Score: 56
Period size: 15 Copynumber: 3.8 Consensus size: 14
23659092 TCTATTGAGC
23659102 GAGAAAAAGAAAAA
1 GAGAAAAAGAAAAA
*
23659116 GAGAAAAA-CAAAA
1 GAGAAAAAGAAAAA
*
23659129 GAGTGAAAAGAAAAA
1 GAG-AAAAAGAAAAA
*
23659144 GAAAGAAAAGAA
1 GAGA-AAAAGAA
23659156 TGAGGAGAGT
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
13 7 0.22
14 12 0.38
15 13 0.41
ACGTcount: A:0.74, C:0.02, G:0.22, T:0.02
Consensus pattern (14 bp):
GAGAAAAAGAAAAA
Found at i:23662782 original size:15 final size:16
Alignment explanation
Indices: 23662743--23662783 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 16
23662733 AACAACACTC
23662743 CTTTCTTTTTCACTTT
1 CTTTCTTTTTCACTTT
* *
23662759 C-ATCCTTTTCA-TTT
1 CTTTCTTTTTCACTTT
23662773 CTTTCTTTTTC
1 CTTTCTTTTTC
23662784 CAACTCATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 3
0.74 0.15 0.11
Matches are distributed among these distances:
14 4 0.20
15 15 0.75
16 1 0.05
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.66
Consensus pattern (16 bp):
CTTTCTTTTTCACTTT
Found at i:23662978 original size:17 final size:15
Alignment explanation
Indices: 23662941--23662979 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 15
23662931 TATCTCCCAC
23662941 TCATCTTCTTTTTCTT
1 TCAT-TTCTTTTTCTT
23662957 TCATTTCTTTTTCATGT
1 TCATTTCTTTTTC-T-T
23662974 TCATTT
1 TCATTT
23662980 TCTCGCTCGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.43
16 5 0.24
17 7 0.33
ACGTcount: A:0.10, C:0.21, G:0.03, T:0.67
Consensus pattern (15 bp):
TCATTTCTTTTTCTT
Found at i:23663100 original size:13 final size:13
Alignment explanation
Indices: 23663082--23663136 Score: 71
Period size: 12 Copynumber: 4.4 Consensus size: 13
23663072 GAATACAAAC
23663082 TTTTTTTTGAATT
1 TTTTTTTTGAATT
23663095 TTTTTTTTGAA-T
1 TTTTTTTTGAATT
*
23663107 TTTTTTTTCAAGTT
1 TTTTTTTTGAA-TT
23663121 TTTTTTTT--ATT
1 TTTTTTTTGAATT
23663132 TTTTT
1 TTTTT
23663137 ACAATACCGT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
11 7 0.18
12 12 0.31
13 11 0.28
14 9 0.23
ACGTcount: A:0.13, C:0.02, G:0.05, T:0.80
Consensus pattern (13 bp):
TTTTTTTTGAATT
Found at i:23663134 original size:12 final size:12
Alignment explanation
Indices: 23663082--23663136 Score: 67
Period size: 13 Copynumber: 4.5 Consensus size: 12
23663072 GAATACAAAC
*
23663082 TTTTTTTTGAAT
1 TTTTTTTTTAAT
23663094 TTTTTTTTTGAAT
1 TTTTTTTTT-AAT
*
23663107 TTTTTTTTCAAGT
1 TTTTTTTTTAA-T
23663120 TTTTTTTTT-AT
1 TTTTTTTTTAAT
23663131 TTTTTT
1 TTTTTT
23663137 ACAATACCGT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
11 7 0.18
12 11 0.29
13 20 0.53
ACGTcount: A:0.13, C:0.02, G:0.05, T:0.80
Consensus pattern (12 bp):
TTTTTTTTTAAT
Found at i:23664348 original size:10 final size:10
Alignment explanation
Indices: 23664332--23664389 Score: 64
Period size: 10 Copynumber: 5.7 Consensus size: 10
23664322 CAACTCCGAC
23664332 CAGCTCAATT
1 CAGCTCAATT
* *
23664342 GAGCTCATTT
1 CAGCTCAATT
23664352 CAGCTCAA-T
1 CAGCTCAATT
23664361 CGAGCTCAATT
1 C-AGCTCAATT
*
23664372 TAGCTACAATT
1 CAGCT-CAATT
23664383 CAGCTCA
1 CAGCTCA
23664390 TTTATTTTAT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
9 2 0.05
10 27 0.69
11 10 0.26
ACGTcount: A:0.29, C:0.28, G:0.14, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:23664355 original size:20 final size:20
Alignment explanation
Indices: 23664332--23664392 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
23664322 CAACTCCGAC
23664332 CAGCTCAATTGAGCTCATTT
1 CAGCTCAATTGAGCTCATTT
*
23664352 CAGCTCAATCGAGCTCAATTT
1 CAGCTCAATTGAGCTC-ATTT
*
23664373 -AGCTACAATTCAGCTCATTT
1 CAGCT-CAATTGAGCTCATTT
23664393 ATTTTATTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 23 0.64
21 13 0.36
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (20 bp):
CAGCTCAATTGAGCTCATTT
Found at i:23667033 original size:11 final size:11
Alignment explanation
Indices: 23667016--23667058 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 11
23667006 TTATACTTCG
23667016 ATTTTTTTTT-
1 ATTTTTTTTTA
*
23667026 ATTTTTTTTCA
1 ATTTTTTTTTA
23667037 ATTTTTTTTTCAA
1 ATTTTTTTTT--A
23667050 ATTTTTTTT
1 ATTTTTTTT
23667059 CGAATTTCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 9 0.32
11 9 0.32
13 10 0.36
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (11 bp):
ATTTTTTTTTA
Found at i:23667042 original size:12 final size:12
Alignment explanation
Indices: 23667016--23667065 Score: 61
Period size: 12 Copynumber: 4.3 Consensus size: 12
23667006 TTATACTTCG
23667016 ATTTTTTTTT--
1 ATTTTTTTTTCA
23667026 A-TTTTTTTTCA
1 ATTTTTTTTTCA
23667037 ATTTTTTTTTCA
1 ATTTTTTTTTCA
*
23667049 AATTTTTTTTCGA
1 ATTTTTTTTTC-A
23667062 ATTT
1 ATTT
23667066 CCTCTTCTCC
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
9 8 0.24
10 1 0.03
11 1 0.03
12 20 0.59
13 4 0.12
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.74
Consensus pattern (12 bp):
ATTTTTTTTTCA
Found at i:23667043 original size:13 final size:13
Alignment explanation
Indices: 23667027--23667058 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
23667017 TTTTTTTTTA
23667027 TTTTTTTTC-AAT
1 TTTTTTTTCAAAT
23667039 TTTTTTTTCAAAT
1 TTTTTTTTCAAAT
23667052 TTTTTTT
1 TTTTTTT
23667059 CGAATTTCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 9 0.47
13 10 0.53
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTTTTCAAAT
Found at i:23667327 original size:20 final size:20
Alignment explanation
Indices: 23667281--23667327 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
23667271 AGCTCGTTTC
*
23667281 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
23667301 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
23667321 CAGCTCA
1 CAGCTCA
23667328 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:23669205 original size:59 final size:59
Alignment explanation
Indices: 23669113--23669230 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
23669103 AAGCAAGGTG
23669113 ATAAGTTCAAAAGAGAACGATAGACGCCACTAGCACGCTAGATAAGTCAGATCGAAACT
1 ATAAGTTCAAAAGAGAACGATAGACGCCACTAGCACGCTAGATAAGTCAGATCGAAACT
23669172 ATAAGTTCAAAAGAGAACGATAGACGCCACTAGCACGCTAGATAAGTCAGATCGAAACT
1 ATAAGTTCAAAAGAGAACGATAGACGCCACTAGCACGCTAGATAAGTCAGATCGAAACT
23669231 CGTACGAATT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.42, C:0.20, G:0.20, T:0.17
Consensus pattern (59 bp):
ATAAGTTCAAAAGAGAACGATAGACGCCACTAGCACGCTAGATAAGTCAGATCGAAACT
Found at i:23673081 original size:20 final size:19
Alignment explanation
Indices: 23673056--23673114 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 19
23673046 CTCCGACCAG
23673056 CTCAATTGAGCTCATTTCAA
1 CTCAATTGAGCTCATTT-AA
* *
23673076 CTCAATCGAGCTCAATTTAG
1 CTCAATTGAGCTC-ATTTAA
*
23673096 CTACAATTCAGCTCATTTA
1 CT-CAATTGAGCTCATTTA
23673115 TTTTATTGGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 20 0.61
21 13 0.39
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.34
Consensus pattern (19 bp):
CTCAATTGAGCTCATTTAA
Found at i:23673088 original size:30 final size:30
Alignment explanation
Indices: 23673034--23673097 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
23673024 TAGCTTTTCT
*
23673034 AGCTCATTTCAACTCCGACCAGCTCAATTG
1 AGCTCATTTCAACTCCAACCAGCTCAATTG
* *
23673064 AGCTCATTTCAACT-CAATCGAGCTCAATTT
1 AGCTCATTTCAACTCCAA-CCAGCTCAATTG
23673094 AGCT
1 AGCT
23673098 ACAATTCAGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.28, C:0.30, G:0.12, T:0.30
Consensus pattern (30 bp):
AGCTCATTTCAACTCCAACCAGCTCAATTG
Found at i:23673108 original size:11 final size:10
Alignment explanation
Indices: 23673053--23673110 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
23673043 CAACTCCGAC
23673053 CAGCTCAATT
1 CAGCTCAATT
* *
23673063 GAGCTCATTT
1 CAGCTCAATT
*
23673073 CAACTCAA-T
1 CAGCTCAATT
23673082 CGAGCTCAATT
1 C-AGCTCAATT
*
23673093 TAGCTACAATT
1 CAGCT-CAATT
23673104 CAGCTCA
1 CAGCTCA
23673111 TTTATTTTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
9 2 0.05
10 25 0.68
11 10 0.27
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (10 bp):
CAGCTCAATT
Found at i:23678345 original size:22 final size:22
Alignment explanation
Indices: 23678315--23678358 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
23678305 TTTGGTATTT
23678315 GGGAATTGGTACAAAATGGTAA
1 GGGAATTGGTACAAAATGGTAA
* *
23678337 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACAAAATGGTAA
23678359 TGGTTCAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.05, G:0.34, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACAAAATGGTAA
Found at i:23679527 original size:20 final size:20
Alignment explanation
Indices: 23679480--23679527 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
23679470 AGTAAGCTCG
23679480 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
23679500 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
23679520 GTTGAGCT
1 GTTGAGCT
23679528 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:23680140 original size:20 final size:19
Alignment explanation
Indices: 23680117--23680181 Score: 51
Period size: 20 Copynumber: 3.3 Consensus size: 19
23680107 AAGCTCAAAC
23680117 GAGCTAAAGTAAGCTAAATT
1 GAGCTAAAGT-AGCTAAATT
23680137 GAGCTCAAACG-AGCTAAATT
1 GAGCT-AAA-GTAGCTAAATT
* * * *
23680157 AAGCTCATGTGAGCTAATTT
1 GAGCTAAAGT-AGCTAAATT
23680177 GAGCT
1 GAGCT
23680182 GGGAAAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 30 0.83
21 3 0.08
22 1 0.03
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (19 bp):
GAGCTAAAGTAGCTAAATT
Found at i:23686130 original size:23 final size:22
Alignment explanation
Indices: 23686078--23686130 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
23686068 TCCACGTCTT
*
23686078 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
23686100 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
23686123 TTTCTTTT
1 TTTCTTTT
23686131 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:23687988 original size:20 final size:20
Alignment explanation
Indices: 23687965--23688011 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
23687955 GGGTTAAGAT
*
23687965 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
23687985 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
23688005 TGAGCTG
1 TGAGCTG
23688012 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:23714783 original size:23 final size:25
Alignment explanation
Indices: 23714757--23714804 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
23714747 GGGAATGATG
*
23714757 ACAATTAAAA-GATTGA-AGATTTA
1 ACAAATAAAACGATTGAGAGATTTA
23714780 ACAAATAAAATCGATTGAGAGATTT
1 ACAAATAAAA-CGATTGAGAGATTT
23714805 GGGAGAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
25 6 0.29
26 6 0.29
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (25 bp):
ACAAATAAAACGATTGAGAGATTTA
Found at i:23717713 original size:27 final size:27
Alignment explanation
Indices: 23717682--23717859 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
23717672 TAAATTGTAC
23717682 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
23717709 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23717735 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
23717763 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
23717791 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
23717818 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
23717845 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
23717860 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:23717796 original size:82 final size:81
Alignment explanation
Indices: 23717683--23717838 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
23717673 AAATTGTACA
* *
23717683 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
23717747 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
23717764 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
23717829 TGCGAGTTGA
65 TGCGAATTGA
23717839 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:23717850 original size:82 final size:81
Alignment explanation
Indices: 23717679--23717859 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
23717669 GATTAAATTG
* *
23717679 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
23717744 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
23717760 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
23717824 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
23717842 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
23717860 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:23719550 original size:32 final size:32
Alignment explanation
Indices: 23719514--23719579 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
23719504 ATACTATAAG
*
23719514 ACATAATTTTTTCTTATCGTATTTTTATTCAT
1 ACATAATTTTTTCTTATAGTATTTTTATTCAT
23719546 ACATAATTTTTTCTTATAGTATTTTTATTCAT
1 ACATAATTTTTTCTTATAGTATTTTTATTCAT
23719578 AC
1 AC
23719580 CGTCTGGCTG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.27, C:0.12, G:0.03, T:0.58
Consensus pattern (32 bp):
ACATAATTTTTTCTTATAGTATTTTTATTCAT
Found at i:23726811 original size:45 final size:45
Alignment explanation
Indices: 23726704--23726876 Score: 145
Period size: 45 Copynumber: 3.8 Consensus size: 45
23726694 CGGCTTGAAG
* * * *
23726704 AAAATGAATAAGACTATAGTTGAAAGACACTATGGCACTATA-CTG
1 AAAATGAATAAGACCATAGATGAAAGACACTATGGCATTATATC-A
* * * *
23726749 GAACTGAATAAGTCCATAGATGAAAGAAACTATGGCATTATATCA
1 AAAATGAATAAGACCATAGATGAAAGACACTATGGCATTATATCA
* * * *
23726794 AAAATGAGTAAGACCATA-ACTGAAAGACGCTATGGCATAATGAT-T
1 AAAATGAATAAGACCATAGA-TGAAAGACACTATGGCATTAT-ATCA
* * * * *
23726839 ATAATGAGTAAGACCATAGCTAAAAGACATTATGGCAT
1 AAAATGAATAAGACCATAGATGAAAGACACTATGGCAT
23726877 CACAATTGTA
Statistics
Matches: 103, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
44 1 0.01
45 99 0.96
46 3 0.03
ACGTcount: A:0.45, C:0.13, G:0.18, T:0.24
Consensus pattern (45 bp):
AAAATGAATAAGACCATAGATGAAAGACACTATGGCATTATATCA
Found at i:23726857 original size:90 final size:90
Alignment explanation
Indices: 23726757--23727007 Score: 218
Period size: 90 Copynumber: 2.8 Consensus size: 90
23726747 TGGAACTGAA
* * * * *
23726757 TAAGTCCATAGATGAAAGAAACTATGGCATTA-TATCAAAAATGAGTAAGACCATAACTGAAAGA
1 TAAGACCATAGATAAAAGAAACTATGGCATCACAAT-AAAAACGAGTAAGACCATAACTGAAAGA
* *
23726821 CGCTATGGCATAATGATTATAATGAG
65 CGCTATGACATAATGATTATAACGAG
* * * *** *
23726847 TAAGACCATAGCTAAAAGACATTATGGCATCACAATTGTAACGAGTAAGACCATAGCTGAAAGAC
1 TAAGACCATAGATAAAAGAAACTATGGCATCACAATAAAAACGAGTAAGACCATAACTGAAAGAC
* * *
23726912 GTTATGACATCATGATTGTAACGAG
66 GCTATGACATAATGATTATAACGAG
* * * *** * ***
23726937 TAAGGCCATAGCTAGAAGACGTTATGGCATCATAATTCTAACGAGTAAGACCATAGA-TGAAAGA
1 TAAGACCATAGATAAAAGAAACTATGGCATCACAATAAAAACGAGTAAGACCATA-ACTGAAAGA
*
23727001 TGCTATG
65 CGCTATG
23727008 GTATCATGAA
Statistics
Matches: 134, Mismatches: 25, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
90 132 0.99
91 2 0.01
ACGTcount: A:0.41, C:0.15, G:0.20, T:0.24
Consensus pattern (90 bp):
TAAGACCATAGATAAAAGAAACTATGGCATCACAATAAAAACGAGTAAGACCATAACTGAAAGAC
GCTATGACATAATGATTATAACGAG
Found at i:23727008 original size:45 final size:45
Alignment explanation
Indices: 23726799--23727035 Score: 255
Period size: 45 Copynumber: 5.3 Consensus size: 45
23726789 TATCAAAAAT
* * * * * *
23726799 GAGTAAGACCATAACTGAAAGACGCTATGGCATAATGATTATAAT
1 GAGTAAGACCATAGCTGAAAGACGTTATGGCATCATAATTCTAAC
* * * *
23726844 GAGTAAGACCATAGCTAAAAGACATTATGGCATCACAATTGTAAC
1 GAGTAAGACCATAGCTGAAAGACGTTATGGCATCATAATTCTAAC
* * *
23726889 GAGTAAGACCATAGCTGAAAGACGTTATGACATCATGATTGTAAC
1 GAGTAAGACCATAGCTGAAAGACGTTATGGCATCATAATTCTAAC
*
23726934 GAGTAAGGCCATAGCT-AGAAGACGTTATGGCATCATAATTCTAAC
1 GAGTAAGACCATAGCTGA-AAGACGTTATGGCATCATAATTCTAAC
* * * *
23726979 GAGTAAGACCATAGATGAAAGATGCTATGGTATCATGAA-TC-AGAC
1 GAGTAAGACCATAGCTGAAAGACGTTATGGCATCAT-AATTCTA-AC
*
23727024 GAATAAGACCAT
1 GAGTAAGACCAT
23727036 GGTTGGAAGA
Statistics
Matches: 164, Mismatches: 24, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
44 2 0.01
45 159 0.97
46 3 0.02
ACGTcount: A:0.40, C:0.16, G:0.21, T:0.23
Consensus pattern (45 bp):
GAGTAAGACCATAGCTGAAAGACGTTATGGCATCATAATTCTAAC
Found at i:23727014 original size:90 final size:90
Alignment explanation
Indices: 23726799--23727016 Score: 303
Period size: 90 Copynumber: 2.4 Consensus size: 90
23726789 TATCAAAAAT
* *
23726799 GAGTAAGACCATA-ACTGAAAGACGCTATGGCATAATGATTATAATGAGTAAGACCATAGCTAAA
1 GAGTAAGACCATAGA-TGAAAGACGCTATGGCATCATGATTATAACGAGTAAGACCATAGCTAAA
*
23726863 AGACATTATGGCATCACAATTGTAAC
65 AGACATTATGGCATCACAATTCTAAC
* * * * * *
23726889 GAGTAAGACCATAGCTGAAAGACGTTATGACATCATGATTGTAACGAGTAAGGCCATAGCTAGAA
1 GAGTAAGACCATAGATGAAAGACGCTATGGCATCATGATTATAACGAGTAAGACCATAGCTAAAA
* *
23726954 GACGTTATGGCATCATAATTCTAAC
66 GACATTATGGCATCACAATTCTAAC
* *
23726979 GAGTAAGACCATAGATGAAAGATGCTATGGTATCATGA
1 GAGTAAGACCATAGATGAAAGACGCTATGGCATCATGA
23727017 ATCAGACGAA
Statistics
Matches: 111, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
90 111 1.00
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (90 bp):
GAGTAAGACCATAGATGAAAGACGCTATGGCATCATGATTATAACGAGTAAGACCATAGCTAAAA
GACATTATGGCATCACAATTCTAAC
Found at i:23730546 original size:6 final size:6
Alignment explanation
Indices: 23730535--23730559 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23730525 CTCCTTCCTT
23730535 TCTTTC TCTTTC TCTTTC TCTTTC T
1 TCTTTC TCTTTC TCTTTC TCTTTC T
23730560 TATTTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TCTTTC
Found at i:23733768 original size:4 final size:4
Alignment explanation
Indices: 23733761--23733786 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
23733751 AAATGCATGC
23733761 ATGA ATGA ATGA ATGA ATGA ATGA AT
1 ATGA ATGA ATGA ATGA ATGA ATGA AT
23733787 TGCCACAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (4 bp):
ATGA
Found at i:23749280 original size:34 final size:36
Alignment explanation
Indices: 23749238--23749333 Score: 128
Period size: 34 Copynumber: 2.7 Consensus size: 36
23749228 GTAACTCACA
23749238 ATGCCTTCGTGACATAA-CCGGATTTA-AACTCGCAC-
1 ATGCCTTCG-GAC-TAACCCGGATTTATAACTCGCACG
23749273 ATG-CTTCGGACTAACCCGGATTTATAACTCGCACG
1 ATGCCTTCGGACTAACCCGGATTTATAACTCGCACG
*
23749308 ATGCCTTGGGACTTAACCCGGATTTA
1 ATGCCTTCGGAC-TAACCCGGATTTA
23749334 GTATCTGCAA
Statistics
Matches: 55, Mismatches: 1, Indels: 8
0.86 0.02 0.12
Matches are distributed among these distances:
32 3 0.05
33 12 0.22
34 14 0.25
35 6 0.11
36 7 0.13
37 13 0.24
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (36 bp):
ATGCCTTCGGACTAACCCGGATTTATAACTCGCACG
Found at i:23757121 original size:40 final size:40
Alignment explanation
Indices: 23757023--23757192 Score: 207
Period size: 40 Copynumber: 4.3 Consensus size: 40
23757013 TCCTCGTTCA
* * * * *
23757023 AATGCCTTCGGGACATAGCTCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
23757062 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
23757102 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
* * * * * *
23757142 AATCCCTTTGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
*
23757182 AAGGCCTTCGG
1 AATGCCTTCGG
23757193 ATCTTAGTCC
Statistics
Matches: 114, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 33 0.29
40 81 0.71
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCACG
Found at i:23757235 original size:80 final size:79
Alignment explanation
Indices: 23757059--23757245 Score: 196
Period size: 80 Copynumber: 2.3 Consensus size: 79
23757049 TAGTAACTCA
* * *
23757059 CACAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCG
1 CACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCG
* *
23757124 GATTTAATAACTCG
66 GATATAATAACTAG
* * ** * **
23757138 CACGAATCCCTTTGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTC
1 CAC-AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACC
* *
23757202 CGGATATATTCACTTAG
64 CGGATATAATAAC-TAG
* *
23757219 CACAAAGCCTTCGGGACTTAGCCCGGA
1 CACAATGCCTTCGGGACTTAACCCGGA
23757246 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 18, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
79 6 0.07
80 76 0.87
81 5 0.06
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (79 bp):
CACAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCG
GATATAATAACTAG
Found at i:23757254 original size:41 final size:41
Alignment explanation
Indices: 23757177--23757254 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
23757167 TTAGTATCTC
* * *
23757177 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
23757218 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
23757255 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:23766760 original size:47 final size:46
Alignment explanation
Indices: 23766702--23766916 Score: 247
Period size: 45 Copynumber: 4.7 Consensus size: 46
23766692 TGAATCAAAG
* *
23766702 AAATAAGACCATAGTTGAAAGACACTATGGCAACACGACGGAAAAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCAACAAGAC-GAAAAAT
* * *
23766749 GAATAAGACCATGGTTGAAAGACACTATAGCAACACA-ATGAAAAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCAACA-AGACGAAAAAT
* * ** * *
23766795 GAATAAGACCATGGTTGAAAGACATTATGGCATTAAGAAG-AGAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAAAAAT
* * * *
23766840 AAATAAGACCATGGTTGAAAGACACCATGGCATCAAGAC-TAGAAT
1 AAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAAAAAT
*
23766885 AAATAAGACCATGGTTGAAAGACACCATGGCA
1 AAATAAGACCATGGTTGAAAGACACTATGGCA
23766917 CACTTTGATC
Statistics
Matches: 149, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
45 76 0.51
46 40 0.27
47 33 0.22
ACGTcount: A:0.47, C:0.15, G:0.20, T:0.18
Consensus pattern (46 bp):
AAATAAGACCATGGTTGAAAGACACTATGGCAACAAGACGAAAAAT
Found at i:23768710 original size:12 final size:12
Alignment explanation
Indices: 23768693--23768722 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23768683 TCAGGCAGTT
23768693 ACACGGCCTAGC
1 ACACGGCCTAGC
*
23768705 ACACGGCCTGGC
1 ACACGGCCTAGC
23768717 ACACGG
1 ACACGG
23768723 GCGTGTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:23776657 original size:3 final size:3
Alignment explanation
Indices: 23776649--23776681 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
23776639 AATTGAATTG
*
23776649 TTA TTA TTA TTA TTA TTC TTA -TA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23776682 ATTTATGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23780445 original size:18 final size:19
Alignment explanation
Indices: 23780407--23780453 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
23780397 TTGAGCTAAT
*
23780407 ATTCTTTTATTC-TTTACG
1 ATTCTTTCATTCTTTTACG
23780425 ATTCTTTCATTCTTTTA-G
1 ATTCTTTCATTCTTTTACG
23780443 ATT-TTTC-TTCT
1 ATTCTTTCATTCT
23780454 AAATCATTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 4 0.15
17 4 0.15
18 15 0.56
19 4 0.15
ACGTcount: A:0.15, C:0.17, G:0.04, T:0.64
Consensus pattern (19 bp):
ATTCTTTCATTCTTTTACG
Found at i:23781236 original size:6 final size:6
Alignment explanation
Indices: 23781226--23781266 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
23781216 ATTCAATGCA
* *
23781226 AAAAAA AAAAAC AAAAAC AAAAGC AAAAAC AAAAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
23781267 AAGGGAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.85, C:0.12, G:0.02, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:23781811 original size:8 final size:7
Alignment explanation
Indices: 23781794--23781843 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
23781784 AAAGATGTGA
23781794 AAAAAT-
1 AAAAATG
23781800 AAAAATAG
1 AAAAAT-G
23781808 AAAAATG
1 AAAAATG
23781815 AAAAATG
1 AAAAATG
23781822 AAAAATGG
1 AAAAAT-G
23781830 AAAAA-G
1 AAAAATG
23781836 TAAAAATG
1 -AAAAATG
23781844 GAGAGGCTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.18
7 19 0.49
8 13 0.33
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:23781811 original size:14 final size:14
Alignment explanation
Indices: 23781794--23781843 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 14
23781784 AAAGATGTGA
23781794 AAAAAT-AAAAATAG
1 AAAAATGAAAAAT-G
23781808 AAAAATGAAAAATG
1 AAAAATGAAAAATG
23781822 AAAAATGGAAAAA-G
1 AAAAAT-GAAAAATG
23781836 TAAAAATG
1 -AAAAATG
23781844 GAGAGGCTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
14 15 0.45
15 18 0.55
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:23781819 original size:22 final size:22
Alignment explanation
Indices: 23781794--23781843 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
23781784 AAAGATGTGA
23781794 AAAAAT-AAAAATAGAAAAATG
1 AAAAATGAAAAATAGAAAAATG
*
23781815 AAAAATGAAAAATGGAAAAA-G
1 AAAAATGAAAAATAGAAAAATG
23781836 TAAAAATG
1 -AAAAATG
23781844 GAGAGGCTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.72, C:0.00, G:0.14, T:0.14
Consensus pattern (22 bp):
AAAAATGAAAAATAGAAAAATG
Found at i:23781844 original size:15 final size:15
Alignment explanation
Indices: 23781800--23781845 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
23781790 GTGAAAAAAT
23781800 AAAAATAGAAAAAT-G
1 AAAAAT-GAAAAATGG
23781815 AAAAATGAAAAATGG
1 AAAAATGAAAAATGG
23781830 AAAAA-GTAAAAATGG
1 AAAAATG-AAAAATGG
23781845 A
1 A
23781846 GAGGCTAAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.28
15 21 0.72
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (15 bp):
AAAAATGAAAAATGG
Found at i:23783345 original size:132 final size:132
Alignment explanation
Indices: 23783105--23783651 Score: 882
Period size: 132 Copynumber: 4.1 Consensus size: 132
23783095 ACAGCGAAGC
*
23783105 AGATCAAAGATGGCAAATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* *
23783170 ATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAAATCTTATCTCCCTAGGCATTAGTGGA
66 ATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGA
23783235 GT
131 GT
* *
23783237 AGATCGAAGATGGCAGATTTTACCTCCTTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* *
23783302 ATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCATTAGTGGA
66 ATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGA
23783367 GT
131 GT
* *
23783369 AGATCGAAGATGGCAGATTTTACCTCCCTGAAGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
*
23783434 ATCTCCCTGGGAAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGA
66 ATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGA
23783499 GT
131 GT
* *
23783501 AGATCAAAGATGGCAGATTTTACCTCCTTGAGGTTATAGTGGAGTACATTGAAGCCAGTAATTCT
1 AGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
* * * * * *
23783566 ATCTCCCTGGTCAACAGTGGAATCA-ATCGAAGAATAGCAGCTCTTATCTCCCTAAGCAGTAGTG
66 ATCTCCCTGGGCAGCAGTGGAAT-AGATTGAAGATTA-CAGATCTTATCTCCCTAGGCAGTAGTG
23783630 GAGT
129 GAGT
*
23783634 AGACTC-ACGATGGCAGAT
1 AGA-TCAAAGATGGCAGAT
23783652 CTGGTTTCCC
Statistics
Matches: 390, Mismatches: 22, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
132 344 0.88
133 44 0.11
134 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.28
Consensus pattern (132 bp):
AGATCAAAGATGGCAGATTTTACCTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAGTAATTCT
ATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAGATCTTATCTCCCTAGGCAGTAGTGGA
GT
Found at i:23783511 original size:44 final size:44
Alignment explanation
Indices: 23783169--23783504 Score: 238
Period size: 44 Copynumber: 7.6 Consensus size: 44
23783159 CCAGTAATTC
* * *
23783169 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAAATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
** * ** *
23783213 TATCTCCCTAGGCATTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* * * * * *
23783257 TACCTCCTTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* * *
23783301 TATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
** * ** *
23783345 TATCTCCCTAGGCATTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
* ** * * *
23783389 TACCTCCCTGAAGTTA-CAGTGGAGTACATTGAAGCCAGTA-A-TTC-
1 TATCTCCCT--AGGCAGCAGTGGAGTAGATTGAAG--ATTACAGATCT
* * *
23783433 TATCTCCCTGGGAAGCAGTGGAATAGATTGAAGATTACAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
*
23783477 TATCTCCCTAGGCAGTAGTGGAGTAGAT
1 TATCTCCCTAGGCAGCAGTGGAGTAGAT
23783505 CAAAGATGGC
Statistics
Matches: 215, Mismatches: 61, Indels: 32
0.70 0.20 0.10
Matches are distributed among these distances:
41 6 0.03
42 5 0.02
43 37 0.17
44 124 0.58
45 35 0.16
46 6 0.03
47 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATTACAGATCT
Found at i:23783518 original size:44 final size:44
Alignment explanation
Indices: 23783169--23783653 Score: 227
Period size: 44 Copynumber: 11.0 Consensus size: 44
23783159 CCAGTAATTC
* * ** *
23783169 TATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTACAAATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGGCAGATCT
** * *
23783213 TATCTCCCTAGGCATTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGGCAGATCT
* * * * *** *
23783257 TACCTCCTTGAGGTTA-CAGTGGAGTACATTGAAGCCAGTA-AT-T
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAGATGGCAGATCT
* * * **
23783300 CTATCTCCCTGGGCAGCAGTGAAATAGATTGAAGATTACAGATCT
1 -TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGGCAGATCT
** * *
23783345 TATCTCCCTAGGCATTAGTGGAGTAGATCGAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGGCAGATCT
* ** * *** *
23783389 TACCTCCCTGAAGTTA-CAGTGGAGTACATTGAAGCCAGTA-AT-T
1 TATCTCCCT--AGGCAGCAGTGGAGTAGATTGAAGATGGCAGATCT
* * * **
23783432 CTATCTCCCTGGGAAGCAGTGGAATAGATTGAAGATTACAGATCT
1 -TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGGCAGATCT
* ** *
23783477 TATCTCCCTAGGCAGTAGTGGAGTAGATCAAAGATGGCAGATTT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGGCAGATCT
* * * * * *** *
23783521 TACCTCCTTGAGGTTA-TAGTGGAGTACATTGAAGCCAGTA-AT-T
1 TATCTCCCT-AGG-CAGCAGTGGAGTAGATTGAAGATGGCAGATCT
* * * * *
23783564 CTATCTCCCT-GGTCAACAGTGGAATCA-ATCGAAGAATAGCAGCTCT
1 -TATCTCCCTAGG-CAGCAGTGGAGT-AGATTGAAG-ATGGCAGATCT
* * * * *
23783610 TATCTCCCTAAGCAGTAGTGGAGTAGACTCACGATGGCAGATCT
1 TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGGCAGATCT
23783654 GGTTTCCCCG
Statistics
Matches: 319, Mismatches: 100, Indels: 44
0.69 0.22 0.10
Matches are distributed among these distances:
42 7 0.02
43 51 0.16
44 173 0.54
45 81 0.25
46 7 0.02
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (44 bp):
TATCTCCCTAGGCAGCAGTGGAGTAGATTGAAGATGGCAGATCT
Found at i:23785433 original size:39 final size:39
Alignment explanation
Indices: 23785351--23785611 Score: 318
Period size: 39 Copynumber: 6.7 Consensus size: 39
23785341 GCTCCTCGTT
* * *
23785351 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAT-TAGTAACTCGCA
*
23785391 CAAATGCCTTCGGGACTTAACCCGGATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
*
23785430 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-TTAGTAACTCGCA
*
23785470 CAAATGCCTTC-GG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCA
*
23785508 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-ATTAGTAACTCGCA
* * * *
23785547 CAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TAGTAAC-TCGCA
23785588 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23785612 CATCATTCAA
Statistics
Matches: 201, Mismatches: 12, Indels: 17
0.87 0.05 0.07
Matches are distributed among these distances:
38 34 0.17
39 96 0.48
40 66 0.33
41 5 0.02
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTAGTAACTCGCA
Found at i:23785454 original size:79 final size:78
Alignment explanation
Indices: 23785351--23785610 Score: 309
Period size: 79 Copynumber: 3.3 Consensus size: 78
23785341 GCTCCTCGTT
* *
23785351 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCACAAATGCCTTC-GGACTTAGCCCGG
23785416 ATTAGTAACTCGCA
65 ATTAGTAACTCGCA
* *
23785430 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGACTTAGCCCGG
*
23785493 AATTAGTATCTCGCA
65 -ATTAGTAACTCGCA
* *
23785508 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGT-ATCTCGCACAAATGCCTTCGGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAAT-TCGCACAAATGCCTTCGGA-CTTAGCCC
* * *
23785570 GGATATTGTCACTTAGCA
63 GGAT-TAGTAAC-TCGCA
23785588 C-AA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
23785611 ACATCATTCA
Statistics
Matches: 158, Mismatches: 13, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
76 1 0.01
77 40 0.25
78 40 0.25
79 70 0.44
80 7 0.04
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAATTCGCACAAATGCCTTCGGACTTAGCCCGGA
TTAGTAACTCGCA
Found at i:23793490 original size:38 final size:40
Alignment explanation
Indices: 23793307--23793568 Score: 319
Period size: 40 Copynumber: 6.7 Consensus size: 40
23793297 GCTCCTCGTT
*
23793307 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGT-ATCTCGCA
* *
23793347 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* *
23793387 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
23793427 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
*
23793466 CAAATGCCTTC-GG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
* *
23793504 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGT-ATC-TCGCA
23793545 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23793569 CATCATTCAA
Statistics
Matches: 204, Mismatches: 10, Indels: 17
0.88 0.04 0.07
Matches are distributed among these distances:
38 40 0.20
39 50 0.25
40 104 0.51
41 10 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTATCTCGCA
Found at i:23793529 original size:117 final size:122
Alignment explanation
Indices: 23793307--23793568 Score: 339
Period size: 117 Copynumber: 2.2 Consensus size: 122
23793297 GCTCCTCGTT
* *
23793307 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
* *
23793371 GATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAAC-TCGCA
66 GAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATT-GTAACTTAGCA
*
23793427 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GG-CTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAAT-TCGCACAAATGCCTTCGGGACTTAACCC
* ** *
23793487 GGAATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATTGTCACTTAGCA
65 GGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATTGTAACTTAGCA
23793545 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23793569 CATCATTCAA
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
116 12 0.09
117 60 0.47
118 11 0.09
119 29 0.23
120 15 0.12
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (122 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
GAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATTGTAACTTAGCA
Found at i:23796421 original size:3 final size:3
Alignment explanation
Indices: 23796413--23796445 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
23796403 AATTGAATTG
*
23796413 TTA TTA TTA TTA TTA TTC TTA -TA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23796446 ATTTATGCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:23798335 original size:16 final size:16
Alignment explanation
Indices: 23798302--23798331 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
23798292 GATTTTCTGA
23798302 TTGTTTTTTCTTTTCT
1 TTGTTTTTTCTTTTCT
23798318 TTGTTTTTT-TTTTC
1 TTGTTTTTTCTTTTC
23798332 CTTTTTTGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (16 bp):
TTGTTTTTTCTTTTCT
Found at i:23806462 original size:31 final size:31
Alignment explanation
Indices: 23806427--23806490 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
23806417 TTTTAATCTC
23806427 AAAGTTAAAAACAATGGGAGCTAAAGCAAAT
1 AAAGTTAAAAACAATGGGAGCTAAAGCAAAT
*
23806458 AAAGTTAAAAACAGTGGGAGCTAAAGCAAAT
1 AAAGTTAAAAACAATGGGAGCTAAAGCAAAT
23806489 AA
1 AA
23806491 TTCCTTTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.55, C:0.09, G:0.20, T:0.16
Consensus pattern (31 bp):
AAAGTTAAAAACAATGGGAGCTAAAGCAAAT
Found at i:23808694 original size:23 final size:23
Alignment explanation
Indices: 23808649--23808695 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
23808639 TCAGAGTAAT
**
23808649 TTAATCTCTATCAATTTTGAGAG
1 TTAATCTCTATCAATTTCAAGAG
23808672 TTAATCTCTATCAATTTCAAGAG
1 TTAATCTCTATCAATTTCAAGAG
23808695 T
1 T
23808696 GAGAAACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.43
Consensus pattern (23 bp):
TTAATCTCTATCAATTTCAAGAG
Found at i:23808888 original size:51 final size:51
Alignment explanation
Indices: 23808786--23808904 Score: 141
Period size: 51 Copynumber: 2.3 Consensus size: 51
23808776 GCCCTCAAAG
* ** * *
23808786 TTTACATATTCTGCCAAATTGGTCTTGATTTAACAAATTTAGCCAATAACA
1 TTTACACATTCTATCAATTTGGTCCTGATTTAACAAATTTAGCCAATAACA
* * **
23808837 TTTACACATTTTATCAATTTGGTCCTGATTTAACATATTTAGCTTGA-AACA
1 TTTACACATTCTATCAATTTGGTCCTGATTTAACAAATTTAGC-CAATAACA
23808888 TTTACACATTCTATCAA
1 TTTACACATTCTATCAA
23808905 CATTTACACA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 56 0.98
52 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.40
Consensus pattern (51 bp):
TTTACACATTCTATCAATTTGGTCCTGATTTAACAAATTTAGCCAATAACA
Found at i:23815680 original size:9 final size:9
Alignment explanation
Indices: 23815666--23815691 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
23815656 ATTTTAACAA
23815666 ATAGAAAAC
1 ATAGAAAAC
23815675 ATAGAAAAC
1 ATAGAAAAC
23815684 ATAGAAAA
1 ATAGAAAA
23815692 ACTACTTTAA
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:0.69, C:0.08, G:0.12, T:0.12
Consensus pattern (9 bp):
ATAGAAAAC
Found at i:23822941 original size:27 final size:27
Alignment explanation
Indices: 23822900--23823014 Score: 119
Period size: 27 Copynumber: 4.3 Consensus size: 27
23822890 ACATGTTAGA
* *
23822900 AAAAGAAAGCCTTTGTGCTGATCTATC
1 AAAAGAAAGCTTTTGTGCTGATCTATG
*
23822927 AAAAGAAAGCTTTTGTGGTGATCTATG
1 AAAAGAAAGCTTTTGTGCTGATCTATG
*
23822954 AAAAAAAAGCATTTATG-GCT-ATCTATG
1 AAAAGAAAGC-TTT-TGTGCTGATCTATG
* * *
23822981 AAAAGAAAGCCTTCGTGGC-AATCTATG
1 AAAAGAAAGCTTTTGT-GCTGATCTATG
23823008 AAAAGAA
1 AAAAGAA
23823015 TGCCTTTATG
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
25 1 0.01
26 2 0.03
27 65 0.87
28 5 0.07
29 2 0.03
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (27 bp):
AAAAGAAAGCTTTTGTGCTGATCTATG
Found at i:23822985 original size:54 final size:55
Alignment explanation
Indices: 23822898--23823025 Score: 152
Period size: 54 Copynumber: 2.3 Consensus size: 55
23822888 GAACATGTTA
* * * **
23822898 GAAAAAGAAAGCCTTTGT-GCTGATCTATCAAAAGAAAGCTTTTGTGGTGATCTAT
1 GAAAAA-AAAGCCTTTATGGCTGATCTATCAAAAGAAAGCCTTCGTGGCAATCTAT
* *
23822953 GAAAAAAAAGCATTTATGGCT-ATCTATGAAAAGAAAGCCTTCGTGGCAATCTAT
1 GAAAAAAAAGCCTTTATGGCTGATCTATCAAAAGAAAGCCTTCGTGGCAATCTAT
* *
23823007 GAAAAGAATGCCTTTATGG
1 GAAAAAAAAGCCTTTATGG
23823026 TGCACTCTAA
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
54 53 0.85
55 9 0.15
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (55 bp):
GAAAAAAAAGCCTTTATGGCTGATCTATCAAAAGAAAGCCTTCGTGGCAATCTAT
Found at i:23826904 original size:40 final size:39
Alignment explanation
Indices: 23826845--23826967 Score: 165
Period size: 40 Copynumber: 3.1 Consensus size: 39
23826835 AGCTCGCATG
* *
23826845 GGGAGCTTTCACTAATACACAGCTTATCCGTAAGCTTACA
1 GGGAGC-TTCACTGATACACAGCTTATCCATAAGCTTACA
* *
23826885 GGAGAGCTTCGCTGATACACAGCTTATCCATAAGCTCACA
1 GG-GAGCTTCACTGATACACAGCTTATCCATAAGCTTACA
* *
23826925 TGGGAGTTTCACTGATACACAACTTATCCATAAGCTTACA
1 -GGGAGCTTCACTGATACACAGCTTATCCATAAGCTTACA
23826965 GGG
1 GGG
23826968 GAAATTTTCC
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
39 3 0.04
40 64 0.88
41 6 0.08
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (39 bp):
GGGAGCTTCACTGATACACAGCTTATCCATAAGCTTACA
Found at i:23826983 original size:40 final size:39
Alignment explanation
Indices: 23826858--23826983 Score: 103
Period size: 40 Copynumber: 3.2 Consensus size: 39
23826848 AGCTTTCACT
* * **
23826858 AATACACAGCTTATCCGTAAGCTTACAGGAG-AGCTTCGC
1 AATACACAGCTTATCCATAAGCTTACAGGGGAATTTTC-C
* * * *
23826897 TGATACACAGCTTATCCATAAGCTCACATGGG-AGTTTCAC
1 -AATACACAGCTTATCCATAAGCTTACAGGGGAATTTTC-C
* *
23826937 TGATACACAACTTATCCATAAGCTTACAGGGGAAATTTTCC
1 -AATACACAGCTTATCCATAAGCTTACAGGGG-AATTTTCC
23826978 AATACA
1 AATACA
23826984 AAACGTATAA
Statistics
Matches: 72, Mismatches: 12, Indels: 4
0.82 0.14 0.05
Matches are distributed among these distances:
40 66 0.92
41 1 0.01
42 5 0.07
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (39 bp):
AATACACAGCTTATCCATAAGCTTACAGGGGAATTTTCC
Found at i:23832668 original size:56 final size:54
Alignment explanation
Indices: 23832599--23832707 Score: 155
Period size: 56 Copynumber: 2.0 Consensus size: 54
23832589 CTCATCTCGG
*
23832599 TGCCAACGTCATGTCCCAAAAATGGTCTTACATGGGACCTCTCATAACCTTAATGA
1 TGCCAACGCCATGTCCCAAAAATGGTCTTACATGGGA--TCTCATAACCTTAATGA
* * **
23832655 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCATTCCCTTAATG
1 TGCCAACGCCATGTCCCAAAAATGGTCTTACATGGGATCTCATAACCTTAATG
23832708 CCATGACATT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 14 0.29
56 34 0.71
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.28
Consensus pattern (54 bp):
TGCCAACGCCATGTCCCAAAAATGGTCTTACATGGGATCTCATAACCTTAATGA
Found at i:23838869 original size:40 final size:40
Alignment explanation
Indices: 23838839--23838942 Score: 167
Period size: 40 Copynumber: 2.6 Consensus size: 40
23838829 GCTACTCGTT
*
23838839 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
23838879 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
23838919 CAAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
23838943 AATTAGTATC
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
39 9 0.15
40 49 0.82
41 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:23838955 original size:26 final size:27
Alignment explanation
Indices: 23838926--23838977 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
23838916 GCACAAATGC
*
23838926 CTTCGGG-CTTAGCCCGGAATTAGTAT
1 CTTCGGGACTTAACCCGGAATTAGTAT
*
23838952 CTTCGGGACTTAACCCGGATTTAGTA
1 CTTCGGGACTTAACCCGGAATTAGTA
23838978 ACTCGCACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (27 bp):
CTTCGGGACTTAACCCGGAATTAGTAT
Found at i:23838992 original size:66 final size:66
Alignment explanation
Indices: 23838886--23839019 Score: 268
Period size: 66 Copynumber: 2.0 Consensus size: 66
23838876 GCACAAATGC
23838886 CTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTA
1 CTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTA
23838951 T
66 T
23838952 CTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTA
1 CTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTA
23839017 T
66 T
23839018 CT
1 CT
23839020 CGCACAAATG
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 68 1.00
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (66 bp):
CTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTA
T
Found at i:23839015 original size:39 final size:40
Alignment explanation
Indices: 23838952--23839089 Score: 149
Period size: 39 Copynumber: 3.5 Consensus size: 40
23838942 GAATTAGTAT
* *
23838952 CTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGC
*
23838992 CTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGC
* * * * *
23839031 ATTC-GGATCTTAGTCCGG-ATATGGTCACTTAGCACAAA-GC
1 CTTCGGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCACAAATGC
23839071 CTTCGGGACTTAGCCCGGA
1 CTTCGGGACTTAGCCCGGA
23839090 CATCATTCAA
Statistics
Matches: 81, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
38 2 0.02
39 34 0.42
40 34 0.42
41 11 0.14
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGC
Found at i:23839049 original size:106 final size:106
Alignment explanation
Indices: 23838846--23839036 Score: 305
Period size: 106 Copynumber: 1.8 Consensus size: 106
23838836 GTTCAAATGC
* *
23838846 CTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGT
1 CTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAATTAGT
*
23838911 AACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTAT
66 AACTCGCACAAATGCATTCGGGCTTAGCCCGGAATTAGTAT
* *
23838952 CTTCGGGACTTAACCCGGATT-TAGTAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAG
1 CTTCGGGACATAACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAATTAG
*
23839015 TATCTCGCACAAATGCATTCGG
65 TAACTCGCACAAATGCATTCGG
23839037 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
105 34 0.44
106 42 0.54
107 2 0.03
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (106 bp):
CTTCGGGACATAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAATTAGT
AACTCGCACAAATGCATTCGGGCTTAGCCCGGAATTAGTAT
Found at i:23855823 original size:45 final size:43
Alignment explanation
Indices: 23855671--23856019 Score: 192
Period size: 44 Copynumber: 8.0 Consensus size: 43
23855661 ACTCGATGTG
* * * *
23855671 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTACTTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGAT-T-CTCACTTCA
* * * * *
23855716 ATCCGCTCCACTACAACTTCAGGGAGATAGGATTTTCGGCTTCA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCTC-ACTTCA
* * *
23855760 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTGGTCATCTTCG
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATT-CTCA-CTTCA
* * *
23855805 ATCTGCCCCACTGCAACTTCAGTTGG-GATAAGACCTGCTTACTT-A
1 ATCTGCTCCACTGCAACTTCAG--GGAGATAAGA--TTCTCACTTCA
* * * * * * * *
23855850 GTCTGCTCCACTGTAACTTTAGGGAAATAAGACT-TGACGT-G
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCTCACTTCA
** * * * * *
23855891 ATCCACTCTACTGCAACTTCAGAGAGATAAGATCCATTACTTTA
1 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTC-TCACTTCA
* * * * *
23855935 ATTCT-CTCCACTACAACTTCAGGGAGATAGGATTATTGACTCCA
1 A-TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-CTCACTTCA
* *
23855979 ATCTACTCCACTGTAA-TATCAGGGAGATAAGATT-T-ACTTCA
1 ATCTGCTCCACTGCAACT-TCAGGGAGATAAGATTCTCACTTCA
23856020 CTGACCTGTT
Statistics
Matches: 230, Mismatches: 59, Indels: 34
0.71 0.18 0.11
Matches are distributed among these distances:
41 33 0.14
42 1 0.00
43 11 0.05
44 96 0.42
45 74 0.32
46 10 0.04
47 4 0.02
48 1 0.00
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (43 bp):
ATCTGCTCCACTGCAACTTCAGGGAGATAAGATTCTCACTTCA
Found at i:23870222 original size:5 final size:5
Alignment explanation
Indices: 23870208--23870241 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
23870198 ATATAATGCT
*
23870208 ATATC TTATC ATATC ATATC ATATC ATATC ATAT
1 ATATC ATATC ATATC ATATC ATATC ATATC ATAT
23870242 ATTAATAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.38, C:0.18, G:0.00, T:0.44
Consensus pattern (5 bp):
ATATC
Found at i:23871086 original size:16 final size:17
Alignment explanation
Indices: 23871048--23871086 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
23871038 AAAAAATTAT
*
23871048 AAATAAAATATTCAAAA
1 AAATAAAACATTCAAAA
*
23871065 ATATAAAACATT-AAAA
1 AAATAAAACATTCAAAA
23871081 AAATAA
1 AAATAA
23871087 TCAATCAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (17 bp):
AAATAAAACATTCAAAA
Found at i:23871301 original size:4 final size:4
Alignment explanation
Indices: 23871292--23871325 Score: 59
Period size: 4 Copynumber: 8.2 Consensus size: 4
23871282 TGTAAAACAA
23871292 CATT CATT CATT CATT CATT CATT CATCT CATT C
1 CATT CATT CATT CATT CATT CATT CAT-T CATT C
23871326 CTTGTTCATT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 25 0.86
5 4 0.14
ACGTcount: A:0.24, C:0.29, G:0.00, T:0.47
Consensus pattern (4 bp):
CATT
Found at i:23873492 original size:22 final size:23
Alignment explanation
Indices: 23873456--23873498 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
23873446 TATGTATTCA
23873456 TAATAGTTATATATTATATTACT
1 TAATAGTTATATATTATATTACT
* *
23873479 TAATAG-TATGTATTCTATTA
1 TAATAGTTATATATTATATTA
23873499 TTCTATTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (23 bp):
TAATAGTTATATATTATATTACT
Found at i:23873836 original size:11 final size:11
Alignment explanation
Indices: 23873822--23873847 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
23873812 AGAATTATCA
23873822 TTTATTTATAT
1 TTTATTTATAT
23873833 TTTATTTATAT
1 TTTATTTATAT
23873844 TTTA
1 TTTA
23873848 AGTAATAACA
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:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTATTTATAT
Found at i:23874014 original size:16 final size:16
Alignment explanation
Indices: 23873990--23874034 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
23873980 TGGGCTCGAG
**
23873990 CTTTCTTGGGCTTGAAT
1 CTTT-TTGGGCTCCAAT
23874007 CTTTTTGGGCTCCAAT
1 CTTTTTGGGCTCCAAT
*
23874023 TTTTTTGGGCTC
1 CTTTTTGGGCTC
23874035 AAAATTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
16 21 0.84
17 4 0.16
ACGTcount: A:0.09, C:0.20, G:0.22, T:0.49
Consensus pattern (16 bp):
CTTTTTGGGCTCCAAT
Found at i:23875585 original size:19 final size:19
Alignment explanation
Indices: 23875558--23875594 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23875548 AAGTATACTA
*
23875558 TTTTGGTATTTTTTTAATT
1 TTTTGGTATTATTTTAATT
*
23875577 TTTTTGTATTATTTTAAT
1 TTTTGGTATTATTTTAAT
23875595 AAAAAACCCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.73
Consensus pattern (19 bp):
TTTTGGTATTATTTTAATT
Found at i:23875669 original size:17 final size:17
Alignment explanation
Indices: 23875647--23875679 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
23875637 AATAAAAAGC
23875647 TATAAAATTTTTAATAT
1 TATAAAATTTTTAATAT
*
23875664 TATAAACTTTTTAATA
1 TATAAAATTTTTAATA
23875680 AAAACTAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TATAAAATTTTTAATAT
Found at i:23876116 original size:11 final size:11
Alignment explanation
Indices: 23876097--23876166 Score: 68
Period size: 11 Copynumber: 6.4 Consensus size: 11
23876087 TATCGAAACC
*
23876097 ATAACAACAAA
1 ATAATAACAAA
* *
23876108 ATAAAAACAAT
1 ATAATAACAAA
*
23876119 ATAATAATAAA
1 ATAATAACAAA
23876130 ATAATAACAAA
1 ATAATAACAAA
* * **
23876141 ACAACAATGAA
1 ATAATAACAAA
23876152 ATAATAACAAA
1 ATAATAACAAA
23876163 ATAA
1 ATAA
23876167 CAACGAAACA
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 45 1.00
ACGTcount: A:0.71, C:0.10, G:0.01, T:0.17
Consensus pattern (11 bp):
ATAATAACAAA
Found at i:23876155 original size:30 final size:30
Alignment explanation
Indices: 23876113--23876169 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
23876103 ACAAAATAAA
23876113 AACAATATAATAATAA-AATAATAACAAAAC
1 AACAATATAATAATAACAA-AATAACAAAAC
23876143 AACAATGA-AATAATAACAAAATAACAA
1 AACAAT-ATAATAATAACAAAATAACAA
23876170 CGAAACAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.70, C:0.11, G:0.02, T:0.18
Consensus pattern (30 bp):
AACAATATAATAATAACAAAATAACAAAAC
Found at i:23876174 original size:22 final size:22
Alignment explanation
Indices: 23876097--23876170 Score: 85
Period size: 22 Copynumber: 3.4 Consensus size: 22
23876087 TATCGAAACC
* *
23876097 ATAACAACAAAATAAAAACAAT
1 ATAACAACAAAATAATAACAAA
* *
23876119 ATAATAATAAAATAATAACAAA
1 ATAACAACAAAATAATAACAAA
* **
23876141 ACAACAATGAAATAATAACAAA
1 ATAACAACAAAATAATAACAAA
23876163 ATAACAAC
1 ATAACAAC
23876171 GAAACAGTTA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.70, C:0.12, G:0.01, T:0.16
Consensus pattern (22 bp):
ATAACAACAAAATAATAACAAA
Found at i:23876317 original size:14 final size:14
Alignment explanation
Indices: 23876298--23876330 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
23876288 AACTAATTAA
*
23876298 CTTTTCGAGTATAC
1 CTTTTCGAGTACAC
23876312 CTTTTCGAGTACAC
1 CTTTTCGAGTACAC
23876326 CTTTT
1 CTTTT
23876331 GGATCTGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.24, G:0.12, T:0.45
Consensus pattern (14 bp):
CTTTTCGAGTACAC
Found at i:23876634 original size:35 final size:31
Alignment explanation
Indices: 23876554--23876622 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
23876544 TTCCTTCGCA
* *
23876554 CAAACAGCATGACAGAAACTAACAAAGCAAG
1 CAAACAGCACGACAGAAACCAACAAAGCAAG
23876585 CAAACAGCACGACAGAAACCAACAAAGCAAG
1 CAAACAGCACGACAGAAACCAACAAAGCAAG
23876616 CAAACAG
1 CAAACAG
23876623 GCAACTGGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.55, C:0.26, G:0.16, T:0.03
Consensus pattern (31 bp):
CAAACAGCACGACAGAAACCAACAAAGCAAG
Found at i:23889985 original size:61 final size:58
Alignment explanation
Indices: 23889913--23890045 Score: 178
Period size: 61 Copynumber: 2.2 Consensus size: 58
23889903 TCCAAAAATA
* * *
23889913 ATATTATTTTAATAGTTTTAATATTAAATTAAAT-TAAATATTTATCTTGTATATAAGTATT
1 ATATTAATTTAATAGATTTAATATAAAATTAAATCT-AATATTTATCTTG-ATA-AA-TATT
* *
23889974 CTATTAATTTAATAGATTTAATATAAAATTTAATCTAATATTTATCTTGATAAATATT
1 ATATTAATTTAATAGATTTAATATAAAATTAAATCTAATATTTATCTTGATAAATATT
23890032 ATATTAATTTAATA
1 ATATTAATTTAATA
23890046 TTAAAGTGAT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
58 17 0.26
59 2 0.03
60 3 0.05
61 42 0.65
62 1 0.02
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (58 bp):
ATATTAATTTAATAGATTTAATATAAAATTAAATCTAATATTTATCTTGATAAATATT
Found at i:23890483 original size:25 final size:26
Alignment explanation
Indices: 23890442--23890493 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
23890432 AAAAAATTAA
* *
23890442 CTTTGGTTTTCTTAAA-CTTATTTTC
1 CTTTGGTTTTCTCAAACCTGATTTTC
23890467 CTTTGTGTTTT-TCAAACCTGATTTTC
1 CTTTG-GTTTTCTCAAACCTGATTTTC
23890493 C
1 C
23890494 AACAGCTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.15, C:0.19, G:0.10, T:0.56
Consensus pattern (26 bp):
CTTTGGTTTTCTCAAACCTGATTTTC
Found at i:23903623 original size:22 final size:22
Alignment explanation
Indices: 23903598--23903642 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
23903588 AAATTATTAA
* *
23903598 TATATTGAATTTTAATTAATTT
1 TATAATGAATTTTAATAAATTT
*
23903620 TATAATGAATTTTCATAAATTT
1 TATAATGAATTTTAATAAATTT
23903642 T
1 T
23903643 GATTTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (22 bp):
TATAATGAATTTTAATAAATTT
Found at i:23906779 original size:45 final size:45
Alignment explanation
Indices: 23906728--23906815 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
23906718 TGTGAACCGA
* * *
23906728 ACATCATAAATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCAG
1 ACATCATAAATTAATAAGGTGGTTACTATGTGCTGAATCCACCAG
** *
23906773 ACATCATTGATTAATAAGGTGGTTACTGTGTGCTGAATCCACC
1 ACATCATAAATTAATAAGGTGGTTACTATGTGCTGAATCCACC
23906816 GAGTATCTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (45 bp):
ACATCATAAATTAATAAGGTGGTTACTATGTGCTGAATCCACCAG
Found at i:23912581 original size:40 final size:39
Alignment explanation
Indices: 23912497--23912681 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
23912487 TTGAATGATG
* * * *
23912497 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
23912537 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
23912577 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
23912616 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGCGAGTTACTA-AA
*
23912657 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
23912682 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 36 0.29
40 78 0.62
41 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23912634 original size:79 final size:81
Alignment explanation
Indices: 23912497--23912681 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
23912487 TTGAATGATG
*
23912497 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
23912561 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
23912576 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCTCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATC-CGAAGGCA
*
23912638 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
23912656 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23912682 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:23912703 original size:79 final size:78
Alignment explanation
Indices: 23912498--23912714 Score: 210
Period size: 79 Copynumber: 2.7 Consensus size: 78
23912488 TGAATGATGT
** * * * *
23912498 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTTACTATATCCGG-TTAAGATCCGAAGGCATTT
*
23912562 GTGCGAGATACTAATT
63 GTGCGAGATACTAATA
** *
23912578 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCTCGAAGGCATTTG
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCC-GGTTAAGATC-CGAAGGCATTTG
*
23912642 TGCGAGTTACT-ATAA
64 TGCGAGATACTAAT-A
*
23912657 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAA-ATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTATATCCGGTTAAGA-TCCGAAGG
23912715 TACGTGATTT
Statistics
Matches: 118, Mismatches: 11, Indels: 17
0.81 0.08 0.12
Matches are distributed among these distances:
78 4 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCCGGTTAAGATCCGAAGGCATTTGTG
CGAGATACTAATA
Found at i:23920559 original size:40 final size:39
Alignment explanation
Indices: 23920475--23920659 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 39
23920465 TTGAATGATG
* * * *
23920475 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
23920515 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
*
23920555 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
23920594 TCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTC-CGAAGGCATTTGTGCGAGTTACTA-AA
*
23920635 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
23920660 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 36 0.29
40 78 0.62
41 11 0.09
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:23920612 original size:79 final size:81
Alignment explanation
Indices: 23920475--23920659 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
23920465 TTGAATGATG
*
23920475 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
23920539 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
23920554 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCTCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATC-CGAAGGCA
*
23920616 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
23920634 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
23920660 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 2 0.02
79 57 0.62
80 33 0.36
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:23920681 original size:79 final size:78
Alignment explanation
Indices: 23920476--23920692 Score: 210
Period size: 79 Copynumber: 2.7 Consensus size: 78
23920466 TGAATGATGT
** * * * *
23920476 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAG-CCCGAAGGCATTTGAAC-GAGTTACTATATCCGG-TTAAGATCCGAAGGCATTT
*
23920540 GTGCGAGATACTAATT
63 GTGCGAGATACTAATA
** *
23920556 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCTCGAAGGCATTTG
1 CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCC-GGTTAAGATC-CGAAGGCATTTG
*
23920620 TGCGAGTTACT-ATAA
64 TGCGAGATACTAAT-A
*
23920635 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCCGGTTAA-ATTCCGAAGG
1 CCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-CTATATCCGGTTAAGA-TCCGAAGG
23920693 TACGTGATTT
Statistics
Matches: 118, Mismatches: 11, Indels: 17
0.81 0.08 0.12
Matches are distributed among these distances:
78 4 0.03
79 68 0.58
80 46 0.39
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTATATCCGGTTAAGATCCGAAGGCATTTGTG
CGAGATACTAATA
Found at i:23927426 original size:51 final size:50
Alignment explanation
Indices: 23927356--23927553 Score: 200
Period size: 51 Copynumber: 3.9 Consensus size: 50
23927346 ATCAATGATG
* * * *
23927356 TTCGGTTCACATAGTAGCCTGCACATAGTAATACACATGTGACCATTACCA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA-TACCA
* * * * *
23927407 TTCGATACACGCAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATACCA
* * * * * * * * *
23927458 TCCGGTAGACATAGTACCCTGCACATAGTACTATAGATGCGACC-TATCA
1 TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA
23927507 TTCCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TT-CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
23927554 CATTTTTAAT
Statistics
Matches: 113, Mismatches: 31, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
49 3 0.03
50 36 0.32
51 72 0.64
52 2 0.02
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (50 bp):
TTCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATACCA
Done.