Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 17 of 208
Found at i:6941635 original size:49 final size:49
Alignment explanation
Indices: 6941580--6941725 Score: 229
Period size: 49 Copynumber: 3.0 Consensus size: 49
6941570 TTCGTTTTCT
* *
6941580 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACAAATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
6941629 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
* *
6941678 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-AATCACAT
6941726 GTTCACATGT
Statistics
Matches: 88, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
49 82 0.93
50 6 0.07
ACGTcount: A:0.33, C:0.29, G:0.14, T:0.24
Consensus pattern (49 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACAAATCACATAC
Found at i:6943038 original size:37 final size:37
Alignment explanation
Indices: 6942977--6943206 Score: 320
Period size: 37 Copynumber: 6.0 Consensus size: 37
6942967 TACGTATGAT
*
6942977 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
* *
6943012 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
6943049 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
6943086 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
6943123 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAA--GT-G-T--AGC
*
6943166 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGC
1 ---CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
6943206 C
1 C
6943207 GAAGCTATCA
Statistics
Matches: 178, Mismatches: 6, Indels: 20
0.87 0.03 0.10
Matches are distributed among these distances:
35 9 0.05
36 4 0.02
37 122 0.69
39 2 0.01
40 4 0.02
41 1 0.01
42 1 0.01
43 3 0.02
44 2 0.01
46 30 0.17
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:6943176 original size:46 final size:46
Alignment explanation
Indices: 6943123--6943391 Score: 349
Period size: 46 Copynumber: 5.6 Consensus size: 46
6943113 TAAGTGTAGC
* **
6943123 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
6943169 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
6943215 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
6943267 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
** *
6943313 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
6943365 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
6943392 AGTACTCAAA
Statistics
Matches: 201, Mismatches: 10, Indels: 24
0.86 0.04 0.10
Matches are distributed among these distances:
46 113 0.56
48 1 0.00
49 2 0.01
50 1 0.00
52 84 0.42
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:6943242 original size:52 final size:52
Alignment explanation
Indices: 6943166--6943385 Score: 308
Period size: 52 Copynumber: 4.3 Consensus size: 52
6943156 TAGCTAAAGC
* *
6943166 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
6943219 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
6943271 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
6943317 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
6943369 TATCACTTTGTCACTTG
1 TATCACTTT-TCACTTG
6943386 ATCAGAAGTA
Statistics
Matches: 150, Mismatches: 10, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
46 44 0.29
49 1 0.01
52 87 0.58
53 18 0.12
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:6943288 original size:98 final size:98
Alignment explanation
Indices: 6943123--6943391 Score: 466
Period size: 98 Copynumber: 2.7 Consensus size: 98
6943113 TAAGTGTAGC
* * *
6943123 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACT
6943188 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
65 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
**
6943222 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
6943287 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
66 GATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
6943320 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACTT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
6943385 GATCAGA
66 GATCAGA
6943392 AGTACTCAAA
Statistics
Matches: 161, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
98 152 0.94
99 9 0.06
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCACTT
GATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:6945873 original size:59 final size:59
Alignment explanation
Indices: 6945781--6945918 Score: 240
Period size: 59 Copynumber: 2.3 Consensus size: 59
6945771 TTACAGCGGG
* * * *
6945781 ATTACCAGTCCAGGCAAAATCCCCTGCAATGACAATTATTCTAATGAGCTTGGGTCTGA
1 ATTACCAGTCCAGGCTAAATCCCCTACAATGACAATTACTCTAATGAGCTTGGATCTGA
6945840 ATTACCAGTCCAGGCTAAATCCCCTACAATGACAATTACTCTAATGAGCTTGGATCTGA
1 ATTACCAGTCCAGGCTAAATCCCCTACAATGACAATTACTCTAATGAGCTTGGATCTGA
6945899 ATTACCAGTCCAGGCTAAAT
1 ATTACCAGTCCAGGCTAAAT
6945919 TCAGACCCTA
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 75 1.00
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (59 bp):
ATTACCAGTCCAGGCTAAATCCCCTACAATGACAATTACTCTAATGAGCTTGGATCTGA
Found at i:6950257 original size:13 final size:13
Alignment explanation
Indices: 6950239--6950278 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
6950229 AGTAGAAGTG
*
6950239 ACAATTTTATTAA
1 ACAATTTTATCAA
*
6950252 ACAATTTTTATCAG
1 ACAA-TTTTATCAA
6950266 ACAATTTTATCAA
1 ACAATTTTATCAA
6950279 CCATAAAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.42
Consensus pattern (13 bp):
ACAATTTTATCAA
Found at i:6958143 original size:7 final size:7
Alignment explanation
Indices: 6958131--6958155 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
6958121 GAGGCTTGGA
6958131 TCCACTG
1 TCCACTG
6958138 TCCACTG
1 TCCACTG
6958145 TCCACTG
1 TCCACTG
6958152 TCCA
1 TCCA
6958156 TTGGACCGAA
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:0.16, C:0.44, G:0.12, T:0.28
Consensus pattern (7 bp):
TCCACTG
Found at i:6969459 original size:5 final size:5
Alignment explanation
Indices: 6969449--6969488 Score: 80
Period size: 5 Copynumber: 8.0 Consensus size: 5
6969439 TCCACCCAGG
6969449 ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT
1 ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT ATTGT
6969489 TGTTGGTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.20, C:0.00, G:0.20, T:0.60
Consensus pattern (5 bp):
ATTGT
Found at i:6975919 original size:40 final size:40
Alignment explanation
Indices: 6975864--6975939 Score: 143
Period size: 40 Copynumber: 1.9 Consensus size: 40
6975854 ACTTATGTTA
*
6975864 ACTTGGATTCGAGTGTGAATATCGAAAATGGATATGGAAT
1 ACTTGGATTCGAGTGTGAATATCAAAAATGGATATGGAAT
6975904 ACTTGGATTCGAGTGTGAATATCAAAAATGGATATG
1 ACTTGGATTCGAGTGTGAATATCAAAAATGGATATG
6975940 TATTCCATGC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.30
Consensus pattern (40 bp):
ACTTGGATTCGAGTGTGAATATCAAAAATGGATATGGAAT
Found at i:6984934 original size:12 final size:13
Alignment explanation
Indices: 6984904--6984946 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
6984894 TTTTATTTTT
6984904 AATTAAAACTATA
1 AATTAAAACTATA
6984917 AATTAAAA-TATA
1 AATTAAAACTATA
*
6984929 ATTTAAAAACTATCA
1 AATT-AAAACTAT-A
6984944 AAT
1 AAT
6984947 AAATTTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 7 0.28
13 12 0.48
14 3 0.12
15 3 0.12
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (13 bp):
AATTAAAACTATA
Found at i:6984988 original size:13 final size:14
Alignment explanation
Indices: 6984949--6985007 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 14
6984939 TATCAAATAA
*
6984949 ATTTTATTATTAAAT
1 ATTTTATTA-AAAAT
* *
6984964 A-TTTAATCAAAAT
1 ATTTTATTAAAAAT
6984977 ATTTT-TTAAAAAT
1 ATTTTATTAAAAAT
6984990 AAATTTTATTAAAAAT
1 --ATTTTATTAAAAAT
6985006 AT
1 AT
6985008 ATAAGCTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
13 11 0.31
14 10 0.29
15 6 0.17
16 8 0.23
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTTATTAAAAAT
Found at i:6985001 original size:16 final size:15
Alignment explanation
Indices: 6984977--6985006 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
6984967 TAATCAAAAT
6984977 ATTTTTTAAAAATAA
1 ATTTTTTAAAAATAA
6984992 ATTTTATTAAAAATA
1 ATTTT-TTAAAAATA
6985007 TATAAGCTTT
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATTTTTTAAAAATAA
Found at i:6986138 original size:3 final size:3
Alignment explanation
Indices: 6986130--6986155 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6986120 GGTAGAGTAG
6986130 TGA TGA TGA TGA TGA TGA TGA TGA TG
1 TGA TGA TGA TGA TGA TGA TGA TGA TG
6986156 GAAACTGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (3 bp):
TGA
Found at i:6987864 original size:42 final size:42
Alignment explanation
Indices: 6987817--6988229 Score: 512
Period size: 42 Copynumber: 9.9 Consensus size: 42
6987807 GTTTACAAAC
* *
6987817 AAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAA
*
6987859 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAGAAA
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAA
*
6987901 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AA
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAA
* *
6987942 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAA
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAA
* * *
6987983 AAAATGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAA
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAA
6988025 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAA
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AAA
**
6988068 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGGG
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-AA
* * *****
6988110 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTTTTTTC
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-CTTAGAAA
* * * * ***
6988153 TAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATT-TTTA
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAA
* * *
6988193 CAAACGCCGCAAAAGAACATGTTCTTTAGTGGCGCTT
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTT
6988230 TTATACAAAA
Statistics
Matches: 334, Mismatches: 30, Indels: 15
0.88 0.08 0.04
Matches are distributed among these distances:
40 36 0.11
41 73 0.22
42 153 0.46
43 72 0.22
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (42 bp):
AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAA
Found at i:6988024 original size:124 final size:125
Alignment explanation
Indices: 6987817--6988143 Score: 507
Period size: 124 Copynumber: 2.6 Consensus size: 125
6987807 GTTTACAAAC
* * * *
6987817 AAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-TTTGTAAAAAACGCCGCTAAAGATCATGTT
*
6987882 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AA
65 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAA
* * *
6987942 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAATGCCTCTAAAGACCATGTTC
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAACGCCGCTAAAGATCATGTTC
6988007 TTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAA
66 TTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAG-AAA
*
6988068 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCG-CT-TAAGGGAAAACGCCGCTAAAGATCATG
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAA---AAAACGCCGCTAAAGATCATG
6988131 TTCTTTAGCGGCG
63 TTCTTTAGCGGCG
6988144 TTTTTTTTCT
Statistics
Matches: 185, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
124 85 0.46
125 33 0.18
126 36 0.19
127 31 0.17
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (125 bp):
AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAAAAAACGCCGCTAAAGATCATGTTC
TTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAA
Found at i:6988161 original size:85 final size:84
Alignment explanation
Indices: 6987817--6988244 Score: 501
Period size: 83 Copynumber: 5.1 Consensus size: 84
6987807 GTTTACAAAC
* * *
6987817 AAAACGCCGTTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTT
*
6987882 CTTTAGCGGCGCTTAG-AAA
66 CTTTAGCGGCG-TTTGTAAA
*
6987901 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTAG-AAAAAACGCCGCTAAAGAACATGTT
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTT
6987965 CTTTAGCGGCGTTTGT-AA
66 CTTTAGCGGCGTTTGTAAA
* * *
6987983 AAAATGCCTCTAAAGACCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTT
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTT
* *
6988048 CTTTAGCGGCGCTTAGAAAA
66 CTTTAGCGGCG-TTTGTAAA
** *
6988068 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTA-AGGGAAAACGCCGCTAAAGATCATGT
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGA-AAAAAACGCCGCTAAAGAACATGT
* ***
6988132 TCTTTAGCGGCGTTTTTTTTC
65 TCTTTAGCGGCG-TTTGTAAA
* * * * *** * *
6988153 TAATCGCCGCTAAAGAACATGTTCTTTAGTGGC-ATT-TTTACAAACGCCGCAAAAGAACATGTT
1 AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTT
*
6988216 CTTTAGTGGCGCTTT-TATACA
66 CTTTAGCGGCG-TTTGTA-A-A
6988237 AAAACGCC
1 AAAACGCC
6988245 ACTATTTTTG
Statistics
Matches: 297, Mismatches: 39, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
82 42 0.14
83 104 0.35
84 49 0.16
85 102 0.34
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.26
Consensus pattern (84 bp):
AAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGAACATGTT
CTTTAGCGGCGTTTGTAAA
Found at i:6988321 original size:14 final size:14
Alignment explanation
Indices: 6988298--6988331 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
6988288 GCCCTCCTGT
*
6988298 AGCAAAATTTCAAA
1 AGCAACATTTCAAA
6988312 AGCAACATTTCAAA
1 AGCAACATTTCAAA
6988326 AGCAAC
1 AGCAAC
6988332 CAATAGCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.53, C:0.21, G:0.09, T:0.18
Consensus pattern (14 bp):
AGCAACATTTCAAA
Found at i:6988574 original size:12 final size:12
Alignment explanation
Indices: 6988557--6988584 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
6988547 TTGCTCTGCT
6988557 CTGCTTCTCTTG
1 CTGCTTCTCTTG
6988569 CTGCTTCTCTTG
1 CTGCTTCTCTTG
6988581 CTGC
1 CTGC
6988585 AAGTTAAATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.00, C:0.36, G:0.18, T:0.46
Consensus pattern (12 bp):
CTGCTTCTCTTG
Found at i:6988623 original size:26 final size:25
Alignment explanation
Indices: 6988585--6988799 Score: 264
Period size: 26 Copynumber: 8.6 Consensus size: 25
6988575 CTCTTGCTGC
*
6988585 AAGTTAAATGTATTATGTAAGTTGT
1 AAGTTATATGTATTATGTAAGTTGT
6988610 AAGTTATTATGTATTATGTAAGTTGT
1 AAGTTA-TATGTATTATGTAAGTTGT
*
6988636 AAGTTATTATGTATTGTGTAAGTTGT
1 AAGTTA-TATGTATTATGTAAGTTGT
* *
6988662 AAGTTAAATGTATTATGTCA---GT
1 AAGTTATATGTATTATGTAAGTTGT
*
6988684 CA---A-ATGTATTATGTAAGTTGT
1 AAGTTATATGTATTATGTAAGTTGT
*
6988705 AAGTTAAATGTATTATGTAAGTTGT
1 AAGTTATATGTATTATGTAAGTTGT
6988730 AAGTTATTATGTATTATGTAAGTAATGT
1 AAGTTA-TATGTATTATGTAAGT--TGT
*
6988758 AAGTTAAATGTATTATGTAAGTTGT
1 AAGTTATATGTATTATGTAAGTTGT
6988783 AAGTTATTATGTATTAT
1 AAGTTA-TATGTATTAT
6988800 TTAATAAAAT
Statistics
Matches: 167, Mismatches: 11, Indels: 23
0.83 0.05 0.11
Matches are distributed among these distances:
18 12 0.07
19 1 0.01
21 3 0.02
22 3 0.02
24 1 0.01
25 50 0.30
26 73 0.44
27 15 0.09
28 9 0.05
ACGTcount: A:0.34, C:0.01, G:0.19, T:0.46
Consensus pattern (25 bp):
AAGTTATATGTATTATGTAAGTTGT
Found at i:6988697 original size:25 final size:24
Alignment explanation
Indices: 6988681--6988786 Score: 113
Period size: 25 Copynumber: 4.1 Consensus size: 24
6988671 GTATTATGTC
6988681 AGTCAAATGTATTATGTAAGTTGTA
1 AGTCAAATGTATTATGT-AGTTGTA
*
6988706 AGTTAAATGTATTATGTAAGTTGTA
1 AGTCAAATGTATTATGT-AGTTGTA
* *
6988731 AGTTATTATGTATTATGTAAGTAATGTA
1 AGTCA-AATGTATTATGT-AGT--TGTA
*
6988759 AGTTAAATGTATTATGTAAGTTGTA
1 AGTCAAATGTATTATGT-AGTTGTA
6988784 AGT
1 AGT
6988787 TATTATGTAT
Statistics
Matches: 75, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
25 36 0.48
26 15 0.20
27 15 0.20
28 9 0.12
ACGTcount: A:0.36, C:0.01, G:0.20, T:0.43
Consensus pattern (24 bp):
AGTCAAATGTATTATGTAGTTGTA
Found at i:6988723 original size:18 final size:18
Alignment explanation
Indices: 6988659--6988780 Score: 74
Period size: 18 Copynumber: 6.4 Consensus size: 18
6988649 TTGTGTAAGT
6988659 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
* *
6988677 TGTCAGTCAAATGTATTATGTAA
1 TGTAAGTTAAATG---TAT-T-A
6988700 GTTGTAAGTTAAATGTATTA
1 --TGTAAGTTAAATGTATTA
*
6988720 TGTAAGTTGTAA-GTTATTA
1 TGTAAGTT-AAATG-TATTA
*
6988739 TGT-A-TT--ATGTAAGTAA
1 TGTAAGTTAAATGT-A-TTA
6988755 TGTAAGTTAAATGTATTA
1 TGTAAGTTAAATGTATTA
6988773 TGTAAGTT
1 TGTAAGTT
6988781 GTAAGTTATT
Statistics
Matches: 81, Mismatches: 7, Indels: 32
0.68 0.06 0.27
Matches are distributed among these distances:
14 2 0.02
15 2 0.02
16 5 0.06
17 3 0.04
18 33 0.41
19 11 0.14
20 5 0.06
21 4 0.05
22 4 0.05
23 1 0.01
25 11 0.14
ACGTcount: A:0.35, C:0.02, G:0.19, T:0.44
Consensus pattern (18 bp):
TGTAAGTTAAATGTATTA
Found at i:6988769 original size:53 final size:51
Alignment explanation
Indices: 6988687--6988799 Score: 208
Period size: 53 Copynumber: 2.2 Consensus size: 51
6988677 TGTCAGTCAA
6988687 ATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATT
1 ATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATT
6988738 ATGTATTATGTAAGTAATGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATT
1 ATGTATTATGTAAGT--TGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATT
6988791 ATGTATTAT
1 ATGTATTAT
6988800 TTAATAAAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
51 15 0.25
53 45 0.75
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.47
Consensus pattern (51 bp):
ATGTATTATGTAAGTTGTAAGTTAAATGTATTATGTAAGTTGTAAGTTATT
Found at i:6988993 original size:74 final size:74
Alignment explanation
Indices: 6988836--6988983 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
6988826 ACATTACTAA
6988836 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
6988901 TATTTTTTT
66 TATTTTTTT
6988910 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
1 TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
6988975 TATTTTTTT
66 TATTTTTTT
6988984 ATATTTTATT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (74 bp):
TATAATTATTAATAATATTTAATAAAATAACATTTTATTTTAATAGTCAATTTTAATATTCCACA
TATTTTTTT
Found at i:6989151 original size:13 final size:13
Alignment explanation
Indices: 6989133--6989203 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
6989123 ATTTATAATT
6989133 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
6989146 ATTTAAGTAACAT
1 ATTTAAGTAATAA
6989159 ATTTAAGTAATAA
1 ATTTAAGTAATAA
* *
6989172 ATTTAAGTAACAT
1 ATTTAAGTAATAA
6989185 ATTTAAGTAATAA
1 ATTTAAGTAATAA
6989198 ATTTAA
1 ATTTAA
6989204 ACAAATTTTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 50 1.00
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.39
Consensus pattern (13 bp):
ATTTAAGTAATAA
Found at i:6989162 original size:26 final size:26
Alignment explanation
Indices: 6989132--6989203 Score: 144
Period size: 26 Copynumber: 2.8 Consensus size: 26
6989122 TATTTATAAT
6989132 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
6989158 TATTTAAGTAATAAATTTAAGTAACA
1 TATTTAAGTAATAAATTTAAGTAACA
6989184 TATTTAAGTAATAAATTTAA
1 TATTTAAGTAATAAATTTAA
6989204 ACAAATTTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.50, C:0.03, G:0.07, T:0.40
Consensus pattern (26 bp):
TATTTAAGTAATAAATTTAAGTAACA
Found at i:6989230 original size:17 final size:17
Alignment explanation
Indices: 6989208--6989251 Score: 88
Period size: 17 Copynumber: 2.6 Consensus size: 17
6989198 ATTTAAACAA
6989208 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
6989225 ATTTTAGTAAGTAATGT
1 ATTTTAGTAAGTAATGT
6989242 ATTTTAGTAA
1 ATTTTAGTAA
6989252 TAAATTTAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (17 bp):
ATTTTAGTAAGTAATGT
Found at i:6992160 original size:115 final size:114
Alignment explanation
Indices: 6992022--6992338 Score: 553
Period size: 115 Copynumber: 2.8 Consensus size: 114
6992012 AATAAACACC
6992022 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
* *
6992087 TAACATTTTTTGCGGCGTTTTAAGATAAGCGCCGCTAAAGTAACATATTT
66 TAACA-TTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
* *
6992137 TGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGGTAAACACATA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACAT-AAAAAACGGTCACGTTTTGGTAAACACAAA
* * *
6992202 ATAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAGTAACATCTTT
65 ATAACATTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
6992252 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
1 TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
6992317 TAACATTTTTGCGGCGTTTTAA
66 TAACATTTTTGCGGCGTTTTAA
6992339 TAAAAACGCC
Statistics
Matches: 190, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
114 50 0.26
115 105 0.55
116 35 0.18
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (114 bp):
TGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
TAACATTTTTGCGGCGTTTTAAAAGAAGCGCCGCTAAAGTAACATATTT
Found at i:6992165 original size:40 final size:40
Alignment explanation
Indices: 6992087--6992165 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 40
6992077 AAACACAAAA
* * * * * *
6992087 TAACATTTTTTGCGGCGTTTTAAGATAAGCGCCGCTAAAG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAAG
6992127 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAA
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAA
6992166 TACATAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (40 bp):
TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAAG
Found at i:6992280 original size:40 final size:39
Alignment explanation
Indices: 6992203--6992280 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 39
6992193 AAACACATAA
* * *
6992203 TAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAG
1 TAACATTTTTGCGGCATTTTAAAAGAAACGCCACTAAAG
*
6992242 TAACATCTTTTGCGGCGTTTTAACAA-AAACGCCACTAAA
1 TAACAT-TTTTGCGGCATTTTAA-AAGAAACGCCACTAAA
6992281 TACATAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
39 6 0.18
40 25 0.76
41 2 0.06
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (39 bp):
TAACATTTTTGCGGCATTTTAAAAGAAACGCCACTAAAG
Found at i:6992429 original size:75 final size:74
Alignment explanation
Indices: 6992242--6992413 Score: 308
Period size: 75 Copynumber: 2.3 Consensus size: 74
6992232 GCCGCTAAAG
6992242 TAACATCTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
1 TAACAT-TTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGT
6992307 AAACACAAAA
65 AAACACAAAA
*
6992317 TAACATTTTTGCGGCGTTTTAATAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGGT
1 TAACATTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACAT-AAAAAACGGTCACGTTTTGGT
6992382 AAACACAAAA
65 AAACACAAAA
*
6992392 TAACATTCTTGCGGCGTTTTAA
1 TAACATTTTTGCGGCGTTTTAA
6992414 GATAAGCGCC
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
74 36 0.38
75 58 0.62
ACGTcount: A:0.40, C:0.19, G:0.14, T:0.28
Consensus pattern (74 bp):
TAACATTTTTGCGGCGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTA
AACACAAAA
Found at i:6992454 original size:189 final size:189
Alignment explanation
Indices: 6992127--6992505 Score: 589
Period size: 189 Copynumber: 2.0 Consensus size: 189
6992117 GCCGCTAAAG
6992127 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
* * * * *
6992192 TAAACACATAATAACATTTTTGTGGCATTTTAAAAGAAGCGCCGCTAAAGTAACATCTTTTGCGG
66 TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGGAACATCTTTTCCGG
* * *
6992257 CGTTTTAACAAAAACGCCACTAAATACATAAAAAACGGTCACGTTTTGGTAAACACAAAA
131 CGTTTTAACAAAAACGCCACTAAAAACAT-AAAAACGATCACGTTTCGGTAAACACAAAA
* *
6992317 TAACAT-TTTTGCGGCGTTTTAATAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
1 TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
* * * *
6992381 TAAACACAAAATAACATTCTTGCGGCGTTTTAAGATAAGCGCCGCTAAAGGAAGATCTTTTCCGG
66 TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGGAACATCTTTTCCGG
** *
6992446 CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATTTCGTTTCGGTCAACACAAAA
131 CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATCACGTTTCGGTAAACACAAAA
6992505 T
1 T
6992506 CCAACAAAAC
Statistics
Matches: 172, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
188 26 0.15
189 140 0.81
190 6 0.03
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.27
Consensus pattern (189 bp):
TAACATATTTTGCGGCATTTTAACAAAAACGCCACTAAATACATAAAAAAACGGTCACGTTTTGG
TAAACACAAAATAACATTCTTGCGGCATTTTAAAAGAAGCGCCGCTAAAGGAACATCTTTTCCGG
CGTTTTAACAAAAACGCCACTAAAAACATAAAAACGATCACGTTTCGGTAAACACAAAA
Found at i:6992702 original size:113 final size:115
Alignment explanation
Indices: 6992502--6992786 Score: 315
Period size: 114 Copynumber: 2.5 Consensus size: 115
6992492 GGTCAACACA
* * * ** * * * * *** **
6992502 AAATCCAACAAAACGGCAACGTTTTTATTATAACCCATTGAAATTTTGTGGCGTTTCCAACGCAG
1 AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACATAG
* *
6992567 CGCCGCTAAAGGCTGACGTTTT-CGGCGTTTTACAAAAAACGCCACTAAT
66 CGCCGCTAAAGGATGACGTTTTCCGGCGTTTTACAAAAAACGCCACTAAG
* * *
6992616 AAATCCTACACCACGGCAGCG-TTTTATTAAAACAGAATCACATTTTGCGGCGTTTTTGACATAG
1 AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACATAG
* *
6992680 CGCCGCTAAAGGATGATC-TTTTCCGGCGTTTTACCAAAAACGCCAGTAAG
66 CGCCGCTAAAGGATGA-CGTTTTCCGGCGTTTTACAAAAAACGCCACTAAG
* * * *
6992730 AAATCTTACAGAACGGCAACGTTTTTATTGAAACAAAATCACATTTTGCGGTGTTTT
1 AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTT
6992787 ACCCAAAACG
Statistics
Matches: 141, Mismatches: 27, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
113 50 0.35
114 59 0.42
115 32 0.23
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (115 bp):
AAATCCTACACAACGGCAACGTTTTTATTAAAACAAAATCACATTTTGCGGCGTTTTTGACATAG
CGCCGCTAAAGGATGACGTTTTCCGGCGTTTTACAAAAAACGCCACTAAG
Found at i:6993303 original size:7 final size:7
Alignment explanation
Indices: 6993291--6993464 Score: 51
Period size: 7 Copynumber: 25.1 Consensus size: 7
6993281 ACTAATCAAT
6993291 CTAAACC
1 CTAAACC
*
6993298 CTAAACA
1 CTAAACC
6993305 C-ATAACC
1 CTA-AACC
6993312 CTTAAATCC
1 C-TAAA-CC
6993321 CTTAAACC
1 C-TAAACC
6993329 CTAAACC
1 CTAAACC
*
6993336 C-AAATC
1 CTAAACC
* *
6993342 ATAATCC
1 CTAAACC
6993349 CTAAA-C
1 CTAAACC
*
6993355 CT--AGC
1 CTAAACC
*
6993360 CTAGACC
1 CTAAACC
*
6993367 CTGAACC
1 CTAAACC
*
6993374 C-CAACC
1 CTAAACC
6993380 CGTAAACC
1 C-TAAACC
*
6993388 TTAAACC
1 CTAAACC
*
6993395 C-CAACC
1 CTAAACC
*
6993401 C-CAACC
1 CTAAACC
6993407 CGTAAACC
1 C-TAAACC
*
6993415 TTAAACC
1 CTAAACC
*
6993422 C-CAACTC
1 CTAAAC-C
*
6993429 GTAAACC
1 CTAAACC
*
6993436 CTAAACT
1 CTAAACC
*
6993443 GTAAACC
1 CTAAACC
* * *
6993450 ATAATCA
1 CTAAACC
6993457 CTAAACC
1 CTAAACC
6993464 C
1 C
6993465 ATAATTTGCA
Statistics
Matches: 121, Mismatches: 32, Indels: 28
0.67 0.18 0.15
Matches are distributed among these distances:
4 1 0.01
5 3 0.02
6 27 0.22
7 65 0.54
8 16 0.13
9 9 0.07
ACGTcount: A:0.40, C:0.39, G:0.04, T:0.17
Consensus pattern (7 bp):
CTAAACC
Found at i:6993394 original size:21 final size:21
Alignment explanation
Indices: 6993370--6993441 Score: 72
Period size: 21 Copynumber: 3.1 Consensus size: 21
6993360 CTAGACCCTG
6993370 AACCCCAACCCGTAAACCTTAA
1 AACCCCAACCCGTAAACCTT-A
6993392 ACCCCAACCCCAACCCGTAAACCTTA
1 A-----ACCCCAACCCGTAAACCTTA
* *
6993418 AACCCCAACTCGTAAACCCTA
1 AACCCCAACCCGTAAACCTTA
6993439 AAC
1 AAC
6993442 TGTAAACCAT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
21 21 0.49
22 1 0.02
26 2 0.05
27 19 0.44
ACGTcount: A:0.39, C:0.44, G:0.04, T:0.12
Consensus pattern (21 bp):
AACCCCAACCCGTAAACCTTA
Found at i:6993400 original size:27 final size:27
Alignment explanation
Indices: 6993370--6993426 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
6993360 CTAGACCCTG
6993370 AACCCCAACCCGTAAACCTTAAACCCC
1 AACCCCAACCCGTAAACCTTAAACCCC
6993397 AACCCCAACCCGTAAACCTTAAACCCC
1 AACCCCAACCCGTAAACCTTAAACCCC
6993424 AAC
1 AAC
6993427 TCGTAAACCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.39, C:0.47, G:0.04, T:0.11
Consensus pattern (27 bp):
AACCCCAACCCGTAAACCTTAAACCCC
Found at i:6993991 original size:73 final size:72
Alignment explanation
Indices: 6993896--6994033 Score: 197
Period size: 73 Copynumber: 1.9 Consensus size: 72
6993886 AAAGACTCGA
6993896 AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCG-CTTTTACAAAAACGCCACTAA
1 AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTA-AAAAACGCCACTAA
6993960 AGCCTCCC
65 AGCCTCCC
* * * * * *
6993968 AAACTAAGAAAAACGATGTCGTTGGGCTTCGGTTTTTTGTGGCGATTTTTAAAAAATGCCGCTAA
1 AAACTAAG-AAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTAAAAAACGCCACTAA
6994033 A
65 A
6994034 ACATTGAGCA
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 8 0.14
73 45 0.78
74 5 0.09
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (72 bp):
AAACTAAGAAAACGATGTCGTTGGGCTTAGGCTTTTTGCGGCGACTTTTAAAAAACGCCACTAAA
GCCTCCC
Found at i:6994087 original size:114 final size:114
Alignment explanation
Indices: 6993933--6994259 Score: 408
Period size: 113 Copynumber: 2.9 Consensus size: 114
6993923 TAGGCTTTTT
** * ** *
6993933 GCGGCGCTTTTACAAAAACGCCACTAAAGCCTCCCAAACTAAGAAAAACGATGTCGTTGGGCTTC
1 GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
* * * * * *
6993998 GGTTTTTTGTGGCGATTTTTAAAAAATGCCGCTAAAACATTGAGCATTA
66 GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
* *
6994047 GCGGCGCTTTCCCGAAAACGCCACCAAAGCCTCGAAAACTAAG-AAAATGATGTCGTTGGGCTTA
1 GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
* * * *
6994111 GGTCTTTTGCGGCGCTTTTTAAGAAACGCTGCTAAAGCCCTGAGAATTA
66 GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
* * * *
6994160 -CTTGCGC-TTCTCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGACGTCGTTTGGTT
1 GC-GGCGCTTTC-CCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCT
*
6994223 TAGGTTTTTAGCGGCGCTTTTTAAGAAACGCCGCTAA
64 TAGGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAA
6994260 TGCTCATTAT
Statistics
Matches: 183, Mismatches: 27, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
112 4 0.02
113 93 0.51
114 86 0.47
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.25
Consensus pattern (114 bp):
GCGGCGCTTTCCCAAAAACGCCACCAAAGCCTCGAAAACTAAGAAAAACGATGTCGTTGGGCTTA
GGTTTTTTGCGGCGCTTTTTAAGAAACGCCGCTAAAACACTGAGAATTA
Found at i:6994352 original size:41 final size:40
Alignment explanation
Indices: 6994227--6994379 Score: 141
Period size: 39 Copynumber: 3.9 Consensus size: 40
6994217 TTGGTTTAGG
* * *
6994227 TTTTTAGCGGCG-CTTTT-TAAGAAACGCCGCTAATGCTCA
1 TTTTTAGCGGCGTTTTTTGTAA-AATCGCCGCTAATGCTAA
* * * * *
6994266 TTATTAGCGGCG-TTTTTGTAAAAGCGCCGGTAATACTGA
1 TTTTTAGCGGCGTTTTTTGTAAAATCGCCGCTAATGCTAA
* * *
6994305 TATTTAGCGGCGTTTTTTTTTAAATCGCCGCTAATGCTTAA
1 TTTTTAGCGGCGTTTTTTGTAAAATCGCCGCTAATGC-TAA
* **
6994346 TTTTTAGCGGCGTTTGTTGTCCAATCGCCGCTAA
1 TTTTTAGCGGCGTTTTTTGTAAAATCGCCGCTAA
6994380 AAGCGCCGCT
Statistics
Matches: 92, Mismatches: 19, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
39 39 0.42
40 22 0.24
41 31 0.34
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTTTGTAAAATCGCCGCTAATGCTAA
Found at i:6996647 original size:14 final size:14
Alignment explanation
Indices: 6996628--6996655 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6996618 AGAATAGATT
6996628 TTTAATTAAATAAA
1 TTTAATTAAATAAA
6996642 TTTAATTAAATAAA
1 TTTAATTAAATAAA
6996656 AAATTTAAAC
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:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TTTAATTAAATAAA
Found at i:6996655 original size:18 final size:17
Alignment explanation
Indices: 6996629--6996663 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
6996619 GAATAGATTT
*
6996629 TTAATTAAATAAATTTAA
1 TTAAATAAA-AAATTTAA
6996647 TTAAATAAAAAATTTAA
1 TTAAATAAAAAATTTAA
6996664 ACCCTAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TTAAATAAAAAATTTAA
Found at i:7002168 original size:24 final size:24
Alignment explanation
Indices: 7002141--7002189 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
7002131 CTCGGGTGTC
7002141 TGTTTTTTTTGGGGGGGTTTCCAT
1 TGTTTTTTTTGGGGGGGTTTCCAT
7002165 TGTTTTTTTTGGGGGGGTTTCCAT
1 TGTTTTTTTTGGGGGGGTTTCCAT
7002189 T
1 T
7002190 CTCTACATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.04, C:0.08, G:0.33, T:0.55
Consensus pattern (24 bp):
TGTTTTTTTTGGGGGGGTTTCCAT
Found at i:7007971 original size:20 final size:19
Alignment explanation
Indices: 7007935--7007979 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
7007925 TTTAAAAAAA
*
7007935 TTAAAAATGTATAAAAATT
1 TTAAAAATATATAAAAATT
*
7007954 TTAAAAATATATGTAAAATT
1 TTAAAAATATAT-AAAAATT
*
7007974 CTAAAA
1 TTAAAA
7007980 GCATATATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 11 0.50
20 11 0.50
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (19 bp):
TTAAAAATATATAAAAATT
Found at i:7009601 original size:31 final size:30
Alignment explanation
Indices: 7009540--7009601 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 30
7009530 TAATATACAA
* *
7009540 TTTTATACATGAATTTTGATTTTGTGTAAT
1 TTTTATACATAAATTTTGATTTTGTCTAAT
7009570 TTTTATACATAAAATTTTGA-TTTGATCTAAT
1 TTTTATACAT-AAATTTTGATTTTG-TCTAAT
7009601 T
1 T
7009602 ATTGTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 14 0.50
31 14 0.50
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.55
Consensus pattern (30 bp):
TTTTATACATAAATTTTGATTTTGTCTAAT
Found at i:7009839 original size:31 final size:29
Alignment explanation
Indices: 7009784--7009845 Score: 79
Period size: 31 Copynumber: 2.1 Consensus size: 29
7009774 GTTTCACGTG
* *
7009784 TATAATTACACCAAATTAAAATTCATATA
1 TATAATTACACCAAATCAAAATTCACATA
*
7009813 TATAATTACACATTAAATCAAAATTCACATA
1 TATAATTACAC--CAAATCAAAATTCACATA
7009844 TA
1 TA
7009846 ACTTTTAGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 11 0.39
31 17 0.61
ACGTcount: A:0.52, C:0.15, G:0.00, T:0.34
Consensus pattern (29 bp):
TATAATTACACCAAATCAAAATTCACATA
Found at i:7013087 original size:32 final size:32
Alignment explanation
Indices: 7013046--7013109 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
7013036 ACGTGTGCAG
7013046 CCCGTTTAGCTATGACTCAGATCTTAATAGGA
1 CCCGTTTAGCTATGACTCAGATCTTAATAGGA
7013078 CCCGTTTAGCTATGACTCAGATCTTAATAGGA
1 CCCGTTTAGCTATGACTCAGATCTTAATAGGA
7013110 ATGGAAGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (32 bp):
CCCGTTTAGCTATGACTCAGATCTTAATAGGA
Found at i:7015456 original size:14 final size:14
Alignment explanation
Indices: 7015439--7015473 Score: 61
Period size: 14 Copynumber: 2.4 Consensus size: 14
7015429 CTCACATTTC
7015439 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
7015453 TTTTCTTTTCTCCA
1 TTTTCTTTTCTCCA
7015467 TATTTCT
1 T-TTTCT
7015474 GCTTCTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.75
15 5 0.25
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.66
Consensus pattern (14 bp):
TTTTCTTTTCTCCA
Found at i:7015457 original size:19 final size:18
Alignment explanation
Indices: 7015419--7015463 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
7015409 TACGGTACGC
7015419 TTCTTTTC-TTCTCACAT
1 TTCTTTTCTTTCTCACAT
7015436 TTCTTTTCTTTTCTC-CATT
1 TTCTTTTC-TTTCTCACA-T
7015455 TTCTTTTCT
1 TTCTTTTCT
7015464 CCATATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
17 8 0.32
18 3 0.12
19 14 0.56
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (18 bp):
TTCTTTTCTTTCTCACAT
Found at i:7018486 original size:17 final size:18
Alignment explanation
Indices: 7018461--7018506 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
7018451 TATAAGAATA
*
7018461 ATTATATTA-AGAATTTT
1 ATTAAATTATAGAATTTT
* *
7018478 ATTAAATTATATATTTTT
1 ATTAAATTATAGAATTTT
7018496 ATTAAATTATA
1 ATTAAATTATA
7018507 TTTAATAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 8 0.32
18 17 0.68
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTAAATTATAGAATTTT
Found at i:7018722 original size:44 final size:45
Alignment explanation
Indices: 7018667--7018764 Score: 128
Period size: 44 Copynumber: 2.2 Consensus size: 45
7018657 CTATTACACC
* * *
7018667 TCCATTCCATTCAACCAAACACA-AGAA-TACTATTATGCCTTTAT
1 TCCATTACATTCAACCAAACA-ATAGAATTACTATTACGCCTCTAT
* *
7018711 TCCATTACATTCAACCAAACAATTGAATTGCTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
7018756 TCCATTACA
1 TCCATTACA
7018765 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
43 1 0.02
44 23 0.49
45 23 0.49
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.33
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
Found at i:7019062 original size:19 final size:19
Alignment explanation
Indices: 7019035--7019071 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7019025 TATTTTTAAA
* *
7019035 ATTTTAAAAATTAAAAAAC
1 ATTTAAAAAAATAAAAAAC
7019054 ATTTAAAAAAATAAAAAA
1 ATTTAAAAAAATAAAAAA
7019072 AATCATTAAA
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:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (19 bp):
ATTTAAAAAAATAAAAAAC
Found at i:7021284 original size:14 final size:14
Alignment explanation
Indices: 7021242--7021271 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7021232 AGGTTGATTA
7021242 TTTTCTTCATACTC
1 TTTTCTTCATACTC
*
7021256 TTTTCTTCATATTC
1 TTTTCTTCATACTC
7021270 TT
1 TT
7021272 CATATTCTTT
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:0.23, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTCTTCATACTC
Found at i:7026795 original size:51 final size:51
Alignment explanation
Indices: 7026697--7026857 Score: 270
Period size: 51 Copynumber: 3.2 Consensus size: 51
7026687 TGAGTACTTC
* *
7026697 TGATCAGTGACAAGTGATAAGTGGT-AGTTTAGCTACACTTATCTGATCAG
1 TGATAAGTGACAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAG
7026747 TGATAAGTGACAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAG
1 TGATAAGTGACAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAG
* * *
7026798 TGATAACTGACAAGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATCAG
1 TGATAAGTGACAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAG
7026849 TGATAAGTG
1 TGATAAGTG
7026858 GTAGCTTAGC
Statistics
Matches: 104, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
50 24 0.23
51 80 0.77
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.32
Consensus pattern (51 bp):
TGATAAGTGACAAGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAG
Found at i:7026868 original size:87 final size:88
Alignment explanation
Indices: 7026759--7026944 Score: 311
Period size: 87 Copynumber: 2.1 Consensus size: 88
7026749 ATAAGTGACA
*
7026759 AGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAGTGATAACTGACAAGTGATAAGTGGTA
1 AGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAGTGACAACTGACAAGTGATAAGTGGTA
*
7026824 GCTTTAGCTGCACTTATCTGATC
66 GCTTTAGCTACACTTATCTGATC
* * *
7026847 AGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCGGTGACAAGTGACAAGTGATAAGTGGTA
1 AGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAGTGACAACTGACAAGTGATAAGTGGTA
7026911 GCTTTAGCTACACTTATCTGATC
66 GCTTTAGCTACACTTATCTGATC
*
7026934 AGTGACAAGTG
1 AGTGATAAGTG
7026945 ATAAATGTGA
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
87 77 0.84
88 15 0.16
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.31
Consensus pattern (88 bp):
AGTGATAAGTGGTAACTTTAGCTACACTTATCTGATCAGTGACAACTGACAAGTGATAAGTGGTA
GCTTTAGCTACACTTATCTGATC
Found at i:7026874 original size:36 final size:37
Alignment explanation
Indices: 7026810--7026893 Score: 134
Period size: 36 Copynumber: 2.3 Consensus size: 37
7026800 ATAACTGACA
*
7026810 AGTGATAAGTGGTAGCTTTAGCTGCACTTATCTGATC
1 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
7026847 AGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATC
1 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
* *
7026883 GGTGACAAGTG
1 AGTGATAAGTG
7026894 ACAAGTGATA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
36 28 0.64
37 16 0.36
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.32
Consensus pattern (37 bp):
AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
Found at i:7026931 original size:51 final size:50
Alignment explanation
Indices: 7026847--7026945 Score: 180
Period size: 51 Copynumber: 2.0 Consensus size: 50
7026837 TTATCTGATC
*
7026847 AGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCGGTGACAAGTGACA
1 AGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGACA
7026897 AGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGA
1 AGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACAAGTGA
7026946 TAAATGTGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 16 0.34
51 31 0.66
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (50 bp):
AGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGACA
Found at i:7031614 original size:15 final size:15
Alignment explanation
Indices: 7031589--7031626 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
7031579 AGACCATGGA
*
7031589 AGAAGAGGTGGA-GT
1 AGAAGAAGTGGAGGT
7031603 ATGAAGAAGTGGAGGT
1 A-GAAGAAGTGGAGGT
7031619 AGAAGAAG
1 AGAAGAAG
7031627 AAGGAGAGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 1 0.05
15 17 0.81
16 3 0.14
ACGTcount: A:0.42, C:0.00, G:0.45, T:0.13
Consensus pattern (15 bp):
AGAAGAAGTGGAGGT
Found at i:7031625 original size:3 final size:3
Alignment explanation
Indices: 7031619--7031669 Score: 59
Period size: 3 Copynumber: 17.0 Consensus size: 3
7031609 AAGTGGAGGT
* * *
7031619 AGA AGA AGA AGG AGA GGA AGA A-A TAGA AGA AGA AGA GGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA -AGA AGA AGA AGA AGA AGA AGA
7031664 AGA AGA
1 AGA AGA
7031670 CCTGGATGTC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 1 0.03
3 38 0.95
4 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.37, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:7031635 original size:18 final size:18
Alignment explanation
Indices: 7031605--7031668 Score: 67
Period size: 18 Copynumber: 3.4 Consensus size: 18
7031595 GGTGGAGTAT
*
7031605 GAAGAAGTG-GAGGTAGAA
1 GAAGAAG-GAGAGGAAGAA
7031623 GAAGAAGGAGAGGAAGAAATA
1 GAAGAAGGAGAGGAAG--A-A
*
7031644 GAAGAAGAAGAGGAAGAA
1 GAAGAAGGAGAGGAAGAA
7031662 GAAGAAG
1 GAAGAAG
7031669 ACCTGGATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
17 1 0.03
18 21 0.52
19 1 0.03
20 1 0.03
21 16 0.40
ACGTcount: A:0.55, C:0.00, G:0.41, T:0.05
Consensus pattern (18 bp):
GAAGAAGGAGAGGAAGAA
Found at i:7036042 original size:21 final size:21
Alignment explanation
Indices: 7036016--7036064 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
7036006 TTCTTCATTA
*
7036016 TCTTCTTCTTCGTCTTGCTCT
1 TCTTCTTCTTCGACTTGCTCT
* * *
7036037 TGTTCTCCTTCGACTTGTTCT
1 TCTTCTTCTTCGACTTGCTCT
7036058 TCTTCTT
1 TCTTCTT
7036065 TATGATTATC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.31, G:0.10, T:0.57
Consensus pattern (21 bp):
TCTTCTTCTTCGACTTGCTCT
Found at i:7050872 original size:29 final size:29
Alignment explanation
Indices: 7050820--7050884 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
7050810 ACAATTAGAT
*
7050820 TTAAATTTTAAAATTCGAAAAGTATAAAAA
1 TTAAATTTTAAAAATC-AAAAGTATAAAAA
* *
7050850 TTAAATTCTTAAAAAT-AAAAGTATATAGA
1 TTAAATT-TTAAAAATCAAAAGTATAAAAA
7050879 TTAAAT
1 TTAAAT
7050885 CTCAAAATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 17 0.55
30 7 0.23
31 7 0.23
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.35
Consensus pattern (29 bp):
TTAAATTTTAAAAATCAAAAGTATAAAAA
Found at i:7064271 original size:89 final size:89
Alignment explanation
Indices: 7064163--7064341 Score: 358
Period size: 89 Copynumber: 2.0 Consensus size: 89
7064153 AAATCTTAAC
7064163 CGATCCCCAACCAAATTAAATTTAACGGTTGATTGATTAATTGAAATAATTTGGTTCGTCAATTA
1 CGATCCCCAACCAAATTAAATTTAACGGTTGATTGATTAATTGAAATAATTTGGTTCGTCAATTA
7064228 ATTCGGTAAAAACCAAATTATGCG
66 ATTCGGTAAAAACCAAATTATGCG
7064252 CGATCCCCAACCAAATTAAATTTAACGGTTGATTGATTAATTGAAATAATTTGGTTCGTCAATTA
1 CGATCCCCAACCAAATTAAATTTAACGGTTGATTGATTAATTGAAATAATTTGGTTCGTCAATTA
7064317 ATTCGGTAAAAACCAAATTATGCG
66 ATTCGGTAAAAACCAAATTATGCG
7064341 C
1 C
7064342 ACCCCTAGCT
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.32
Consensus pattern (89 bp):
CGATCCCCAACCAAATTAAATTTAACGGTTGATTGATTAATTGAAATAATTTGGTTCGTCAATTA
ATTCGGTAAAAACCAAATTATGCG
Found at i:7065661 original size:63 final size:63
Alignment explanation
Indices: 7065552--7065678 Score: 173
Period size: 63 Copynumber: 2.0 Consensus size: 63
7065542 AAGTATGGTG
* * *
7065552 CTTTAGTGCCATATGGTATATCTATCTGGACCATTATAAACATGCCATACTTGGCACAATAGA
1 CTTTAGTGCCATATGGTATAGCTATCTGCACCATTATAAACATGCCATACTTGGCACAAAAGA
* * * * * *
7065615 CTTTGGTGCGATATGGTATAGCTATCTTCACCATTATAACCCTGCCATATTTGGCACAAAAGA
1 CTTTAGTGCCATATGGTATAGCTATCTGCACCATTATAAACATGCCATACTTGGCACAAAAGA
7065678 C
1 C
7065679 GGATACACAT
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (63 bp):
CTTTAGTGCCATATGGTATAGCTATCTGCACCATTATAAACATGCCATACTTGGCACAAAAGA
Found at i:7068282 original size:22 final size:21
Alignment explanation
Indices: 7068257--7068298 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
7068247 AGATCAACTC
* *
7068257 ATATTATTATTATTTTTTTAAA
1 ATATAATTATT-TTTATTTAAA
7068279 ATATAATTATTTTTATTTAA
1 ATATAATTATTTTTATTTAA
7068299 TATTTAATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATATAATTATTTTTATTTAAA
Found at i:7068306 original size:21 final size:22
Alignment explanation
Indices: 7068257--7068312 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 22
7068247 AGATCAACTC
* *
7068257 ATATTATTATTATTTTTTTAAA
1 ATATAATTATTATTTATTTAAA
*
7068279 ATATAATTATT-TTTATTTAAT
1 ATATAATTATTATTTATTTAAA
* *
7068300 ATTTAATAATTAT
1 ATATAATTATTAT
7068313 ATATATATCT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 17 0.61
22 11 0.39
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
ATATAATTATTATTTATTTAAA
Found at i:7068335 original size:24 final size:24
Alignment explanation
Indices: 7068308--7068353 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
7068298 ATATTTAATA
7068308 ATTATATATATATCTTTTATTACT
1 ATTATATATATATCTTTTATTACT
* *
7068332 ATTATATATTTTTCTTTTATTA
1 ATTATATATATATCTTTTATTA
7068354 AAATTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTATATATATATCTTTTATTACT
Found at i:7071305 original size:15 final size:16
Alignment explanation
Indices: 7071285--7071314 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7071275 ACCAATTAAA
7071285 ACCAT-AACCCATGAG
1 ACCATAAACCCATGAG
7071300 ACCATAAACCCATGA
1 ACCATAAACCCATGA
7071315 TTCGTTTATA
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:0.43, C:0.33, G:0.10, T:0.13
Consensus pattern (16 bp):
ACCATAAACCCATGAG
Found at i:7074562 original size:140 final size:140
Alignment explanation
Indices: 7074317--7074573 Score: 331
Period size: 140 Copynumber: 1.8 Consensus size: 140
7074307 TTCAAAGGTT
* * * *
7074317 AAAGTACCTAACAGATTATCCTATAAAACACAAATGAAAGAAGGAACCAACTCTTCTAATTCGAG
1 AAAGCACCCAACAGATTATCCGATAAAACACAAATGAAAGAAGGAACCAACTCTCCTAATTCGAG
* *
7074382 TCCAGTAAATCAATCATCAATAGCAAAATTAAAATGACCTCAACTCTGAATCAACAACTGATTAT
66 TCCAGTAAATCAATAATCAATAGCAAAATTAAAATCACCTCAACTCTGAATCAACAACTGATTAT
7074447 TTCACCGATG
131 TTCACCGATG
* * * **
7074457 AAAGCACCCAACATATTATCCGATAAAATACAAAT-AACGAAAGGGTCCAAACTCTCCTAATTCG
1 AAAGCACCCAACAGATTATCCGATAAAACACAAATGAAAG-AAGGAACC-AACTCTCCTAATTCG
* * * *
7074521 ATTCCA-TAAATCAATAATCAATAGCAAAA-TATACATCACCTCATCTTTGAATC
64 AGTCCAGTAAATCAATAATCAATAGCAAAATTA-AAATCACCTCAACTCTGAATC
7074574 TTTGTTCTTT
Statistics
Matches: 99, Mismatches: 15, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
139 5 0.05
140 75 0.76
141 19 0.19
ACGTcount: A:0.44, C:0.23, G:0.09, T:0.25
Consensus pattern (140 bp):
AAAGCACCCAACAGATTATCCGATAAAACACAAATGAAAGAAGGAACCAACTCTCCTAATTCGAG
TCCAGTAAATCAATAATCAATAGCAAAATTAAAATCACCTCAACTCTGAATCAACAACTGATTAT
TTCACCGATG
Found at i:7085100 original size:17 final size:17
Alignment explanation
Indices: 7085078--7085132 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 17
7085068 AGACTGAAAC
7085078 TTGCCACAGAGGTTACT
1 TTGCCACAGAGGTTACT
* * *
7085095 TTGCCAC-CATG-AAC-
1 TTGCCACAGAGGTTACT
7085109 TTGCCACAGAGGTTACT
1 TTGCCACAGAGGTTACT
7085126 TTGCCAC
1 TTGCCAC
7085133 CATGAAATTG
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
14 7 0.24
15 4 0.14
16 4 0.14
17 14 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (17 bp):
TTGCCACAGAGGTTACT
Found at i:7085113 original size:31 final size:31
Alignment explanation
Indices: 7085075--7085143 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
7085065 CAGAGACTGA
7085075 AACTTGCCACAGAGGTTACTTTGCCACCATG
1 AACTTGCCACAGAGGTTACTTTGCCACCATG
7085106 AACTTGCCACAGAGGTTACTTTGCCACCATG
1 AACTTGCCACAGAGGTTACTTTGCCACCATG
*
7085137 AAATTGC
1 AACTTGC
7085144 TTCCTGGTTG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.26
Consensus pattern (31 bp):
AACTTGCCACAGAGGTTACTTTGCCACCATG
Found at i:7108677 original size:32 final size:33
Alignment explanation
Indices: 7108629--7108711 Score: 107
Period size: 32 Copynumber: 2.5 Consensus size: 33
7108619 TCTAGTTTAT
*
7108629 ATTTTTTTA-TAATTTTTAAAGAATTAAA-ATA
1 ATTTTTTTATTAATTTTTAAAAAATTAAAGATA
*
7108660 ATTTTTTTATTATTTTTTAAAAAATTAAAGTATA
1 ATTTTTTTATTAATTTTTAAAAAATTAAAG-ATA
7108694 ATTTTACTTTATTAATTT
1 ATTTT--TTTATTAATTT
7108712 AAAACTTTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
31 9 0.20
32 17 0.39
34 8 0.18
36 10 0.23
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (33 bp):
ATTTTTTTATTAATTTTTAAAAAATTAAAGATA
Found at i:7108713 original size:34 final size:31
Alignment explanation
Indices: 7108629--7108724 Score: 86
Period size: 34 Copynumber: 3.0 Consensus size: 31
7108619 TCTAGTTTAT
* * *
7108629 ATTTTTTTATAATTTTTAAAGAATTAAAATA
1 ATTTTTTTATTATATTTAAAAAATTAAAATA
*
7108660 ATTTTTTTATTATTTTTTAAAAAATTAAAGTATA
1 ATTTTTTTATTA-TATTTAAAAAATTAAA--ATA
**
7108694 ATTTTACTTTATTA-ATTTAAAACTTTAAAAT
1 ATTTT--TTTATTATATTTAAAAAATTAAAAT
7108725 TTTTAAACGA
Statistics
Matches: 55, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
31 11 0.20
32 17 0.31
34 20 0.36
36 7 0.13
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (31 bp):
ATTTTTTTATTATATTTAAAAAATTAAAATA
Found at i:7116895 original size:26 final size:27
Alignment explanation
Indices: 7116841--7116896 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
7116831 AATGCATATT
7116841 CAGCCGAAATCATAGATAAGATTACCA
1 CAGCCGAAATCATAGATAAGATTACCA
7116868 CAGCCGAAATCATAGAT-AGATTACCA
1 CAGCCGAAATCATAGATAAGATTACCA
7116894 CAG
1 CAG
7116897 GTGGGAACCT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 12 0.41
27 17 0.59
ACGTcount: A:0.43, C:0.23, G:0.16, T:0.18
Consensus pattern (27 bp):
CAGCCGAAATCATAGATAAGATTACCA
Found at i:7122534 original size:26 final size:26
Alignment explanation
Indices: 7122493--7122542 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
7122483 ATTTTATTTT
7122493 TATTTTTAAAAATATTTAAA-ATATTA
1 TATTTTTAAAAATA-TTAAATATATTA
* *
7122519 TATTTTTAACATTATTAAATATAT
1 TATTTTTAAAAATATTAAATATAT
7122543 GTATTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
TATTTTTAAAAATATTAAATATATTA
Found at i:7122629 original size:19 final size:19
Alignment explanation
Indices: 7122594--7122644 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
7122584 TATAATTAAT
*
7122594 ATAATTTA-TT-ATTTTTA
1 ATAATTTATTTAATATTTA
7122611 ATAATTTATTTAATATTTA
1 ATAATTTATTTAATATTTA
*
7122630 A-ATTTTATTTTAATA
1 ATAATTTA-TTTAATA
7122645 GTGAATTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 8 0.28
18 7 0.24
19 14 0.48
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (19 bp):
ATAATTTATTTAATATTTA
Found at i:7124202 original size:18 final size:17
Alignment explanation
Indices: 7124174--7124221 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
7124164 ACCATTATTT
7124174 TATTATATATTTTAATTA
1 TATT-TATATTTTAATTA
* * *
7124192 TTTTCTATATTATATTTA
1 TATT-TATATTTTAATTA
7124210 TATTTATATTTT
1 TATTTATATTTT
7124222 TAGAATGGAC
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TATTTATATTTTAATTA
Found at i:7124223 original size:14 final size:13
Alignment explanation
Indices: 7124174--7124223 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 13
7124164 ACCATTATTT
7124174 TATTATATATTTTA
1 TATTATAT-TTTTA
*
7124188 -ATTAT-TTTCTA
1 TATTATATTTTTA
*
7124199 TATTATATTTATA
1 TATTATATTTTTA
7124212 T-TTATATTTTTA
1 TATTATATTTTTA
7124224 GAATGGACAA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 4 0.13
12 16 0.52
13 11 0.35
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (13 bp):
TATTATATTTTTA
Found at i:7128639 original size:183 final size:183
Alignment explanation
Indices: 7128331--7128699 Score: 720
Period size: 183 Copynumber: 2.0 Consensus size: 183
7128321 AGATTCAACA
7128331 AGTCACGAAGCAAGCAACATTTACAAAATCACAACCGAAATCCCAACAACAAAACTAGGAGTGAA
1 AGTCACGAAGCAAGCAACATTTACAAAATCACAACCGAAATCCCAACAACAAAACTAGGAGTGAA
7128396 ATGTATGAAGAATTTGATGGCGGCCTCGACTTATTCACATGCTATCAATTTATTCGGTTAATTTG
66 ATGTATGAAGAATTTGATGGCGGCCTCGACTTATTCACATGCTATCAATTTATTCGGTTAATTTG
7128461 CAGCACTAGCTAAAAAAATGATGCGAATAAGTGGGAACATACCTAAGAAGTGC
131 CAGCACTAGCTAAAAAAATGATGCGAATAAGTGGGAACATACCTAAGAAGTGC
7128514 AGTCACGAAGCAAGCAACATTTACAAAATCACAACCGAAATCCCAACAACAAAACTAGGAGTGAA
1 AGTCACGAAGCAAGCAACATTTACAAAATCACAACCGAAATCCCAACAACAAAACTAGGAGTGAA
7128579 ATGTATGAAGAATTTGATGGCGGCCTCGACTTATTCACATGCTATCAATTTATTCGGTTAATTTG
66 ATGTATGAAGAATTTGATGGCGGCCTCGACTTATTCACATGCTATCAATTTATTCGGTTAATTTG
* *
7128644 CAGCACTAGGTAAAAAAATGATGCGAATACGTGGGAACATACCTAAGAAGTGC
131 CAGCACTAGCTAAAAAAATGATGCGAATAAGTGGGAACATACCTAAGAAGTGC
7128697 AGT
1 AGT
7128700 GCCACAGAAA
Statistics
Matches: 184, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
183 184 1.00
ACGTcount: A:0.39, C:0.19, G:0.19, T:0.23
Consensus pattern (183 bp):
AGTCACGAAGCAAGCAACATTTACAAAATCACAACCGAAATCCCAACAACAAAACTAGGAGTGAA
ATGTATGAAGAATTTGATGGCGGCCTCGACTTATTCACATGCTATCAATTTATTCGGTTAATTTG
CAGCACTAGCTAAAAAAATGATGCGAATAAGTGGGAACATACCTAAGAAGTGC
Found at i:7129137 original size:21 final size:21
Alignment explanation
Indices: 7129111--7129150 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7129101 TTGGGTCATC
7129111 TTCTTCTTCCTCTTGTTCTGG
1 TTCTTCTTCCTCTTGTTCTGG
* *
7129132 TTCTTCTTCTTGTTGTTCT
1 TTCTTCTTCCTCTTGTTCT
7129151 TCTTCAGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.00, C:0.25, G:0.12, T:0.62
Consensus pattern (21 bp):
TTCTTCTTCCTCTTGTTCTGG
Found at i:7145378 original size:17 final size:18
Alignment explanation
Indices: 7145356--7145389 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7145346 ACTCTCTCTT
7145356 TTTTCA-GTTTTACTTTA
1 TTTTCACGTTTTACTTTA
*
7145373 TTTTCACTTTTTACTTT
1 TTTTCACGTTTTACTTT
7145390 TAAAATTTAT
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:0.15, C:0.15, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTCACGTTTTACTTTA
Found at i:7155427 original size:20 final size:21
Alignment explanation
Indices: 7155404--7155460 Score: 64
Period size: 20 Copynumber: 2.7 Consensus size: 21
7155394 CTACGTAAAC
7155404 TTAAATTATTTTTTAAATAA-
1 TTAAATTATTTTTTAAATAAG
* *
7155424 TTAAAATCA-TTTTTACATAAG
1 TT-AAATTATTTTTTAAATAAG
7155445 TTTAAATTATTTTTTA
1 -TTAAATTATTTTTTA
7155461 TTGATATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 12 0.40
21 10 0.33
22 8 0.27
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (21 bp):
TTAAATTATTTTTTAAATAAG
Found at i:7155430 original size:21 final size:22
Alignment explanation
Indices: 7155406--7155460 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
7155396 ACGTAAACTT
7155406 AAATTATTTTTTAAATAA-TTA
1 AAATTATTTTTTAAATAAGTTA
* * *
7155427 AAATCA-TTTTTACATAAGTTT
1 AAATTATTTTTTAAATAAGTTA
7155448 AAATTATTTTTTA
1 AAATTATTTTTTA
7155461 TTGATATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 10 0.36
21 12 0.43
22 6 0.21
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (22 bp):
AAATTATTTTTTAAATAAGTTA
Found at i:7156065 original size:17 final size:17
Alignment explanation
Indices: 7156045--7156079 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
7156035 ATTTTTAAAA
7156045 TATTTTAAAATAATTTT
1 TATTTTAAAATAATTTT
7156062 TATTTTAAAATAATTTT
1 TATTTTAAAATAATTTT
7156079 T
1 T
7156080 TGTGTTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TATTTTAAAATAATTTT
Found at i:7166422 original size:33 final size:33
Alignment explanation
Indices: 7166380--7166446 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
7166370 CCATTTTCAG
7166380 TTGTGTTCATTTAATTAGCATCAGAAATGGCTT
1 TTGTGTTCATTTAATTAGCATCAGAAATGGCTT
7166413 TTGTGTTCATTTAATTAGCATCAGAAATGGCTT
1 TTGTGTTCATTTAATTAGCATCAGAAATGGCTT
7166446 T
1 T
7166447 GTCTATTGTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (33 bp):
TTGTGTTCATTTAATTAGCATCAGAAATGGCTT
Found at i:7196069 original size:15 final size:15
Alignment explanation
Indices: 7196049--7196079 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7196039 ACCGCGGAAA
7196049 GCTCTGATCCAAGGG
1 GCTCTGATCCAAGGG
7196064 GCTCTGATCCAAGGG
1 GCTCTGATCCAAGGG
7196079 G
1 G
7196080 TTGAGACCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.26, G:0.35, T:0.19
Consensus pattern (15 bp):
GCTCTGATCCAAGGG
Found at i:7197285 original size:33 final size:33
Alignment explanation
Indices: 7197217--7197289 Score: 89
Period size: 33 Copynumber: 2.2 Consensus size: 33
7197207 TGTATATTTA
* *
7197217 GAAAAT-AAAAAGAAAATGACATTATCCTCCTG
1 GAAAATAAAAAAGAAAATAACATTATCATCCTG
7197249 GAAAATAAAAAAGAAAA-AACATTATTGCATCC-G
1 GAAAATAAAAAAGAAAATAACATTA-T-CATCCTG
7197282 GAAAATAA
1 GAAAATAA
7197290 TAAACAAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
32 12 0.33
33 20 0.56
34 4 0.11
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.19
Consensus pattern (33 bp):
GAAAATAAAAAAGAAAATAACATTATCATCCTG
Found at i:7214679 original size:15 final size:16
Alignment explanation
Indices: 7214652--7214681 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7214642 TTAGAATGTT
7214652 TGTATTATTTTGTATC
1 TGTATTATTTTGTATC
7214668 TGTATT-TTTTGTAT
1 TGTATTATTTTGTAT
7214682 TTTTTCTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.17, C:0.03, G:0.13, T:0.67
Consensus pattern (16 bp):
TGTATTATTTTGTATC
Found at i:7215057 original size:13 final size:13
Alignment explanation
Indices: 7215039--7215088 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
7215029 TCTTTATTAT
7215039 TTTTGAGAAATAC
1 TTTTGAGAAATAC
*
7215052 TTTTGAGAAGTAC
1 TTTTGAGAAATAC
* *
7215065 TTTTGAGAAGTAT
1 TTTTGAGAAATAC
*
7215078 TTTTGATAAAT
1 TTTTGAGAAAT
7215089 TTAATTGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.34, C:0.04, G:0.18, T:0.44
Consensus pattern (13 bp):
TTTTGAGAAATAC
Found at i:7215703 original size:22 final size:21
Alignment explanation
Indices: 7215678--7215721 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
7215668 AAGCATATGA
* *
7215678 AAATTATTTGGTTATATTCAAT
1 AAATGATTTGGTTA-ATACAAT
7215700 AAATGATTTGGTTAATACAAT
1 AAATGATTTGGTTAATACAAT
7215721 A
1 A
7215722 CTTATATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (21 bp):
AAATGATTTGGTTAATACAAT
Found at i:7215730 original size:22 final size:22
Alignment explanation
Indices: 7215705--7215775 Score: 58
Period size: 22 Copynumber: 3.2 Consensus size: 22
7215695 TCAATAAATG
7215705 ATTTGGTTAATACAATACTTAT
1 ATTTGGTTAATACAATACTTAT
* * **
7215727 ATTT-GATAA-GCATATGA-AAAT
1 ATTTGGTTAATACA-AT-ACTTAT
7215748 GATTTGGTTAATACAATACTTAT
1 -ATTTGGTTAATACAATACTTAT
7215771 ATTTG
1 ATTTG
7215776 ATAAGCATAT
Statistics
Matches: 35, Mismatches: 8, Indels: 12
0.64 0.15 0.22
Matches are distributed among these distances:
20 2 0.06
21 8 0.23
22 15 0.43
23 8 0.23
24 2 0.06
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.42
Consensus pattern (22 bp):
ATTTGGTTAATACAATACTTAT
Found at i:7215748 original size:44 final size:44
Alignment explanation
Indices: 7215700--7215793 Score: 188
Period size: 44 Copynumber: 2.1 Consensus size: 44
7215690 TATATTCAAT
7215700 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
1 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
7215744 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
1 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
7215788 AAATGA
1 AAATGA
7215794 AAGTCGAGAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.43, C:0.06, G:0.14, T:0.37
Consensus pattern (44 bp):
AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
Found at i:7218612 original size:28 final size:28
Alignment explanation
Indices: 7218581--7218644 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
7218571 TCAATTTATT
7218581 TTTTAATTTCAATTCAAATTTCATTTAA
1 TTTTAATTTCAATTCAAATTTCATTTAA
* * *
7218609 TTTT-ATATTCATTTCACATTTCATTTCA
1 TTTTAAT-TTCAATTCAAATTTCATTTAA
7218637 -TTTAATTT
1 TTTTAATTT
7218645 TATTTTTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
27 7 0.23
28 24 0.77
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.58
Consensus pattern (28 bp):
TTTTAATTTCAATTCAAATTTCATTTAA
Found at i:7218655 original size:18 final size:18
Alignment explanation
Indices: 7218632--7218688 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
7218622 TCACATTTCA
7218632 TTTCATTTAATTTTATTT
1 TTTCATTTAATTTTATTT
7218650 TTTCATTTAA---T-TTT
1 TTTCATTTAATTTTATTT
7218664 TTTCA--T-ATTTTATTT
1 TTTCATTTAATTTTATTT
7218679 TTTCATTTAA
1 TTTCATTTAA
7218689 AATTTTTTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 14
0.70 0.00 0.30
Matches are distributed among these distances:
11 1 0.03
12 1 0.03
14 9 0.28
15 9 0.28
17 1 0.03
18 11 0.34
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTCATTTAATTTTATTT
Found at i:7218656 original size:28 final size:28
Alignment explanation
Indices: 7218564--7218686 Score: 90
Period size: 29 Copynumber: 4.1 Consensus size: 28
7218554 GAAAAGGACT
*
7218564 TTTCATTTCAATTT-ATTTT-TTAATTTCA
1 TTTCATTTC-ATTTAATTTTATT-TTTTCA
*
7218592 ATTCAAATTTCATTTAATTTTATATTCATTTCACA
1 TTTC--ATTTCATTTAATTTTAT-TT--TTT--CA
7218627 TTTCATTTCATTTAATTTTATTTTTTCA
1 TTTCATTTCATTTAATTTTATTTTTTCA
* *
7218655 TTTAATTT-TTTTCATATTTTATTTTTTCA
1 TTTCATTTCATTT-A-ATTTTATTTTTTCA
7218684 TTT
1 TTT
7218687 AAAATTTTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 21
0.75 0.05 0.20
Matches are distributed among these distances:
27 3 0.04
28 13 0.16
29 21 0.27
30 13 0.16
31 1 0.01
32 3 0.04
33 20 0.25
35 5 0.06
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (28 bp):
TTTCATTTCATTTAATTTTATTTTTTCA
Found at i:7218662 original size:13 final size:13
Alignment explanation
Indices: 7218641--7218688 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
7218631 ATTTCATTTA
*
7218641 ATTTTATTTTTTC
1 ATTTAATTTTTTC
7218654 ATTTAATTTTTTTC
1 ATTTAA-TTTTTTC
*
7218668 ATATTTTATTTTTTC
1 --ATTTAATTTTTTC
7218683 ATTTAA
1 ATTTAA
7218689 AATTTTTTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 10 0.34
14 7 0.24
15 7 0.24
16 5 0.17
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (13 bp):
ATTTAATTTTTTC
Found at i:7218681 original size:30 final size:29
Alignment explanation
Indices: 7218641--7218723 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 29
7218631 ATTTCATTTA
7218641 ATTTTATTTTTTCATTT-AATTTTTTTCAT
1 ATTTTATTTTTTCATTTAAATTTTTTTC-T
*
7218670 ATTTTATTTTTTCATTTAAAATTTTTTCT
1 ATTTTATTTTTTCATTTAAATTTTTTTCT
*
7218699 -TTTTCCATTTTTTTCATTTCAATTT
1 ATTTT--A-TTTTTTCATTTAAATTT
7218724 ATATTTTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
28 4 0.09
29 18 0.38
30 10 0.21
31 15 0.32
ACGTcount: A:0.20, C:0.10, G:0.00, T:0.70
Consensus pattern (29 bp):
ATTTTATTTTTTCATTTAAATTTTTTTCT
Found at i:7218693 original size:15 final size:14
Alignment explanation
Indices: 7218646--7218697 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
7218636 ATTTAATTTT
7218646 ATTTTTTCATTTAA
1 ATTTTTTCATTTAA
* **
7218660 TTTTTTTCATATTTT
1 ATTTTTTCAT-TTAA
7218675 ATTTTTTCATTTAAA
1 ATTTTTTCATTT-AA
7218690 ATTTTTTC
1 ATTTTTTC
7218698 TTTTTCCATT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTTTTCATTTAA
Found at i:7218718 original size:5 final size:5
Alignment explanation
Indices: 7218710--7218967 Score: 62
Period size: 5 Copynumber: 47.0 Consensus size: 5
7218700 TTTCCATTTT
* * *
7218710 TTTCA TTTCAA TTTATA TTTTA ATTTCA TTTCA TATTCA TTTCAA CGTT-A
1 TTTCA TTTC-A TTT-CA TTTCA -TTTCA TTTCA T-TTCA TTTC-A -TTTCA
*
7218760 TTTTCA TTTCA TATTCA TTACAA CTTTCA TTTCA TTTCATA TTTCA TTTCACA
1 -TTTCA TTTCA T-TTCA TTTC-A -TTTCA TTTCA TTTC--A TTTCA TTT--CA
* ** *
7218813 TTTCA TTTCTT TTTTT TTTCA TTTCAA TTT-A TTT-T TTTCA TATTCA
1 TTTCA TTTC-A TTTCA TTTCA TTTC-A TTTCA TTTCA TTTCA T-TTCA
** * **
7218859 TCTT-- TTCTCA TTTCAA TTTTT TTTAA TATTCA TTTTT TTCTCA TTTCAA
1 T-TTCA TT-TCA TTTC-A TTTCA TTTCA T-TTCA TTTCA TT-TCA TTTC-A
* *
7218908 TTT-A TTT-A TTTTTCA TTTCAA TTTATA TTTTAA TTTCA TTTCAAA TTTCA
1 TTTCA TTTCA --TTTCA TTTC-A TTT-CA -TTTCA TTTCA TTTC--A TTTCA
7218958 TTTCA TTTCA
1 TTTCA TTTCA
7218968 AATATTTTCT
Statistics
Matches: 194, Mismatches: 26, Indels: 66
0.68 0.09 0.23
Matches are distributed among these distances:
3 1 0.01
4 14 0.07
5 89 0.46
6 66 0.34
7 24 0.12
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.60
Consensus pattern (5 bp):
TTTCA
Found at i:7218718 original size:15 final size:15
Alignment explanation
Indices: 7218599--7218910 Score: 73
Period size: 16 Copynumber: 19.9 Consensus size: 15
7218589 TCAATTCAAA
7218599 TTTCATTT-AATTTT
1 TTTCATTTCAATTTT
*
7218613 ATATTCATTTCACATTTCA
1 -T-TTCATTTCA-ATTT-T
7218632 TTTCATTT-AATTTTATTT
1 TTTCATTTCAA---T-TTT
7218650 TTTCATTT-AATTTT
1 TTTCATTTCAATTTT
**
7218664 TTTCATATTTTA-TTT
1 TTTCAT-TTCAATTTT
* *
7218679 TTTCATTTAAAATTT
1 TTTCATTTCAATTTT
* *
7218694 TTTCTTTTTCCATTTT
1 TTTC-ATTTCAATTTT
7218710 TTTCATTTCAATTTATAT
1 TTTCATTTCAA-TT-T-T
*
7218728 TTTAATTTC-ATTTCAT
1 TTTCATTTCAATTT--T
* *
7218744 ATTCATTTCAACGTTAT
1 TTTCATTTCAA--TTTT
7218761 TTTCATTTC-A---T
1 TTTCATTTCAATTTT
* * *
7218772 ATTCATTACAACTTTCA
1 TTTCATTTCAA-TTT-T
*
7218789 TTTCATTTC-A--TA
1 TTTCATTTCAATTTT
*
7218801 TTTCATTTCACATTTCA
1 TTTCATTTCA-ATTT-T
7218818 TTTC-TTT---TTTT
1 TTTCATTTCAATTTT
7218829 TTTCATTTCAATTTATTTT
1 TTTCATTTC-A---ATTTT
7218848 TTTCATATTC-ATCTTT
1 TTTCAT-TTCAAT-TTT
*
7218864 TCTCATTTCAATTTTT
1 TTTCATTTCAA-TTTT
* *
7218880 TTTAATATTCATTTTT
1 TTTCAT-TTCAATTTT
7218896 TTCTCATTTCAATTT
1 TT-TCATTTCAATTT
7218911 ATTTATTTTT
Statistics
Matches: 225, Mismatches: 28, Indels: 87
0.66 0.08 0.26
Matches are distributed among these distances:
11 12 0.05
12 17 0.08
13 1 0.00
14 13 0.06
15 32 0.14
16 68 0.30
17 40 0.18
18 25 0.11
19 14 0.06
20 3 0.01
ACGTcount: A:0.23, C:0.14, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTCATTTCAATTTT
Found at i:7218742 original size:28 final size:28
Alignment explanation
Indices: 7218710--7218950 Score: 76
Period size: 28 Copynumber: 8.2 Consensus size: 28
7218700 TTTCCATTTT
7218710 TTTCATTTCAATTTATATTTTAATTTCA
1 TTTCATTTCAATTTATATTTTAATTTCA
*
7218738 TTTCATATTC-ATTTCAACGTTATTTTCATTTCA
1 TTTCAT-TTCAATTT--A---TATTTTAATTTCA
* * *
7218771 TATTCATTACAACTTT-CA-TTTCATTTCATA
1 T-TTCATTTCAA-TTTATATTTTAATTTC--A
**
7218801 TTTCATTTCACATTTCAT-TTCTT--TTTTT
1 TTTCATTTCA-ATTT-ATATT-TTAATTTCA
* *
7218829 TTTCATTTCAATTTATTTTTTTCATATTCATCTT
1 TTTCATTTCAATTTA-TATTTT-A-ATT--TC-A
7218863 TTCTCATTTCAATTT-T-TTTTAATATTCA
1 TT-TCATTTCAATTTATATTTTAAT-TTCA
* *
7218891 TTT-TTTTCTCATTTCA-A-TTT-ATTT-A
1 TTTCATTTC-AATTT-ATATTTTAATTTCA
7218916 TTTTTCATTTCAATTTATATTTTAATTTCA
1 --TTTCATTTCAATTTATATTTTAATTTCA
7218946 TTTCA
1 TTTCA
7218951 AATTTCATTT
Statistics
Matches: 162, Mismatches: 13, Indels: 76
0.65 0.05 0.30
Matches are distributed among these distances:
25 1 0.01
26 8 0.05
27 22 0.14
28 48 0.30
29 21 0.13
30 10 0.06
31 5 0.03
32 6 0.04
33 17 0.10
34 9 0.06
35 15 0.09
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (28 bp):
TTTCATTTCAATTTATATTTTAATTTCA
Found at i:7218803 original size:12 final size:12
Alignment explanation
Indices: 7218710--7218821 Score: 61
Period size: 12 Copynumber: 8.8 Consensus size: 12
7218700 TTTCCATTTT
7218710 TTTCATTTCA-A
1 TTTCATTTCATA
* *
7218721 TTTATATTTTA-A
1 TTT-CATTTCATA
7218733 TTTCATTTCATA
1 TTTCATTTCATA
7218745 -TTCATTTCAACGTTA
1 TTTCATTTC-A---TA
7218760 TTTTCATTTCATA
1 -TTTCATTTCATA
*
7218773 -TTCATTACAACTTTCA
1 TTTCATTTC-A---T-A
7218789 TTTCATTTCATA
1 TTTCATTTCATA
*
7218801 TTTCATTTCACA
1 TTTCATTTCATA
7218813 TTTCATTTC
1 TTTCATTTC
7218822 TTTTTTTTTT
Statistics
Matches: 80, Mismatches: 7, Indels: 27
0.70 0.06 0.24
Matches are distributed among these distances:
11 23 0.29
12 33 0.41
13 3 0.04
15 3 0.04
16 3 0.04
17 15 0.19
ACGTcount: A:0.26, C:0.18, G:0.01, T:0.55
Consensus pattern (12 bp):
TTTCATTTCATA
Found at i:7218865 original size:33 final size:36
Alignment explanation
Indices: 7218813--7218927 Score: 125
Period size: 35 Copynumber: 3.3 Consensus size: 36
7218803 TCATTTCACA
* * *
7218813 TTTCAT-TTCTTTTTTTTTTCATTTCAATTTATTTT
1 TTTCATATTCATTCTTTTCTCATTTCAATTTATTTT
7218848 TTTCATATTCA-TCTTTTCTCATTTCAA--T-TTTT
1 TTTCATATTCATTCTTTTCTCATTTCAATTTATTTT
* *
7218880 TTTAATATTCATTTTTTTCTCATTTCAATTTATTTATT
1 TTTCATATTCATTCTTTTCTCATTTCAATTTA-TT-TT
7218918 TTTCAT-TTCA
1 TTTCATATTCA
7218928 ATTTATATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
32 14 0.21
33 16 0.24
35 21 0.31
36 3 0.04
37 6 0.09
38 7 0.10
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (36 bp):
TTTCATATTCATTCTTTTCTCATTTCAATTTATTTT
Found at i:7218872 original size:68 final size:72
Alignment explanation
Indices: 7218800--7218965 Score: 175
Period size: 68 Copynumber: 2.4 Consensus size: 72
7218790 TTCATTTCAT
* * *
7218800 ATTTCATTTCACATTTCATTTCTTTTTTTTTTCATTTCAATTTA-TT-TTTTTCATATTC-ATCT
1 ATTTCATTTCAAATTTCATTTCATTTTTTTCTCATTTCAATTTATTTATTTTTCAT-TTCAATCT
*
7218862 -T-TTCTC
65 ATATTCTA
** * *
7218868 ATTTCAATTT--TTTTTAATATTCATTTTTTTCTCATTTCAATTTATTTATTTTTCATTTCAATT
1 ATTTC-ATTTCAAATTTCAT-TTCATTTTTTTCTCATTTCAATTTATTTATTTTTCATTTCAATC
*
7218931 TATATTTTA
64 TATATTCTA
7218940 ATTTCATTTCAAATTTCATTTCATTT
1 ATTTCATTTCAAATTTCATTTCATTT
7218966 CAAATATTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 14
0.76 0.11 0.14
Matches are distributed among these distances:
67 5 0.06
68 28 0.36
69 9 0.12
70 11 0.14
71 5 0.06
72 15 0.19
73 5 0.06
ACGTcount: A:0.22, C:0.14, G:0.00, T:0.64
Consensus pattern (72 bp):
ATTTCATTTCAAATTTCATTTCATTTTTTTCTCATTTCAATTTATTTATTTTTCATTTCAATCTA
TATTCTA
Found at i:7218936 original size:23 final size:20
Alignment explanation
Indices: 7218824--7218951 Score: 82
Period size: 21 Copynumber: 6.8 Consensus size: 20
7218814 TTCATTTCTT
7218824 TTTTTTTTCATTTCAATTTA
1 TTTTTTTTCATTTCAATTTA
*
7218844 -TTTTTTTCA--T--ATTCA
1 TTTTTTTTCATTTCAATTTA
* *
7218859 TCTTTTCTCATTTCAATTT-
1 TTTTTTTTCATTTCAATTTA
**
7218878 TTTTTAAT-A-TTC-A--T-
1 TTTTTTTTCATTTCAATTTA
*
7218892 TTTTTTCTCATTTCAATTTA
1 TTTTTTTTCATTTCAATTTA
7218912 TTTATTTTTCATTTCAATTTA
1 TTT-TTTTTCATTTCAATTTA
7218933 TATTTTAATTTCATTTCAA
1 T-TTTT--TTTCATTTCAA
7218952 ATTTCATTTC
Statistics
Matches: 83, Mismatches: 10, Indels: 27
0.69 0.08 0.22
Matches are distributed among these distances:
14 7 0.08
15 5 0.06
16 11 0.13
17 5 0.06
18 2 0.02
19 15 0.18
20 6 0.07
21 19 0.23
22 2 0.02
23 11 0.13
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTTTTTCATTTCAATTTA
Found at i:7218960 original size:17 final size:17
Alignment explanation
Indices: 7218918--7218970 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
7218908 TTTATTTATT
*
7218918 TTTCATTTCAATTT-ATAT
1 TTTCATTTC-ATTTCA-AA
*
7218936 TTTAATTTCATTTCAAA
1 TTTCATTTCATTTCAAA
7218953 TTTCATTTCATTTCAAA
1 TTTCATTTCATTTCAAA
7218970 T
1 T
7218971 ATTTTCTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 22 0.71
18 9 0.29
ACGTcount: A:0.30, C:0.13, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTCATTTCATTTCAAA
Found at i:7219021 original size:32 final size:34
Alignment explanation
Indices: 7218942--7219043 Score: 102
Period size: 32 Copynumber: 3.0 Consensus size: 34
7218932 ATATTTTAAT
* *
7218942 TTCATTTCAAATTTCATTTCATTTCAAATATTTTC
1 TTCATTTTAAATTTCATTTTATTT-AAATATTTTC
* *
7218977 TTCTTTAATTAAATTTCATTTTATTT-AATTTTTTC
1 TTCATT--TTAAATTTCATTTTATTTAAATATTTTC
*
7219012 -TCATTTTAAATTTCATGTTATTTCAAA-ATTTT
1 TTCATTTTAAATTTCATTTTATTT-AAATATTTT
7219044 AAATTTCATT
Statistics
Matches: 56, Mismatches: 7, Indels: 10
0.77 0.10 0.14
Matches are distributed among these distances:
32 17 0.30
33 4 0.07
34 6 0.11
35 13 0.23
37 16 0.29
ACGTcount: A:0.28, C:0.12, G:0.01, T:0.59
Consensus pattern (34 bp):
TTCATTTTAAATTTCATTTTATTTAAATATTTTC
Found at i:7219046 original size:25 final size:25
Alignment explanation
Indices: 7219014--7219068 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 25
7219004 ATTTTTTCTC
*
7219014 ATTTTAAATTTCATGTT-ATTTCAAA
1 ATTTTAAATTTCAT-TTAAATTCAAA
7219039 ATTTTAAATTTCATTTAAATTCAAA
1 ATTTTAAATTTCATTTAAATTCAAA
7219064 ATTTT
1 ATTTT
7219069 TCTCATTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 2 0.07
25 26 0.93
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (25 bp):
ATTTTAAATTTCATTTAAATTCAAA
Found at i:7220505 original size:12 final size:12
Alignment explanation
Indices: 7220488--7220518 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
7220478 GTCACTTTTT
7220488 TTTATTTTTCAA
1 TTTATTTTTCAA
*
7220500 TTTATTTTTTAA
1 TTTATTTTTCAA
7220512 TTTATTT
1 TTTATTT
7220519 CATTTCACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (12 bp):
TTTATTTTTCAA
Found at i:7220906 original size:17 final size:17
Alignment explanation
Indices: 7220867--7220899 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7220857 TTTAATTATA
*
7220867 TATTC-ATTTCAATTTC
1 TATTCAATTTAAATTTC
7220883 TATTCAATTTAAATTTC
1 TATTCAATTTAAATTTC
7220900 ATTTCAACTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTCAATTTAAATTTC
Found at i:7221025 original size:28 final size:28
Alignment explanation
Indices: 7220994--7221072 Score: 69
Period size: 28 Copynumber: 3.0 Consensus size: 28
7220984 TCCCAATTTT
*
7220994 AATATAATTTTATTTCATTTCATTTCAA
1 AATATAATTTAATTTCATTTCATTTCAA
* *
7221022 AATAAAATTCAATTTC-TTT--TTT--A
1 AATATAATTTAATTTCATTTCATTTCAA
* *
7221045 AATATAATTTCATTTTAATTTCATTTCA
1 AATATAATTT-AATTTCATTTCATTTCA
7221073 TTCCTAATTT
Statistics
Matches: 38, Mismatches: 7, Indels: 11
0.68 0.12 0.20
Matches are distributed among these distances:
23 9 0.24
24 4 0.11
25 6 0.16
27 6 0.16
28 13 0.34
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (28 bp):
AATATAATTTAATTTCATTTCATTTCAA
Found at i:7222219 original size:25 final size:25
Alignment explanation
Indices: 7222191--7222264 Score: 96
Period size: 25 Copynumber: 3.0 Consensus size: 25
7222181 CAGACTAATA
7222191 AAATTTGAAAAGGAATTTTTGAAAT
1 AAATTTGAAAAGGAATTTTTGAAAT
** **
7222216 AAA-TACAAACAATAATTTTTGAAAT
1 AAATTTGAAA-AGGAATTTTTGAAAT
7222241 AAATTTGAAAAGGAATTTTTGAAA
1 AAATTTGAAAAGGAATTTTTGAAA
7222265 AGGATGTTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
24 4 0.10
25 31 0.79
26 4 0.10
ACGTcount: A:0.51, C:0.03, G:0.12, T:0.34
Consensus pattern (25 bp):
AAATTTGAAAAGGAATTTTTGAAAT
Found at i:7225721 original size:21 final size:21
Alignment explanation
Indices: 7225697--7225738 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 21
7225687 AATTAAAATT
7225697 TTTACTTGTAAAATATT-TTTA
1 TTTA-TTGTAAAATATTATTTA
* *
7225718 TTTATTTTTAAATATTATTTA
1 TTTATTGTAAAATATTATTTA
7225739 AAGGAACTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTATTGTAAAATATTATTTA
Found at i:7235610 original size:25 final size:25
Alignment explanation
Indices: 7235581--7235634 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
7235571 TATATATAAC
7235581 ATAATATTCATCATCGACATGGATT
1 ATAATATTCATCATCGACATGGATT
*
7235606 ATAATATTCATCATCGACATGTATT
1 ATAATATTCATCATCGACATGGATT
7235631 ATAA
1 ATAA
7235635 AACATTTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (25 bp):
ATAATATTCATCATCGACATGGATT
Found at i:7240855 original size:21 final size:21
Alignment explanation
Indices: 7240817--7240857 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
7240807 CTGGTATACA
7240817 TCATTCTATTTGTCTTATTTT
1 TCATTCTATTTGTCTTATTTT
*
7240838 TCATATCTATTT-TGTTATTT
1 TCAT-TCTATTTGTCTTATTT
7240858 ATATTCAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.17, C:0.12, G:0.05, T:0.66
Consensus pattern (21 bp):
TCATTCTATTTGTCTTATTTT
Found at i:7241666 original size:22 final size:23
Alignment explanation
Indices: 7241619--7241668 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
7241609 GGCCCGAGTT
* * *
7241619 ATTAAAATTATATTTTTATTAAA
1 ATTAAAACTATATTGTTAGTAAA
7241642 ATTAAAACTA-ATTGTTAGTAAA
1 ATTAAAACTATATTGTTAGTAAA
7241664 ATTAA
1 ATTAA
7241669 TTGTTATTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 15 0.62
23 9 0.38
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (23 bp):
ATTAAAACTATATTGTTAGTAAA
Found at i:7241669 original size:16 final size:16
Alignment explanation
Indices: 7241644--7241683 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
7241634 TTATTAAAAT
*
7241644 TAAAACTAATTGTTAG
1 TAAAATTAATTGTTAG
*
7241660 TAAAATTAATTGTTAT
1 TAAAATTAATTGTTAG
7241676 TAAAATTA
1 TAAAATTA
7241684 TATCAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:7241776 original size:35 final size:35
Alignment explanation
Indices: 7241737--7241899 Score: 107
Period size: 35 Copynumber: 4.5 Consensus size: 35
7241727 ATCTAACATT
*
7241737 TTGTTAGTAAAATTATTAATTGTTAATTGTAATAA
1 TTGTTAGTAAAATTATTAATTGTTAAATGTAATAA
* * *
7241772 TTGTTAGTAAAATTATCAAATTATATCAAAT-TATTAA
1 TTGTTAGTAAAATTAT-TAATTGT-T-AAATGTAATAA
* * * * *
7241809 TTGTTAGTACTAGTCAAAATATT--TTGTAAAATCTAACATT
1 TTGTTAG---TA---AAATTATTAATTGTTAAATGTAATA-A
* * *
7241849 TTGTTAGTCAAATTATTAATTGTTAATTGTATTAA
1 TTGTTAGTAAAATTATTAATTGTTAAATGTAATAA
7241884 TTGTTAGTAAAATTAT
1 TTGTTAGTAAAATTAT
7241900 CAAATTATAT
Statistics
Matches: 95, Mismatches: 20, Indels: 26
0.67 0.14 0.18
Matches are distributed among these distances:
34 7 0.07
35 31 0.33
36 15 0.16
37 14 0.15
38 7 0.07
39 3 0.03
40 12 0.13
43 6 0.06
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.47
Consensus pattern (35 bp):
TTGTTAGTAAAATTATTAATTGTTAAATGTAATAA
Found at i:7241840 original size:112 final size:111
Alignment explanation
Indices: 7241678--7241909 Score: 383
Period size: 112 Copynumber: 2.1 Consensus size: 111
7241668 ATTGTTATTA
* * *
7241678 AAATTATATCAAATTATATTTTTTTGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTTA
1 AAATTATATCAAATTATAATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTTA
7241743 GTAAAATTATTAATTGTTAATTGTAATAATTGTTAGTAAAATTATC
66 GTAAAATTATTAATTGTTAATTGTAATAATTGTTAGTAAAATTATC
* * *
7241789 AAATTATATCAAATTATTAATTGTTAGTACTAGTCAAAATATTTTGTAAAATCTAACATTTTGTT
1 AAATTATATCAAATTA-TAATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTT
* *
7241854 AGTCAAATTATTAATTGTTAATTGTATTAATTGTTAGTAAAATTATC
65 AGTAAAATTATTAATTGTTAATTGTAATAATTGTTAGTAAAATTATC
7241901 AAATTATAT
1 AAATTATAT
7241910 GGGTTAGGGT
Statistics
Matches: 112, Mismatches: 8, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
111 16 0.14
112 96 0.86
ACGTcount: A:0.41, C:0.06, G:0.08, T:0.45
Consensus pattern (111 bp):
AAATTATATCAAATTATAATTGTTAGTACCAATCAAAACATTTTGTAAAATCTAACATTTTGTTA
GTAAAATTATTAATTGTTAATTGTAATAATTGTTAGTAAAATTATC
Found at i:7241992 original size:33 final size:33
Alignment explanation
Indices: 7241952--7242102 Score: 130
Period size: 33 Copynumber: 4.5 Consensus size: 33
7241942 GTTTTAGTGT
*
7241952 TTTTAAGTTAAGGGTTAGGGTTATGGTTAGGGG
1 TTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGGG
* * * *
7241985 TTTTAAGTTAAGGATTAAGGTTAGGGCTA-AGG
1 TTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGGG
* * * *
7242017 TTTT-TGTT-AGGGTTTTGGTGTTTTTA-AGTTAAGGG
1 TTTTAAGTTAAGGG-TTAGG-G---TTAGGGTTAGGGG
**
7242052 TTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGAT
1 TTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGGG
7242085 TTTTAAGTTAAGGGTTAG
1 TTTTAAGTTAAGGGTTAG
7242103 AGTTTTTAAG
Statistics
Matches: 91, Mismatches: 18, Indels: 18
0.72 0.14 0.14
Matches are distributed among these distances:
30 3 0.03
31 6 0.07
32 10 0.11
33 48 0.53
34 3 0.03
35 10 0.11
36 7 0.08
37 4 0.04
ACGTcount: A:0.23, C:0.01, G:0.34, T:0.42
Consensus pattern (33 bp):
TTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGGG
Found at i:7242054 original size:67 final size:67
Alignment explanation
Indices: 7241951--7242121 Score: 181
Period size: 67 Copynumber: 2.6 Consensus size: 67
7241941 GGTTTTAGTG
* * * *
7241951 TTTTTAAGTTAAGGGTTAG-GGTTAT-GGTTAGGGGTTTTAAGTTAAGGATTAAGGTTAGGGCTA
1 TTTTT-AGTTAAGGGTTAGAGTTTTTAAGTTAAGGGTTTTAAGTTAAGGATTAAGGTTAGGG-TA
7242014 AGG-
64 AGGA
* * * * *
7242017 TTTTT-GTT-AGGGTTTTGGTGTTTTTAAGTTAAGGGTTTTAAGTTAAGGGTTAGGGTTAGGGTT
1 TTTTTAGTTAAGGG--TTAGAGTTTTTAAGTTAAGGGTTTTAAGTTAAGGATTAAGGTTAGGGTA
7242080 AGGA
64 AGGA
7242084 TTTTTAAGTTAAGGGTTAGAGTTTTTAAGTTAAGGGTT
1 TTTTT-AGTTAAGGGTTAGAGTTTTTAAGTTAAGGGTT
7242122 AGGGTTATGG
Statistics
Matches: 87, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
63 4 0.05
64 3 0.03
65 3 0.03
66 13 0.15
67 36 0.41
68 21 0.24
69 3 0.03
70 4 0.05
ACGTcount: A:0.23, C:0.01, G:0.33, T:0.43
Consensus pattern (67 bp):
TTTTTAGTTAAGGGTTAGAGTTTTTAAGTTAAGGGTTTTAAGTTAAGGATTAAGGTTAGGGTAAG
GA
Done.