Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008426.1 Hibiscus syriacus cultivar Beakdansim tig00111210_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 4445546
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 18
Found at i:3216 original size:14 final size:14
Alignment explanation
Indices: 3193--3233 Score: 64
Period size: 14 Copynumber: 2.8 Consensus size: 14
3183 TTTTGGCTCT
3193 TTTTTGTTTTTTGCC
1 TTTTT-TTTTTTGCC
3208 TTTTTTTTTTTGCC
1 TTTTTTTTTTTGCC
3222 TTTTTTTGTTTT
1 TTTTTTT-TTTT
3234 TTTGAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.80
Consensus pattern (14 bp):
TTTTTTTTTTTGCC
Found at i:4115 original size:20 final size:21
Alignment explanation
Indices: 4072--4126 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
4062 CAACCTTAAT
*
4072 TCCTAATAAAATAATAAATGA
1 TCCTAATAAAATAATAAATCA
* *
4093 TCCTAA-AAGATAATTAATCA
1 TCCTAATAAAATAATAAATCA
*
4113 TCCTATATTAAATA
1 TCCTA-ATAAAATA
4127 TATTACAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 16 0.59
21 7 0.26
22 4 0.15
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.33
Consensus pattern (21 bp):
TCCTAATAAAATAATAAATCA
Found at i:5374 original size:17 final size:19
Alignment explanation
Indices: 5346--5394 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
5336 TTTATGAAAA
5346 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
5364 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
5383 CACCGATGCACT
1 CATCGATGCACT
5395 AAGGGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:5390 original size:65 final size:65
Alignment explanation
Indices: 5279--5400 Score: 158
Period size: 65 Copynumber: 1.9 Consensus size: 65
5269 AATCAAATTG
* * * *
5279 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCATCGATGTACTGAGGGTTTTATGAA
1 AACATCGAATGCACTTCATGCATCGATGCACATACCATGCACCGATGCACTAAGGGTTTTATGAA
* *
5344 AACATCGAATGCACTTGATGCATCGATGCAC-T-CTTAGTGCACCGATGCACTAAGGGT
1 AACATCGAATGCACTTCATGCATCGATGCACATAC-CA-TGCACCGATGCACTAAGGGT
5401 CCAACGGTGC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
63 1 0.02
64 2 0.04
65 46 0.94
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (65 bp):
AACATCGAATGCACTTCATGCATCGATGCACATACCATGCACCGATGCACTAAGGGTTTTATGAA
Found at i:7202 original size:46 final size:44
Alignment explanation
Indices: 7145--7286 Score: 157
Period size: 46 Copynumber: 3.2 Consensus size: 44
7135 CTTTTACCAT
* *
7145 TTATCCCATAAGCTCATAAGCTTATTTTACCAATATACTTA-CAA
1 TTATACCATAAGCTCGTAAGCTTATTTTACCAATATACTTATC-A
7189 TTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA-TTATCA
1 -TT-ATACCATAAGCTCGTAAGCTTATTTTACCAATATACTTATCA
* * * **
7234 TTATTCCATAAGCTCGTAAG--TATTTTACTAATACACTTGCCA
1 TTATACCATAAGCTCGTAAGCTTATTTTACCAATATACTTATCA
*
7276 TTATTCCATAA
1 TTATACCATAA
7287 CCATATACCA
Statistics
Matches: 87, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
41 13 0.15
42 15 0.17
43 17 0.20
44 2 0.02
45 6 0.07
46 34 0.39
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (44 bp):
TTATACCATAAGCTCGTAAGCTTATTTTACCAATATACTTATCA
Found at i:7424 original size:40 final size:39
Alignment explanation
Indices: 7378--7458 Score: 126
Period size: 40 Copynumber: 2.1 Consensus size: 39
7368 GAAATGCTAC
7378 ACATAAGGTCGTACCCACCATATACACCGAAGTGTATTAA
1 ACATAAGGTCGTACCCACCATATACACCGAAGTGTA-TAA
* * *
7418 ACATAAGGTTGTGCTCACCATATACACCGAAGTGTATAA
1 ACATAAGGTCGTACCCACCATATACACCGAAGTGTATAA
7457 AC
1 AC
7459 CTGCAGCTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
39 5 0.13
40 33 0.87
ACGTcount: A:0.37, C:0.23, G:0.16, T:0.23
Consensus pattern (39 bp):
ACATAAGGTCGTACCCACCATATACACCGAAGTGTATAA
Found at i:12355 original size:89 final size:88
Alignment explanation
Indices: 12202--12471 Score: 370
Period size: 89 Copynumber: 3.1 Consensus size: 88
12192 CAGAACTGTA
* * * *
12202 TCCGTAGGGCTTACCCTAAGCACATAGCAAAAGGGAGCCAACCTAAGGATA-ATCCTTGGGGCCT
1 TCCGTAGGG-TTACCCTATGCACACAGC-AAA-TGAACCAACCTAAGGATATA-CCTTGGGGCCT
12266 ATGGGCCTACCCAAGGGTATCCTTAGG
62 ATGGGCCTACCCAAGGGTATCCTTAGG
12293 TCCGTAGGGTTACCCTATGCACACAGCAAATGAAACCAACCTAAGGATATACCTTGGGGCCTATG
1 TCCGTAGGGTTACCCTATGCACACAGCAAATG-AACCAACCTAAGGATATACCTTGGGGCCTATG
12358 GGCCTACCCAAGGGTATCCTTAGG
65 GGCCTACCCAAGGGTATCCTTAGG
* * ** * *
12382 TCTGTAGGGTTA-CCTATGCATACAATAAATGAACCAACCTAAGGATATGCCTTGGGGCCTAT-A
1 TCCGTAGGGTTACCCTATGCACACAGCAAATGAACCAACCTAAGGATATACCTTGGGGCCTATGG
12445 GCCTACCCAA-GGTAT-CTTAGG
66 GCCTACCCAAGGGTATCCTTAGG
12466 TCCGTA
1 TCCGTA
12472 AGGTCTTACC
Statistics
Matches: 166, Mismatches: 11, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
84 11 0.07
85 5 0.03
86 10 0.06
87 30 0.18
88 17 0.10
89 67 0.40
90 17 0.10
91 9 0.05
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.23
Consensus pattern (88 bp):
TCCGTAGGGTTACCCTATGCACACAGCAAATGAACCAACCTAAGGATATACCTTGGGGCCTATGG
GCCTACCCAAGGGTATCCTTAGG
Found at i:15189 original size:15 final size:17
Alignment explanation
Indices: 15159--15192 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
15149 GGTCAATGGT
15159 GGTCAACGGCAGTCAAC
1 GGTCAACGGCAGTCAAC
15176 GGTCAAC-G-AGTCAAC
1 GGTCAACGGCAGTCAAC
15191 GG
1 GG
15193 GTTGGGTCGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
16 1 0.06
17 7 0.41
ACGTcount: A:0.29, C:0.26, G:0.32, T:0.12
Consensus pattern (17 bp):
GGTCAACGGCAGTCAAC
Found at i:22036 original size:15 final size:15
Alignment explanation
Indices: 22016--22061 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
22006 TTTGATATCA
22016 TTTCTTTCCATTTCC
1 TTTCTTTCCATTTCC
22031 TTTCTTAT-CATTTCC
1 TTTCTT-TCCATTTCC
22046 TTTCTTCTTCCATTTC
1 TTTC-T-TTCCATTTC
22062 TTATTTCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 17 0.63
16 3 0.11
17 7 0.26
ACGTcount: A:0.09, C:0.30, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTCTTTCCATTTCC
Found at i:22291 original size:12 final size:11
Alignment explanation
Indices: 22261--22302 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 11
22251 GTGATGCAAC
22261 AAAAGCAAAAGA
1 AAAAG-AAAAGA
22273 AAGAAGAAAAGCA
1 AA-AAGAAAAG-A
22286 AAAAGAAAAGA
1 AAAAGAAAAGA
22297 AAAAGA
1 AAAAGA
22303 CTCTTACTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 7 0.25
12 15 0.54
13 6 0.21
ACGTcount: A:0.76, C:0.05, G:0.19, T:0.00
Consensus pattern (11 bp):
AAAAGAAAAGA
Found at i:23497 original size:15 final size:15
Alignment explanation
Indices: 23477--23505 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
23467 AGAAGACATT
23477 AGAGTTGAAAATGAG
1 AGAGTTGAAAATGAG
23492 AGAGTTGAAAATGA
1 AGAGTTGAAAATGA
23506 TGAATTTGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.21
Consensus pattern (15 bp):
AGAGTTGAAAATGAG
Found at i:25942 original size:15 final size:15
Alignment explanation
Indices: 25922--25967 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
25912 TTTGATATCA
25922 TTTCTTTCCATTTCC
1 TTTCTTTCCATTTCC
25937 TTTCTTAT-CATTTCC
1 TTTCTT-TCCATTTCC
25952 TTTCTTCTTCCATTTC
1 TTTC-T-TTCCATTTC
25968 TTATTTCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
15 17 0.63
16 3 0.11
17 7 0.26
ACGTcount: A:0.09, C:0.30, G:0.00, T:0.61
Consensus pattern (15 bp):
TTTCTTTCCATTTCC
Found at i:25979 original size:7 final size:7
Alignment explanation
Indices: 25963--26009 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
25953 TTCTTCTTCC
*
25963 ATTTCTT
1 ATTTCAT
25970 ATTTCAT
1 ATTTCAT
*
25977 ATTTCTT
1 ATTTCAT
25984 ATTTCAT
1 ATTTCAT
25991 ATTTCCAT
1 ATTT-CAT
*
25999 -TTTAAT
1 ATTTCAT
26005 ATTTC
1 ATTTC
26010 TTTCTTTTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
6 2 0.06
7 28 0.85
8 3 0.09
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTCAT
Found at i:25982 original size:14 final size:14
Alignment explanation
Indices: 25963--25995 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
25953 TTCTTCTTCC
25963 ATTTCTTATTTCAT
1 ATTTCTTATTTCAT
25977 ATTTCTTATTTCAT
1 ATTTCTTATTTCAT
25991 ATTTC
1 ATTTC
25996 CATTTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (14 bp):
ATTTCTTATTTCAT
Found at i:28054 original size:70 final size:70
Alignment explanation
Indices: 27941--28117 Score: 273
Period size: 70 Copynumber: 2.5 Consensus size: 70
27931 AAATTGATAA
*
27941 ACATACAATACCACTTAGTCAACTTCAATATTTAATTGAAGGATTTGAACTTGGTTCTGCTACAT
1 ACATACAATACCACTTAGTCAACTTCAATATTTAATTGAAGGATTTGAACTTGGTTCTACTACAT
28006 TATAG
66 TATAG
* * * * *
28011 ACATACAATACCATTTGGTCAACTTCCATATTTAGTTGAAGGATTTGAACTTGTTTCTACTACAT
1 ACATACAATACCACTTAGTCAACTTCAATATTTAATTGAAGGATTTGAACTTGGTTCTACTACAT
28076 TATAG
66 TATAG
* * *
28081 ACAGACAATACAACTTAATCAACTTCAATATTTAATT
1 ACATACAATACCACTTAGTCAACTTCAATATTTAATT
28118 ATTGATCGAC
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
70 94 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (70 bp):
ACATACAATACCACTTAGTCAACTTCAATATTTAATTGAAGGATTTGAACTTGGTTCTACTACAT
TATAG
Found at i:34584 original size:19 final size:19
Alignment explanation
Indices: 34540--34576 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34530 TATGCATTGG
* *
34540 GCTATGAATTTGAAATTAA
1 GCTATGAATATGAAAATAA
34559 GCTATGAATATGAAAATA
1 GCTATGAATATGAAAATA
34577 GGTTATGAGT
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:0.46, C:0.05, G:0.16, T:0.32
Consensus pattern (19 bp):
GCTATGAATATGAAAATAA
Found at i:36690 original size:21 final size:22
Alignment explanation
Indices: 36655--36695 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
36645 ACGCCACCAT
*
36655 CTCTCCCTCCGCCTCGTCCCAC
1 CTCTCCCTCCGCCTCCTCCCAC
*
36677 CTCT-CCTCCTCCTCCTCCC
1 CTCTCCCTCCGCCTCCTCCC
36696 CTAAATTCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.02, C:0.66, G:0.05, T:0.27
Consensus pattern (22 bp):
CTCTCCCTCCGCCTCCTCCCAC
Found at i:42888 original size:2 final size:2
Alignment explanation
Indices: 42881--42916 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
42871 TCAATCTACA
42881 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
42917 ATTTACGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:45536 original size:14 final size:16
Alignment explanation
Indices: 45517--45558 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 16
45507 AAATATTTAA
45517 AAATAAAAAA-TTAT-
1 AAATAAAAAATTTATG
45531 AAATAAATAAATTTATG
1 AAATAAA-AAATTTATG
45548 AAATTAAAAAA
1 AAA-TAAAAAA
45559 ACTTAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.29
15 3 0.12
16 4 0.17
17 6 0.25
18 4 0.17
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (16 bp):
AAATAAAAAATTTATG
Found at i:47586 original size:21 final size:21
Alignment explanation
Indices: 47534--47587 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
47524 TGGTAGAGCG
* * *
47534 CTACCTAAAGTGTTATTTTTT
1 CTACCTAAAATGTTAATTTCT
47555 CTACC-AGAAATGTTAATTTCT
1 CTACCTA-AAATGTTAATTTCT
47576 CTACCTAAAATG
1 CTACCTAAAATG
47588 AATATTTCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 1 0.04
21 26 0.93
22 1 0.04
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (21 bp):
CTACCTAAAATGTTAATTTCT
Found at i:47637 original size:21 final size:21
Alignment explanation
Indices: 47602--47684 Score: 69
Period size: 21 Copynumber: 3.8 Consensus size: 21
47592 TTTCTGATAT
47602 TAACATTTTCA-GTAGAAAAAA
1 TAACATTTT-AGGTAGAAAAAA
* *
47623 TAACATTTTAGGTAGCAGCCAATAT
1 TAACATTTTAGGTAG-A---AAAAA
* * *
47648 TAATATTTTTGGTACAAAAAA
1 TAACATTTTAGGTAGAAAAAA
47669 TAACATTTTAGGTAGA
1 TAACATTTTAGGTAGA
47685 GATCTACCGG
Statistics
Matches: 47, Mismatches: 10, Indels: 10
0.70 0.15 0.15
Matches are distributed among these distances:
20 1 0.02
21 29 0.62
22 1 0.02
24 1 0.02
25 15 0.32
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (21 bp):
TAACATTTTAGGTAGAAAAAA
Found at i:50082 original size:26 final size:26
Alignment explanation
Indices: 50046--50125 Score: 106
Period size: 26 Copynumber: 3.1 Consensus size: 26
50036 ACTAAGTGCA
*
50046 TATGGTGGGCACGACCTTATATGTAT
1 TATGGTGGGCACGACCTTATGTGTAT
*
50072 TATGATGGGCACGACCTTATGTGTAT
1 TATGGTGGGCACGACCTTATGTGTAT
* * * *
50098 GATGGTTGACACAACCTTATGTGTAT
1 TATGGTGGGCACGACCTTATGTGTAT
50124 TA
1 TA
50126 GCACTTCGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (26 bp):
TATGGTGGGCACGACCTTATGTGTAT
Found at i:51552 original size:15 final size:15
Alignment explanation
Indices: 51527--51563 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
51517 TTTCACATAG
*
51527 AACACATTTACGTAT
1 AACATATTTACGTAT
*
51542 ATCATATTTACGTAT
1 AACATATTTACGTAT
51557 AACATAT
1 AACATAT
51564 CCACCTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (15 bp):
AACATATTTACGTAT
Found at i:58722 original size:23 final size:23
Alignment explanation
Indices: 58696--58768 Score: 64
Period size: 23 Copynumber: 3.2 Consensus size: 23
58686 CTCTTTCAAA
58696 TCATTTGTTGATTTCTATAACAC
1 TCATTTGTTGATTTCTATAACAC
* *
58719 TCATAATTCTT--TTCTCTTTCAA-A-
1 TCAT--TTGTTGATT-TCTAT-AACAC
58742 TCATTTGTTGATTTCTATAACAC
1 TCATTTGTTGATTTCTATAACAC
58765 TCAT
1 TCAT
58769 AACACGTATG
Statistics
Matches: 38, Mismatches: 4, Indels: 16
0.66 0.07 0.28
Matches are distributed among these distances:
21 6 0.16
22 5 0.13
23 16 0.42
24 5 0.13
25 6 0.16
ACGTcount: A:0.26, C:0.19, G:0.05, T:0.49
Consensus pattern (23 bp):
TCATTTGTTGATTTCTATAACAC
Found at i:58746 original size:46 final size:47
Alignment explanation
Indices: 58678--58770 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 47
58668 TAAAACCTTC
58678 TTCTTCTTCTCTTTCAAATCATTTGTTGATTTCTATAACACTCATAA
1 TTCTTCTTCTCTTTCAAATCATTTGTTGATTTCTATAACACTCATAA
58725 TTCTT-TTCTCTTTCAAATCATTTGTTGATTTCTATAACACTCATAA
1 TTCTTCTTCTCTTTCAAATCATTTGTTGATTTCTATAACACTCATAA
58771 CACGTATGCT
Statistics
Matches: 46, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
46 41 0.89
47 5 0.11
ACGTcount: A:0.26, C:0.20, G:0.04, T:0.49
Consensus pattern (47 bp):
TTCTTCTTCTCTTTCAAATCATTTGTTGATTTCTATAACACTCATAA
Found at i:58756 original size:24 final size:24
Alignment explanation
Indices: 58684--58757 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 24
58674 CTTCTTCTTC
58684 TTCTCTTTCAAATCATTTGTTGAT
1 TTCTCTTTCAAATCATTTGTTGAT
* ** * ** **
58708 TTCTATAAC-ACTCA-TAATTCTT
1 TTCTCTTTCAAATCATTTGTTGAT
58730 TTCTCTTTCAAATCATTTGTTGAT
1 TTCTCTTTCAAATCATTTGTTGAT
58754 TTCT
1 TTCT
58758 ATAACACTCA
Statistics
Matches: 32, Mismatches: 16, Indels: 4
0.62 0.31 0.08
Matches are distributed among these distances:
22 10 0.31
23 8 0.25
24 14 0.44
ACGTcount: A:0.23, C:0.19, G:0.05, T:0.53
Consensus pattern (24 bp):
TTCTCTTTCAAATCATTTGTTGAT
Found at i:66334 original size:17 final size:17
Alignment explanation
Indices: 66312--66349 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
66302 TAAGAAAGCT
66312 TAACAACCTTGTAGCAA
1 TAACAACCTTGTAGCAA
66329 TAACAACCTTGTAGCAA
1 TAACAACCTTGTAGCAA
66346 TAAC
1 TAAC
66350 TTCATAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.24, G:0.11, T:0.24
Consensus pattern (17 bp):
TAACAACCTTGTAGCAA
Found at i:74417 original size:16 final size:18
Alignment explanation
Indices: 74398--74443 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
74388 ATTCAACTTT
*
74398 TGACATATTTA-GA-ATA
1 TGACATATATATGATATA
*
74414 TGACAAATATATGATATA
1 TGACATATATATGATATA
*
74432 TGACATAAATAT
1 TGACATATATAT
74444 CATGCCAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
16 9 0.38
17 2 0.08
18 13 0.54
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.35
Consensus pattern (18 bp):
TGACATATATATGATATA
Found at i:83260 original size:17 final size:17
Alignment explanation
Indices: 83235--83267 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
83225 TACCAAATTT
83235 TTTCCAGATTTTAACAC
1 TTTCCAGATTTTAACAC
*
83252 TTTCTAGATTTTAACA
1 TTTCCAGATTTTAACA
83268 AAATTTCCAG
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:0.30, C:0.18, G:0.06, T:0.45
Consensus pattern (17 bp):
TTTCCAGATTTTAACAC
Found at i:88185 original size:64 final size:64
Alignment explanation
Indices: 88117--88246 Score: 260
Period size: 64 Copynumber: 2.0 Consensus size: 64
88107 CGTCCCTAAC
88117 AATATATATATATATATAATAGAGGTACAAAATATGTTGTATAAAGTCACAAAATATTTTTTTT
1 AATATATATATATATATAATAGAGGTACAAAATATGTTGTATAAAGTCACAAAATATTTTTTTT
88181 AATATATATATATATATAATAGAGGTACAAAATATGTTGTATAAAGTCACAAAATATTTTTTTT
1 AATATATATATATATATAATAGAGGTACAAAATATGTTGTATAAAGTCACAAAATATTTTTTTT
88245 AA
1 AA
88247 ATTAAAGTTT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
64 66 1.00
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (64 bp):
AATATATATATATATATAATAGAGGTACAAAATATGTTGTATAAAGTCACAAAATATTTTTTTT
Found at i:88351 original size:21 final size:21
Alignment explanation
Indices: 88292--88345 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
88282 CGGATATCCA
88292 ATCCGATATTTCAAATATCTG
1 ATCCGATATTTCAAATATCTG
88313 ATCCGATATTTCAAATATCTG
1 ATCCGATATTTCAAATATCTG
*
88334 ATCTGATATTTC
1 ATCCGATATTTC
88346 GGATATTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.09, T:0.41
Consensus pattern (21 bp):
ATCCGATATTTCAAATATCTG
Found at i:93921 original size:16 final size:16
Alignment explanation
Indices: 93900--93931 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
93890 ATTTTTTGGG
93900 GAGAAATGATGATATA
1 GAGAAATGATGATATA
93916 GAGAAATGATGATATA
1 GAGAAATGATGATATA
93932 TTAACCACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (16 bp):
GAGAAATGATGATATA
Found at i:95133 original size:39 final size:38
Alignment explanation
Indices: 95073--95191 Score: 154
Period size: 39 Copynumber: 3.1 Consensus size: 38
95063 TAAAATATAT
95073 AATTTAGAATGTTAGAGTGAAATAATTTAAGAAATTAAG
1 AATTTAGAATGTTAGA-TGAAATAATTTAAGAAATTAAG
*
95112 AATTTAGAATGTTATGATGAAATAACTTAAGAAATT-AG
1 AATTTAGAATGTTA-GATGAAATAATTTAAGAAATTAAG
*
95150 TAATTTAGAATATTAGA-GAGAAGTAATTTAAG-AATTAAG
1 -AATTTAGAATGTTAGATGA-AA-TAATTTAAGAAATTAAG
95189 AAT
1 AAT
95192 AAAAAATTAA
Statistics
Matches: 72, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
37 2 0.03
38 13 0.18
39 55 0.76
40 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.17, T:0.34
Consensus pattern (38 bp):
AATTTAGAATGTTAGATGAAATAATTTAAGAAATTAAG
Found at i:96600 original size:26 final size:26
Alignment explanation
Indices: 96523--96614 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 26
96513 AAATTAAATG
*
96523 AATATAATAAATAAATATAAGA-ATAAT
1 AATATAATAAAT-AAT-TAAAATATAAT
* *
96550 AAT-TAAT-AAT-ATT-AATTATTA-
1 AATATAATAAATAATTAAAATATAAT
96571 AATATAATAAATAATTAAAATATAAT
1 AATATAATAAATAATTAAAATATAAT
96597 AATAT-ATAAATATATTAA
1 AATATAATAAATA-ATTAA
96615 TTAAAATAGA
Statistics
Matches: 53, Mismatches: 5, Indels: 15
0.73 0.07 0.21
Matches are distributed among these distances:
21 4 0.08
22 8 0.15
23 5 0.09
24 3 0.06
25 16 0.30
26 14 0.26
27 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (26 bp):
AATATAATAAATAATTAAAATATAAT
Found at i:96609 original size:16 final size:15
Alignment explanation
Indices: 96523--96651 Score: 79
Period size: 13 Copynumber: 9.4 Consensus size: 15
96513 AAATTAAATG
96523 AATATAATAA-ATA-
1 AATATAATAATATAT
*
96536 AATATAAGAATA-AT
1 AATATAATAATATAT
96550 AAT-TAATAATAT-T
1 AATATAATAATATAT
*
96563 AAT-TATTAA-ATAT
1 AATATAATAATATAT
*
96576 AATA-AATAAT-TAA
1 AATATAATAATATAT
96589 AATATAATAATATAT
1 AATATAATAATATAT
*
96604 AAATATATTAAT-TA-
1 -AATATAATAATATAT
* *
96618 AA-ATAGATATTTTAT
1 AATATA-ATAATATAT
*
96633 AA-AAAATAAT-TAT
1 AATATAATAATATAT
96646 AATATA
1 AATATA
96652 TTTTGTAAAT
Statistics
Matches: 91, Mismatches: 12, Indels: 25
0.71 0.09 0.20
Matches are distributed among these distances:
12 5 0.05
13 50 0.55
14 18 0.20
15 8 0.09
16 10 0.11
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
AATATAATAATATAT
Found at i:96622 original size:48 final size:47
Alignment explanation
Indices: 96523--96622 Score: 116
Period size: 48 Copynumber: 2.1 Consensus size: 47
96513 AAATTAAATG
* *
96523 AATATAATAAATAAATATAAGAATAATAATTAATAATATTAATTATTA
1 AATATAATAAATAAATATAAAAATAATAATTAAAAATATTAATTA-TA
96571 AATATAATAAAT-AAT-TAAAATATAATAATATATAAATATATTAATTA-A
1 AATATAATAAATAAATATAAAA-ATAATAAT-TA-AAA-ATATTAATTATA
96619 AATA
1 AATA
96623 GATATTTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
46 4 0.09
47 11 0.24
48 19 0.41
49 2 0.04
50 10 0.22
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (47 bp):
AATATAATAAATAAATATAAAAATAATAATTAAAAATATTAATTATA
Found at i:101123 original size:55 final size:54
Alignment explanation
Indices: 101056--101300 Score: 275
Period size: 55 Copynumber: 4.5 Consensus size: 54
101046 TTTATTATAA
* * * *
101056 TGCACA-ACTAGTGCATATACGGTAATTCATCAACTTATGATGAATTCTGTGGTTT
1 TGCACACA-TAGTGCATGTACGCT-ATTCATCAACTCATGATGAATTCTGTGGATT
101111 TGCACACATAGTGCATGTACAGCTATTCATCAACTCATGATGAATTCTGT--ATT
1 TGCACACATAGTGCATGTAC-GCTATTCATCAACTCATGATGAATTCTGTGGATT
* * *
101164 TGTACACATAGTGCATGTATGGCTATTCATCAACTCATGATCAATT-TCGTGGATT
1 TGCACACATAGTGCATGTA-CGCTATTCATCAACTCATGATGAATTCT-GTGGATT
** * *
101219 TGCACACATAGTGTTTGTATTGCTATTCATCAACTCATGATGAATTCCGTGGATT
1 TGCACACATAGTGCATGTA-CGCTATTCATCAACTCATGATGAATTCTGTGGATT
*
101274 TTCACACATAGTGTC-TGTACGGCTATT
1 TGCACACATAGTG-CATGTAC-GCTATT
101301 TATCGCTTGT
Statistics
Matches: 165, Mismatches: 16, Indels: 18
0.83 0.08 0.09
Matches are distributed among these distances:
52 1 0.01
53 46 0.28
55 115 0.70
56 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (54 bp):
TGCACACATAGTGCATGTACGCTATTCATCAACTCATGATGAATTCTGTGGATT
Found at i:101198 original size:108 final size:110
Alignment explanation
Indices: 101080--101300 Score: 299
Period size: 108 Copynumber: 2.0 Consensus size: 110
101070 ATATACGGTA
* * *
101080 ATTCATCAACTTATGATGAA-TTCTGTGGTTTTGCACACATAGTGCATGTACAGCTATTCATCAA
1 ATTCATCAACTCATGATCAATTTC-GTGGATTTGCACACATAGTGCATGTACAGCTATTCATCAA
* *
101144 CTCATGATGAATT-C-TGTATTTGT-ACACATAGTG-CATGTATGGCT
65 CTCATGATGAATTCCGTGGATTT-TCACACATAGTGTC-TGTACGGCT
** **
101188 ATTCATCAACTCATGATCAATTTCGTGGATTTGCACACATAGTGTTTGTATTGCTATTCATCAAC
1 ATTCATCAACTCATGATCAATTTCGTGGATTTGCACACATAGTGCATGTACAGCTATTCATCAAC
101253 TCATGATGAATTCCGTGGATTTTCACACATAGTGTCTGTACGGCT
66 TCATGATGAATTCCGTGGATTTTCACACATAGTGTCTGTACGGCT
101298 ATT
1 ATT
101301 TATCGCTTGT
Statistics
Matches: 99, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
108 66 0.67
109 5 0.05
110 27 0.27
111 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.38
Consensus pattern (110 bp):
ATTCATCAACTCATGATCAATTTCGTGGATTTGCACACATAGTGCATGTACAGCTATTCATCAAC
TCATGATGAATTCCGTGGATTTTCACACATAGTGTCTGTACGGCT
Found at i:113850 original size:18 final size:19
Alignment explanation
Indices: 113811--113850 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
113801 GGATCGATAC
113811 TACTATATTATGGTACCGA
1 TACTATATTATGGTACCGA
* *
113830 TACTATGTTAT-GTATCGA
1 TACTATATTATGGTACCGA
113848 TAC
1 TAC
113851 CATTTTTGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (19 bp):
TACTATATTATGGTACCGA
Found at i:113926 original size:20 final size:19
Alignment explanation
Indices: 113874--113926 Score: 79
Period size: 20 Copynumber: 2.7 Consensus size: 19
113864 TGTTTTGAAA
*
113874 TGGTATCGATACCTTCCCTT
1 TGGTATCGATA-CTACCCTT
113894 TGGTATCGATACTACCCTT
1 TGGTATCGATACTACCCTT
113913 TCGGTATCGATACT
1 T-GGTATCGATACT
113927 GATTGAATCA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 8 0.26
20 23 0.74
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (19 bp):
TGGTATCGATACTACCCTT
Found at i:120992 original size:18 final size:17
Alignment explanation
Indices: 120948--120984 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
120938 CGAATATCTG
120948 AATTCGAATAAAAAAATT
1 AATT-GAATAAAAAAATT
*
120966 AGTTGAATAAAAAAATT
1 AATTGAATAAAAAAATT
120983 AA
1 AA
120985 ATTTAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
17 14 0.82
18 3 0.18
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (17 bp):
AATTGAATAAAAAAATT
Found at i:121034 original size:13 final size:13
Alignment explanation
Indices: 121016--121040 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
121006 TATAACATGT
121016 TATATATATTTAC
1 TATATATATTTAC
121029 TATATATATTTA
1 TATATATATTTA
121041 TCAAAACATA
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:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TATATATATTTAC
Found at i:121312 original size:2 final size:2
Alignment explanation
Indices: 121305--121331 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
121295 TATGAACAGA
121305 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
121332 ATTTAAACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:128478 original size:80 final size:80
Alignment explanation
Indices: 128394--128555 Score: 236
Period size: 80 Copynumber: 2.0 Consensus size: 80
128384 GTAAAAAAAC
* * * * *
128394 AACATTTTAGGTAGCTCCCAATATTAATATTTCTGATAGAAAAAAATAATGTTTTAGGTAGCGTT
1 AACATTTTAGGTAGCGCCCAATATTAACATTTCCGATAGAAAAAAATAATGTTTTAGGTACCGCT
*
128459 TTA-CTAGAAATGTTA
66 TTATC-AAAAATGTTA
* *
128474 AACATTTTAGGTAGCGCTCAATATTAACATTTCCGGTAGAAAAAAATAATGTTTTAGGTACCGCT
1 AACATTTTAGGTAGCGCCCAATATTAACATTTCCGATAGAAAAAAATAATGTTTTAGGTACCGCT
128539 TTATCAAAAATGTTA
66 TTATCAAAAATGTTA
128554 AA
1 AA
128556 AAATTATTAA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
80 72 0.99
81 1 0.01
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (80 bp):
AACATTTTAGGTAGCGCCCAATATTAACATTTCCGATAGAAAAAAATAATGTTTTAGGTACCGCT
TTATCAAAAATGTTA
Found at i:129253 original size:27 final size:27
Alignment explanation
Indices: 129222--129278 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
129212 AGAAAAAATT
*
129222 AATCTAACCTTTTGTTTAACATAATCA
1 AATCTAACCTTTTGATTAACATAATCA
129249 AATCTAACCTTTTGATTAACATAATCA
1 AATCTAACCTTTTGATTAACATAATCA
129276 AAT
1 AAT
129279 ATTGATTATC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.39
Consensus pattern (27 bp):
AATCTAACCTTTTGATTAACATAATCA
Found at i:130597 original size:33 final size:33
Alignment explanation
Indices: 130560--130623 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
130550 GTTTTTTAAA
130560 TAAGATATTTAA-AAAATAAATATAAACAATTAT
1 TAAGATATTTAATAAAATAAATATAAA-AATTAT
* *
130593 TAAGATATTTAATACATTAAATATAAAAATT
1 TAAGATATTTAATAAAATAAATATAAAAATT
130624 CTGCAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 16 0.57
34 12 0.43
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (33 bp):
TAAGATATTTAATAAAATAAATATAAAAATTAT
Found at i:130663 original size:18 final size:19
Alignment explanation
Indices: 130608--130665 Score: 55
Period size: 24 Copynumber: 2.8 Consensus size: 19
130598 TATTTAATAC
130608 ATTAAATATAAAAATTCTGCAA
1 ATTAAATATAAAAATTCT---A
*
130630 AATAAATTATTAAAAATTCT-
1 ATTAAA-TA-TAAAAATTCTA
130650 ATTAAATATAAAAATT
1 ATTAAATATAAAAATT
130666 ATTAAGTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
18 8 0.25
19 2 0.06
20 5 0.16
22 5 0.16
23 2 0.06
24 10 0.31
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (19 bp):
ATTAAATATAAAAATTCTA
Found at i:135118 original size:108 final size:109
Alignment explanation
Indices: 134929--135145 Score: 418
Period size: 108 Copynumber: 2.0 Consensus size: 109
134919 ACTATCTTGG
134929 AAAGTTTTTCAATTTTCTTATGACTCCTACGATATGTAAGGAGCTCGAGGTTGATCTATGTTTTT
1 AAAGTTTTTCAATTTTCTTATGACTCCTACGATATGTAAGGAGCTCGAGGTTGATCTATGTTTTT
134994 CCATGCCTAGTTA-TTTTTTGGCCGTTCTATGTAAGCTGCAAAA
66 CCATGCCTAGTTATTTTTTTGGCCGTTCTATGTAAGCTGCAAAA
135037 AAAGTTTTTCAATTTTCTTATGACTCCTACGATATGTAAGGAGCTCGAGGTTGATCTATGTTTTT
1 AAAGTTTTTCAATTTTCTTATGACTCCTACGATATGTAAGGAGCTCGAGGTTGATCTATGTTTTT
*
135102 CCATGCCTAGTTATTTTTTTGGCCGTTCTATGTAAGGTGCAAAA
66 CCATGCCTAGTTATTTTTTTGGCCGTTCTATGTAAGCTGCAAAA
135146 CCTTGTACAT
Statistics
Matches: 107, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
108 78 0.73
109 29 0.27
ACGTcount: A:0.24, C:0.16, G:0.19, T:0.41
Consensus pattern (109 bp):
AAAGTTTTTCAATTTTCTTATGACTCCTACGATATGTAAGGAGCTCGAGGTTGATCTATGTTTTT
CCATGCCTAGTTATTTTTTTGGCCGTTCTATGTAAGCTGCAAAA
Found at i:139765 original size:21 final size:21
Alignment explanation
Indices: 139739--139779 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
139729 GACTATCGTA
*
139739 TTGCGATTTTTCAAATTCGCG
1 TTGCGATTTTCCAAATTCGCG
*
139760 TTGCGATTTTCCTAATTCGC
1 TTGCGATTTTCCAAATTCGC
139780 AATGCGAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.17, C:0.22, G:0.17, T:0.44
Consensus pattern (21 bp):
TTGCGATTTTCCAAATTCGCG
Found at i:139785 original size:21 final size:21
Alignment explanation
Indices: 139740--139786 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
139730 ACTATCGTAT
* **
139740 TGCGATTTTTCAAATTCGCGT
1 TGCGATTTTCCAAATTCGCAA
*
139761 TGCGATTTTCCTAATTCGCAA
1 TGCGATTTTCCAAATTCGCAA
139782 TGCGA
1 TGCGA
139787 ATACATAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.38
Consensus pattern (21 bp):
TGCGATTTTCCAAATTCGCAA
Found at i:139801 original size:20 final size:20
Alignment explanation
Indices: 139776--139868 Score: 168
Period size: 20 Copynumber: 4.7 Consensus size: 20
139766 TTTTCCTAAT
* *
139776 TCGCAATGCGAATACATAAA
1 TCGCAACGCGAATACGTAAA
139796 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
139816 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
139836 TCGCAACGCGAATACGTAAA
1 TCGCAACGCGAATACGTAAA
139856 TCGCAACGCGAAT
1 TCGCAACGCGAAT
139869 CTGACTATCG
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 71 1.00
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGAATACGTAAA
Found at i:139878 original size:20 final size:20
Alignment explanation
Indices: 139855--139901 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
139845 GAATACGTAA
*
139855 ATCGCAACGCGAATCTGACT
1 ATCGCAACGAGAATCTGACT
*
139875 ATCGCAACGAGATTCTGACT
1 ATCGCAACGAGAATCTGACT
139895 ATCGCAA
1 ATCGCAA
139902 TACTGAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGAGAATCTGACT
Found at i:140790 original size:24 final size:24
Alignment explanation
Indices: 140739--140792 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
140729 GTATTCAAAA
*
140739 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
140763 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
140787 TTTGAT
1 TTTGAT
140793 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:143269 original size:40 final size:41
Alignment explanation
Indices: 143220--143296 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 41
143210 ATCGCAACAC
*
143220 GAATATGACTATCGCAACACGGAAATGACTATCGCAATGCG
1 GAATATGACTATCGCAACACAGAAATGACTATCGCAATGCG
*
143261 GAAT-TGACTATCGCAACGCAGAAATGACTATCGCAA
1 GAATATGACTATCGCAACACAGAAATGACTATCGCAA
143297 CGAGATAATC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 30 0.88
41 4 0.12
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (41 bp):
GAATATGACTATCGCAACACAGAAATGACTATCGCAATGCG
Found at i:143298 original size:20 final size:20
Alignment explanation
Indices: 143210--143298 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
143200 CAAGGCGGAA
*
143210 ATCGCAACAC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
143230 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
* *
143250 ATCGCAATGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
*
143270 ATCGCAACGCAGAAATGACT
1 ATCGCAACGCGGAAATGACT
143290 ATCGCAACG
1 ATCGCAACG
143299 AGATAATCGC
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
20 59 0.95
21 3 0.05
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:143358 original size:34 final size:33
Alignment explanation
Indices: 143270--143365 Score: 120
Period size: 33 Copynumber: 2.8 Consensus size: 33
143260 GGAATTGACT
* ** *
143270 ATCGCAACGCAGAAATGACTATCGCAACGAGATA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
*
143304 ATCGCAATGCGAAATGAAAATCGCAATGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
143337 ATCGTAATGCGAAAATGAAAATCGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
143366 CGAATTTAGT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
33 29 0.54
34 25 0.46
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:143423 original size:34 final size:34
Alignment explanation
Indices: 143380--143475 Score: 140
Period size: 33 Copynumber: 2.9 Consensus size: 34
143370 TTTAGTTTCG
143380 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
143414 CGTTGCGATTTTCA-TTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
* ** * *
143447 CATTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTTTCGCATTGCGAT
143476 AGTCTGTTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
33 30 0.54
34 26 0.46
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.43
Consensus pattern (34 bp):
CGTTGCGATTTTCATTTTCGCATTGCGATTCTCT
Found at i:143600 original size:14 final size:14
Alignment explanation
Indices: 143581--143617 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
143571 TATCAATTAA
143581 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
143595 ACAAATCATCTTTT
1 ACAAATCAACATTT
143609 ACAAATCAA
1 ACAAATCAA
143618 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:145597 original size:20 final size:20
Alignment explanation
Indices: 145574--145659 Score: 127
Period size: 20 Copynumber: 4.3 Consensus size: 20
145564 ACTTAAAATA
145574 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
145594 GCAACGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
*
145614 GCAATGCGAAAATGACTATC
1 GCAACGCGAAAATGACTATC
* ** *
145634 GCAATGCGAATTTAACTATC
1 GCAACGCGAAAATGACTATC
145654 GCAACG
1 GCAACG
145660 AGAGAATCGC
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 61 1.00
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (20 bp):
GCAACGCGAAAATGACTATC
Found at i:145732 original size:20 final size:20
Alignment explanation
Indices: 145704--145880 Score: 148
Period size: 20 Copynumber: 9.5 Consensus size: 20
145694 GATTCTTTCG
* **
145704 TTGCAATAGTCAAATTCGCA
1 TTGCGATAGTCATTTTCGCA
145724 TTGCGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
145744 TTGTGATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
145764 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
145784 TTGCGAT--T--TTGTT-G--
1 TTGCGATAGTCATT-TTCGCA
**
145798 TTGCGATTTTCA-TTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
145817 TTGCGAT--TC----TCTCA
1 TTGCGATAGTCATTTTCGCA
* *
145831 TTGCGATAGTCATTTTAGCG
1 TTGCGATAGTCATTTTCGCA
*
145851 TTGCGATAATCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
145871 TTGCGATAGT
1 TTGCGATAGT
145881 AAACTATTCT
Statistics
Matches: 129, Mismatches: 14, Indels: 28
0.75 0.08 0.16
Matches are distributed among these distances:
14 18 0.14
16 8 0.06
17 6 0.05
18 1 0.01
19 7 0.05
20 89 0.69
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:147783 original size:19 final size:19
Alignment explanation
Indices: 147759--147859 Score: 68
Period size: 20 Copynumber: 5.5 Consensus size: 19
147749 CTGAAACTTT
147759 AAATCGCAACACGAAATGA
1 AAATCGCAACACGAAATGA
*
147778 AAATCGAAACACGAAAATGA
1 AAATCGCAACACG-AAATGA
** * *
147798 TTATCGCAACGCGAATTTGA
1 AAATCGCAACACGAA-ATGA
** *
147818 CTATCGC-A-ACGCAA-G-
1 AAATCGCAACACGAAATGA
*
147833 -AATCGCAACGCGAAATGA
1 AAATCGCAACACGAAATGA
147851 AAATCGCAA
1 AAATCGCAA
147860 TGACAGAATC
Statistics
Matches: 62, Mismatches: 13, Indels: 14
0.70 0.15 0.16
Matches are distributed among these distances:
14 5 0.08
15 1 0.02
16 5 0.08
17 1 0.02
18 3 0.05
19 23 0.37
20 24 0.39
ACGTcount: A:0.46, C:0.22, G:0.18, T:0.15
Consensus pattern (19 bp):
AAATCGCAACACGAAATGA
Found at i:147868 original size:33 final size:34
Alignment explanation
Indices: 147800--147872 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
147790 GAAAATGATT
* **
147800 ATCGCAACGCGAATTTGACTATCGCAACGCAAGA
1 ATCGCAACGCGAATATGAAAATCGCAACGCAAGA
*
147834 ATCGCAACGCGAA-ATGAAAATCGCAATG-ACAGA
1 ATCGCAACGCGAATATGAAAATCGCAACGCA-AGA
147867 ATCGCA
1 ATCGCA
147873 TTGCGATAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 1 0.03
33 20 0.59
34 13 0.38
ACGTcount: A:0.40, C:0.25, G:0.21, T:0.15
Consensus pattern (34 bp):
ATCGCAACGCGAATATGAAAATCGCAACGCAAGA
Found at i:148231 original size:22 final size:22
Alignment explanation
Indices: 148197--148258 Score: 88
Period size: 22 Copynumber: 2.8 Consensus size: 22
148187 TGACCGTGAA
*
148197 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGAGAC
*
148219 TGATATCGTCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGAGAC
**
148241 TGATTTTATCGGAGATGG
1 TGATTTCGTCGGAGATGG
148259 GGACGGATGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.24, C:0.13, G:0.35, T:0.27
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGAGAC
Found at i:148482 original size:20 final size:20
Alignment explanation
Indices: 148459--148531 Score: 119
Period size: 20 Copynumber: 3.6 Consensus size: 20
148449 CGATAGTCAG
*
148459 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* *
148479 ATTCTCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
148499 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
148519 ATTCGCATTGCGA
1 ATTCGCATTGCGA
148532 ATTAGGAAAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.40
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:148573 original size:21 final size:21
Alignment explanation
Indices: 148521--148573 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
148511 ATTTACGTAT
*
148521 TCGCATTGCGAATTAGGAAAA
1 TCGCAATGCGAATTAGGAAAA
* *
148542 TCGCAAAGCGAATTTGGAAAA
1 TCGCAATGCGAATTAGGAAAA
*
148563 TCGCTATGCGA
1 TCGCAATGCGA
148574 TAGTCAGAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGGAAAA
Found at i:149822 original size:10 final size:10
Alignment explanation
Indices: 149809--149856 Score: 60
Period size: 10 Copynumber: 4.8 Consensus size: 10
149799 AACACAAATG
149809 AACGAACGTA
1 AACGAACGTA
**
149819 AACGAACACA
1 AACGAACGTA
149829 AACGAACGTA
1 AACGAACGTA
* *
149839 AATGAACATA
1 AACGAACGTA
149849 AACGAACG
1 AACGAACG
149857 AACATAAAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.54, C:0.21, G:0.17, T:0.08
Consensus pattern (10 bp):
AACGAACGTA
Found at i:149825 original size:24 final size:23
Alignment explanation
Indices: 149793--149864 Score: 78
Period size: 24 Copynumber: 3.2 Consensus size: 23
149783 GTTTAAATGA
149793 TAAACGAACACAAATGAACGAACG
1 TAAACGAACACAAA-GAACGAACG
149817 TAAACGAACAC--A-AACGAACG
1 TAAACGAACACAAAGAACGAACG
* * *
149837 TAAATGAACATAAACGAACGAACA
1 TAAACGAACACAAA-GAACGAACG
149861 TAAA
1 TAAA
149865 ATTAATTGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
20 17 0.41
22 2 0.05
24 22 0.54
ACGTcount: A:0.57, C:0.19, G:0.14, T:0.10
Consensus pattern (23 bp):
TAAACGAACACAAAGAACGAACG
Found at i:149834 original size:20 final size:20
Alignment explanation
Indices: 149809--149856 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
149799 AACACAAATG
149809 AACGAACGTAAACGAACACA
1 AACGAACGTAAACGAACACA
* *
149829 AACGAACGTAAATGAACATA
1 AACGAACGTAAACGAACACA
149849 AACGAACG
1 AACGAACG
149857 AACATAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.54, C:0.21, G:0.17, T:0.08
Consensus pattern (20 bp):
AACGAACGTAAACGAACACA
Found at i:150063 original size:14 final size:14
Alignment explanation
Indices: 150042--150120 Score: 67
Period size: 14 Copynumber: 5.9 Consensus size: 14
150032 CGGGTCTAGA
150042 GAACATAAATGAAC
1 GAACATAAATGAAC
* **
150056 GGACATAAACAAAC
1 GAACATAAATGAAC
* *
150070 GAACATAGACGAAC
1 GAACATAAATGAAC
* *
150084 TAATATAAATG-A-
1 GAACATAAATGAAC
150096 G--CATAAATGAAC
1 GAACATAAATGAAC
150108 GAACATAAATGAA
1 GAACATAAATGAA
150121 TAGATTATCA
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
10 7 0.14
11 1 0.02
12 1 0.02
13 1 0.02
14 39 0.80
ACGTcount: A:0.56, C:0.14, G:0.15, T:0.15
Consensus pattern (14 bp):
GAACATAAATGAAC
Found at i:151309 original size:16 final size:16
Alignment explanation
Indices: 151276--151305 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
151266 AATTGAAAGA
151276 ATTATAATATATATAT
1 ATTATAATATATATAT
151292 ATTATAATA-ATATA
1 ATTATAATATATATA
151306 ATATGTATGT
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 (16 bp):
ATTATAATATATATAT
Found at i:151444 original size:2 final size:2
Alignment explanation
Indices: 151439--151562 Score: 57
Period size: 2 Copynumber: 64.0 Consensus size: 2
151429 AAAAAAAGTA
* * *
151439 AT AT AT AT TT AT AT -T A- AT AT AT AT AT AT AT GT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
151479 AT A- AA AT A- AT A- AA AT AT AT AC AT -T AGT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
* * * * *
151518 A- AGT GT AT AT AT GT GAT AT AT GT AC AC A- AGT AT AT AT AT AT
1 AT A-T AT AT AT AT AT -AT AT AT AT AT AT AT A-T AT AT AT AT AT
151559 AT AT
1 AT AT
151563 TAAAAAGACA
Statistics
Matches: 93, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
1 8 0.09
2 81 0.87
3 4 0.04
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.44
Consensus pattern (2 bp):
AT
Found at i:151458 original size:16 final size:16
Alignment explanation
Indices: 151437--151517 Score: 74
Period size: 16 Copynumber: 5.0 Consensus size: 16
151427 GGAAAAAAAG
*
151437 TAATATATATTTATAT
1 TAATATATATATATAT
151453 TAATATATATATATAT
1 TAATATATATATATAT
* * *
151469 GT-ATGTATATATAAAA
1 -TAATATATATATATAT
* *
151485 TAATAAAATATATACAT
1 TAAT-ATATATATATAT
*
151502 TAGTATATATATATAT
1 TAATATATATATATAT
151518 AAGTGTATAT
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
15 1 0.02
16 38 0.75
17 12 0.24
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (16 bp):
TAATATATATATATAT
Found at i:153217 original size:22 final size:22
Alignment explanation
Indices: 153189--153233 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 22
153179 GAAAGTCAAC
153189 GGTCAACGGTTC-GGTCGGGTCG
1 GGTCAACGG-TCGGGTCGGGTCG
153211 GGTCAACGGTCGGGTCGGGTCG
1 GGTCAACGGTCGGGTCGGGTCG
153233 G
1 G
153234 TCGGTCGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 2 0.09
22 20 0.91
ACGTcount: A:0.09, C:0.22, G:0.49, T:0.20
Consensus pattern (22 bp):
GGTCAACGGTCGGGTCGGGTCG
Found at i:157712 original size:20 final size:20
Alignment explanation
Indices: 157684--157727 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
157674 ATACGACGAG
157684 TAACCGCCTCGACTGCCAAC
1 TAACCGCCTCGACTGCCAAC
*
157704 TAACTGCCTCGACTGCCAAC
1 TAACCGCCTCGACTGCCAAC
157724 TAAC
1 TAAC
157728 GGTGAGGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.27, C:0.41, G:0.14, T:0.18
Consensus pattern (20 bp):
TAACCGCCTCGACTGCCAAC
Found at i:160392 original size:17 final size:17
Alignment explanation
Indices: 160372--160427 Score: 94
Period size: 17 Copynumber: 3.3 Consensus size: 17
160362 GAAAGTCAAC
*
160372 GGTCAACGGTCCGGTCG
1 GGTCAACGGTCAGGTCG
160389 GGTCAACGGTCAGGTCG
1 GGTCAACGGTCAGGTCG
*
160406 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCAGGTCG
160423 GGTCA
1 GGTCA
160428 GTCGGTTGGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 37 1.00
ACGTcount: A:0.14, C:0.25, G:0.43, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCAGGTCG
Found at i:160462 original size:19 final size:19
Alignment explanation
Indices: 160438--160563 Score: 175
Period size: 19 Copynumber: 6.5 Consensus size: 19
160428 GTCGGTTGGG
160438 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
160457 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
160476 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
160495 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
160514 TCAAACCGGTCAAAACCGG-
1 TCAGACCGGTC-AAACCGGT
* *
160533 TCTGAATCGGTCAAAACCGG-
1 TCAG-ACCGGTC-AAACCGGT
160553 TCAGAACCGGT
1 TCAG-ACCGGT
160564 TTCCAGCAGC
Statistics
Matches: 99, Mismatches: 6, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
19 69 0.70
20 30 0.30
ACGTcount: A:0.29, C:0.30, G:0.25, T:0.16
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:160534 original size:10 final size:9
Alignment explanation
Indices: 160436--160563 Score: 130
Period size: 10 Copynumber: 13.3 Consensus size: 9
160426 CAGTCGGTTG
*
160436 GGTCAGACC
1 GGTCAAACC
160445 GGTCAAACC
1 GGTCAAACC
*
160454 GGTTCAGACC
1 GG-TCAAACC
160464 GGTCAAACC
1 GGTCAAACC
*
160473 GGTTCAGACC
1 GG-TCAAACC
160483 GGTCAAACC
1 GGTCAAACC
*
160492 GGTTCAGACC
1 GG-TCAAACC
160502 GGTCAAACC
1 GGTCAAACC
160511 GGTTCAAACC
1 GG-TCAAACC
160521 GGTCAAAACC
1 GGTC-AAACC
* *
160531 GGTCTGAATC
1 GGTC-AAACC
160541 GGTCAAAACC
1 GGTC-AAACC
160551 GGTCAGAACC
1 GGTCA-AACC
160561 GGT
1 GGT
160564 TTCCAGCAGC
Statistics
Matches: 100, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
9 37 0.37
10 63 0.63
ACGTcount: A:0.28, C:0.30, G:0.27, T:0.16
Consensus pattern (9 bp):
GGTCAAACC
Found at i:162730 original size:21 final size:21
Alignment explanation
Indices: 162704--162822 Score: 136
Period size: 21 Copynumber: 5.7 Consensus size: 21
162694 ACGATTTTGA
162704 ACTATCGCAATGCGAACTTGG
1 ACTATCGCAATGCGAACTTGG
*
162725 ACTATCGCAATGCGAA-TATGT
1 ACTATCGCAATGCGAACT-TGG
* * *
162746 A-AATCGCAATGCGATA-GTCG
1 ACTATCGCAATGCGA-ACTTGG
162766 ACTATCGCAATGCGAACTTGG
1 ACTATCGCAATGCGAACTTGG
* *
162787 ACTATCGGAATGCGAACTTCG
1 ACTATCGCAATGCGAACTTGG
*
162808 ACTATCGCATTGCGA
1 ACTATCGCAATGCGA
162823 TTTACATATT
Statistics
Matches: 82, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
20 16 0.20
21 66 0.80
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.24
Consensus pattern (21 bp):
ACTATCGCAATGCGAACTTGG
Found at i:162752 original size:41 final size:42
Alignment explanation
Indices: 162707--162822 Score: 139
Period size: 41 Copynumber: 2.8 Consensus size: 42
162697 ATTTTGAACT
* *
162707 ATCGCAATGCGAACTTGGACTATCGCAATGCGAA-TATGTA-A
1 ATCGCAATGCGAACTTCGACTATCGCAATGCGAACT-TGGACA
* *
162748 ATCGCAATGCGATA-GTCGACTATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGA-ACTTCGACTATCGCAATGCGAACTTGGACA
* *
162790 ATCGGAATGCGAACTTCGACTATCGCATTGCGA
1 ATCGCAATGCGAACTTCGACTATCGCAATGCGA
162823 TTTACATATT
Statistics
Matches: 64, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
41 34 0.53
42 30 0.47
ACGTcount: A:0.30, C:0.22, G:0.23, T:0.24
Consensus pattern (42 bp):
ATCGCAATGCGAACTTCGACTATCGCAATGCGAACTTGGACA
Found at i:163091 original size:21 final size:21
Alignment explanation
Indices: 163065--163132 Score: 91
Period size: 21 Copynumber: 3.2 Consensus size: 21
163055 CACCAGTCGT
*
163065 TGCGATTTTGGACTATAGCAA
1 TGCGATTTTGGACTATCGCAA
163086 TGCGATTTTGGACTATCGCAA
1 TGCGATTTTGGACTATCGCAA
* ** *
163107 TGTGAACTTCGACTATCGCAA
1 TGCGATTTTGGACTATCGCAA
163128 TGCGA
1 TGCGA
163133 ATATGTAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (21 bp):
TGCGATTTTGGACTATCGCAA
Found at i:163177 original size:21 final size:21
Alignment explanation
Indices: 163151--163277 Score: 111
Period size: 21 Copynumber: 6.1 Consensus size: 21
163141 ATCACAATGA
163151 GATAGTCAAAGTTCGCATTGC
1 GATAGTCAAAGTTCGCATTGC
* *
163172 GATAGTCCAAGTTTGCATTGC
1 GATAGTCAAAGTTCGCATTGC
* * *
163193 TAT-TTACATA-TTCGCATTGC
1 GATAGT-CAAAGTTCGCATTGC
163213 GATAGTTC-AAGTTCGCATTGC
1 GATAG-TCAAAGTTCGCATTGC
* *
163234 GATAGTC-GACTATCGCATTGC
1 GATAGTCAAAGT-TCGCATTGC
*
163255 GATAGTCCAAA-ATCGCATTGC
1 GATAGT-CAAAGTTCGCATTGC
163276 GA
1 GA
163278 ATCTGGAAAC
Statistics
Matches: 85, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
20 17 0.20
21 65 0.76
22 2 0.02
23 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (21 bp):
GATAGTCAAAGTTCGCATTGC
Found at i:163259 original size:42 final size:43
Alignment explanation
Indices: 163162--163277 Score: 141
Period size: 41 Copynumber: 2.8 Consensus size: 43
163152 ATAGTCAAAG
* **
163162 TTCGCATTGCGATAGTCCAAGTTTGCATTGC--TATTTACATA
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATATCGACATA
*
163203 TTCGCATTGCGATAGTTCAAGTTCGCATTGCGATAGTCGAC-TA
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATA-TCGACATA
**
163246 -TCGCATTGCGATAGTCCAAAATCGCATTGCGA
1 TTCGCATTGCGATAGTCCAAGTTCGCATTGCGA
163278 ATCTGGAAAC
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
41 29 0.45
42 29 0.45
43 4 0.06
44 3 0.05
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (43 bp):
TTCGCATTGCGATAGTCCAAGTTCGCATTGCGATATCGACATA
Found at i:165135 original size:46 final size:45
Alignment explanation
Indices: 165085--165232 Score: 228
Period size: 46 Copynumber: 3.3 Consensus size: 45
165075 GTAAATTGAT
*
165085 ATTTATCCAAATTATTTTGGGTTTACAAAAAAACTCATGATTAGTA
1 ATTTA-CCAAATTATTTTGGGTTTACAAAAAAACACATGATTAGTA
*
165131 ATTTACCTAAATTATTTTGGGTTTACAGAAAAACACATGATTAGTA
1 ATTTACC-AAATTATTTTGGGTTTACAAAAAAACACATGATTAGTA
*
165177 ATTTTCCCAAATT-TTTTGGGTTTAC-AAAAAACACATGATTAGTA
1 A-TTTACCAAATTATTTTGGGTTTACAAAAAAACACATGATTAGTA
165221 ATTTACCAAATT
1 ATTTACCAAATT
165233 CTAACAACAT
Statistics
Matches: 95, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
43 10 0.11
44 19 0.20
45 14 0.15
46 47 0.49
47 5 0.05
ACGTcount: A:0.39, C:0.12, G:0.11, T:0.39
Consensus pattern (45 bp):
ATTTACCAAATTATTTTGGGTTTACAAAAAAACACATGATTAGTA
Found at i:165771 original size:19 final size:20
Alignment explanation
Indices: 165747--165793 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
165737 AAAATTTTCC
165747 AAATTTCCCTCT-ATTCTCA
1 AAATTTCCCTCTAATTCTCA
*
165766 AAATTTTCCTCTAAATTCTCA
1 AAATTTCCCTCT-AATTCTCA
*
165787 AATTTTC
1 AAATTTC
165794 AAGTTCCCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 11 0.48
21 12 0.52
ACGTcount: A:0.30, C:0.26, G:0.00, T:0.45
Consensus pattern (20 bp):
AAATTTCCCTCTAATTCTCA
Found at i:165785 original size:21 final size:20
Alignment explanation
Indices: 165746--165793 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
165736 CAAAATTTTC
*
165746 CAAATTTCCCTCT--ATTCT
1 CAAATTTTCCTCTAAATTCT
165764 CAAAATTTTCCTCTAAATTCT
1 C-AAATTTTCCTCTAAATTCT
165785 CAAATTTTC
1 CAAATTTTC
165794 AAGTTCCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 11 0.42
20 8 0.31
21 6 0.23
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (20 bp):
CAAATTTTCCTCTAAATTCT
Found at i:167606 original size:22 final size:22
Alignment explanation
Indices: 167581--167622 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
167571 TATAAAAAAT
167581 TATTTTTATTAAATATTTTTGA
1 TATTTTTATTAAATATTTTTGA
* *
167603 TATTTTTATTTAATTTTTTT
1 TATTTTTATTAAATATTTTT
167623 AAATAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.71
Consensus pattern (22 bp):
TATTTTTATTAAATATTTTTGA
Found at i:170739 original size:54 final size:54
Alignment explanation
Indices: 170636--170758 Score: 160
Period size: 54 Copynumber: 2.3 Consensus size: 54
170626 TCTAGTGGCT
* *
170636 TTGGCAAGCTCGATATCTATCTTGAGATTCCCTTTCGGACACTTGCACCAATATC
1 TTGGCAAGCCCGATATCTATCTT-AGACTCCCTTTCGGACACTTGCACCAATATC
* *
170691 TTGGCAAGCCCGATACTCTATCTT-GACT-CCTTGTTGGACACTTGCACCAATGTC
1 TTGGCAAGCCCGATA-TCTATCTTAGACTCCCTT-TCGGACACTTGCACCAATATC
*
170745 TTAGCAAGCCCGAT
1 TTGGCAAGCCCGAT
170759 TTTAACCTCC
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
53 4 0.07
54 35 0.57
55 14 0.23
56 8 0.13
ACGTcount: A:0.23, C:0.28, G:0.18, T:0.31
Consensus pattern (54 bp):
TTGGCAAGCCCGATATCTATCTTAGACTCCCTTTCGGACACTTGCACCAATATC
Found at i:173580 original size:54 final size:56
Alignment explanation
Indices: 173447--173587 Score: 205
Period size: 56 Copynumber: 2.6 Consensus size: 56
173437 CGCACAGAAG
* *
173447 ATCAGACTTGCCAAGACATTGGTGCAAGTGTCTGACAGGGAGGTTAAAGACAGAGT
1 ATCAGACTTGCCAAGACATTGGTGCAAGTGTATGACAAGGAGGTTAAAGACAGAGT
* * *
173503 ATCAGACTTGCCAAGACATTGGTGCAAGTGTATGACAAGGA-G-TCATGATAGAGT
1 ATCAGACTTGCCAAGACATTGGTGCAAGTGTATGACAAGGAGGTTAAAGACAGAGT
* *
173557 ATCGGGCTTGCCAAGACATTGGTGCAAGTGT
1 ATCAGACTTGCCAAGACATTGGTGCAAGTGT
173588 CCGAAAAGGA
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 38 0.49
55 1 0.01
56 39 0.50
ACGTcount: A:0.30, C:0.16, G:0.30, T:0.23
Consensus pattern (56 bp):
ATCAGACTTGCCAAGACATTGGTGCAAGTGTATGACAAGGAGGTTAAAGACAGAGT
Found at i:173597 original size:54 final size:55
Alignment explanation
Indices: 173453--173625 Score: 206
Period size: 54 Copynumber: 3.1 Consensus size: 55
173443 GAAGATCAGA
* * * * *
173453 CTTGCCAAGACATTGGTGCAAGTGTCTGACAGGGAGGTTAAAGACAGAGTATCAGA
1 CTTGCCAAGACATTGGTGCAAGTGTCTGACAAGGAGG-TCAAGATAGAGTATCGGG
* *
173509 CTTGCCAAGACATTGGTGCAAGTGTATGACAAGGA-GTCATGATAGAGTATCGGG
1 CTTGCCAAGACATTGGTGCAAGTGTCTGACAAGGAGGTCAAGATAGAGTATCGGG
* * ** *
173563 CTTGCCAAGACATTGGTGCAAGTGTCCGAAAAGGAATCTCAAGATA-AATATCGGG
1 CTTGCCAAGACATTGGTGCAAGTGTCTGACAAGG-AGGTCAAGATAGAGTATCGGG
173618 CTTGCCAA
1 CTTGCCAA
173626 AGCCACCAGA
Statistics
Matches: 102, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
54 44 0.43
55 18 0.18
56 40 0.39
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.23
Consensus pattern (55 bp):
CTTGCCAAGACATTGGTGCAAGTGTCTGACAAGGAGGTCAAGATAGAGTATCGGG
Found at i:175049 original size:2 final size:2
Alignment explanation
Indices: 175044--175100 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
175034 CACACATTAC
175044 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
175086 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
175101 CACCAATATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:177192 original size:134 final size:133
Alignment explanation
Indices: 176940--178413 Score: 1880
Period size: 134 Copynumber: 11.1 Consensus size: 133
176930 CAACTCCATA
* *
176940 TGTGAT-GAATCGAGC-AAGAAGTTGACACTGATCCAACTCCTTCTGCGATGGATTTGAACGAAA
1 TGTGATAGAATCGAGCTAA-AAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAA
* * * *
177003 ATAAAAATGTCGATCCACTTCCTTTTGTGATGGAAACTGAACGATATGTTGATGCTGATCTACCT
65 ATAAAAATGTCGATCCACCTCCTTCTGTGATGGAATC-GAACGATATGTCGATGCTGATCTACCT
177068 CCTTC
129 CCTTC
* ** *
177073 TGTGATAGAATCGAGCTAAAAGTTGACACTGATCCAACTCCTTCTGTAATTGATTTGAGCGAAAA
1 TGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
* * * *
177138 TAAAAATATCGATCCACCTCCTTCTGTGATGGAAATCGAACGACATGCCAATGCTGATCTACCTC
66 TAAAAATGTCGATCCACCTCCTTCTGTGATGG-AATCGAACGATATGTCGATGCTGATCTACCTC
177203 CTTC
130 CTTC
* *
177207 TGTGATAGAATCGAGCTAAAAGGTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCAAAAA
1 TGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
* * *
177272 TAAAAATGTCGATCAACCTCCTTCTGTGATGGAAATCGAACGATATGTCAATGCTGATCTGCCTC
66 TAAAAATGTCGATCCACCTCCTTCTGTGATGG-AATCGAACGATATGTCGATGCTGATCTACCTC
*
177337 ATTC
130 CTTC
* * *
177341 TGTGATAGAATCGAGTTAAAAGTTGACGCTGATCTAACTCCTTCTGTGATGGATTTGAGCGAAAA
1 TGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
* * * * *
177406 TAAAAGTATCGATCCACTTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCT
66 TAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGATATGTCGATGCTGATCTACCTCC
177471 TTC
131 TTC
* * * *
177474 TGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGTGATGAATTTGAGCGAAGA
1 TGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
* *
177539 TAAAAATTTCGATCCACCTCATTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTACCTC
66 TAAAAATGTCGATCCACCTCCTTCTGTGATGG-AATCGAACGATATGTCGATGCTGATCTACCTC
*
177604 TTTC
130 CTTC
* * **
177608 TGTGATAGAATCAAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGTGATGGATTTGAGAAAAAA
1 TGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
* * *
177673 TAAAAATGTCGATCCACCTCCTTCTGTAATGGAAATCGAACGATATGTCAATGCTGATCTACCTT
66 TAAAAATGTCGATCCACCTCCTTCTGTGATGG-AATCGAACGATATGTCGATGCTGATCTACCTC
177738 CTTC
130 CTTC
* * * *
177742 TGTGATAGAATCGAG-TAAAAAGTTGATGCTGATCCAACTTCTTCTGCGATGGATTTGAACGAAG
1 TGTGATAGAATCGAGCT-AAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAA
* *
177806 ATAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCAAATGATATGTCGATGCTGATCTACCTC
65 ATAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGATATGTCGATGCTGATCTACCTC
177871 CTTC
130 CTTC
* * * * *
177875 TGTGATATAA-CTAG-TAAAAACTTGAAGCTGATCCAACTCCTTCTGCGATGGATTTGAGTG---
1 TGTGATAGAATCGAGCT-AAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAA
* * * * * *
177935 A-ACAAATGTTGATCTACCTCCTTCTGTGATGGAATCGAATGATATGTC-AGTGATGATTTACCT
65 ATAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGATATGTCGA-TGCTGATCTACCT
177998 CCTTC
129 CCTTC
* * *
178003 TGTGATAGAATCGAGCTAAAAGTTGACACTGATCCAACTCCTCCTGCGATGGATTTGAGTGAAAA
1 TGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
* * * * * *
178068 TAAAAAAGTCGATCCATCTCCTTCTGTGATAGAATCAAACGATATGTCGATGTTGATCTACCTCA
66 TAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGATATGTCGATGCTGATCTACCTCC
178133 TTC
131 TTC
* * *
178136 TGTGATA-AATTCAAGCTAAAAGTTGACACTGATCCAACTCCTTCTGCGATGGATTTGAGTGAAA
1 TGTGATAGAA-TCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAA
** * * * * * * *
178200 ATAAAAATGTCGATCCATTTCCTTTTGTGATGGAATTGAGCGAAATGTTGGTGCTGATCTACCTT
65 ATAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGATATGTCGATGCTGATCTACCTC
178265 CTTC
130 CTTC
* ** * * * *
178269 TGTGATAGAAACGAGAAAAAAGTTGATGCAGATCTAACTCCTTCCGCGATGGATTTGAGCG---A
1 TGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
* * * * * * * * * *
178331 -ACAAATGTCGATCCATCTCCTTCTGTGATGGAATCAAACAAAATATTGGTGCTGATATACCTCA
66 TAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGATATGTCGATGCTGATCTACCTCC
178395 TTC
131 TTC
178398 TGTGATAGAATCGAGC
1 TGTGATAGAATCGAGC
178414 AAACAATTGA
Statistics
Matches: 1186, Mismatches: 140, Indels: 34
0.87 0.10 0.03
Matches are distributed among these distances:
127 1 0.00
128 68 0.06
129 114 0.10
130 2 0.00
132 47 0.04
133 385 0.32
134 564 0.48
135 5 0.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (133 bp):
TGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAA
TAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGATATGTCGATGCTGATCTACCTCC
TTC
Found at i:177202 original size:45 final size:44
Alignment explanation
Indices: 176967--178016 Score: 315
Period size: 44 Copynumber: 23.7 Consensus size: 44
176957 GAAGTTGACA
* * * * * *
176967 CTGATCCAACTCCTTCTGCGATGGATTTGAACGAAAATAAAAATG
1 CTGATCCACCTCCTTCTGTGATGGAATCGAACG-AAATGACAATG
* * * * ***
177012 -TCGATCCACTTCCTTTTGTGATGGAAACTGAACGATATGTTGATG
1 CT-GATCCACCTCCTTCTGTGATGGAATC-GAACGAAATGACAATG
* * * *
177057 CTGATCTACCTCCTTCTGTGATAGAATCGAGCTAAAAGTTGAC-A--
1 CTGATCCACCTCCTTCTGTGATGGAATCGAAC-GAAA--TGACAATG
* * * * * * * *
177101 CTGATCCAACTCCTTCTGTAATTGATTTGAGCGAAAATAAAAAT-
1 CTGATCCACCTCCTTCTGTGATGGAATCGAACG-AAATGACAATG
* * *
177145 ATCGATCCACCTCCTTCTGTGATGGAAATCGAACGACATGCCAATG
1 CT-GATCCACCTCCTTCTGTGATGG-AATCGAACGAAATGACAATG
* * * * * *** *
177191 CTGATCTACCTCCTTCTGTGATAGAATCGAGCTAAAAGGTGACG
1 CTGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGACAATG
* * * * * * * *
177235 CTGATCCAACTCCTTCTGCGATGGATTTGAGCAAAAATAAAAATG
1 CTGATCCACCTCCTTCTGTGATGGAATCGAAC-GAAATGACAATG
* * *
177280 -TCGATCAACCTCCTTCTGTGATGGAAATCGAACGATATGTCAATG
1 CT-GATCCACCTCCTTCTGTGATGG-AATCGAACGAAATGACAATG
** * * *** * *** *
177325 CTGATCTGCCTCATTCTGTGATAGAATCGAGTTAAAAGTTGACG
1 CTGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGACAATG
* * * * * *
177369 CTGATCTAACTCCTTCTGTGATGGATTTGAGCGAAAAT-A-AAAG
1 CTGATCCACCTCCTTCTGTGATGGAATCGAACG-AAATGACAATG
* * * * *
177412 TATCGATCCACTTCCTTCTGTGATGGAATCGAACGAGATGTCGATG
1 -CT-GATCCACCTCCTTCTGTGATGGAATCGAACGAAATGACAATG
* * * * * * *** *
177458 CTGATCTACCTCTTTCTGTGATAGAATCGAGCAAAAAGTTGACG
1 CTGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGACAATG
* * * * *
177502 CTGATCCAACTCCTTCTGTGAT-GAATTTGAGCGAAGATAAAAAT-
1 CTGATCCACCTCCTTCTGTGATGGAA-TCGAACGAA-ATGACAATG
* * * * *
177546 TTCGATCCACCTCATTCTGTGATGGAAATCGAACGATATGTCGATG
1 CT-GATCCACCTCCTTCTGTGATGG-AATCGAACGAAATGACAATG
* * * * * *** *
177592 CTGATCTACCTCTTTCTGTGATAGAATC-AAGCTAAAAGTTGACG
1 CTGATCCACCTCCTTCTGTGATGGAATCGAA-CGAAATGACAATG
* * * ** * *
177636 CTGATCCAACTCCTTCTGTGATGGATTTGAGAAAAAATAAAAATG
1 CTGATCCACCTCCTTCTGTGATGGAATCGA-ACGAAATGACAATG
* * *
177681 -TCGATCCACCTCCTTCTGTAATGGAAATCGAACGATATGTCAATG
1 CT-GATCCACCTCCTTCTGTGATGG-AATCGAACGAAATGACAATG
* * * *** * ***
177726 CTGATCTACCTTCTTCTGTGATAGAATCGAGTAAAAAGTTGATG
1 CTGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGACAATG
* * * * * * *
177770 CTGATCCAACTTCTTCTGCGATGGATTTGAACGAAGATAAAAATG
1 CTGATCCACCTCCTTCTGTGATGGAATCGAACGAA-ATGACAATG
* * * * *
177815 -TCGATCCACCTCCTTCTGTGATGGAATCAAATGATATGTCGATG
1 CT-GATCCACCTCCTTCTGTGATGGAATCGAACGAAATGACAATG
* ** *
177859 CTGATCTACCTCCTTCTGTGATATAACTAGTAA--AAACTTG--AA-G
1 CTGATCCACCTCCTTCTGTGATGGAA-TCG-AACGAAA--TGACAATG
* * * * ** *
177902 CTGATCCAACTCCTTCTGCGATGGATTTGAGTG-AA-CA-AATG
1 CTGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGACAATG
* * * * * *
177943 TTGATCTACCTCCTTCTGTGATGGAATCGAATGATATGTCAGTG
1 CTGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGACAATG
* ** *
177987 ATGATTTACCTCCTTCTGTGATAGAATCGA
1 CTGATCCACCTCCTTCTGTGATGGAATCGA
178017 GCTAAAAGTT
Statistics
Matches: 714, Mismatches: 244, Indels: 95
0.68 0.23 0.09
Matches are distributed among these distances:
40 2 0.00
41 28 0.04
42 7 0.01
43 29 0.04
44 307 0.43
45 297 0.42
46 40 0.06
47 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (44 bp):
CTGATCCACCTCCTTCTGTGATGGAATCGAACGAAATGACAATG
Found at i:177248 original size:89 final size:88
Alignment explanation
Indices: 177148--177842 Score: 278
Period size: 89 Copynumber: 7.8 Consensus size: 88
177138 TAAAAATATC
* * *
177148 GATCCACCTCCTTCTGTGATGGAAATCGAACGACATGCCAATGCTGATCTACCTCCTTCTGTGAT
1 GATCCAACTCCTTCTGTGATGG-AATCGAACGAAATGTCAATGCTGATCTACCTCCTTCTGTGAT
*
177213 AGAATCGAGCTAAAAGGT-GACGCT
65 AGAATCGAGC-AAAAGGTAAACGCT
* * * * * *** *
177237 GATCCAACTCCTTCTGCGATGGATTTGAGCAAAAATAAAAATG-TCGATCAACCTCCTTCTGTGA
1 GATCCAACTCCTTCTGTGATGGAATCGAAC-GAAATGTCAATGCT-GATCTACCTCCTTCTGTGA
* * * * * * *
177301 TGGAAATCGAACGATATGTCAATGCT
64 TAG-AATCGAGCAAAAGGTAAACGCT
*** * * *** * ** * * *
177327 GATCTGCCTCATTCTGTGATAGAATCGAGTTAAAAGTTGACGCTGATCTAACTCCTTCTGTGATG
1 GATCCAACTCCTTCTGTGATGGAATCGAACGAAATGTCAATGCTGATCTACCTCCTTCTGTGATA
* * * *
177392 GATTTGAGCGAAAA--TAAAAGTAT
66 GAATCGAGC-AAAAGGTAAACG-CT
* * *
177415 CGATCC-ACTTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCTTTCTGTGA
1 -GATCCAAC-TCCTTCTGTGATGGAATCGAACGAAATGTCAATGCTGATCTACCTCCTTCTGTGA
* **
177479 TAGAATCGAGCAAAAAGTTGACGCT
64 TAGAATCGAGCAAAAGGTAAACGCT
* * *** * * *
177504 GATCCAACTCCTTCTGTGAT-GAATTTGAGCGAAGATAAAAAT-TTCGATCCACCTCATTCTGTG
1 GATCCAACTCCTTCTGTGATGGAA-TCGAACGAA-ATGTCAATGCT-GATCTACCTCCTTCTGTG
* * * * * ** *
177567 ATGGAAATCGAACGATATGTCGATGCT
63 ATAG-AATCGAGCAAAAGGTAAACGCT
* * * * * * ** * * *
177594 GATCTACCTCTTTCTGTGATAGAATC-AAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGTGAT
1 GATCCAACTCCTTCTGTGATGGAATCGAA-CGAAATGTCAATGCTGATCTACCTCCTTCTGTGAT
* * * ** *
177658 GGATTTGAG-AAAAAATAAAAATG-T
65 AGAATCGAGCAAAAGGT--AAACGCT
* * * *
177682 CGATCCACCTCCTTCTGTAATGGAAATCGAACGATATGTCAATGCTGATCTACCTTCTTCTGTGA
1 -GATCCAACTCCTTCTGTGATGG-AATCGAACGAAATGTCAATGCTGATCTACCTCCTTCTGTGA
* * ** *
177747 TAGAATCGAGTAAAAAGTTGATGCT
64 TAGAATCGAGCAAAAGGTAAACGCT
* * * * *** *
177772 GATCCAACTTCTTCTGCGATGGATTTGAACGAAGATAAAAATG-TCGATCCACCTCCTTCTGTGA
1 GATCCAACTCCTTCTGTGATGGAATCGAACGAA-ATGTCAATGCT-GATCTACCTCCTTCTGTGA
*
177836 TGGAATC
64 TAGAATC
177843 AAATGATATG
Statistics
Matches: 441, Mismatches: 137, Indels: 56
0.70 0.22 0.09
Matches are distributed among these distances:
87 10 0.02
88 55 0.12
89 254 0.58
90 111 0.25
91 11 0.02
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (88 bp):
GATCCAACTCCTTCTGTGATGGAATCGAACGAAATGTCAATGCTGATCTACCTCCTTCTGTGATA
GAATCGAGCAAAAGGTAAACGCT
Found at i:177694 original size:401 final size:398
Alignment explanation
Indices: 176940--178413 Score: 1937
Period size: 401 Copynumber: 3.7 Consensus size: 398
176930 CAACTCCATA
*
176940 TGTGAT-GAATCGAG-CAAGAAGTTGACACTGATCCAACTCCTTCTGCGATGGATTTGAACGAAA
1 TGTGATAGAATCGAGTTAA-AAGTTGACACTGATCCAACTCCTTCTGCGATGGATTTGAACGAAA
* * *
177003 ATAAAAATGTCGATCCACTTCCTTTTGTGATGGAAACTGAACGATATGTTGATGCTGATCTACCT
65 ATAAAAATGTCGATCCACTTCCTTCTGTGATGGAATC-GAACGATATGTCGATGCTGATCTACCT
* * ** *
177068 CCTTCTGTGATAGAATCGAGCTAAAAGTTGACACTGATCCAACTCCTTCTGTAATTGATTTGAGC
129 CCTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGC
* * * * *
177133 GAAAATAAAAATATCGATCCACCTCCTTCTGTGATGGAAATCGAACGACATGCCAATGCTGATCT
194 G-AGA-AAAAATTTCGATCCACCTCCTTCTGTGATGG-AATCGAACGATATGTCGATGCTGATCT
*
177198 ACCTCCTTCTGTGATAGAATCGAGCTAAAAGGTGACGCTGATCCAACTCCTTCTGCGATGGATTT
256 ACCTCCTTCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTT
* *
177263 GAGCAAAAATAAAAATGTCGATCAACCTCCTTCTGTGATGGAAATCGAACGATATGTCAATGCTG
321 GAGAAAAAATAAAAATGTCGATCCACCTCCTTCTGTGATGGAAATCGAACGATATGTCAATGCTG
*
177328 ATCTGCCTCATTC
386 ATCTACCTCATTC
* * * *
177341 TGTGATAGAATCGAGTTAAAAGTTGACGCTGATCTAACTCCTTCTGTGATGGATTTGAGCGAAAA
1 TGTGATAGAATCGAGTTAAAAGTTGACACTGATCCAACTCCTTCTGCGATGGATTTGAACGAAAA
* * * *
177406 TAAAAGTATCGATCCACTTCCTTCTGTGATGGAATCGAACGAGATGTCGATGCTGATCTACCTCT
66 TAAAAATGTCGATCCACTTCCTTCTGTGATGGAATCGAACGATATGTCGATGCTGATCTACCTCC
* *
177471 TTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGTGATGAATTTGAGCGA
131 TTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCG-
*
177536 AGATAAAAATTTCGATCCACCTCATTCTGTGATGGAAATCGAACGATATGTCGATGCTGATCTAC
195 AGA-AAAAATTTCGATCCACCTCCTTCTGTGATGG-AATCGAACGATATGTCGATGCTGATCTAC
* * *
177601 CTCTTTCTGTGATAGAATCAAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGTGATGGATTTGA
258 CTCCTTCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
*
177666 GAAAAAATAAAAATGTCGATCCACCTCCTTCTGTAATGGAAATCGAACGATATGTCAATGCTGAT
323 GAAAAAATAAAAATGTCGATCCACCTCCTTCTGTGATGGAAATCGAACGATATGTCAATGCTGAT
177731 CTACCTTC-TTC
388 CTACC-TCATTC
* ** * *
177742 TGTGATAGAATCGAGTAAAAAGTTGATGCTGATCCAACTTCTTCTGCGATGGATTTGAACGAAGA
1 TGTGATAGAATCGAGTTAAAAGTTGACACTGATCCAACTCCTTCTGCGATGGATTTGAACGAAAA
* * *
177807 TAAAAATGTCGATCCACCTCCTTCTGTGATGGAATCAAATGATATGTCGATGCTGATCTACCTCC
66 TAAAAATGTCGATCCACTTCCTTCTGTGATGGAATCGAACGATATGTCGATGCTGATCTACCTCC
* * * * * *
177872 TTCTGTGATATAA-CTAGTAAAAACTTGAAGCTGATCCAACTCCTTCTGCGATGGATTTGA--GT
131 TTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGA
* * * * *
177934 GAACAAATGTT-GATCTACCTCCTTCTGTGATGGAATCGAATGATATGTC-AGTGATGATTTACC
196 GAAAAAAT-TTCGATCCACCTCCTTCTGTGATGGAATCGAACGATATGTCGA-TGCTGATCTACC
* *
177997 TCCTTCTGTGATAGAATCGAGCTAAAAGTTGACACTGATCCAACTCCTCCTGCGATGGATTTGAG
259 TCCTTCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAG
** * * * * * *
178062 TGAAAATAAAAAAGTCGATCCATCTCCTTCTGTGATAG-AATCAAACGATATGTCGATGTTGATC
324 AAAAAATAAAAATGTCGATCCACCTCCTTCTGTGATGGAAATCGAACGATATGTCAATGCTGATC
178126 TACCTCATTC
389 TACCTCATTC
* * **
178136 TGTGATA-AATTCAAGCTAAAAGTTGACACTGATCCAACTCCTTCTGCGATGGATTTGAGTGAAA
1 TGTGATAGAA-TCGAGTTAAAAGTTGACACTGATCCAACTCCTTCTGCGATGGATTTGAACGAAA
* * * * * * * *
178200 ATAAAAATGTCGATCCATTTCCTTTTGTGATGGAATTGAGCGAAATGTTGGTGCTGATCTACCTT
65 ATAAAAATGTCGATCCACTTCCTTCTGTGATGGAATCGAACGATATGTCGATGCTGATCTACCTC
* * * * * *
178265 CTTCTGTGATAGAAACGAGAAAAAAGTTGATGCAGATCTAACTCCTTCCGCGATGGATTTGAGC-
130 CTTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCG
* * * * * * * * * *
178329 -GAACAAATGTCGATCCATCTCCTTCTGTGATGGAATCAAACAAAATATTGGTGCTGATATACCT
195 AGAAAAAATTTCGATCCACCTCCTTCTGTGATGGAATCGAACGATATGTCGATGCTGATCTACCT
*
178393 CATTCTGTGATAGAATCGAGC
260 CCTTCTGTGATAGAATCGAGC
178414 AAACAATTGA
Statistics
Matches: 947, Mismatches: 114, Indels: 30
0.87 0.10 0.03
Matches are distributed among these distances:
393 4 0.00
394 151 0.16
395 226 0.24
396 25 0.03
397 4 0.00
398 1 0.00
400 41 0.04
401 409 0.43
402 84 0.09
403 2 0.00
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (398 bp):
TGTGATAGAATCGAGTTAAAAGTTGACACTGATCCAACTCCTTCTGCGATGGATTTGAACGAAAA
TAAAAATGTCGATCCACTTCCTTCTGTGATGGAATCGAACGATATGTCGATGCTGATCTACCTCC
TTCTGTGATAGAATCGAGCAAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGA
GAAAAAATTTCGATCCACCTCCTTCTGTGATGGAATCGAACGATATGTCGATGCTGATCTACCTC
CTTCTGTGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGAA
AAAATAAAAATGTCGATCCACCTCCTTCTGTGATGGAAATCGAACGATATGTCAATGCTGATCTA
CCTCATTC
Found at i:178044 original size:44 final size:44
Alignment explanation
Indices: 177996--178181 Score: 108
Period size: 44 Copynumber: 4.2 Consensus size: 44
177986 GATGATTTAC
*
177996 CTCCTTCTGTGATAGAATCGAGCTAAAAGTTGACACTGATCCAA
1 CTCCTTCTGTGATAGAATCAAGCTAAAAGTTGACACTGATCCAA
* * * * ** ** * * *
178040 CTCCTCCTGCGATGGATTTGAG-TGAAAA-TAAAAAAGTCGATCCAT
1 CTCCTTCTGTGATAGAATCAAGCT-AAAAGT-TGACACT-GATCCAA
* * * * * *** * *
178085 CTCCTTCTGTGATAGAATCAAACGATATGTCGATGTTGATCTAC
1 CTCCTTCTGTGATAGAATCAAGCTAAAAGTTGACACTGATCCAA
*
178129 CTCATTCTGTGATA-AATTCAAGCTAAAAGTTGACACTGATCCAA
1 CTCCTTCTGTGATAGAA-TCAAGCTAAAAGTTGACACTGATCCAA
178173 CTCCTTCTG
1 CTCCTTCTG
178182 CGATGGATTT
Statistics
Matches: 97, Mismatches: 39, Indels: 12
0.66 0.26 0.08
Matches are distributed among these distances:
43 4 0.04
44 67 0.69
45 25 0.26
46 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (44 bp):
CTCCTTCTGTGATAGAATCAAGCTAAAAGTTGACACTGATCCAA
Found at i:179224 original size:90 final size:90
Alignment explanation
Indices: 179067--179532 Score: 761
Period size: 90 Copynumber: 5.2 Consensus size: 90
179057 TGAAAATCAT
* * * *
179067 GCTTAGTTTCTAAAAACTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGACTCGAAAGA
1 GCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGA
179132 CTTACAAATTAAGAAACCCCCGAAG
66 CTTACAAATTAAGAAACCCCCGAAG
* * * * *
179157 GCTCAGTTTCTATAATCTAATTTGAAAACATCCAGCACTGAAGGTCTTATGGATGGCCTGAAGGA
1 GCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGA
*
179222 CTTACAAATCAAGAAACCCCCGAAG
66 CTTACAAATTAAGAAACCCCCGAAG
* *
179247 GCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAAGTCTTATAGATGGCCCGAAGGA
1 GCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGA
*
179312 CTTACAAATCAAGAAACCCCCGAAG
66 CTTACAAATTAAGAAACCCCCGAAG
* * *
179337 GCTTAGTTTCTAAAATCTTATTTGAAAACATCCTGCATTAAAGGTCTTATGGATGGCCCGAAGGA
1 GCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGA
179402 CTTACAAATTAAGAAACCCCCGAAG
66 CTTACAAATTAAGAAACCCCCGAAG
*
179427 GCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAATGA
1 GCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGA
*
179492 CTTACAAATCTAAAAAACCCCCGAAG
66 CTTACAAAT-TAAGAAACCCCCGAAG
179518 GCTTAGTTTCTAAAA
1 GCTTAGTTTCTAAAA
179533 AATATTTTGA
Statistics
Matches: 347, Mismatches: 28, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
90 317 0.91
91 30 0.09
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (90 bp):
GCTTAGTTTCTAAAATCTCATTTGAAAACATCCTGCACTGAAGGTCTTATGGATGGCCCGAAGGA
CTTACAAATTAAGAAACCCCCGAAG
Found at i:190030 original size:21 final size:21
Alignment explanation
Indices: 190012--190093 Score: 78
Period size: 21 Copynumber: 3.9 Consensus size: 21
190002 ATGAAGCAAG
190012 GGAAGCAGAGAGAGCAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
*
190033 GGAAGCA-ACCAGAGCAGCAGC
1 GGAAGCAGA-GAGAGCAGCAGC
* * *
190054 GGAAGTAGAGAAAGAAGCAGC
1 GGAAGCAGAGAGAGCAGCAGC
* *
190075 -GACAGCACAGAGAGAAGCA
1 GGA-AGCAGAGAGAGCAGCA
190094 ACAACAACAC
Statistics
Matches: 50, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
20 3 0.06
21 46 0.92
22 1 0.02
ACGTcount: A:0.43, C:0.20, G:0.37, T:0.01
Consensus pattern (21 bp):
GGAAGCAGAGAGAGCAGCAGC
Found at i:190104 original size:21 final size:21
Alignment explanation
Indices: 190066--190114 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
190056 AAGTAGAGAA
* * *
190066 AGAAGCAGCGACAGCACAGAG
1 AGAAGCAACAACAACACAGAG
190087 AGAAGCAACAACAACACAGAG
1 AGAAGCAACAACAACACAGAG
190108 AGAAGCA
1 AGAAGCA
190115 GCATATCAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.51, C:0.22, G:0.27, T:0.00
Consensus pattern (21 bp):
AGAAGCAACAACAACACAGAG
Found at i:190685 original size:43 final size:43
Alignment explanation
Indices: 190528--190865 Score: 342
Period size: 43 Copynumber: 7.9 Consensus size: 43
190518 TTTTTAGCAG
* * * * * ** *
190528 AAACGCCGCAAAACATCAACACCTACTGCGGCGTATTAACAAA
1 AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTTATGAC
* ** * * *
190571 AAACGCCGCTAAACATCATA-ATATATTACGGC-TTTTGTCTGAG
1 AAACGCCGCTAAATATCA-ACACCTATTGCGGCGTTTT-TATGAC
** * * *
190614 AAACGCTACTAAATATTAACACCAATTGCAGCGTTTTTATGAC
1 AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTTATGAC
* * * * *
190657 AAACACCACGAAATATCAACACCTATTGCGGCGTTTGT-TGAA
1 AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTTATGAC
*
190699 AAACGCTGCTAAATATCAACACCTATTGCGGCGTTTTTATGAC
1 AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTTATGAC
* *
190742 AAACGCCGCTAAATATCAATACCTATTGCGGCGTTTTTATAAC
1 AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTTATGAC
* * *
190785 AAACGCCACTAAATATCAACACCTATTGCGACGTTTTTCA-CAC
1 AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTT-ATGAC
*
190828 AAACGCCGCTAAATATCAATACCTATTGCGGCGTTTTT
1 AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTT
190866 TGTGAAAAAA
Statistics
Matches: 243, Mismatches: 46, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
42 40 0.16
43 197 0.81
44 6 0.02
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTTATGAC
Found at i:192084 original size:60 final size:60
Alignment explanation
Indices: 192004--192122 Score: 220
Period size: 60 Copynumber: 2.0 Consensus size: 60
191994 TGTTCGTATT
192004 CACTTTTGTTTTCTGGATCAACATATTCACTTTGATATGAACTAAAATGTTTAATAAGTG
1 CACTTTTGTTTTCTGGATCAACATATTCACTTTGATATGAACTAAAATGTTTAATAAGTG
* *
192064 CACTTTTGTTTTTTGTATCAACATATTCACTTTGATATGAACTAAAATGTTTAATAAGT
1 CACTTTTGTTTTCTGGATCAACATATTCACTTTGATATGAACTAAAATGTTTAATAAGT
192123 ACTCAACTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.44
Consensus pattern (60 bp):
CACTTTTGTTTTCTGGATCAACATATTCACTTTGATATGAACTAAAATGTTTAATAAGTG
Found at i:194527 original size:29 final size:29
Alignment explanation
Indices: 194485--194561 Score: 109
Period size: 29 Copynumber: 2.7 Consensus size: 29
194475 AACCCAACCA
* *
194485 TAGGTCGCCATGCACTCCCAGCGACCTCC
1 TAGGTCGCCATGCACGCCCAGCGACATCC
* **
194514 TAGGTCGCCATGCACGCCCGGCGACATGG
1 TAGGTCGCCATGCACGCCCAGCGACATCC
194543 TAGGTCGCCATGCACGCCC
1 TAGGTCGCCATGCACGCCC
194562 CACGACCTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.17, C:0.40, G:0.27, T:0.16
Consensus pattern (29 bp):
TAGGTCGCCATGCACGCCCAGCGACATCC
Found at i:194991 original size:17 final size:17
Alignment explanation
Indices: 194969--195004 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
194959 TTATTAGTTT
194969 GTTAGTTTAGGGTTAGG
1 GTTAGTTTAGGGTTAGG
194986 GTTAGTTTAGGGTTAGG
1 GTTAGTTTAGGGTTAGG
195003 GT
1 GT
195005 AAAAAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.17, C:0.00, G:0.42, T:0.42
Consensus pattern (17 bp):
GTTAGTTTAGGGTTAGG
Found at i:195206 original size:30 final size:30
Alignment explanation
Indices: 195137--195242 Score: 133
Period size: 30 Copynumber: 3.5 Consensus size: 30
195127 TTTAGTTAAT
* *
195137 TAGTTTTTTAGTAGTGAA-TTATAATTAAAAAA
1 TAGTTTATTAGT--TGAAGTTAT-ATTAAAGAA
* * *
195169 CATTTTATTAGTTTAAGTTATATTAAAGAA
1 TAGTTTATTAGTTGAAGTTATATTAAAGAA
195199 TAGTTTATTAGTTGAAGTTATATTAAAGAA
1 TAGTTTATTAGTTGAAGTTATATTAAAGAA
195229 TAGTTTATTAGTTG
1 TAGTTTATTAGTTG
195243 TTTAAAGAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
30 52 0.80
31 4 0.06
32 9 0.14
ACGTcount: A:0.39, C:0.01, G:0.14, T:0.46
Consensus pattern (30 bp):
TAGTTTATTAGTTGAAGTTATATTAAAGAA
Found at i:195237 original size:15 final size:16
Alignment explanation
Indices: 195184--195238 Score: 55
Period size: 15 Copynumber: 3.6 Consensus size: 16
195174 TATTAGTTTA
195184 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
**
195200 AGTT-TATTAGTTG-A-
1 AGTTATATTA-AAGAAT
195214 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
195230 AGTT-TATTA
1 AGTTATATTA
195239 GTTGTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
14 5 0.16
15 17 0.55
16 9 0.29
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.44
Consensus pattern (16 bp):
AGTTATATTAAAGAAT
Found at i:195323 original size:15 final size:16
Alignment explanation
Indices: 195295--195328 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
195285 GTTTGTTACT
195295 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
195311 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
195326 TTA
1 TTA
195329 AATTTTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Found at i:197529 original size:26 final size:26
Alignment explanation
Indices: 197500--197559 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 26
197490 TTTAACCTTA
*
197500 ACAATGATTTTTAGTATCAAATCATT
1 ACAATGATTTTTAGTATCAAATAATT
**
197526 ACAA-GTATCATTAGTATCAAATAATT
1 ACAATG-ATTTTTAGTATCAAATAATT
197552 A-AAT-ATTT
1 ACAATGATTT
197560 AGTAATTCGA
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
24 2 0.07
25 3 0.11
26 22 0.81
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (26 bp):
ACAATGATTTTTAGTATCAAATAATT
Found at i:197780 original size:14 final size:14
Alignment explanation
Indices: 197761--197801 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
197751 TAGTAATAAT
197761 TATTAAATCATTAA
1 TATTAAATCATTAA
* *
197775 TATTAAATTATTAT
1 TATTAAATCATTAA
*
197789 TATAAAATCATTA
1 TATTAAATCATTA
197802 CTAAATAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (14 bp):
TATTAAATCATTAA
Found at i:197844 original size:9 final size:9
Alignment explanation
Indices: 197825--197902 Score: 70
Period size: 9 Copynumber: 8.4 Consensus size: 9
197815 AAATAATTAC
197825 TATTAATCAT
1 TATT-ATCAT
197835 TATTATCAT
1 TATTATCAT
*
197844 TATTATTAT
1 TATTATCAT
*
197853 TA-AATCAT
1 TATTATCAT
197861 TATTATCAT
1 TATTATCAT
*
197870 TATTATTAT
1 TATTATCAT
*
197879 TA-AATTCAT
1 TATTA-TCAT
197888 TATTAATTCAT
1 TATT-A-TCAT
197899 TATT
1 TATT
197903 TAAATTATTA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
8 7 0.12
9 35 0.62
10 4 0.07
11 10 0.18
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (9 bp):
TATTATCAT
Found at i:197848 original size:3 final size:3
Alignment explanation
Indices: 197833--197915 Score: 55
Period size: 3 Copynumber: 27.3 Consensus size: 3
197823 ACTATTAATC
* * * *
197833 ATT ATT ATC ATT ATT ATT ATT A-A ATC ATT ATT ATC ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
197880 A-A ATT CATT ATT AATT CATT ATT -TAA ATT ATT ATT A
1 ATT ATT -ATT ATT -ATT -ATT ATT AT-T ATT ATT ATT A
197916 AATCATTTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
2 3 0.05
3 49 0.79
4 10 0.16
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (3 bp):
ATT
Found at i:197861 original size:17 final size:17
Alignment explanation
Indices: 197825--197871 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
197815 AAATAATTAC
*
197825 TATTAATCATTATTATCAT
1 TATT-ATCATTA-AATCAT
*
197844 TATTATTATTAAATCAT
1 TATTATCATTAAATCAT
197861 TATTATCATTA
1 TATTATCATTA
197872 TTATTATTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 15 0.60
18 6 0.24
19 4 0.16
ACGTcount: A:0.38, C:0.09, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTATCATTAAATCAT
Found at i:197864 original size:11 final size:11
Alignment explanation
Indices: 197759--197922 Score: 76
Period size: 11 Copynumber: 13.3 Consensus size: 11
197749 ATTAGTAATA
197759 ATTATTAAATC
1 ATTATTAAATC
*
197770 ATTAATATTAAATT
1 A-T--TATTAAATC
197784 ATTATTATAAAATC
1 ATTA-T-T-AAATC
* *
197798 ATTACTAAATA
1 ATTATTAAATC
* *
197809 ATTACTAAATA
1 ATTATTAAATC
*
197820 ATTACTATTAATC
1 ATTA-T-TAAATC
*
197833 ATTATTATCATTATT
1 ATTATTA--A--ATC
197848 ATTATTAAATC
1 ATTATTAAATC
*
197859 ATTATTATCATTATT
1 ATTATTA--A--ATC
197874 ATTATTAAATTC
1 ATTATTAAA-TC
*
197886 ATTATTAATTC
1 ATTATTAAATC
*
197897 ATTATTTAAATT
1 ATTA-TTAAATC
197909 ATTATTAAATC
1 ATTATTAAATC
197920 ATT
1 ATT
197923 TTTATGGTTA
Statistics
Matches: 119, Mismatches: 16, Indels: 36
0.70 0.09 0.21
Matches are distributed among these distances:
11 48 0.40
12 22 0.18
13 14 0.12
14 17 0.14
15 18 0.15
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.49
Consensus pattern (11 bp):
ATTATTAAATC
Found at i:197864 original size:26 final size:26
Alignment explanation
Indices: 197820--197902 Score: 123
Period size: 26 Copynumber: 3.1 Consensus size: 26
197810 TTACTAAATA
*
197820 ATTACTATT-AATCATTATTATCATT
1 ATTATTATTAAATCATTATTATCATT
197845 ATTATTATTAAATCATTATTATCATT
1 ATTATTATTAAATCATTATTATCATT
197871 ATTATTATTAAATTCATTATTAATTCATT
1 ATTATTATTAAA-TCATTATT-A-TCATT
197900 ATT
1 ATT
197903 TAAATTATTA
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
25 8 0.15
26 28 0.53
27 8 0.15
28 1 0.02
29 8 0.15
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.54
Consensus pattern (26 bp):
ATTATTATTAAATCATTATTATCATT
Found at i:197890 original size:38 final size:38
Alignment explanation
Indices: 197825--197922 Score: 111
Period size: 35 Copynumber: 2.7 Consensus size: 38
197815 AAATAATTAC
*
197825 TATTAATCATTATTATCATT--ATT-ATTATTAAATCAT
1 TATT-ATCATTATTATTATTAAATTCATTATTAAATCAT
*
197861 TATTATCATTATTATTATTAAATTCATTATTAATTCAT
1 TATTATCATTATTATTATTAAATTCATTATTAAATCAT
*
197899 TATT-T-A-AATTATTATTAAA-TCATT
1 TATTATCATTATTATTATTAAATTCATT
197923 TTTATGGTTA
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
34 5 0.09
35 26 0.46
36 5 0.09
37 4 0.07
38 16 0.29
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (38 bp):
TATTATCATTATTATTATTAAATTCATTATTAAATCAT
Found at i:197921 original size:23 final size:24
Alignment explanation
Indices: 197848--197922 Score: 52
Period size: 23 Copynumber: 3.1 Consensus size: 24
197838 TATCATTATT
*
197848 ATTATTAAATCATTATTATCATTATT-
1 ATTATTAAATCATTATT-T-A-AATTC
197874 ATTATTAAATTCATTA-TT-AATTC
1 ATTATTAAA-TCATTATTTAAATTC
*
197897 ATTATTTAAATTATTA-TTAAA-TC
1 ATTA-TTAAATCATTATTTAAATTC
197920 ATT
1 ATT
197923 TTTATGGTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
22 3 0.07
23 16 0.37
24 7 0.16
25 1 0.02
26 10 0.23
27 6 0.14
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTATTAAATCATTATTTAAATTC
Found at i:198119 original size:17 final size:18
Alignment explanation
Indices: 198097--198131 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
198087 TATGAGTAAA
198097 TCATTATTATT-ATAATT
1 TCATTATTATTAATAATT
198114 TCATTATTATTAATAATT
1 TCATTATTATTAATAATT
198132 ACTTTTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (18 bp):
TCATTATTATTAATAATT
Found at i:198138 original size:23 final size:24
Alignment explanation
Indices: 198112--198156 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
198102 ATTATTATAA
* *
198112 TTTCATTATTAT-TAATAATTACT
1 TTTCATTACTATCAAATAATTACT
198135 TTTCATTACTATCAAATAATTA
1 TTTCATTACTATCAAATAATTA
198157 AATATTAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.38, C:0.11, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTCATTACTATCAAATAATTACT
Found at i:198196 original size:49 final size:49
Alignment explanation
Indices: 198137--198463 Score: 636
Period size: 49 Copynumber: 6.7 Consensus size: 49
198127 TAATTACTTT
* *
198137 TCATTACTATCAAATAATTAAATATTAATAATAATTTTATTATTACTAA
1 TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA
198186 TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA
1 TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA
198235 TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA
1 TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA
198284 TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA
1 TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA
198333 TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA
1 TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA
198382 TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA
1 TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA
198431 TCATTACTATCAAATCATTAAATATTAATAATA
1 TCATTACTATCAAATCATTAAATATTAATAATA
198464 GATGGGTGCC
Statistics
Matches: 276, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
49 276 1.00
ACGTcount: A:0.46, C:0.12, G:0.00, T:0.43
Consensus pattern (49 bp):
TCATTACTATCAAATCATTAAATATTAATAATAATTTCATTATTACTAA
Found at i:200780 original size:18 final size:18
Alignment explanation
Indices: 200757--200825 Score: 61
Period size: 18 Copynumber: 3.8 Consensus size: 18
200747 AATATAAATA
200757 AAAACAAAATAATTTTTT
1 AAAACAAAATAATTTTTT
*
200775 AAAACAACACTAAATATTTTT
1 AAAACAA-AAT-AAT-TTTTT
* *
200796 -AAACACAATATTTTTTT
1 AAAACAAAATAATTTTTT
*
200813 TAAACAAAA-AATT
1 AAAACAAAATAATT
200826 ATCTCGCACA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
17 8 0.20
18 16 0.39
19 4 0.10
20 8 0.20
21 5 0.12
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAACAAAATAATTTTTT
Found at i:200904 original size:13 final size:13
Alignment explanation
Indices: 200886--200910 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
200876 AATTTACACA
200886 TATTTATGCCTTG
1 TATTTATGCCTTG
200899 TATTTATGCCTT
1 TATTTATGCCTT
200911 CCTCCTTTCC
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:0.16, C:0.16, G:0.12, T:0.56
Consensus pattern (13 bp):
TATTTATGCCTTG
Found at i:201714 original size:21 final size:21
Alignment explanation
Indices: 201689--201745 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
201679 ACGCTGCAAT
201689 CATGCAGCTATGGATGCAACG
1 CATGCAGCTATGGATGCAACG
201710 CATGCAGCTATGGATGCAACG
1 CATGCAGCTATGGATGCAACG
*
201731 CATGCAGCTACGGAT
1 CATGCAGCTATGGAT
201746 ACAGGAATCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.28, C:0.25, G:0.28, T:0.19
Consensus pattern (21 bp):
CATGCAGCTATGGATGCAACG
Done.