Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008481.1 Hibiscus syriacus cultivar Beakdansim tig00111313_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: 171047
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Found at i:3101 original size:59 final size:59
Alignment explanation
Indices: 3019--3194 Score: 271
Period size: 59 Copynumber: 3.0 Consensus size: 59
3009 TTGACCCTTC
* * * * *
3019 TAAAATTATAAGATTATGGTTTTATCATTATAAATTTTTAAAATAATATTTTAATATCT
1 TAAAATGATAAAATTATGATTTTATCATTATAAATTTATAAAATAATATTTTAATATAT
* *
3078 TAAAATGATAAAATTATGATTTTATCATTATAAATTTGTAAAATTATATTTTAATATAT
1 TAAAATGATAAAATTATGATTTTATCATTATAAATTTATAAAATAATATTTTAATATAT
* *
3137 TCAAATGATAAAATTATGATTTTATCATTATAAACTTATAAAATAATATTTTAATATA
1 TAAAATGATAAAATTATGATTTTATCATTATAAATTTATAAAATAATATTTTAATATA
3195 AAAATAGATT
Statistics
Matches: 107, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
59 107 1.00
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (59 bp):
TAAAATGATAAAATTATGATTTTATCATTATAAATTTATAAAATAATATTTTAATATAT
Found at i:3120 original size:30 final size:28
Alignment explanation
Indices: 3038--3189 Score: 116
Period size: 29 Copynumber: 5.2 Consensus size: 28
3028 AAGATTATGG
* *
3038 TTTTATCATTATAAATTTTTAAAATAATA
1 TTTTATCATTATAAA-TTGTAAAATTATA
*
3067 TTTTAAT-ATCT-TAAAATGATAAAATTATGA
1 TTTT-ATCAT-TATAAATTG-TAAAATTAT-A
3097 TTTTATCATTATAAATTTGTAAAATTATA
1 TTTTATCATTATAAA-TTGTAAAATTATA
3126 TTTTA--ATATATTCAAA-TGATAAAATTATGA
1 TTTTATCAT-TA-T-AAATTG-TAAAATTAT-A
* *
3156 TTTTATCATTATAAACTTATAAAATAATA
1 TTTTATCATTATAAA-TTGTAAAATTATA
3185 TTTTA
1 TTTTA
3190 ATATAAAAAT
Statistics
Matches: 101, Mismatches: 6, Indels: 32
0.73 0.04 0.23
Matches are distributed among these distances:
27 2 0.02
28 5 0.05
29 46 0.46
30 41 0.41
31 5 0.05
32 2 0.02
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (28 bp):
TTTTATCATTATAAATTGTAAAATTATA
Found at i:11203 original size:193 final size:191
Alignment explanation
Indices: 10876--11266 Score: 746
Period size: 193 Copynumber: 2.0 Consensus size: 191
10866 TTACATTACC
*
10876 TGAATTCCCCCAGCGAATGGGACAAAGGTGTTGCGATGAAATTAGATATTGAAAAGACATGATAG
1 TGAATTCCCCCAGCAAATGGGACAAAGGTGTTGCGATGAAATTAGATATTGAAAAGACATGATAG
*
10941 AGTGGAATGTAATTTTCTACGGGGAGTTACGACCAAGCTAGGATTCGATTGTGGTTTTATTAACT
66 AGTGGAATGTAATTTTCTACGGGGAGATACGACCAAGCTAGGATTCGATTGTGGTTTTATTAACT
11006 TAATAATGTAGTGTGTTACAACCGTCACATTTTCAGCCCGGGTCAATGGCTCACTCACTCG
131 TAATAATGTAGTGTGTTACAACCGTCACATTTTCAGCCCGGGTCAATGGCTCACTCACTCG
11067 TGAATTCCCCCAGCAAATGGGACAAAGGTGTTGCGATGAAATTAGATATTGAAAAGACATATGAT
1 TGAATTCCCCCAGCAAATGGGACAAAGGTGTTGCGATGAAATTAGATATTGAAAAGAC--ATGAT
11132 AGAGTGGAATGTAATTTTCTACGGGGAGATACGACCAAGCTAGGATTCGATTGTGGTTTTATTAA
64 AGAGTGGAATGTAATTTTCTACGGGGAGATACGACCAAGCTAGGATTCGATTGTGGTTTTATTAA
11197 CTTAATAATGTAGTGTGTTACAACCGTCACATTTTCAGCCCGGGTCAATGGCTCACTCACTCG
129 CTTAATAATGTAGTGTGTTACAACCGTCACATTTTCAGCCCGGGTCAATGGCTCACTCACTCG
11260 TGAATTC
1 TGAATTC
11267 ACCCTCACAA
Statistics
Matches: 196, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
191 57 0.29
193 139 0.71
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (191 bp):
TGAATTCCCCCAGCAAATGGGACAAAGGTGTTGCGATGAAATTAGATATTGAAAAGACATGATAG
AGTGGAATGTAATTTTCTACGGGGAGATACGACCAAGCTAGGATTCGATTGTGGTTTTATTAACT
TAATAATGTAGTGTGTTACAACCGTCACATTTTCAGCCCGGGTCAATGGCTCACTCACTCG
Found at i:13587 original size:21 final size:21
Alignment explanation
Indices: 13550--13602 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
13540 AGTTTTTATT
* *
13550 TAATTAACAATTAAT-TTTT-
1 TAATTAAAAATAAATATTTTA
13569 TAATTAAAAATAAATATTTTA
1 TAATTAAAAATAAATATTTTA
*
13590 TATTTAAAAATAA
1 TAATTAAAAATAA
13603 TAAAATAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
TAATTAAAAATAAATATTTTA
Found at i:13971 original size:20 final size:20
Alignment explanation
Indices: 13946--13995 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
13936 GATTTTCCAG
* *
13946 AATCGCAACGCTAATATGA-A
1 AATCGCAACGCGAACAT-ATA
*
13966 AATCGCAATGCGAACATATA
1 AATCGCAACGCGAACATATA
13986 AATCGCAACG
1 AATCGCAACG
13996 TGATTCTGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGAACATATA
Found at i:14033 original size:21 final size:21
Alignment explanation
Indices: 14007--14086 Score: 99
Period size: 21 Copynumber: 3.9 Consensus size: 21
13997 GATTCTGACT
14007 ATCGCAACGAGTATCCGTAAA
1 ATCGCAACGAGTATCCGTAAA
*
14028 ATCGCAACGCGTATCCGT-AA
1 ATCGCAACGAGTATCCGTAAA
** * *
14048 ATCGCAACGACAATACATAAA
1 ATCGCAACGAGTATCCGTAAA
*
14069 ATCGCAACGCGTATCCGT
1 ATCGCAACGAGTATCCGT
14087 TCGCAACGAG
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
20 15 0.32
21 32 0.68
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.19
Consensus pattern (21 bp):
ATCGCAACGAGTATCCGTAAA
Found at i:14052 original size:41 final size:41
Alignment explanation
Indices: 14024--14184 Score: 133
Period size: 41 Copynumber: 4.4 Consensus size: 41
14014 CGAGTATCCG
14024 TAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACA
1 TAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACA
*
14065 TAAAATCGCAACGCGTATCCGT---TCGCAACGAGAATAC-
1 TAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACA
* *
14102 -----GCGCAACGCGTAT---TAAATCGCAACG---AGA-A
1 TAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACA
* * * *
14131 T-AAATCGCAATGCGTATCTGT-AATCGTAACGACAATACG
1 TAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACA
14170 TAAAATCGCAACGCG
1 TAAAATCGCAACGCG
14185 ATTCTTAAAG
Statistics
Matches: 95, Mismatches: 9, Indels: 33
0.69 0.07 0.24
Matches are distributed among these distances:
29 3 0.03
32 20 0.21
33 11 0.12
35 9 0.09
36 1 0.01
38 16 0.17
39 1 0.01
40 12 0.13
41 22 0.23
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (41 bp):
TAAAATCGCAACGCGTATCCGTAAATCGCAACGACAATACA
Found at i:14112 original size:32 final size:32
Alignment explanation
Indices: 14071--14132 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
14061 TACATAAAAT
***
14071 CGCAACGCGTATCCGTTCGCAACGAGAATACG
1 CGCAACGCGTATCAAATCGCAACGAGAATACG
*
14103 CGCAACGCGTATTAAATCGCAACGAGAATA
1 CGCAACGCGTATCAAATCGCAACGAGAATA
14133 AATCGCAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.34, C:0.27, G:0.23, T:0.16
Consensus pattern (32 bp):
CGCAACGCGTATCAAATCGCAACGAGAATACG
Found at i:14125 original size:17 final size:17
Alignment explanation
Indices: 14103--14147 Score: 56
Period size: 16 Copynumber: 2.7 Consensus size: 17
14093 CGAGAATACG
14103 CGCAACGCGTATTAAAT
1 CGCAACGCGTATTAAAT
* *
14120 CGCAACGAG-AATAAAT
1 CGCAACGCGTATTAAAT
*
14136 CGCAATGCGTAT
1 CGCAACGCGTAT
14148 CTGTAATCGT
Statistics
Matches: 22, Mismatches: 5, Indels: 2
0.76 0.17 0.07
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (17 bp):
CGCAACGCGTATTAAAT
Found at i:14136 original size:16 final size:16
Alignment explanation
Indices: 14087--14140 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
14077 GCGTATCCGT
*
14087 TCGCAACGAGAAT-AC
1 TCGCAACGAGAATAAA
* * *
14102 GCGCAACGCGTATTAAA
1 TCGCAACGAG-AATAAA
14119 TCGCAACGAGAATAAA
1 TCGCAACGAGAATAAA
14135 TCGCAA
1 TCGCAA
14141 TGCGTATCTG
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
15 8 0.27
16 13 0.43
17 9 0.30
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (16 bp):
TCGCAACGAGAATAAA
Found at i:14771 original size:20 final size:20
Alignment explanation
Indices: 14742--14832 Score: 105
Period size: 20 Copynumber: 4.5 Consensus size: 20
14732 TTCTAAACTT
* *
14742 AAAATTGCAACATGAAAATG
1 AAAATCGCAACACGAAAATG
14762 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
**
14782 ACTATCGCAACGA-GAGAAATG
1 AAAATCGCAAC-ACGA-AAATG
*
14803 AAAATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
14822 AAAATCGCAAC
1 AAAATCGCAAC
14833 GCAAAACCAA
Statistics
Matches: 61, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.26
20 29 0.48
21 16 0.26
ACGTcount: A:0.51, C:0.19, G:0.18, T:0.13
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:14803 original size:21 final size:21
Alignment explanation
Indices: 14742--14849 Score: 104
Period size: 19 Copynumber: 5.4 Consensus size: 21
14732 TTCTAAACTT
* *
14742 AAAATTGCAAC-ATGAAAATG
1 AAAATCGCAACGACGAAAATG
14762 AAAATCGCAAC-ACGAAAATG
1 AAAATCGCAACGACGAAAATG
**
14782 ACTATCGCAACGA-GAGAAATG
1 AAAATCGCAACGACGA-AAATG
14803 AAAATCGCAACG-CG-AAATG
1 AAAATCGCAACGACGAAAATG
**
14822 AAAATCGCAACG-C-AAAACC
1 AAAATCGCAACGACGAAAATG
14841 AAAATCGCA
1 AAAATCGCA
14850 TTGCGATTTT
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
19 30 0.39
20 29 0.38
21 17 0.22
ACGTcount: A:0.51, C:0.20, G:0.17, T:0.12
Consensus pattern (21 bp):
AAAATCGCAACGACGAAAATG
Found at i:14804 original size:41 final size:40
Alignment explanation
Indices: 14757--14833 Score: 118
Period size: 41 Copynumber: 1.9 Consensus size: 40
14747 TGCAACATGA
**
14757 AAATGAAAATCGCAACACGAAAATGACTATCGCAACGAGAG
1 AAATGAAAATCGCAACACG-AAATGAAAATCGCAACGAGAG
*
14798 AAATGAAAATCGCAACGCGAAATGAAAATCGCAACG
1 AAATGAAAATCGCAACACGAAATGAAAATCGCAACG
14834 CAAAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 15 0.45
41 18 0.55
ACGTcount: A:0.49, C:0.19, G:0.19, T:0.12
Consensus pattern (40 bp):
AAATGAAAATCGCAACACGAAATGAAAATCGCAACGAGAG
Found at i:14867 original size:19 final size:19
Alignment explanation
Indices: 14845--14895 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
14835 AAAACCAAAA
14845 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
14864 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
14883 TCGCGTTGCGATT
1 TCGCATTGCGATT
14896 CTCTCGTTGC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.45
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:14954 original size:20 final size:20
Alignment explanation
Indices: 14845--14956 Score: 89
Period size: 20 Copynumber: 6.0 Consensus size: 20
14835 AAAACCAAAA
*
14845 TCGCATTGCGATTTTCATT-
1 TCGCGTTGCGATTTTCATTC
*
14864 TCGCATTGCGATTTTCATT-
1 TCGCGTTGCGATTTTCATTC
14883 TCGCGTTGCGA--TTC--TC
1 TCGCGTTGCGATTTTCATTC
**
14899 T--CGTTGCGATAGTCATTAC
1 TCGCGTTGCGATTTTCATT-C
**
14918 -CGCGTTGCGATAGTCATTC
1 TCGCGTTGCGATTTTCATTC
*
14937 TCTCGTTGCGATTTTCATTC
1 TCGCGTTGCGATTTTCATTC
14957 AACCAAAAGA
Statistics
Matches: 79, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
14 8 0.10
15 1 0.01
16 3 0.04
17 3 0.04
18 1 0.01
19 31 0.39
20 32 0.41
ACGTcount: A:0.14, C:0.24, G:0.20, T:0.42
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATTC
Found at i:16790 original size:82 final size:83
Alignment explanation
Indices: 16653--16997 Score: 395
Period size: 94 Copynumber: 3.9 Consensus size: 83
16643 TAGATTGCTT
* *
16653 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
16718 ATTTGTCTTTTAGTTG-A
66 ATTTGTCTTTTAGTTGAA
16735 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
16800 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 A-----------TTTGTCTTTTAGTTGAA
* *
16829 AGTAAATTTGTTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
16894 ATTTGTCTTTGTTTTGTCTTTTGGTTAAA
66 ATTTGTC--T-TTTAG----TT-G---AA
* * * *
16923 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAATTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
16988 ATTTGTCTTT
66 ATTTGTCTTT
16998 GTTTTGTCTT
Statistics
Matches: 230, Mismatches: 10, Indels: 37
0.83 0.04 0.13
Matches are distributed among these distances:
82 64 0.28
83 6 0.03
85 1 0.00
86 4 0.02
90 2 0.01
91 3 0.01
92 1 0.00
93 14 0.06
94 135 0.59
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (83 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTTAGTTGAA
Found at i:16879 original size:94 final size:93
Alignment explanation
Indices: 16719--17019 Score: 514
Period size: 94 Copynumber: 3.2 Consensus size: 93
16709 GAAGTTAGTA
* *
16719 TTTGTCTTTTAGTTGAAGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTA
1 TTTGTCTTTTGGTTGAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTA
16784 ACACTGTGAAGTTAGTATTTGTCTTTGT
66 ACACTGTGAAGTTAGTATTTGTCTTTGT
*
16812 TTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGTCAATTCTGCTAAACTGTGTATTCTTT
1 TTTGTCTTTTGGTTG-AAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
16877 AACACTGTGAAGTTAGTATTTGTCTTTGT
65 AACACTGTGAAGTTAGTATTTGTCTTTGT
* *
16906 TTTGTCTTTTGGTTAAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAATTGTGTATTCTTT
1 TTTGTCTTTTGGTT-GAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTT
* *
16971 AATACTCTGAAGTTAGTATTTGTCTTTGT
65 AACACTGTGAAGTTAGTATTTGTCTTTGT
17000 TTTGTCTTTTGG-TGAAGTAA
1 TTTGTCTTTTGGTTGAAGTAA
17020 TGCAATCCAT
Statistics
Matches: 197, Mismatches: 9, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
92 6 0.03
93 15 0.08
94 176 0.89
ACGTcount: A:0.21, C:0.12, G:0.19, T:0.48
Consensus pattern (93 bp):
TTTGTCTTTTGGTTGAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTA
ACACTGTGAAGTTAGTATTTGTCTTTGT
Found at i:17123 original size:19 final size:19
Alignment explanation
Indices: 17067--17189 Score: 160
Period size: 19 Copynumber: 6.4 Consensus size: 19
17057 TAGTTTACTT
* *
17067 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
** *
17087 TCGCAACATGAAAAATGAATA
1 TCGCAAC--GCGAAATGAAAA
17108 TCGCAACGCGAAATG--AA
1 TCGCAACGCGAAATGAAAA
17125 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
17144 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
17163 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
17182 TCGCAACG
1 TCGCAACG
17190 ACAAAATCGC
Statistics
Matches: 91, Mismatches: 8, Indels: 9
0.84 0.07 0.08
Matches are distributed among these distances:
17 16 0.18
19 54 0.59
20 7 0.08
21 11 0.12
22 3 0.03
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.13
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:17186 original size:57 final size:57
Alignment explanation
Indices: 17067--17189 Score: 160
Period size: 55 Copynumber: 2.1 Consensus size: 57
17057 TAGTTTACTT
* * *
17067 TCGCAACACGAAACTTAAAATCGCAACATGAAAAATGAATATCGCAACGCGAAATGAA
1 TCGCAACGCGAAACTGAAAATCGCAACA-GAAAAATGAAAATCGCAACGCGAAATGAA
**
17125 TCGCAACGCGAAA-TGAAAATCGCAAC-GCGAAATGAAAATCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACTGAAAATCGCAACAGAAAAATGAAAATCGCAACGCGAAATG--AA
17182 TCGCAACG
1 TCGCAACG
17190 ACAAAATCGC
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
55 24 0.41
57 22 0.38
58 12 0.21
ACGTcount: A:0.46, C:0.22, G:0.19, T:0.13
Consensus pattern (57 bp):
TCGCAACGCGAAACTGAAAATCGCAACAGAAAAATGAAAATCGCAACGCGAAATGAA
Found at i:17201 original size:33 final size:36
Alignment explanation
Indices: 17123--17208 Score: 124
Period size: 38 Copynumber: 2.4 Consensus size: 36
17113 ACGCGAAATG
*
17123 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAAC-CG-AATCAA
17161 AATCGCAACGCGAAATGAAAATCGCAA-CG-A-CAA
1 AATCGCAACGCGAAATGAAAATCGCAACCGAATCAA
17194 AATCGCAACGCGAAA
1 AATCGCAACGCGAAA
17209 CTATAATCGC
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
33 17 0.36
34 1 0.02
36 2 0.04
38 27 0.57
ACGTcount: A:0.48, C:0.23, G:0.20, T:0.09
Consensus pattern (36 bp):
AATCGCAACGCGAAATGAAAATCGCAACCGAATCAA
Found at i:17237 original size:19 final size:19
Alignment explanation
Indices: 17215--17335 Score: 91
Period size: 19 Copynumber: 6.8 Consensus size: 19
17205 GAAACTATAA
17215 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
17234 TCGCATTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
17248 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
17267 TTGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
17281 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
17300 TCGCGTTGCGATAGTCATTTT
1 TCGCGTTGCGATTTTCA--TT
*
17321 TCACGTTGCGATTTT
1 TCGCGTTGCGATTTT
17336 AAGTTCCAGA
Statistics
Matches: 77, Mismatches: 13, Indels: 22
0.69 0.12 0.20
Matches are distributed among these distances:
14 18 0.23
16 6 0.08
17 6 0.08
19 33 0.43
21 14 0.18
ACGTcount: A:0.12, C:0.21, G:0.21, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:17258 original size:14 final size:14
Alignment explanation
Indices: 17239--17293 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
17229 TCATTTCGCA
17239 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
*
17253 TTGCGATTTTCATTTTGCG
1 TTGCGA--TTC--TCT-CG
17272 TTGCGATTCTCTCG
1 TTGCGATTCTCTCG
17286 TTGCGATT
1 TTGCGATT
17294 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 16 0.47
15 2 0.06
16 3 0.09
17 3 0.09
18 2 0.06
19 8 0.24
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:17260 original size:33 final size:33
Alignment explanation
Indices: 17218--17311 Score: 170
Period size: 33 Copynumber: 2.8 Consensus size: 33
17208 ACTATAATCG
*
17218 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
*
17251 CGTTGCGATTTTCATTTTGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
17284 CGTTGCGATTTTCATTTCGCGTTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
17312 AGTCATTTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.11, C:0.22, G:0.21, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:19221 original size:14 final size:14
Alignment explanation
Indices: 19202--19237 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
19192 ATTGTTTAAT
19202 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
19216 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
19230 TGATTTGT
1 TGATTTGT
19238 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:19360 original size:19 final size:17
Alignment explanation
Indices: 19344--19394 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 17
19334 AAAAATGACT
19344 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG--A
*
19363 ATCGCAA--CGAGA-GA
1 ATCGCAATGCGAAATGA
19377 ATCGCAATGCGAAATGA
1 ATCGCAATGCGAAATGA
19394 A
1 A
19395 AATCGCAACG
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
14 8 0.30
16 5 0.19
17 7 0.26
19 7 0.26
ACGTcount: A:0.45, C:0.18, G:0.24, T:0.14
Consensus pattern (17 bp):
ATCGCAATGCGAAATGA
Found at i:19386 original size:33 final size:33
Alignment explanation
Indices: 19344--19437 Score: 136
Period size: 33 Copynumber: 2.8 Consensus size: 33
19334 AAAAATGACT
* *
19344 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
19377 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
* *
19410 ATTGCAACGCGAAACT-AAAATCGCAACG
1 ATCGCAATGCGAAA-TGAAAATCGCAACG
19438 CGAAACTAAA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 55 0.98
34 1 0.02
ACGTcount: A:0.46, C:0.21, G:0.20, T:0.13
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:19400 original size:19 final size:19
Alignment explanation
Indices: 19344--19402 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
19334 AAAAATGACT
19344 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
19363 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
19377 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
19396 ATCGCAA
1 ATCGCAA
19403 CGACAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:19459 original size:19 final size:19
Alignment explanation
Indices: 19376--19452 Score: 76
Period size: 19 Copynumber: 4.3 Consensus size: 19
19366 GCAACGAGAG
*
19376 AATCGCAATGCGAAA-TGAA
1 AATCGCAACGCGAAACT-AA
19395 AATCGCAA--CG--AC-AA
1 AATCGCAACGCGAAACTAA
*
19409 AATTGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
19428 AATCGCAACGCGAAACTAA
1 AATCGCAACGCGAAACTAA
*
19447 ATTCGC
1 AATCGC
19453 GTTGCGATTT
Statistics
Matches: 49, Mismatches: 3, Indels: 12
0.77 0.05 0.19
Matches are distributed among these distances:
14 9 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 2 0.04
19 33 0.67
ACGTcount: A:0.45, C:0.23, G:0.17, T:0.14
Consensus pattern (19 bp):
AATCGCAACGCGAAACTAA
Found at i:19496 original size:33 final size:33
Alignment explanation
Indices: 19452--19618 Score: 199
Period size: 33 Copynumber: 4.8 Consensus size: 33
19442 ACTAAATTCG
*
19452 CGTTGCGATTTTCATTTCGCTTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
** *
19485 CGTTGTAATTTTCATTTCGCATTGCGATAGTCATTT
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC-TCT
* * * *
19521 CCGCATTGCGATATTCATATTCGCGTTGCGATTTTCA
1 -CG--TTGCGATTTTCAT-TTCGCATTGCGATTCTCT
19558 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
19591 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
19619 AGACATTAAG
Statistics
Matches: 112, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
33 68 0.61
34 12 0.11
35 2 0.02
36 4 0.04
37 3 0.03
38 1 0.01
39 10 0.09
40 12 0.11
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:19527 original size:20 final size:19
Alignment explanation
Indices: 19496--19625 Score: 82
Period size: 19 Copynumber: 7.3 Consensus size: 19
19486 GTTGTAATTT
19496 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTGCGATAG
*
19515 TCATTTCCGCATTGCGATAT
1 TCATTT-CGCATTGCGATAG
*
19535 TCATATTCGCGTTGCG--A-
1 TCAT-TTCGCATTGCGATAG
* * **
19552 T--TTTCACGTTGCGATTT
1 TCATTTCGCATTGCGATAG
19569 TCATTTCGCATTGCGAT--
1 TCATTTCGCATTGCGATAG
* **
19586 TC-TCTCG--TTGCGATTT
1 TCATTTCGCATTGCGATAG
19602 TCATTTCGCATTGCGATAG
1 TCATTTCGCATTGCGATAG
*
19621 ACATT
1 TCATT
19626 AAGATGATTG
Statistics
Matches: 88, Mismatches: 11, Indels: 24
0.72 0.09 0.20
Matches are distributed among these distances:
14 17 0.19
15 1 0.01
16 6 0.07
17 8 0.09
18 1 0.01
19 29 0.33
20 24 0.27
21 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (19 bp):
TCATTTCGCATTGCGATAG
Found at i:19563 original size:14 final size:14
Alignment explanation
Indices: 19544--19604 Score: 59
Period size: 14 Copynumber: 4.0 Consensus size: 14
19534 TTCATATTCG
19544 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
19558 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
* *
19572 TTTCGCATTGCGATTCTCT
1 ---CG--TTGCGATTTTCA
19591 CGTTGCGATTTTCA
1 CGTTGCGATTTTCA
19605 TTTCGCATTG
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
14 24 0.63
16 2 0.05
17 2 0.05
19 10 0.26
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTTTCA
Found at i:23102 original size:20 final size:20
Alignment explanation
Indices: 23077--23318 Score: 186
Period size: 20 Copynumber: 12.0 Consensus size: 20
23067 GCAAAGCGAA
* *
23077 TACGTATTCGCATTGCGATT
1 TACGTATACGCGTTGCGATT
*
23097 TACGTA-ACCGCATTGCGATT
1 TACGTATA-CGCGTTGCGATT
* *
23117 TACGTATTCGCATTGCGATT
1 TACGTATACGCGTTGCGATT
*
23137 TACGGATACGCGTTGCGATT
1 TACGTATACGCGTTGCGATT
* *
23157 TATGGATACGCGTTGCGATT
1 TACGTATACGCGTTGCGATT
* *
23177 TATGGATACGCGTTGCGATTT
1 TACGTATACGCGTTGCGA-TT
*
23198 TACGTAT-TGTCGTTGCGATT
1 TACGTATACG-CGTTGCGATT
*
23218 TACGAATACGCGTTGCGATTT
1 TACGTATACGCGTTGCGA-TT
* ** *
23239 TACGGATACTTGTTGCGATAG
1 TACGTATACGCGTTGCGAT-T
*
23260 T-CAGAAT-CGCGTTGCGATT
1 TAC-GTATACGCGTTGCGATT
** * *
23279 TATATGTTCGCGTTGCGATT
1 TACGTATACGCGTTGCGATT
* * *
23299 TTCATATTCGCGTTGCGATT
1 TACGTATACGCGTTGCGATT
23319 CTGGAAAATC
Statistics
Matches: 186, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
19 2 0.01
20 147 0.79
21 37 0.20
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
TACGTATACGCGTTGCGATT
Found at i:23273 original size:61 final size:60
Alignment explanation
Indices: 23084--23280 Score: 175
Period size: 61 Copynumber: 3.2 Consensus size: 60
23074 GAATACGTAT
* * * * * * * *
23084 TCGCATTGCGATTTACGTAA-CCGCATTGCGATTTACGTATTCGCATTGCGAT-TTACGGA
1 TCGCGTTGCGATTTACG-AATACGCGTTGCGATTTACGGATACGCGTTGCGATGTCACGAA
* * * * * *
23143 TACGCGTTGCGATTTATGGATACGCGTTGCGATTTATGGATACGCGTTGCGATTTTACGTA
1 T-CGCGTTGCGATTTACGAATACGCGTTGCGATTTACGGATACGCGTTGCGATGTCACGAA
* **
23204 TTGTCGTTGCGATTTACGAATACGCGTTGCGATTTTACGGATACTTGTTGCGATAGTCA-GAA
1 TCG-CGTTGCGATTTACGAATACGCGTTGCGA-TTTACGGATACGCGTTGCGAT-GTCACGAA
23266 TCGCGTTGCGATTTA
1 TCGCGTTGCGATTTA
23281 TATGTTCGCG
Statistics
Matches: 112, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
59 2 0.02
60 41 0.37
61 45 0.40
62 22 0.20
63 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (60 bp):
TCGCGTTGCGATTTACGAATACGCGTTGCGATTTACGGATACGCGTTGCGATGTCACGAA
Found at i:23293 original size:81 final size:81
Alignment explanation
Indices: 23109--23318 Score: 214
Period size: 81 Copynumber: 2.6 Consensus size: 81
23099 CGTAACCGCA
** * * * *
23109 TTGCGATTTACGTATTCGCATTGCGATTTACGGATACGCGTTGCGA-TTTATGGATACGCGTTGC
1 TTGCGATTTATATGTTCGCGTTGCGATTTACGAATACGCGTTGCGATTTTACGGATACGCGTTGC
* *
23173 GATTTATGGATACGCG
66 GATTCATGAATACGCG
* * **
23189 TTGCGATTT-TACGTATTGTCGTTGCGATTTACGAATACGCGTTGCGATTTTACGGATACTTGTT
1 TTGCGATTTATATGT-TCG-CGTTGCGATTTACGAATACGCGTTGCGATTTTACGGATACGCGTT
23253 GCGATAGTCA-GAAT-CGCG
64 GCGAT--TCATGAATACGCG
* *
23271 TTGCGATTTATATGTTCGCGTTGCGATTTTC-ATATTCGCGTTGCGATT
1 TTGCGATTTATATGTTCGCGTTGCGATTTACGA-ATACGCGTTGCGATT
23319 CTGGAAAATC
Statistics
Matches: 107, Mismatches: 16, Indels: 13
0.79 0.12 0.10
Matches are distributed among these distances:
79 1 0.01
80 12 0.11
81 52 0.49
82 33 0.31
83 7 0.07
84 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.26, T:0.38
Consensus pattern (81 bp):
TTGCGATTTATATGTTCGCGTTGCGATTTACGAATACGCGTTGCGATTTTACGGATACGCGTTGC
GATTCATGAATACGCG
Found at i:23396 original size:20 final size:20
Alignment explanation
Indices: 23353--23400 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
23343 TACTATCGCA
*
23353 TTGCGATTCTGGGAACTGAT
1 TTGCGATTCTGGGAACTGAG
*
23373 TTGCGATTCTGGAGAAC-GCG
1 TTGCGATTCTGG-GAACTGAG
23393 TTGCGATT
1 TTGCGATT
23401 TTGTTGGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.33
Consensus pattern (20 bp):
TTGCGATTCTGGGAACTGAG
Found at i:32097 original size:71 final size:71
Alignment explanation
Indices: 31922--32129 Score: 228
Period size: 70 Copynumber: 3.0 Consensus size: 71
31912 AGGTGTTTTC
** * *
31922 CGTCTCACTCGAGACAGTTTCTCACGAAACAAAATTGCATCTCATTTGAGATATTTTCCC-TG-A
1 CGTCTCACTCGAGACAGTTTCTCTTGAAAAAAAATTTCATCTCATTTGAGATA-TTTCCCTTGAA
* *
31985 AATTTTT
65 AAATGTT
* * * * *
31992 TGTCTCACTCGAGATAGTTTTTCTTTAAACAAAAATTTCATCTCCTTT-ATGATATTTCCCTTGA
1 CGTCTCACTCGAGACAGTTTCTCTTGAAA-AAAAATTTCATCTCATTTGA-GATATTTCCCTTGA
32056 AAAATGTT
64 AAAATGTT
* * *
32064 CGTCTCACTCGAGAGAGTTTCCCTTGAAAAAAAA--TCATCTCATTTGAGATATTTCTCTTGAAA
1 CGTCTCACTCGAGACAGTTTCTCTTGAAAAAAAATTTCATCTCATTTGAGATATTTCCCTTGAAA
32127 AAT
66 AAT
32130 TTCATCCTGC
Statistics
Matches: 115, Mismatches: 18, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
69 28 0.24
70 31 0.27
71 26 0.23
72 30 0.26
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (71 bp):
CGTCTCACTCGAGACAGTTTCTCTTGAAAAAAAATTTCATCTCATTTGAGATATTTCCCTTGAAA
AATGTT
Found at i:32105 original size:35 final size:34
Alignment explanation
Indices: 32045--32128 Score: 87
Period size: 35 Copynumber: 2.4 Consensus size: 34
32035 CCTTTATGAT
*** *
32045 ATTTCCCTTGAAAAATGTTCGTCTCACTCGAGAG
1 ATTTCCCTTGAAAAAAAATCATCTCACTCGAGAG
* * *
32079 AGTTTCCCTTGAAAAAAAATCATCTCATTTGAGAT
1 A-TTTCCCTTGAAAAAAAATCATCTCACTCGAGAG
*
32114 ATTTCTCTTGAAAAA
1 ATTTCCCTTGAAAAA
32129 TTTCATCCTG
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 14 0.34
35 27 0.66
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (34 bp):
ATTTCCCTTGAAAAAAAATCATCTCACTCGAGAG
Found at i:34067 original size:23 final size:24
Alignment explanation
Indices: 34041--34093 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 24
34031 TCTTTAATGA
* *
34041 ATTTTTTTTCATT-TATTTTATTT
1 ATTTTTTTTCATTCGATTTTAATT
*
34064 ATTTATTTTCATTCGATTTTAATT
1 ATTTTTTTTCATTCGATTTTAATT
34088 -TTTTTT
1 ATTTTTT
34094 ATATTTTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.19, C:0.06, G:0.02, T:0.74
Consensus pattern (24 bp):
ATTTTTTTTCATTCGATTTTAATT
Found at i:39601 original size:45 final size:45
Alignment explanation
Indices: 39537--39625 Score: 178
Period size: 45 Copynumber: 2.0 Consensus size: 45
39527 GACTTAGCGA
39537 GCAATATAATAATAATAATGAAATATAATGGACATGTCAACATGG
1 GCAATATAATAATAATAATGAAATATAATGGACATGTCAACATGG
39582 GCAATATAATAATAATAATGAAATATAATGGACATGTCAACATG
1 GCAATATAATAATAATAATGAAATATAATGGACATGTCAACATG
39626 AGATGAAGTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.49, C:0.09, G:0.15, T:0.27
Consensus pattern (45 bp):
GCAATATAATAATAATAATGAAATATAATGGACATGTCAACATGG
Found at i:39849 original size:23 final size:23
Alignment explanation
Indices: 39823--39867 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
39813 CACCACAGCT
*
39823 CGTATAAATGCACTGAAGTGCCG
1 CGTAGAAATGCACTGAAGTGCCG
* *
39846 CGTAGAATTGCACTGTAGTGCC
1 CGTAGAAATGCACTGAAGTGCC
39868 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (23 bp):
CGTAGAAATGCACTGAAGTGCCG
Found at i:41721 original size:19 final size:19
Alignment explanation
Indices: 41697--41735 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
41687 GCTTGGGTCA
41697 TCACAAGGTACAATAGTCC
1 TCACAAGGTACAATAGTCC
*
41716 TCACAAGGTACAATGGTCC
1 TCACAAGGTACAATAGTCC
41735 T
1 T
41736 AACACATGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (19 bp):
TCACAAGGTACAATAGTCC
Found at i:43681 original size:10 final size:10
Alignment explanation
Indices: 43658--43697 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
43648 ATTTAATTAA
43658 ATAGTATTATT
1 ATAGTA-TATT
*
43669 ATAGTATAGT
1 ATAGTATATT
43679 ATAGTATATT
1 ATAGTATATT
*
43689 ATATTATAT
1 ATAGTATAT
43698 ATTATAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 20 0.77
11 6 0.23
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (10 bp):
ATAGTATATT
Found at i:44697 original size:20 final size:21
Alignment explanation
Indices: 44669--44720 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
44659 AATAAACATT
* *
44669 AATATTTATTATA-TTTAATA
1 AATAATTATAATATTTTAATA
*
44689 AATAATTATAATATTTTATTA
1 AATAATTATAATATTTTAATA
*
44710 AATAATAATAA
1 AATAATTATAA
44721 CACCATCGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 11 0.41
21 16 0.59
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATAATTATAATATTTTAATA
Found at i:50434 original size:20 final size:21
Alignment explanation
Indices: 50397--50436 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
50387 AGACTTTGAT
*
50397 GTGGAAGATAAAGCTAAAAAG
1 GTGGAAGATAAAGATAAAAAG
50418 GTGGAAGA-AAAGATAAAAA
1 GTGGAAGATAAAGATAAAAA
50437 TGTTAGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.57, C:0.03, G:0.28, T:0.12
Consensus pattern (21 bp):
GTGGAAGATAAAGATAAAAAG
Found at i:57015 original size:16 final size:15
Alignment explanation
Indices: 56989--57018 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
56979 ATCCTAAGTT
56989 GAAAAAAAGAAAAAA
1 GAAAAAAAGAAAAAA
57004 GAAAAAAGAGAAAAA
1 GAAAAAA-AGAAAAA
57019 TATTTAGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
GAAAAAAAGAAAAAA
Found at i:57032 original size:66 final size:69
Alignment explanation
Indices: 56956--57088 Score: 182
Period size: 66 Copynumber: 2.0 Consensus size: 69
56946 AATACTTCGC
* * *
56956 TTAGGATGAAAACCCGAGAGGACATCCTAAGTTGAAAAAAAGAAAAA-AG-A-AAAAAGAGAAAA
1 TTAGGATGAAAACCCGAAAGGACACCCTAAATTGAAAAAAAGAAAAAGAGAAGAAAAAGAGAAAA
57018 ATAT
66 ATAT
* * *
57022 TTAGGGTGAAAACCCGAAAGGGCGCCCTAAATTGAAAAAAAGAAAAAGAGAAAGAAAAAGAGAAA
1 TTAGGATGAAAACCCGAAAGGACACCCTAAATTGAAAAAAAGAAAAAGAG-AAGAAAAAGAGAAA
57087 AA
65 AA
57089 AGAACGAAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
66 41 0.72
67 2 0.04
69 1 0.02
70 13 0.23
ACGTcount: A:0.57, C:0.10, G:0.22, T:0.11
Consensus pattern (69 bp):
TTAGGATGAAAACCCGAAAGGACACCCTAAATTGAAAAAAAGAAAAAGAGAAGAAAAAGAGAAAA
ATAT
Found at i:57077 original size:12 final size:12
Alignment explanation
Indices: 57060--57086 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
57050 AAATTGAAAA
57060 AAAGAAAAAGAG
1 AAAGAAAAAGAG
57072 AAAGAAAAAGAG
1 AAAGAAAAAGAG
57084 AAA
1 AAA
57087 AAAGAACGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAGAG
Found at i:57999 original size:62 final size:63
Alignment explanation
Indices: 57902--58045 Score: 238
Period size: 63 Copynumber: 2.3 Consensus size: 63
57892 ACAACGCAAG
* *
57902 TTCAACTTCACGACGAAGGGACCGTTGGTTGTCAAC-AACAACTTCCCAATTTCGGAGCCAAT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCGAAGCCAAT
*
57964 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGAAGCCAAT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCGAAGCCAAT
58027 TTCAACTTCAC-AGCGAAGG
1 TTCAACTTCACGA-CGAAGG
58046 ATATTGGACT
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
62 36 0.47
63 41 0.53
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (63 bp):
TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCGAAGCCAAT
Found at i:58273 original size:106 final size:106
Alignment explanation
Indices: 57964--59115 Score: 1835
Period size: 106 Copynumber: 10.9 Consensus size: 106
57954 CGGAGCCAAT
*
57964 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTC-GAAGCCAATT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAG-AGCCAATT
*
58028 TCAACTTCACAGCGAAGGATATTGGACTCTAGACAACGCAAG
65 TCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * * * *
58070 TTCAACTTCATGACGAAGGGACCGTTGGTTATCAAC-CACAACTTCCCAATTTCAGAGTCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
* *
58134 CAACTTCACAGCGAATGATATTGGACTCGAGACAACGCAAG
66 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * *
58175 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTTCGGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
* *
58240 CAAATTCACAGCGAAGCATATTGGACTCCAGACAACGCAAG
66 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* *
58281 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCCATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
*
58346 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
66 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * * * * *
58387 TTCAACTTCATGACGAAGGGGCTGCTGGTTGTTAACAAATAATTTCCCAATTTCAGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
58452 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
66 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * *
58493 TTCAACTTCACGACGAAGGGATCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCCATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
58558 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
66 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * * *
58599 TTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACGACTT-CTAATTTCAGAGCCCATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
*
58663 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAG
66 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* *
58704 TTCAACTTCACGACGAAGGGACCGCTGGTTGTTAAC-AACAACTTCCCAATTTCGGAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
*
58768 CAACTTCACAGCGAAGGATATTGGACTCGAGACAACGCAAG
66 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * * *
58809 TTCAACTTCACGACGAAGGAACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAACCAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
58874 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
66 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * * * *
58915 TTCAACTTCATGATGAAGGGACCGCTGGTTGTCAACAAAAAACTTCTCAATTTCAGAGCCCATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
*
58980 CAACTTCACATCGAAGGATATTGGACTCCAGACAACGCAAG
66 CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
*
59021 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCTAATTT
1 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
** *
59086 CAACTTCACAATGAATGATATTGGACTCCA
66 CAACTTCACAGCGAAGGATATTGGACTCCA
59116 ATTCAAGGCT
Statistics
Matches: 958, Mismatches: 84, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
104 7 0.01
105 275 0.29
106 676 0.71
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (106 bp):
TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCAATTT
CAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:59070 original size:634 final size:635
Alignment explanation
Indices: 57964--59115 Score: 1975
Period size: 634 Copynumber: 1.8 Consensus size: 635
57954 CGGAGCCAAT
* *
57964 TTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGAAGCCAATTT
1 TTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACTTCCCAATTTCGAAGCCAATTT
* * *
58029 CAACTTCACAGCGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCATGACGAAGGGACCG
66 CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
* * * *
58094 TTGGTTATCAACCACAACTTCCCAATTTCAGAGTCAATTTCAACTTCACAGCGAATGATATTGGA
131 CTGGTTATCAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
* *
58159 CTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCA
196 CTCGAGACAACGCAAGTTCAACTTCACGACGAAGGAACCGCTGGTTGTCAACAAACAATTTCCCA
*
58224 ATTTCGGAGCCAATTTCAAATTCACAGCGAAGCATATTGGACTCCAGACAACGCAAGTTCAACTT
261 ATTTCGGAACCAATTTCAAATTCACAGCGAAGCATATTGGACTCCAGACAACGCAAGTTCAACTT
*
58289 CACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCCATTTCAACTTCA
326 CACGACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCTCAATTTCAGAGCCCATTTCAACTTCA
* * *
58354 CAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGGCTGCTGGTTGT
391 CAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
* * * *
58419 TAACAAATAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
456 CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
58484 CAACGCAAGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAACAAACAACTTCTCAATTTCAG
521 CAACGCAAGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAACAAACAACTTCTCAATTTCAG
58549 AGCCCATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
586 AGCCCATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
* * *
58599 TTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACGACTT-CTAATTTC-AGAGCCCATT
1 TTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACTTCCCAATTTCGA-AGCCAATT
58662 TCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
65 TCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACC
* * *
58727 GCTGGTTGTTAACAACAACTTCCCAATTTCGGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
130 GCTGGTTATCAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
58792 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGAACCGCTGGTTGTCAACAAACAATTTCCC
195 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGAACCGCTGGTTGTCAACAAACAATTTCCC
* *
58857 AATTTCGGAACCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACT
260 AATTTCGGAACCAATTTCAAATTCACAGCGAAGCATATTGGACTCCAGACAACGCAAGTTCAACT
* *
58922 TCATGATGAAGGGACCGCTGGTTGTCAACAAAAAACTTCTCAATTTCAGAGCCCATTTCAACTTC
325 TCACGACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCTCAATTTCAGAGCCCATTTCAACTTC
*
58987 ACATCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
390 ACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* * *
59052 TCAACAAACAACTTCCCAATTTCAGAGCTAATTTCAACTTCACAATGAATGATATTGGACTCCA
455 TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCA
59116 ATTCAAGGCT
Statistics
Matches: 482, Mismatches: 34, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
633 1 0.00
634 439 0.91
635 42 0.09
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (635 bp):
TTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACTTCCCAATTTCGAAGCCAATTT
CAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCG
CTGGTTATCAACAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGA
CTCGAGACAACGCAAGTTCAACTTCACGACGAAGGAACCGCTGGTTGTCAACAAACAATTTCCCA
ATTTCGGAACCAATTTCAAATTCACAGCGAAGCATATTGGACTCCAGACAACGCAAGTTCAACTT
CACGACGAAGGGACCGCTGGTTGTCAACAAAAAACTTCTCAATTTCAGAGCCCATTTCAACTTCA
CAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGT
CAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
CAACGCAAGTTCAACTTCACGACGAAGGGATCGCTGGTTGTCAACAAACAACTTCTCAATTTCAG
AGCCCATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAG
Found at i:60932 original size:2 final size:2
Alignment explanation
Indices: 60927--60981 Score: 64
Period size: 2 Copynumber: 29.0 Consensus size: 2
60917 TATTCGATGT
*
60927 TA TA TA TA TA TA T- TT TA T- TA CTA T- TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA
60967 TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA
60982 CCCACCTTAA
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
1 4 0.09
2 41 0.87
3 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:61716 original size:36 final size:37
Alignment explanation
Indices: 61659--61729 Score: 117
Period size: 36 Copynumber: 1.9 Consensus size: 37
61649 GAAATCAATT
*
61659 TAAAAATAATATATTAAGTAACTAATTTAATTTAATA
1 TAAAAATAATATACTAAGTAACTAATTTAATTTAATA
*
61696 TAAAAAT-ATCTACTAAGTAACTAATTTAATTTAA
1 TAAAAATAATATACTAAGTAACTAATTTAATTTAA
61730 ACAAGTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
36 25 0.78
37 7 0.22
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (37 bp):
TAAAAATAATATACTAAGTAACTAATTTAATTTAATA
Found at i:62052 original size:20 final size:20
Alignment explanation
Indices: 62027--62112 Score: 68
Period size: 20 Copynumber: 4.2 Consensus size: 20
62017 CAACTTTACC
62027 TTCTCTTTTTCTTTTTTTCT
1 TTCTCTTTTTCTTTTTTTCT
*
62047 TTCTC-TTTTCTCTTCTTTCT
1 TTCTCTTTTTCT-TTTTTTCT
* *
62067 TCCTCTTTTCTCTTCTCTCTTCT
1 TTCTCTTTT-TCTT-T-TTTTCT
**
62090 TTCT-TCTTCCCTTTTTTTCT
1 TTCTCT-TTTTCTTTTTTTCT
62110 TTC
1 TTC
62113 ACCCTCGGTG
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
19 6 0.12
20 24 0.46
21 5 0.10
22 8 0.15
23 9 0.17
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (20 bp):
TTCTCTTTTTCTTTTTTTCT
Found at i:62088 original size:7 final size:7
Alignment explanation
Indices: 62044--62096 Score: 56
Period size: 7 Copynumber: 7.9 Consensus size: 7
62034 TTTCTTTTTT
62044 TCTT-TC
1 TCTTCTC
*
62050 TCTTTTC
1 TCTTCTC
*
62057 TCTTCTT
1 TCTTCTC
62064 TCTTC-C
1 TCTTCTC
*
62070 TCTTTTC
1 TCTTCTC
62077 TCTTCTC
1 TCTTCTC
*
62084 TCTTCTT
1 TCTTCTC
62091 TCTTCT
1 TCTTCT
62097 TCCCTTTTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
6 8 0.21
7 31 0.79
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (7 bp):
TCTTCTC
Found at i:62109 original size:27 final size:31
Alignment explanation
Indices: 62026--62109 Score: 94
Period size: 27 Copynumber: 2.9 Consensus size: 31
62016 CCAACTTTAC
62026 CTTCTCTT-TTTCTT--T-TTTTCTTTCTCT
1 CTTCTCTTCTTTCTTCCTCTTTTCTTTCTCT
*
62053 TTTCTCTTCTTTCTTCCTCTTTTCTCTTCTCT
1 CTTCTCTTCTTTCTTCCTCTTTTCT-TTCTCT
62085 CTTCT-TTC-TTCTTCC-CTTTT-TTTCT
1 CTTCTCTTCTTTCTTCCTCTTTTCTTTCT
62110 TTCACCCTCG
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
27 11 0.22
28 7 0.14
29 5 0.10
30 8 0.16
31 9 0.18
32 10 0.20
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (31 bp):
CTTCTCTTCTTTCTTCCTCTTTTCTTTCTCT
Found at i:63348 original size:122 final size:122
Alignment explanation
Indices: 63126--63380 Score: 458
Period size: 122 Copynumber: 2.1 Consensus size: 122
63116 GTGATCGTTA
*
63126 AGTCTCAAATTTCATGGATTGCTTTGCCTCAACACCTTGAGTTTGAATCTAACCTCTATTATGTC
1 AGTC-CAAATTTCATGGATTACTTTGCCTCAACACCTTGAGTTTGAATCTAACCTCTATTATGTC
63191 GTAATTTGTTCCAAAGTCAACGAATCAGAGATTGAAAGTGAGGAAGTCGAATCATTTC
65 GTAATTTGTTCCAAAGTCAACGAATCAGAGATTGAAAGTGAGGAAGTCGAATCATTTC
* *
63249 ATTCCAAATTTCATGGATTACTTTGCCTCGACACCTTGAGTTTGAATCTAACCTCTATTATGTCG
1 AGTCCAAATTTCATGGATTACTTTGCCTCAACACCTTGAGTTTGAATCTAACCTCTATTATGTCG
63314 TAATTTGCTT-CAAAGTCAACGAATCAGAGATTGAAAGTGAGGAAGTCGAATCATTTC
66 TAATTTG-TTCCAAAGTCAACGAATCAGAGATTGAAAGTGAGGAAGTCGAATCATTTC
63371 AGTCCAAATT
1 AGTCCAAATT
63381 CATAGGTTTT
Statistics
Matches: 127, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
122 122 0.96
123 5 0.04
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (122 bp):
AGTCCAAATTTCATGGATTACTTTGCCTCAACACCTTGAGTTTGAATCTAACCTCTATTATGTCG
TAATTTGTTCCAAAGTCAACGAATCAGAGATTGAAAGTGAGGAAGTCGAATCATTTC
Found at i:70334 original size:134 final size:129
Alignment explanation
Indices: 70094--70347 Score: 445
Period size: 134 Copynumber: 1.9 Consensus size: 129
70084 TCTGATAAAT
70094 TTGAATTTCTTTCAAGAGTTCTTAATTTTTCTTTCAGATGATCAGAGCTAAAACCAACTCTAGCT
1 TTGAATTTCTTTCAAGAGTTCTTAATTTTTCTTTCAGATGATCAGAGCTAAAACCAACTCTAGCT
70159 TGAGCTAAGATTAATTTATTAATAATAGCAGTCATAGTCAGGCGGTTCCATGGTCAAGAATTTC
66 TGAGCTAAGATTAATTTATTAATAATAGCAGTCATAGTCAGGCGGTTCCATGGTCAAGAATTTC
*
70223 TTGATTTTCTTTCAAGAGTTCTTAATTTTTCTATCTTTCAGATGATACAGAGCTAAAACCAACTC
1 TTGAATTTCTTTCAAGAGTTCTTAA--TTT-T-TCTTTCAGATGAT-CAGAGCTAAAACCAACTC
*
70288 TAGCTTGGGCTAAGATTAATTTATTAATAATAGCAGTCATAGTCAGGCGGTTCCATGGTC
61 TAGCTTGAGCTAAGATTAATTTATTAATAATAGCAGTCATAGTCAGGCGGTTCCATGGTC
70348 GAGTGGTTAG
Statistics
Matches: 118, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
129 24 0.20
131 3 0.03
132 1 0.01
133 13 0.11
134 77 0.65
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (129 bp):
TTGAATTTCTTTCAAGAGTTCTTAATTTTTCTTTCAGATGATCAGAGCTAAAACCAACTCTAGCT
TGAGCTAAGATTAATTTATTAATAATAGCAGTCATAGTCAGGCGGTTCCATGGTCAAGAATTTC
Found at i:71814 original size:23 final size:23
Alignment explanation
Indices: 71781--71824 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
71771 AATACATATA
*
71781 TGTCCCGAAGGACCACGTAGAAT
1 TGTCCCCAAGGACCACGTAGAAT
*
71804 TGTCCCCAAGGACCGCGTAGA
1 TGTCCCCAAGGACCACGTAGA
71825 CCCTCTACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.16
Consensus pattern (23 bp):
TGTCCCCAAGGACCACGTAGAAT
Found at i:79474 original size:26 final size:27
Alignment explanation
Indices: 79445--79498 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
79435 TTATTTTAAA
79445 TATTAAATAAAA-TAAATATTATTATT
1 TATTAAATAAAAGTAAATATTATTATT
* *
79471 TATTATATAAAAGTGAATATTATTATT
1 TATTAAATAAAAGTAAATATTATTATT
79498 T
1 T
79499 TAAAATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (27 bp):
TATTAAATAAAAGTAAATATTATTATT
Found at i:96037 original size:3 final size:3
Alignment explanation
Indices: 96029--96060 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
96019 TAAATGTTAT
96029 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
96061 TTTGCTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:97541 original size:2 final size:2
Alignment explanation
Indices: 97536--97561 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
97526 TTTAGTTCTA
97536 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
97562 CTATTATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98174 original size:15 final size:15
Alignment explanation
Indices: 98154--98183 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
98144 GGAGCAAGAG
98154 AGATCACCTTCATGC
1 AGATCACCTTCATGC
*
98169 AGATCATCTTCATGC
1 AGATCACCTTCATGC
98184 TTCGGTACTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.30, G:0.13, T:0.30
Consensus pattern (15 bp):
AGATCACCTTCATGC
Found at i:106483 original size:35 final size:34
Alignment explanation
Indices: 106398--106484 Score: 97
Period size: 35 Copynumber: 2.5 Consensus size: 34
106388 AAAATAATTT
*
106398 TAAATACAACAAACTTACAATAAGTATTAAATGG
1 TAAATACAACAAAATTACAATAAGTATTAAATGG
* *
106432 TAAATGATAACCAAATTACAATAACTGATATTAAATGG
1 TAAAT-ACAACAAAATTACAATAA--G-TATTAAATGG
106470 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
106485 ACTAAAATAC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
34 5 0.11
35 24 0.53
36 1 0.02
37 4 0.09
38 11 0.24
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGTATTAAATGG
Found at i:108820 original size:17 final size:18
Alignment explanation
Indices: 108800--108838 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
108790 ATTATATAAG
108800 TAAAAT-ATTAAATAAAT
1 TAAAATGATTAAATAAAT
*
108817 TAAAATGCTTAAATAAAT
1 TAAAATGATTAAATAAAT
108835 TAAA
1 TAAA
108839 TACAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (18 bp):
TAAAATGATTAAATAAAT
Found at i:108923 original size:10 final size:10
Alignment explanation
Indices: 108892--108926 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
108882 ATATAAAAAT
108892 ATTTGAGAGA
1 ATTTGAGAGA
* *
108902 AGTTGATAGA
1 ATTTGAGAGA
108912 ATTTGAGAGA
1 ATTTGAGAGA
108922 ATTTG
1 ATTTG
108927 GCGTGATGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.29, T:0.34
Consensus pattern (10 bp):
ATTTGAGAGA
Found at i:111218 original size:31 final size:31
Alignment explanation
Indices: 111172--111238 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
111162 CGAACTGAAT
* *
111172 TTTAATCCGATCCGAAAGAAACCTGAACCAAA
1 TTTAATCCGACCCGAAAGAAACCCGAA-CAAA
* *
111204 TTTAA-CCGACCCGAAAGCAACCCGAACATA
1 TTTAATCCGACCCGAAAGAAACCCGAACAAA
111234 TTTAA
1 TTTAA
111239 ATTGGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 8 0.26
31 18 0.58
32 5 0.16
ACGTcount: A:0.42, C:0.27, G:0.12, T:0.19
Consensus pattern (31 bp):
TTTAATCCGACCCGAAAGAAACCCGAACAAA
Found at i:111973 original size:32 final size:32
Alignment explanation
Indices: 111899--111983 Score: 89
Period size: 32 Copynumber: 2.7 Consensus size: 32
111889 ACCTAAATCG
* * * * * *
111899 AAAATCAACCGATTTGATATTGATCCGATCCG
1 AAAATCAACCGATCTGGTATTAACCCGACCCA
* *
111931 AAATTTAACCGATCTGGTATTAACCCGACCCA
1 AAAATCAACCGATCTGGTATTAACCCGACCCA
*
111963 AAAATCAACCGATCAGGTATT
1 AAAATCAACCGATCTGGTATT
111984 GACCTGAGCT
Statistics
Matches: 42, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.26
Consensus pattern (32 bp):
AAAATCAACCGATCTGGTATTAACCCGACCCA
Found at i:115252 original size:40 final size:43
Alignment explanation
Indices: 115201--115301 Score: 109
Period size: 48 Copynumber: 2.3 Consensus size: 43
115191 ATAAATTCGA
*
115201 ATGTATGATATG-TATA-TATAATTTATTAATGCATGCATG-T
1 ATGTATAATATGATATAGTATAATTTATTAATGCATGCATGAT
*
115241 ATGTATAATATGTATGCATATATGTATAATTTATTAATGCATGTATGAT
1 ATGTAT-A-A--TATG-ATATA-GTATAATTTATTAATGCATGCATGAT
115290 ATGTATAATATG
1 ATGTATAATATG
115302 CATAGTGTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
40 6 0.12
42 1 0.02
44 4 0.08
45 4 0.08
46 4 0.08
47 1 0.02
48 23 0.46
49 7 0.14
ACGTcount: A:0.37, C:0.04, G:0.15, T:0.45
Consensus pattern (43 bp):
ATGTATAATATGATATAGTATAATTTATTAATGCATGCATGAT
Found at i:115257 original size:21 final size:21
Alignment explanation
Indices: 115233--115295 Score: 67
Period size: 21 Copynumber: 3.1 Consensus size: 21
115223 TTATTAATGC
115233 ATGCATGTATGTATAATATGT
1 ATGCATGTATGTATAATATGT
*
115254 ATGCATATATGTATAAT-T-T
1 ATGCATGTATGTATAATATGT
** * *
115273 ATTAATGCATGTATGATATGT
1 ATGCATGTATGTATAATATGT
115294 AT
1 AT
115296 AATATGCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 13 0.38
20 2 0.06
21 19 0.56
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.44
Consensus pattern (21 bp):
ATGCATGTATGTATAATATGT
Found at i:115718 original size:2 final size:2
Alignment explanation
Indices: 115663--115701 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
115653 AAATATAAAC
115663 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
115702 AAGTAATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:115757 original size:21 final size:21
Alignment explanation
Indices: 115732--115792 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
115722 TATAGAAATC
*
115732 CTAAATCATAAACCATAAACT
1 CTAAATCATAAACCATAAACA
* * *
115753 TTAAATCACAAA-TACTAAACA
1 CTAAATCATAAACCA-TAAACA
*
115774 CTAAATCATAAACCCTAAA
1 CTAAATCATAAACCATAAA
115793 ATAAATAGAC
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
20 1 0.03
21 29 0.97
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (21 bp):
CTAAATCATAAACCATAAACA
Found at i:116139 original size:23 final size:25
Alignment explanation
Indices: 116083--116139 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 25
116073 TTAATCATGT
*
116083 TTTATATAATTTACATTTAAATAAT
1 TTTATATAATTTACATTTAAATAAA
*
116108 TTTAT-TAATTT-TA-TTAAATAAA
1 TTTATATAATTTACATTTAAATAAA
116130 TTTATATAAT
1 TTTATATAAT
116140 ATGTATGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 13 0.45
23 5 0.17
24 6 0.21
25 5 0.17
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (25 bp):
TTTATATAATTTACATTTAAATAAA
Found at i:116183 original size:15 final size:15
Alignment explanation
Indices: 116158--116194 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
116148 ATAAACCATG
116158 TATAGTATATATAAAC
1 TATA-TATATATAAAC
*
116174 TATATATATATAAAT
1 TATATATATATAAAC
116189 TATATA
1 TATATA
116195 AAGTAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:116279 original size:7 final size:7
Alignment explanation
Indices: 116269--116339 Score: 63
Period size: 7 Copynumber: 10.3 Consensus size: 7
116259 TAGTTTATAG
116269 AAACCCT
1 AAACCCT
116276 AAACCCT
1 AAACCCT
116283 AAACCCT
1 AAACCCT
116290 AAACCCT
1 AAACCCT
**
116297 -AATTCT
1 AAACCCT
***
116303 AAAATTT
1 AAACCCT
*
116310 AAACCAT
1 AAACCCT
*
116317 AAACACT
1 AAACCCT
*
116324 AAACCAT
1 AAACCCT
116331 AAACCCT
1 AAACCCT
116338 AA
1 AA
116340 TTTAAATGGA
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
6 4 0.08
7 47 0.92
ACGTcount: A:0.49, C:0.31, G:0.00, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:116314 original size:41 final size:40
Alignment explanation
Indices: 116269--116345 Score: 118
Period size: 41 Copynumber: 1.9 Consensus size: 40
116259 TAGTTTATAG
* * *
116269 AAACCCTAAACCCTAAACCCTAAACCCTAATTCTAAAATTT
1 AAACCATAAACACTAAACCATAAACCCTAATT-TAAAATTT
116310 AAACCATAAACACTAAACCATAAACCCTAATTTAAA
1 AAACCATAAACACTAAACCATAAACCCTAATTTAAA
116346 TGGACTAGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
40 4 0.12
41 29 0.88
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (40 bp):
AAACCATAAACACTAAACCATAAACCCTAATTTAAAATTT
Found at i:116679 original size:13 final size:13
Alignment explanation
Indices: 116647--116673 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
116637 TAATTTACAT
116647 TTAAATAATTTTA
1 TTAAATAATTTTA
116660 TTAAATAATTTTA
1 TTAAATAATTTTA
116673 T
1 T
116674 ATAATATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:116722 original size:15 final size:15
Alignment explanation
Indices: 116697--116733 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
116687 ATAAACCATG
116697 TATAGTATATATAAAC
1 TATA-TATATATAAAC
116713 TATATATATATAAAC
1 TATATATATATAAAC
116728 TATATA
1 TATATA
116734 AAGTAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:117041 original size:20 final size:21
Alignment explanation
Indices: 117016--117058 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
117006 TATTTTGTCT
117016 TTATAAATTAAACTATA-TAA
1 TTATAAATTAAACTATATTAA
117036 TTATAAATTAAACTATATTAA
1 TTATAAATTAAACTATATTAA
117057 TT
1 TT
117059 TTCCTTTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
TTATAAATTAAACTATATTAA
Found at i:117344 original size:16 final size:16
Alignment explanation
Indices: 117325--117406 Score: 119
Period size: 16 Copynumber: 5.1 Consensus size: 16
117315 TCATTTACAA
*
117325 GTCAGGTTAAAAACAG
1 GTCAGGTTGAAAACAG
*
117341 GTCAAGTTGAAAACAG
1 GTCAGGTTGAAAACAG
* *
117357 GTCAGGTTAAAAACAA
1 GTCAGGTTGAAAACAG
*
117373 GTCAGGTTGAAAACAT
1 GTCAGGTTGAAAACAG
117389 GTCAGGTTGAAAACAG
1 GTCAGGTTGAAAACAG
117405 GT
1 GT
117407 TGGGTAATAC
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 58 1.00
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.21
Consensus pattern (16 bp):
GTCAGGTTGAAAACAG
Found at i:125959 original size:13 final size:13
Alignment explanation
Indices: 125941--125971 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
125931 CCAGAAACGT
*
125941 GTCGGGTTTGGGA
1 GTCGGGTTCGGGA
125954 GTCGGGTTCGGGA
1 GTCGGGTTCGGGA
125967 GTCGG
1 GTCGG
125972 TTACGGTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.06, C:0.13, G:0.55, T:0.26
Consensus pattern (13 bp):
GTCGGGTTCGGGA
Found at i:127563 original size:14 final size:14
Alignment explanation
Indices: 127535--127579 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
127525 TAGACAATTA
*
127535 AAATGAAAATAAAAT
1 AAATAAAAAT-AAAT
*
127550 TAATAAAAATAAAT
1 AAATAAAAATAAAT
*
127564 AAATATAAATAAAT
1 AAATAAAAATAAAT
127578 AA
1 AA
127580 CAACGATAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
14 18 0.69
15 8 0.31
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:127577 original size:10 final size:10
Alignment explanation
Indices: 127541--127578 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
127531 ATTAAAATGA
127541 AAATAAA-AT
1 AAATAAATAT
* *
127550 TAATAAAAAT
1 AAATAAATAT
127560 AAATAAATAT
1 AAATAAATAT
127570 AAATAAATA
1 AAATAAATA
127579 ACAACGATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
9 6 0.24
10 19 0.76
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
AAATAAATAT
Found at i:127895 original size:36 final size:36
Alignment explanation
Indices: 127795--127949 Score: 127
Period size: 38 Copynumber: 4.2 Consensus size: 36
127785 CTTTTTAAAA
* **
127795 ATTATATTTATTTTAAAAATGTTTTTTAAAAACCGTAT
1 ATTATATTTATTTT-AAAA-GTGTTTTAAAAACTATAT
* **
127833 A-TAT-TTTTTTTTAAAAACGTTTTAAAAACTATAT
1 ATTATATTTATTTTAAAAGTGTTTTAAAAACTATAT
*
127867 ATTATATTTATTTTCAAAGTGTTTTAAAAACTATAT
1 ATTATATTTATTTTAAAAGTGTTTTAAAAACTATAT
** * *
127903 AATATATAAATGTTTTAAATA-TGTTTTCAAAACTATATT
1 -AT-TATATTTATTTTAAA-AGTGTTTTAAAAACTATA-T
127942 ATATATAT
1 AT-TATAT
127950 ATATATAAAA
Statistics
Matches: 95, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
34 14 0.15
35 7 0.07
36 33 0.35
37 5 0.05
38 34 0.36
39 2 0.02
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (36 bp):
ATTATATTTATTTTAAAAGTGTTTTAAAAACTATAT
Found at i:127937 original size:38 final size:36
Alignment explanation
Indices: 127710--127948 Score: 124
Period size: 36 Copynumber: 6.6 Consensus size: 36
127700 AAAAATGTTT
* *
127710 TTTTTAAAACTATAT-AT-TATAAGTTTTTAAAATG
1 TTTTAAAAACTATATAATATATAAATTTTTAAAATG
* * *
127744 ATTTCAAAACTATATAATATATATATGTTTTCAAAATG
1 TTTTAAAAACTATATAATATATAAAT-TTTT-AAAATG
*
127782 TTTCTTTTTAAAAA-T-TAT-AT-T-T--ATTTTAAAAATG
1 -----TTTTAAAAACTATATAATATATAAATTTTTAAAATG
** ** *
127816 TTTTTTAAAAACCGTAT-ATAT-T-TTTTTTTAAAAACG
1 --TTTTAAAAACTATATAATATATAAATTTTT-AAAATG
* ** * *
127852 TTTTAAAAACTATATATTATATTTATTTTCAAAGTG
1 TTTTAAAAACTATATAATATATAAATTTTTAAAATG
127888 TTTTAAAAACTATATAATATATAAATGTTTTAAATATG
1 TTTTAAAAACTATATAATATATAAAT-TTTTAAA-ATG
* *
127926 TTTTCAAAACTATATTATATATA
1 TTTTAAAAACTATATAATATATA
127949 TATATATAAA
Statistics
Matches: 160, Mismatches: 26, Indels: 34
0.73 0.12 0.15
Matches are distributed among these distances:
31 10 0.06
33 5 0.03
34 34 0.21
35 12 0.08
36 40 0.25
37 15 0.09
38 30 0.19
39 1 0.01
40 2 0.01
41 3 0.02
42 1 0.01
43 7 0.04
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (36 bp):
TTTTAAAAACTATATAATATATAAATTTTTAAAATG
Found at i:128755 original size:84 final size:82
Alignment explanation
Indices: 128592--129679 Score: 1163
Period size: 84 Copynumber: 13.2 Consensus size: 82
128582 GGAGCCTTTG
* * * * * *
128592 GCAGATAGCCCTTCTCGACTTAAGCTATGCTGTATATGATGTGCCTTGGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
128657 ACTCAAAGGTCTTTGTT
66 ACTCAAAGGTCTTTGTT
* * * * * *
128674 GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAATC
1 G-CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTC
* *
128739 GAACTTAAGGGTCTTTG--
64 GAACTCAAAGGTCTTTGTT
* * * * * *
128756 GCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATATGCCTTGGAGCTGAGCATAATCGA
1 GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
128821 ACTCAAAGGTCTTTTGTT
66 ACTCAAAGGTC-TTTGTT
* * * *
128839 GGCAGACAACCCTTCTAGACTTAAGTTTTGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCG
1 -GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCG
128904 AACTCAAAGGTCTTGTGTT
65 AACTCAAAGGTCTT-TGTT
* * *
128923 GGCAGACAACCCTTCTAGAGTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCG
1 -GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCG
* *
128988 AACTCCAAGGTCTTTGGT
65 AACTCAAAGGTCTTTGTT
* * * * * * *
129006 GACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATC
1 G-CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTC
* *
129071 GAACTTAAGGGTCTTTG--
64 GAACTCAAAGGTCTTTGTT
* * * * * *
129088 GCAGATAGCTCTTCTCGACTTAAGCTATACTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
*
129153 ACTCGAAGGTCTTTGGTT
66 ACTCAAAGGTCTTT-GTT
* * * *
129171 GGCAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGATGTGCCGTT-GAGTTGAGCGTAGTC
1 -GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCC-TTGGAGCTGAGCGTAGTC
129235 GAACTCAAAGGTCTTGTGTT
64 GAACTCAAAGGTCTT-TGTT
* *
129255 GGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCG
1 -GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCG
* *
129320 AACTCGAAGGTCTTTGGT
65 AACTCAAAGGTCTTTGTT
* * * * * * * *
129338 GACAGATAACCCTTCTAGCCTTGATTTATGCTGTAAATGATATGCCCTCGAAGTTGAACGTAGTC
1 G-CAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGTC
* *
129403 GAACTCGAGGGTCTTTG--
64 GAACTCAAAGGTCTTTGTT
* * *
129420 GCAGATAACCCTTCTCGACTTAAGCTAT-CTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
*
129484 ACTCAAAGGTCTTTGCT
66 ACTCAAAGGTCTTTGTT
* * * * * *
129501 GACAGATAACCCTTCTAG-CCTAGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAAT
1 G-CAGATAACCCTTCTAGACTTA-AGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGT
* *
129565 CGAACTTAAGGGTCTTTG--
63 CGAACTCAAAGGTCTTTGTT
* * * * * *
129583 GCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGA
1 GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
* * *
129648 ACTCGAAGGTCTTGGTG
66 ACTCAAAGGTCTTTGTT
* *
129665 GCAGGTAGCCCTTCT
1 GCAGATAACCCTTCT
129680 GGCCTTGAGC
Statistics
Matches: 840, Mismatches: 139, Indels: 54
0.81 0.13 0.05
Matches are distributed among these distances:
79 31 0.04
80 100 0.12
81 127 0.15
82 43 0.05
83 127 0.15
84 409 0.49
85 3 0.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (82 bp):
GCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCGA
ACTCAAAGGTCTTTGTT
Found at i:128757 original size:164 final size:164
Alignment explanation
Indices: 128508--129700 Score: 1478
Period size: 164 Copynumber: 7.2 Consensus size: 164
128498 GACAATTTTA
* * * * * * * * *
128508 TTGACAAATAGCCCTTCTTGCCATGAGCTATGTTGTAAATGATATGACCTCGAAGTTGAGTGTAA
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAA
** * * * *
128573 TCGAAC-TCGGGAGCCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGTATATGATGTGCC
66 TCGAACTTAAGG-GTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCC
128637 TTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG
130 TTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG
128672 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAA
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAA
*
128737 TCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTACAAATGATATGCCT
66 TCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCT
* *
128802 TGGAGCTGAGCATAATCGAACTCAAAGGTCTTTTG
131 TGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTTG
* * * * * * * * *
128837 TTGGCAGACAACCCTTCTAGACTTAAGTTTTGCTGCAAATGATGTG-CCTTGGAGCTGAGTGTAG
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAA
* * * * * * * *
128901 TCGAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGAGTTAAGTTGTGCTGCAAATGATAT
66 TCGAACTTAAGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATAT
*
128966 GCCTTGGAGCTGAGCGTAGTCGAACTCCAAGGTCTTTG
127 GCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG
* *
129004 GTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAA
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAA
* * *
129069 TCGAACTTAAGGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATACTACAAATGATATGCCT
66 TCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCT
*
129134 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
131 TGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTT-G
* * * * * * * * * * *
129169 TTGGCAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGATGTGCCGTTG-AGTTGAGCGTAG
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAA
* * * * * * *
129233 TCGAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATAT
66 TCGAACTTAAGGGTC---T-TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATAT
*
129298 GCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTG
127 GCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG
* * * * ** *
129336 GTGACAGATAACCCTTCTAGCCTTGATTTATGCTGTAAATGATATGCCCTCGAAGTTGAACGTAG
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAA
** * *
129401 TCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTAT-CTGCAAATGATGTGCCT
66 TCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCT
129465 TGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG
131 TGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG
* * *
129499 CTGACAGATAACCCTTCTAGCCTAGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAA
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAA
* * *
129564 TCGAACTTAAGGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCT
66 TCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCT
*
129629 TGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTG
131 TGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG
* * * * * * *
129662 GTGGCAGGTAGCCCTTCTGGCCTTGAGCTAAGCTGTAAA
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
129701 ATAGTTTGTT
Statistics
Matches: 888, Mismatches: 127, Indels: 29
0.85 0.12 0.03
Matches are distributed among these distances:
163 182 0.20
164 334 0.38
165 91 0.10
167 85 0.10
168 196 0.22
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (164 bp):
TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAA
TCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATATGCCT
TGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTG
Found at i:128979 original size:248 final size:246
Alignment explanation
Indices: 128544--129679 Score: 1270
Period size: 248 Copynumber: 4.6 Consensus size: 246
128534 GCTATGTTGT
* * * * ** *
128544 AAATGATATGACCTCGAAGTTGAGTGTAATCGAACTC-GGGAGCCTTTGGCAGATAGCCCTTCTC
1 AAATGATATGCCCTTGAAGCTGAGCGTAATCGAACTCAAAG-GTCTTTGGCAGATAGCCCTTCTC
* * *
128608 GACTTAAGCTATGCTGTATATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGT
65 GACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGT
* * * * * * *
128673 TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAGCTGAGTGTAAT
130 TGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATG-CCTTGGAGCTGAGCGTAGT
* * * * * *
128738 CGAACTTAAGGGTCTTTG-G-CAGATAGCCCTTCTCGACTTAAGCTATGCTAC
194 CGAACTCAAAGGTCTTTGTGACAGATAACCCTTCTAGACTTAAGTTATGCTGC
* * * *
128789 AAATGATATG-CCTTGGAGCTGAGCATAATCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTT
1 AAATGATATGCCCTTGAAGCTGAGCGTAATCGAACTCAAAGGTC---T-TTGGCAGATAGCCCTT
* * * * *
128853 CTAGACTTAAGTTTTGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCAAAGGTCTT
62 CTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
* * *
128918 GTGTTGGCAGACAACCCTTCTAGAGTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGT
127 -TGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGT
* * * *
128983 AGTCGAACTCCAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGT
191 AGTCGAACTCAAAGGTCTTT-GTGACAGATAACCCTTCTAGACTTAAGTTATGCTGC
* * * * *
129040 AAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAGCTCTTCTCG
1 AAATGATATGCCCTTGAAGCTGAGCGTAATCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCG
* * *
129105 ACTTAAGCTATACTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGT
66 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTT-GT
* * * *
129170 TGGCAGATAACCCTTATCGACTTAAGTTATGCTGCAAATGATGTGCCGTT-GAGTTGAGCGTAGT
130 TGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCC-TTGGAGCTGAGCGTAGT
* * *
129234 CGAACTCAAAGGTCTTGTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGC
194 CGAACTCAAAGGTCTT-TG-TGACAGATAACCCTTCTAGACTTAAGTTATGCTGC
* * * *
129289 AAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTC
1 AAATGATATGCCCTTGAAGCTGAGCGTAATCGAACTCAAAGGTCTTT-G-G-CAGATAGCCCTTC
* * * ** * * * * * * *
129353 TAGCCTTGATTTATGCTGTAAATGATATGCCCTCGAAGTTGAACGTAGTCGAACTCGAGGGTC--
63 TCGACTTAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTT
* * *
129416 T-TTGGCAGATAACCCTTCTCGACTTAAGCTAT-CTGCAAATGATGTGCCTTGGAGCTGAGCGTA
127 TGTTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTA
* *
129479 GTCGAACTCAAAGGTCTTTGCTGACAGATAACCCTTCTAG-CCTAGAGTTATGCTGT
192 GTCGAACTCAAAGGTCTTTG-TGACAGATAACCCTTCTAGACTTA-AGTTATGCTGC
* * * * *
129535 AAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAGCTCTTCTCG
1 AAATGATATGCCCTTGAAGCTGAGCGTAATCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCG
* *
129600 ACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTGGT
66 ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTT
* *
129664 GGCAGGTAGCCCTTCT
131 GGCAGATAACCCTTCT
129680 GGCCTTGAGC
Statistics
Matches: 745, Mismatches: 123, Indels: 46
0.82 0.13 0.05
Matches are distributed among these distances:
243 28 0.04
244 56 0.08
245 30 0.04
246 40 0.05
247 77 0.10
248 304 0.41
249 85 0.11
250 3 0.00
251 66 0.09
252 56 0.08
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (246 bp):
AAATGATATGCCCTTGAAGCTGAGCGTAATCGAACTCAAAGGTCTTTGGCAGATAGCCCTTCTCG
ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGTT
GGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGTCG
AACTCAAAGGTCTTTGTGACAGATAACCCTTCTAGACTTAAGTTATGCTGC
Found at i:128979 original size:332 final size:331
Alignment explanation
Indices: 128589--129700 Score: 1592
Period size: 332 Copynumber: 3.4 Consensus size: 331
128579 TCGGGAGCCT
* * * * * *
128589 TTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGTATATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGACAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
* *
128654 CGAACTCAAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGC
66 CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGC
128719 CCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
131 CCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
* * *
128784 GCTACAAATGATATGCCTTGGAGCTGAGCATAATCGAACTCAAAGGTCTTTTGTTGGCAGACAAC
196 -CTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAAC
*
128849 CCTTCTAGACTTAAGTTTTGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCAAAGG
260 CCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCAAAGG
128914 TCTTGTG
325 TCTTGTG
* * *
128921 TTGGCAGACAACCCTTCTAGAGTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGACAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
* *
128986 CGAACTCCAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGTTATGC
66 CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGC
*
129051 CCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAGCTCTTCTCGACTTAAGCTAT
131 CCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
* *
129116 ACTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAAC
196 -CTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAAC
* * * *
129181 CCTTATCGACTTAAGTTATGCTGCAAATGATGTGCCGTT-GAGTTGAGCGTAGTCGAACTCAAAG
260 CCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCC-TTGGAGCTGAGTGTAGTCGAACTCAAAG
129245 GTCTTGTG
324 GTCTTGTG
* *
129253 TTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGACAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
*
129318 CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGATTTATGCTGTAAATGATATGC
66 CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGC
* * ** * ** *
129383 CCTCGAAGTTGAACGTAGTCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGCTAT
131 CCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
* * * *
129448 CTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTC-TTTGCTGACAGATAACC
196 CTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACC
* * * * * * * *
129512 CTTCTAG-CCTAGAGTTATGCTGTAAATGTTATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGG
261 CTTCTAGACTTA-AGTTATGCTGCAAATGATGTG-CCTTGGAGCTGAGTGTAGTCGAACTCAAAG
129576 GTC---T-
324 GTCTTGTG
* * * * * *
129580 TTGGCAGATAGCTCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGT
1 TTGGCAGACAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
* * * * * *
129645 CGAACTCGAAGGTC-TTGGTGGCAGGTAGCCCTTCTGGCCTTGAGCTAAGCTGTAAA
66 CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAA
129701 ATAGTTTGTT
Statistics
Matches: 706, Mismatches: 70, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
326 35 0.05
327 71 0.10
328 1 0.00
329 3 0.00
330 39 0.06
331 68 0.10
332 487 0.69
333 2 0.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (331 bp):
TTGGCAGACAACCCTTCTAGACTTAAGCTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGC
CCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTAT
CTACAAATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGATAACC
CTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCAAAGGT
CTTGTG
Found at i:133104 original size:18 final size:19
Alignment explanation
Indices: 133063--133107 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
133053 AGTTAATGTG
133063 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
*
133082 AATGCAAAGAAAATAA-GA
1 AATGCAAAGAAAATAACAA
133100 AATGCAAA
1 AATGCAAA
133108 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 9 0.36
19 16 0.64
ACGTcount: A:0.67, C:0.09, G:0.13, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:134735 original size:7 final size:7
Alignment explanation
Indices: 134723--134747 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
134713 GAAAGTTAAT
134723 AAATTTA
1 AAATTTA
134730 AAATTTA
1 AAATTTA
134737 AAATTTA
1 AAATTTA
134744 AAAT
1 AAAT
134748 ATCCAATTCG
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATTTA
Found at i:136236 original size:14 final size:14
Alignment explanation
Indices: 136208--136252 Score: 72
Period size: 14 Copynumber: 3.1 Consensus size: 14
136198 TGGACAATTA
136208 AAATAAAAATAAAAT
1 AAATAAAAAT-AAAT
*
136223 TAATAAAAATAAAT
1 AAATAAAAATAAAT
136237 AAATAAAAATAAAT
1 AAATAAAAATAAAT
136251 AA
1 AA
136253 CAACGATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
14 19 0.68
15 9 0.32
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:136542 original size:35 final size:36
Alignment explanation
Indices: 136379--136612 Score: 167
Period size: 36 Copynumber: 6.6 Consensus size: 36
136369 AAATGTTTTT
* **
136379 TTTTAAAAACTATATATTATAAGT-TTTT-AAAATG
1 TTTTAAAAACTATATAATATATTTATTTTAAAAATG
* * * *
136413 ATTTCAAAACTATATAATATATATATGTTTTCAAAATG
1 TTTTAAAAACTATATAATATAT-T-TATTTTAAAAATG
***
136451 TTTCTTTTTAA--ATAT--TATATTTATTTTAAAAATG
1 -TT-TTAAAAACTATATAATATATTTATTTTAAAAATG
* ** *
136485 TTTTTTAAAACCGTATAATATATTT-TTTTAAAAACG
1 -TTTTAAAAACTATATAATATATTTATTTTAAAAATG
* * *
136521 TTTTAAAAACTATATATTATATTTATTTTCAAAGTG
1 TTTTAAAAACTATATAATATATTTATTTTAAAAATG
** * *
136557 TTTTAAAAACTATATAATATAAATGTTTTAAATATG
1 TTTTAAAAACTATATAATATATTTATTTTAAAAATG
* *
136593 TTTTCAAAACTATATTATAT
1 TTTTAAAAACTATATAATAT
136613 TATATATATA
Statistics
Matches: 158, Mismatches: 31, Indels: 20
0.76 0.15 0.10
Matches are distributed among these distances:
33 5 0.03
34 32 0.20
35 24 0.15
36 71 0.45
37 11 0.07
38 10 0.06
39 1 0.01
40 4 0.03
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (36 bp):
TTTTAAAAACTATATAATATATTTATTTTAAAAATG
Found at i:136542 original size:72 final size:72
Alignment explanation
Indices: 136379--136607 Score: 191
Period size: 72 Copynumber: 3.2 Consensus size: 72
136369 AAATGTTTTT
** * * *
136379 TTTTAAAAACTATATATTATAAGT-TTTT-AAAATGATTTCAAAACTATATAATATATATATGTT
1 TTTTAAAAACTATATATTATATTTATTTTAAAAATGTTTTAAAAACCATATAATATA-A-ATGTT
* *
136442 TTCAAAATG
64 TTAAAAACG
*** * * * * *
136451 TTTCT---TTTTAAATATTATATTTATTTTAAAAATGTTTTTTAAAACCGTATAATAT-ATTTTT
1 TTT-TAAAAACTATATATTATATTTATTTTAAAAATG-TTTTAAAAACCATATAATATAAATGTT
136512 TTAAAAACG
64 TTAAAAACG
* * *
136521 TTTTAAAAACTATATATTATATTTATTTTCAAAGTGTTTTAAAAACTATATAATATAAATGTTTT
1 TTTTAAAAACTATATATTATATTTATTTTAAAAATGTTTTAAAAACCATATAATATAAATGTTTT
* *
136586 AAATATG
66 AAAAACG
*
136593 TTTTCAAAACTATAT
1 TTTTAAAAACTATAT
136608 TATATTATAT
Statistics
Matches: 121, Mismatches: 28, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
69 1 0.01
70 24 0.20
71 22 0.18
72 57 0.47
73 17 0.14
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (72 bp):
TTTTAAAAACTATATATTATATTTATTTTAAAAATGTTTTAAAAACCATATAATATAAATGTTTT
AAAAACG
Found at i:136620 original size:2 final size:2
Alignment explanation
Indices: 136603--136669 Score: 120
Period size: 2 Copynumber: 34.5 Consensus size: 2
136593 TTTTCAAAAC
136603 TA TA T- TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
136643 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
136670 GAGACGAAAA
Statistics
Matches: 63, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 61 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:144995 original size:2 final size:2
Alignment explanation
Indices: 144988--145032 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
144978 ATCTTAACGT
144988 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
145030 TA T
1 TA T
145033 GTGTGTGTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:145466 original size:2 final size:2
Alignment explanation
Indices: 145461--145488 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
145451 TTTAAATTTA
145461 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
145489 TAAAAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:145754 original size:30 final size:30
Alignment explanation
Indices: 145720--145785 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
145710 TCGACATAGG
* * * *
145720 TTTAGGGGTTGAAATGAATGTTTTTTAAGT
1 TTTAGGGATTGAAATAAAAGTTTTTAAAGT
145750 TTTAGGGATTGAAATAAAAGTTTTTAAAGT
1 TTTAGGGATTGAAATAAAAGTTTTTAAAGT
145780 TTTAGG
1 TTTAGG
145786 TTTATTTCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (30 bp):
TTTAGGGATTGAAATAAAAGTTTTTAAAGT
Found at i:146294 original size:31 final size:32
Alignment explanation
Indices: 146259--146324 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
146249 TAAACAATAT
*
146259 ATTTTTTATAT-TAATACAAAATAATAATTAA
1 ATTTTATATATGTAATACAAAATAATAATTAA
* * *
146290 ATTTTATATATGTATTATAAAATTATAATTAA
1 ATTTTATATATGTAATACAAAATAATAATTAA
146322 ATT
1 ATT
146325 AATTGAACCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 10 0.33
32 20 0.67
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (32 bp):
ATTTTATATATGTAATACAAAATAATAATTAA
Found at i:146370 original size:22 final size:22
Alignment explanation
Indices: 146352--146424 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
146342 TATTATAATG
*
146352 ATTTAATGATCATTCTATAACA
1 ATTTAATGATCATTTTATAACA
* * **
146374 ATTTTATAAT-ATTATTATAATG
1 ATTTAATGATCATT-TTATAACA
**
146396 ATGCAATGATCATTTTATAACA
1 ATTTAATGATCATTTTATAACA
146418 ATTTAAT
1 ATTTAAT
146425 AATATTAATA
Statistics
Matches: 36, Mismatches: 13, Indels: 4
0.68 0.25 0.08
Matches are distributed among these distances:
21 3 0.08
22 30 0.83
23 3 0.08
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.45
Consensus pattern (22 bp):
ATTTAATGATCATTTTATAACA
Found at i:146395 original size:44 final size:44
Alignment explanation
Indices: 146341--146431 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
146331 ACCTTTATAC
** *
146341 TTATTATAATGATTTAATGATCATTCTATAACAATTTTATAATA
1 TTATTATAATGATGCAATGATCATTCTATAACAATTTAATAATA
*
146385 TTATTATAATGATGCAATGATCATTTTATAACAATTTAATAATA
1 TTATTATAATGATGCAATGATCATTCTATAACAATTTAATAATA
146429 TTA
1 TTA
146432 ATAATTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.42, C:0.07, G:0.05, T:0.46
Consensus pattern (44 bp):
TTATTATAATGATGCAATGATCATTCTATAACAATTTAATAATA
Found at i:156225 original size:21 final size:22
Alignment explanation
Indices: 156200--156251 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
156190 ACACTTTACA
*
156200 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
156223 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
156246 ATATAA
1 ATATAA
156252 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:156236 original size:23 final size:23
Alignment explanation
Indices: 156210--156272 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
156200 ATATAACCAC
156210 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
156233 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
156256 TACCTATTACATCATAT
1 TACCTATTACATTATAT
156273 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:156728 original size:39 final size:39
Alignment explanation
Indices: 156674--156760 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
156664 TCAAGTTGTA
*
156674 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
156713 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
156752 GATTTTGAT
1 GATTTTGAT
156761 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:157042 original size:18 final size:18
Alignment explanation
Indices: 157019--157055 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
157009 CGAAATATAT
157019 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
157037 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
157055 A
1 A
157056 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:157332 original size:25 final size:25
Alignment explanation
Indices: 157304--157354 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
157294 TTAATCCAAA
*
157304 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
157329 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
157354 T
1 T
157355 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:157641 original size:21 final size:22
Alignment explanation
Indices: 157616--157667 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
157606 ACACTTTACA
*
157616 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
157639 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
157662 ATATAA
1 ATATAA
157668 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:157652 original size:23 final size:23
Alignment explanation
Indices: 157626--157688 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
157616 ATATAACCAC
157626 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
157649 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
157672 TACCTATTACATCATAT
1 TACCTATTACATTATAT
157689 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:158070 original size:21 final size:22
Alignment explanation
Indices: 158045--158096 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
158035 ACACTTTACA
*
158045 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
158068 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
158091 ATATAA
1 ATATAA
158097 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:158081 original size:23 final size:23
Alignment explanation
Indices: 158055--158117 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
158045 ATATAACCAC
158055 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
158078 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
158101 TACCTATTACATCATAT
1 TACCTATTACATTATAT
158118 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:158178 original size:429 final size:422
Alignment explanation
Indices: 157386--158214 Score: 1525
Period size: 429 Copynumber: 1.9 Consensus size: 422
157376 TTTGAATTAT
157386 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
1 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
* * *
157451 TAGAATTTTAATTTAATAATAATATATATCGTAATGTAAAAATAAATCATTATACGCCTATAATT
66 TAGAATTTTAATTTAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATT
157516 ACTAATTAATATAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
131 ACTAATTAATATAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
157581 ATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAA
196 ATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAA
157646 CGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGT
261 CGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGT
*
157711 GTCCATACTTTTATAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATTTTT
326 GTCCATACTTTTATAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTT
157776 TTAACAGTGTTTCATGTTTTCCACCTACAATA
391 TTAACAGTGTTTCATGTTTTCCACCTACAATA
* *
157808 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTAT
1 TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATA-
157873 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATA
65 TTAGAA-TTTTAATTTAATAATAATATATACCGTAACGT-AAAAATAAATCATTAGACGCCTATA
157938 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
128 ATTACT-AATTAATA---TAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
158003 AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
189 AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
158068 ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
254 ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
158133 TGAAAGTGTCCATACTTTTATAAAAAGGATCGATAC-TTTTTTAAAACTTATGTAATTTATGTTT
319 TGAAAGTGTCCATACTTTTAT-AAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTT
158197 CAATTTTTTTAACAGTGT
383 CAATTTTTTTAACAGTGT
158215 ACTGCGAATT
Statistics
Matches: 393, Mismatches: 6, Indels: 9
0.96 0.01 0.02
Matches are distributed among these distances:
422 62 0.16
423 6 0.02
424 30 0.08
425 30 0.08
426 8 0.02
429 243 0.62
430 14 0.04
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (422 bp):
TTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATAT
TAGAATTTTAATTTAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATT
ACTAATTAATATAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGT
ATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAA
CGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGT
GTCCATACTTTTATAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTT
TTAACAGTGTTTCATGTTTTCCACCTACAATA
Found at i:160316 original size:184 final size:184
Alignment explanation
Indices: 160007--160350 Score: 589
Period size: 184 Copynumber: 1.9 Consensus size: 184
159997 TTCAAATTAC
* *
160007 CGACACTTTTTTAAATGGTATCGACACATTTTTATTCCAATCTGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGTACCGACACAAT
* *
160072 ATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCATAAAACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
*
160137 ATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
131 ATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
*
160191 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAGTACCGACACAAT
1 CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGTACCGACACAAT
*
160256 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATATTTATACCGGTT
66 ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
* * **
160321 ATATTGCAAATTTACCTATTTTATTATAAT
131 ATATTACAAAATTACCTATTACATTATAAT
160351 ATGTTGAAAG
Statistics
Matches: 149, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
184 149 1.00
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (184 bp):
CGACACTTTTTTAAATCGTATCGACACATTTTTATTCCAATATGGACATAAAGTACCGACACAAT
ATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAAACCGGTATATTTATACCGGTT
ATATTACAAAATTACCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
Found at i:161821 original size:3 final size:3
Alignment explanation
Indices: 161813--161893 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
161803 ACTTGTTTGG
* * * **
161813 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
161861 AGC TTC ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
161894 GTCAGCTTCA
Statistics
Matches: 59, Mismatches: 19, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.23, C:0.35, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:161830 original size:12 final size:12
Alignment explanation
Indices: 161817--161905 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
161807 GTTTGGATCA
* *
161817 TCATCTTCATCA
1 TCATCGTCATCT
* *
161829 TCATCATCATCA
1 TCATCGTCATCT
* *
161841 TCGTCATCATCT
1 TCATCGTCATCT
* *
161853 TCATCGCCAGCT
1 TCATCGTCATCT
*
161865 TCATCGTCATCA
1 TCATCGTCATCT
161877 TCATCGTCATCT
1 TCATCGTCATCT
*
161889 TCATCGTCAGCT
1 TCATCGTCATCT
161901 TCATC
1 TCATC
161906 TTCTGCGACC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 65 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:161836 original size:18 final size:18
Alignment explanation
Indices: 161817--161908 Score: 76
Period size: 18 Copynumber: 5.1 Consensus size: 18
161807 GTTTGGATCA
* *
161817 TCATCTTCATCATCATCA
1 TCATCATCATCATCATCT
*
161835 TCATCATCGTCATCATCT
1 TCATCATCATCATCATCT
** * * *
161853 TCATCGCCAGCTTCATCG
1 TCATCATCATCATCATCT
*
161871 TCATCATCATCGTCATCT
1 TCATCATCATCATCATCT
* * *
161889 TCATCGTCAGCTTCATCT
1 TCATCATCATCATCATCT
161907 TC
1 TC
161909 TGCGACCGCT
Statistics
Matches: 57, Mismatches: 17, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (18 bp):
TCATCATCATCATCATCT
Found at i:161869 original size:36 final size:36
Alignment explanation
Indices: 161829--161905 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
161819 ATCTTCATCA
*
161829 TCATCATCATCATCGTCATCATCTTCATCGCCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
* * *
161865 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGCCAGCT
161901 TCATC
1 TCATC
161906 TTCTGCGACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.21, C:0.35, G:0.09, T:0.35
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGCCAGCT
Found at i:161908 original size:6 final size:6
Alignment explanation
Indices: 161817--161908 Score: 67
Period size: 6 Copynumber: 15.3 Consensus size: 6
161807 GTTTGGATCA
* * * * * * * *
161817 TCATCT TCATCA TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * * *
161865 TCATCG TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
161909 TGCGACCGCT
Statistics
Matches: 68, Mismatches: 18, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.21, C:0.35, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:163702 original size:197 final size:197
Alignment explanation
Indices: 163359--165300 Score: 3503
Period size: 197 Copynumber: 9.9 Consensus size: 197
163349 TTTAAATTAG
163359 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
163424 ATTGTACTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT-GGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
163488 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCT-GGAAAA
163553 AAA
195 AAA
163556 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
163621 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
**
163686 CGACACTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGGAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAAA
163750 AA
196 AA
163752 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
163817 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
163882 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAAA
163947 AA
196 AA
* *
163949 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCCCTCATAAAA-CGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
164013 ATTGTACCGGTTAGATTGAAAAATTACATATTAC-TTATACTTTTGGTTTTCGATGATTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
**
164077 TCGACACTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
130 TCGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAA
164141 AAA
195 AAA
164144 -ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
164208 ATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
164272 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCT-GGAAAA
164337 AAA
195 AAA
164340 TATCGACACAAACTAT-TTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
164404 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
164469 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAA
164534 AAA
195 AAA
*
164537 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
164602 A-TGTACCGGTTCGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGATTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
**
164666 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
130 TCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAA
164731 AAAA
194 AAAA
164735 -ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
164799 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
**
164864 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
131 CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAAA
164929 AA
196 AA
*
164931 -ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACACATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
164995 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
165060 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAA
165125 AAA
195 AAA
* *
165128 TATCGACACAAACTATATTAGTGTCGACACATGATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
165193 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
*
165257 TTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCT
130 TCGACAC--TTTTATATATGGATCGACACTTTATGGGTGCACCT
165301 GTTGGCCATA
Statistics
Matches: 1691, Mismatches: 37, Indels: 32
0.96 0.02 0.02
Matches are distributed among these distances:
194 96 0.06
195 147 0.09
196 485 0.29
197 560 0.33
198 361 0.21
199 42 0.02
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (197 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAAA
AA
Found at i:165442 original size:19 final size:20
Alignment explanation
Indices: 165418--165464 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
165408 TTATATTCAC
165418 ATACAAAAA-TATAAATCGT
1 ATACAAAAATTATAAATCGT
*
165437 ATACAAAAATTATAAATCTT
1 ATACAAAAATTATAAATCGT
165457 ATACAAAA
1 ATACAAAA
165465 TTAACTCGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.60, C:0.11, G:0.02, T:0.28
Consensus pattern (20 bp):
ATACAAAAATTATAAATCGT
Done.