Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000268.1 Hibiscus syriacus cultivar Beakdansim tig00000491_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: 150161
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2264 original size:20 final size:19
Alignment explanation
Indices: 2201--2272 Score: 67
Period size: 20 Copynumber: 3.7 Consensus size: 19
2191 AGATTTTTTT
* *
2201 TAAAA-AATAATAATATAA
1 TAAAATAATAAAAAAATAA
2219 TAAAATGAATAAAAAAA-AA
1 TAAAAT-AATAAAAAAATAA
*
2238 CGAAAATAATAAAAAAATAA
1 -TAAAATAATAAAAAAATAA
2258 TATAAATATATAAAA
1 TA-AAATA-ATAAAA
2273 TTATAAGATA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
18 5 0.11
19 13 0.30
20 20 0.45
21 6 0.14
ACGTcount: A:0.74, C:0.01, G:0.03, T:0.22
Consensus pattern (19 bp):
TAAAATAATAAAAAAATAA
Found at i:2535 original size:18 final size:17
Alignment explanation
Indices: 2512--2554 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
2502 ATATATACAT
2512 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
2530 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
2547 ATAA-AATA
1 ATAATAATA
2555 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:2998 original size:33 final size:34
Alignment explanation
Indices: 2943--3021 Score: 117
Period size: 33 Copynumber: 2.3 Consensus size: 34
2933 TATCCTATTT
2943 TTTGAATCCTAGCAAATTCTATCATATCTTTAGGAG
1 TTTGAATCCTA-CAAATTCTATCATAT-TTTAGGAG
*
2979 -TTGAATCCTA-AAATTCTATCCTATTTTAGGAG
1 TTTGAATCCTACAAATTCTATCATATTTTAGGAG
3011 TTTGAATCCTA
1 TTTGAATCCTA
3022 GTAGGACGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
32 8 0.20
33 23 0.56
35 10 0.24
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (34 bp):
TTTGAATCCTACAAATTCTATCATATTTTAGGAG
Found at i:3956 original size:205 final size:206
Alignment explanation
Indices: 3563--4175 Score: 861
Period size: 205 Copynumber: 3.0 Consensus size: 206
3553 GCATTGTTCC
* * ** *
3563 AAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACGGGAAATTGTTTGTTGACAA
1 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC-CTGAGATTGGGAAGTTG-TTGTTGACAA
* * * * *
3627 CCAGCCGT-CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATATCCTTCGTTGTGAA
64 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC-TTGTGAA
** *
3691 GTTGAAATTGAATCTGAA-T-GAA-AT-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
128 GTTGAAATTGGCTCTGAATTGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
3752 ACTTGCGTTGTCTG
193 ACTTGCGTTGTCTG
*
3766 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG-CTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCTGAGATTGGGAAGTTGTTGTTGACAAGC
*
3830 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCC-T-TTGTGAAGTT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCTTGTGAAGTT
3893 GAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 GAAATTGGCTCTGA-ATT-GGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
3958 CTTGCGTTGTCTG
194 CTTGCGTTGTCTG
* * *
3971 AAGTCCAGTATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGAC-AG
1 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGC-CTGAGATTGGGAAGTTGTTGTTGACAAG
4035 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTC-TTGTGAAG
* * *
4100 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCCGT-CCTTCGTTGTGAAGTT
129 TTGAAATTGGCTCTG-AATTG-GAAGTTG-TTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTT
*
4164 GAACTTGTGTTG
191 GAACTTGCGTTG
4176 CCTCGAGTGC
Statistics
Matches: 370, Mismatches: 24, Indels: 26
0.88 0.06 0.06
Matches are distributed among these distances:
199 22 0.06
200 1 0.00
201 21 0.06
202 51 0.14
203 35 0.09
204 1 0.00
205 84 0.23
206 54 0.15
207 24 0.06
208 1 0.00
209 59 0.16
210 17 0.05
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (206 bp):
AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCCTGAGATTGGGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCTTGTGAAGTT
GAAATTGGCTCTGAATTGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACT
TGCGTTGTCTG
Found at i:4210 original size:104 final size:105
Alignment explanation
Indices: 3564--4175 Score: 885
Period size: 104 Copynumber: 6.0 Consensus size: 105
3554 CATTGTTCCA
* * * * * * *
3564 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAA-CGGGAAATTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * * *
3628 CAGCCGT-CCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
**
3668 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGAATCTG-AA-TGA-AA--T-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
3727 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
3767 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGG--CTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
3830 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
3870 AGTCCAATATCC-T--TTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
*
3932 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
3972 AGTCCAGTATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGAC-AGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
4036 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
4076 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
* * *
4141 CAGCCGT-CCTTCGTTGTGAAGTTGAACTTGTGTTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
4176 CCTCGAGTGC
Statistics
Matches: 468, Mismatches: 26, Indels: 27
0.90 0.05 0.05
Matches are distributed among these distances:
97 3 0.01
98 17 0.04
99 65 0.14
100 21 0.04
102 82 0.18
103 67 0.14
104 129 0.28
105 77 0.16
106 7 0.01
ACGTcount: A:0.22, C:0.17, G:0.27, T:0.34
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:4899 original size:67 final size:65
Alignment explanation
Indices: 4810--4966 Score: 199
Period size: 67 Copynumber: 2.4 Consensus size: 65
4800 AAGATATCTG
* * **
4810 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATG-TTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGA-
4874 TT
64 TT
* * * *
4876 TGTGTTTCAAGAGTAACTGTCTCAAGGGAGATAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
4941 T
65 T
*
4942 TTGTTTCAAGGGAAACTGTCTCAAG
1 TTGTTTCAAGAGAAACTGTCTCAAG
4967 ATAGACGAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
65 22 0.28
66 6 0.08
67 51 0.65
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.32
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:5001 original size:35 final size:35
Alignment explanation
Indices: 4942--5216 Score: 223
Period size: 35 Copynumber: 8.0 Consensus size: 35
4932 TTCAAAGATT
* *
4942 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
*
4978 TTGTTTCAAGAG-ATCTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * ** *
5012 CTTAGTTCCAA-AGAAACGGTCTCAAGGGAGACGGTAT
1 -TT-GTTTCAAGAGAAACTGTCTCAAGAGAGAC-AAAA
* * **
5049 TTGTTTCAA-AGAAAACATAT-TC-----A-A-TATT
1 TTGTTTCAAGAG-AAAC-TGTCTCAAGAGAGACAAAA
*
5077 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
* * * *
5112 TTATTTCAAGGGAAACTGTCTCAAGATAGACGAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
5147 TT-TGTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTGT-TTCAAGAGAAACTGTCTCAAGAGAGACAAAA
*
5182 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA
1 -TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAA
5217 CTCTTCTAGT
Statistics
Matches: 193, Mismatches: 28, Indels: 36
0.75 0.11 0.14
Matches are distributed among these distances:
27 2 0.01
28 16 0.08
29 1 0.01
30 1 0.01
31 1 0.01
33 1 0.01
34 6 0.03
35 91 0.47
36 71 0.37
37 3 0.02
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.26
Consensus pattern (35 bp):
TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
Found at i:5137 original size:135 final size:134
Alignment explanation
Indices: 4881--5191 Score: 365
Period size: 135 Copynumber: 2.3 Consensus size: 134
4871 GATTTTGTGT
* * * * * ** * * * *
4881 TTCAAGAGTAACTGTCTCAAGGGAGATAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGT
1 TTCAAGAGAAACGGTCTCAAGAGAGACAAAATTTGTTTCAAAGAAAACATATTC-AATATTTTGT
* * *
4946 TTCAAGGGAAACTGTCTCAAGATAGACGAAAATTGTTTCAAGAGATCTGTCTCAAGAGAGACAAA
65 TTCAAGGGAAACTGTCTCAAGAGAGACGAAAATTATTTCAAGAGAACTGTCTCAAGAGAGACAAA
5011 ACTTAG
130 A-TTAG
* ***
5017 TTCCAA-AGAAACGGTCTCAAGGGAGACGGTATTTGTTTCAAAGAAAACATATTCAATATTTTGT
1 TT-CAAGAGAAACGGTCTCAAGAGAGACAAAATTTGTTTCAAAGAAAACATATTCAATATTTTGT
* * *
5081 TTCAAGGGAAACTGTCTCAAGAGAGAC-AAAATTATTTCAAGGGAAACTGTCTCAAGATAGACGA
65 TTCAAGGGAAACTGTCTCAAGAGAGACGAAAATTATTTCAAGAG-AACTGTCTCAAGAGAGACAA
*
5145 AATTTG
129 AATTAG
*
5151 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAA
1 TTCAAGAGAAACGGTCTCAAGAGAGACAAAATTTGTTTCAA
5192 GGGAAACTGT
Statistics
Matches: 147, Mismatches: 25, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
133 3 0.02
134 49 0.33
135 54 0.37
136 38 0.26
137 3 0.02
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (134 bp):
TTCAAGAGAAACGGTCTCAAGAGAGACAAAATTTGTTTCAAAGAAAACATATTCAATATTTTGTT
TCAAGGGAAACTGTCTCAAGAGAGACGAAAATTATTTCAAGAGAACTGTCTCAAGAGAGACAAAA
TTAG
Found at i:5150 original size:99 final size:99
Alignment explanation
Indices: 4978--5161 Score: 239
Period size: 99 Copynumber: 1.9 Consensus size: 99
4968 TAGACGAAAA
* *
4978 TTGTTTCAAGAGATCTGTCTCAAGAGAGACAAAACTTAGTTCCAAAGAAACGGTCTCAAGGGAGA
1 TTGTTTCAAGAGAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAGAAACGGTCTCAAGAGAGA
**
5043 CGGTATTTGTTTCAA-AGAAAACATATTCAATATT
66 CGAAATTTG-TTCAAGAGAAAACATATTCAATATT
* * * * *
5077 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTA-TTTCAAGGGAAACTGTCTCAAGATA
1 TTGTTTCAAGAG-AACTGTCTCAAGAGAGACAAAACTTAGTTCCAA-AGAAACGGTCTCAAGAGA
5140 GACGAAATTTGTTCAAGAGAAA
64 GACGAAATTTGTTCAAGAGAAA
5162 CTGTCTCAAG
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
98 10 0.14
99 42 0.58
100 21 0.29
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (99 bp):
TTGTTTCAAGAGAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAAGAAACGGTCTCAAGAGAGA
CGAAATTTGTTCAAGAGAAAACATATTCAATATT
Found at i:5203 original size:71 final size:71
Alignment explanation
Indices: 5076--5213 Score: 233
Period size: 71 Copynumber: 1.9 Consensus size: 71
5066 TATTCAATAT
* *
5076 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTATTTCAAGGGAAACTGTCTCAAGATAG
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTATTTCAAGGGAAACTGTCTCAAGAGAG
5141 ACGAAA
66 ACGAAA
*
5147 TTTG-TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGA
1 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTATTTCAAGGGAAACTGTCTCAAGAGA
5211 GAC
65 GAC
5214 AAACTCTTCT
Statistics
Matches: 63, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
70 30 0.48
71 33 0.52
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.25
Consensus pattern (71 bp):
TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTATTTCAAGGGAAACTGTCTCAAGAGAG
ACGAAA
Found at i:5238 original size:70 final size:71
Alignment explanation
Indices: 5081--5258 Score: 229
Period size: 70 Copynumber: 2.5 Consensus size: 71
5071 AATATTTTGT
* * *
5081 TTCAAGGGAAACTGTCTCAAGAGAGACAAAA-TTATTTCAAGGGAAACTGTCTCAAGATAGACGA
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGA
* *
5145 AATTTG
66 AATCTC
5151 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGAC-A
1 TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGA
5215 AA-CTC
66 AATCTC
* * * *
5220 TTCTAGTGAAAACGGTCTCAAGCGAGAC-AAATCTTGTTT
1 TTCAAGAG-AAACTGTCTCAAGAGAGACAAAAT-TTGTTT
5259 TAAGAAAAAC
Statistics
Matches: 96, Mismatches: 9, Indels: 6
0.86 0.08 0.05
Matches are distributed among these distances:
69 11 0.11
70 56 0.58
71 29 0.30
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (71 bp):
TTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACTGTCTCAAGAGAGACGA
AATCTC
Found at i:6765 original size:16 final size:16
Alignment explanation
Indices: 6735--6799 Score: 50
Period size: 16 Copynumber: 4.2 Consensus size: 16
6725 TTGCATGTGC
6735 TTTTGTTCCTT-TTTT
1 TTTTGTTCCTTCTTTT
6750 ATTTTGTT-CTTC--TT
1 -TTTTGTTCCTTCTTTT
*
6764 TTTTGTT-CTTGTTTT
1 TTTTGTTCCTTCTTTT
* *
6779 TTTTTTTGCTTCTTTCT
1 TTTTGTTCCTTCTTT-T
6796 TTTT
1 TTTT
6800 CTTTTTGCCC
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
13 10 0.24
14 2 0.05
15 11 0.27
16 13 0.32
17 5 0.12
ACGTcount: A:0.02, C:0.12, G:0.08, T:0.78
Consensus pattern (16 bp):
TTTTGTTCCTTCTTTT
Found at i:6767 original size:29 final size:28
Alignment explanation
Indices: 6735--6805 Score: 83
Period size: 29 Copynumber: 2.5 Consensus size: 28
6725 TTGCATGTGC
6735 TTTTGTTCCTTTTTTATTTTGTT-CTTCTT
1 TTTTGTT-CTTTTTT-TTTTGTTGCTTCTT
*
6764 TTTTGTTCTTGTTTTTTTTTTTGCTTCTT
1 TTTTGTTCTT-TTTTTTTTGTTGCTTCTT
6793 TCTTT-TTCTTTTT
1 T-TTTGTTCTTTTT
6806 GCCCTTTTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
28 12 0.32
29 23 0.61
30 3 0.08
ACGTcount: A:0.01, C:0.13, G:0.07, T:0.79
Consensus pattern (28 bp):
TTTTGTTCTTTTTTTTTTGTTGCTTCTT
Found at i:6769 original size:13 final size:13
Alignment explanation
Indices: 6751--6780 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
6741 TCCTTTTTTA
6751 TTTTGTTCTTCTT
1 TTTTGTTCTTCTT
*
6764 TTTTGTTCTTGTT
1 TTTTGTTCTTCTT
6777 TTTT
1 TTTT
6781 TTTTTGCTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.80
Consensus pattern (13 bp):
TTTTGTTCTTCTT
Found at i:6775 original size:19 final size:18
Alignment explanation
Indices: 6743--6792 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
6733 GCTTTTGTTC
*
6743 CTTTTTTATT-TTGTTCTT
1 CTTTTTTGTTCTTGTT-TT
6761 CTTTTTTGTTCTTGTTTT
1 CTTTTTTGTTCTTGTTTT
*
6779 TTTTTTTGCTTCTT
1 CTTTTTTG-TTCTT
6793 TCTTTTTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.02, C:0.12, G:0.08, T:0.78
Consensus pattern (18 bp):
CTTTTTTGTTCTTGTTTT
Found at i:6798 original size:19 final size:19
Alignment explanation
Indices: 6762--6807 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
6752 TTTGTTCTTC
6762 TTTTTTG-TTCTTGTTTTT
1 TTTTTTGCTTCTTGTTTTT
6780 TTTTTTGCTTCTT-TCTTTT
1 TTTTTTGCTTCTTGT-TTTT
6799 TCTTTTTGC
1 T-TTTTTGC
6808 CCTTTTGTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.32
19 10 0.40
20 7 0.28
ACGTcount: A:0.00, C:0.13, G:0.09, T:0.78
Consensus pattern (19 bp):
TTTTTTGCTTCTTGTTTTT
Found at i:6798 original size:20 final size:19
Alignment explanation
Indices: 6762--6807 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
6752 TTTGTTCTTC
*
6762 TTTTTTG-TTCTTGTTTTT
1 TTTTTTGCTTCTTCTTTTT
6780 TTTTTTGCTTCTTTCTTTTT
1 TTTTTTGCTTC-TTCTTTTT
*
6800 CTTTTTGC
1 TTTTTTGC
6808 CCTTTTGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 3 0.12
20 14 0.58
ACGTcount: A:0.00, C:0.13, G:0.09, T:0.78
Consensus pattern (19 bp):
TTTTTTGCTTCTTCTTTTT
Found at i:6812 original size:19 final size:20
Alignment explanation
Indices: 6775--6812 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6765 TTTGTTCTTG
* *
6775 TTTTTTTTTTTGCTTCTTTC
1 TTTTTCTTTTTGCTCCTTTC
6795 TTTTTCTTTTTGC-CCTTT
1 TTTTTCTTTTTGCTCCTTT
6813 TGTTCTGATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.76
Consensus pattern (20 bp):
TTTTTCTTTTTGCTCCTTTC
Found at i:11005 original size:18 final size:17
Alignment explanation
Indices: 10982--11024 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
10972 ATATATATAT
10982 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
11000 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
11017 ATAA-AATA
1 ATAATAATA
11025 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:11470 original size:34 final size:34
Alignment explanation
Indices: 11427--11495 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
11417 GAATCCTAGC
11427 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
* *
11461 AAAATTCTATCCTATTTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
11495 A
1 A
11496 GTAGGACGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
Found at i:12561 original size:43 final size:44
Alignment explanation
Indices: 12481--12567 Score: 158
Period size: 43 Copynumber: 2.0 Consensus size: 44
12471 TCAATGAATG
12481 TAAGTCAATATTTGTTCAAAATAAGGTTAAAACAATAAATCTAT
1 TAAGTCAATATTTGTTCAAAATAAGGTTAAAACAATAAATCTAT
*
12525 TAAGTCAATATTTGTTC-AAATAAGGTTAAAATAATAAATCTAT
1 TAAGTCAATATTTGTTCAAAATAAGGTTAAAACAATAAATCTAT
12568 ACATATGCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
43 25 0.60
44 17 0.40
ACGTcount: A:0.47, C:0.08, G:0.09, T:0.36
Consensus pattern (44 bp):
TAAGTCAATATTTGTTCAAAATAAGGTTAAAACAATAAATCTAT
Found at i:13333 original size:44 final size:45
Alignment explanation
Indices: 13225--13347 Score: 142
Period size: 44 Copynumber: 2.7 Consensus size: 45
13215 AATTAAATTG
* **
13225 AACATCGAATGCATTTCATGCATCGATGCACTGAGGATTTTATGAA
1 AACATCGAATGCATTTGATGCATC-ATGCACTCTGGATTTTATGAA
* *
13271 AACATCGAATACATTTGATGCATCATGCACTCTGGCTATTT-TG-A
1 AACATCGAATGCATTTGATGCATCATGCACTCTGGAT-TTTATGAA
* **
13315 AACATCGAATGCACTTGATGCATTGTGCACTCT
1 AACATCGAATGCATTTGATGCATCATGCACTCT
13348 TAGTGCACCG
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
44 30 0.45
45 12 0.18
46 25 0.37
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (45 bp):
AACATCGAATGCATTTGATGCATCATGCACTCTGGATTTTATGAA
Found at i:18785 original size:24 final size:24
Alignment explanation
Indices: 18758--18838 Score: 75
Period size: 24 Copynumber: 3.5 Consensus size: 24
18748 ACACTTAATA
18758 GTGCATCGATGCATCCCTTTGAAT
1 GTGCATCGATGCATCCCTTTGAAT
* *
18782 GTGCATCGATTCAT-CATGTTG-A-
1 GTGCATCGATGCATCCCT-TTGAAT
*
18804 -TGCACCGATGCA-CGCC-TTGAAT
1 GTGCATCGATGCATC-CCTTTGAAT
18826 GTGCATCGATGCA
1 GTGCATCGATGCA
18839 CGGGGTCATG
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
20 3 0.07
21 11 0.24
22 1 0.02
23 14 0.31
24 16 0.36
ACGTcount: A:0.22, C:0.25, G:0.23, T:0.30
Consensus pattern (24 bp):
GTGCATCGATGCATCCCTTTGAAT
Found at i:22759 original size:36 final size:35
Alignment explanation
Indices: 22652--22762 Score: 118
Period size: 36 Copynumber: 3.1 Consensus size: 35
22642 TTCATTGATG
*
22652 AAATATTCTAAATTAAAAGATATTTATTATCTCTTT
1 AAATATTC-AAATTAAAAGATATTTATTATCTTTTT
* * * *
22688 ACAT-TTGAATATTAATATGATAATTA-TATCTTTTT
1 AAATATTCAA-ATTAA-AAGATATTTATTATCTTTTT
*
22723 AAATATCTCAAAGTAAAAGATATTTATTATCTTTTT
1 AAATAT-TCAAATTAAAAGATATTTATTATCTTTTT
22759 AAAT
1 AAAT
22763 TTGAATATTT
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
34 2 0.03
35 26 0.43
36 29 0.48
37 3 0.05
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (35 bp):
AAATATTCAAATTAAAAGATATTTATTATCTTTTT
Found at i:22880 original size:17 final size:17
Alignment explanation
Indices: 22858--22894 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
22848 TATTTTCAAA
*
22858 TTAAAAGATATTATCTT
1 TTAAAAGATAATATCTT
*
22875 TTAAAAGATAATATTTT
1 TTAAAAGATAATATCTT
22892 TTA
1 TTA
22895 GAGTTTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (17 bp):
TTAAAAGATAATATCTT
Found at i:30063 original size:22 final size:22
Alignment explanation
Indices: 30037--30116 Score: 85
Period size: 23 Copynumber: 3.7 Consensus size: 22
30027 ATAGGGCAGA
*
30037 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATACCCCCTTGAAG
* *
30059 GGGAACCGATTCCCCCTTTGAAT
1 GGGAACCGATACCCCC-TTGAAG
*
30082 GGGAACCGATTCCCCC-T--AG
1 GGGAACCGATACCCCCTTGAAG
*
30101 GGGAATCGATACCCCC
1 GGGAACCGATACCCCC
30117 CTGGGGTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 15 0.29
21 1 0.02
22 14 0.27
23 21 0.41
ACGTcount: A:0.24, C:0.33, G:0.25, T:0.19
Consensus pattern (22 bp):
GGGAACCGATACCCCCTTGAAG
Found at i:30079 original size:23 final size:23
Alignment explanation
Indices: 30037--30098 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
30027 ATAGGGCAGA
* *
30037 GGGAATCGATACCCCC-TTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
*
30059 GGGAACCGATTCCCCCTTTGAAT
1 GGGAACCGATTCCCCCTTTGAAG
30082 GGGAACCGATTCCCCCT
1 GGGAACCGATTCCCCCT
30099 AGGGGAATCG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 14 0.39
23 22 0.61
ACGTcount: A:0.23, C:0.32, G:0.24, T:0.21
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAG
Found at i:34827 original size:24 final size:24
Alignment explanation
Indices: 34800--34883 Score: 69
Period size: 24 Copynumber: 3.3 Consensus size: 24
34790 ATATAGAGAG
34800 AAATATATTGTAATAATTATTCTT
1 AAATATATTGTAATAATTATTCTT
**** * *
34824 AAATATACAAAAGATAAATTGTTTATTT
1 AAATATATTGTA-AT-AATT-ATT-CTT
34852 GAAATATATTGTAATAATTATTCTT
1 -AAATATATTGTAATAATTATTCTT
34877 AAATATA
1 AAATATA
34884 CAAAAGATAA
Statistics
Matches: 43, Mismatches: 12, Indels: 10
0.66 0.18 0.15
Matches are distributed among these distances:
24 15 0.35
25 4 0.09
26 6 0.14
27 6 0.14
28 4 0.09
29 8 0.19
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (24 bp):
AAATATATTGTAATAATTATTCTT
Found at i:34857 original size:29 final size:29
Alignment explanation
Indices: 34824--34907 Score: 79
Period size: 29 Copynumber: 3.1 Consensus size: 29
34814 AATTATTCTT
34824 AAATATACAAAAGATAAATTGTTTATTTG
1 AAATATACAAAAGATAAATTGTTTATTTG
**** * *
34853 AAATATATTGTA-AT-AATT-ATT-CTT-
1 AAATATACAAAAGATAAATTGTTTATTTG
34877 AAATATACAAAAGATAAATTGTTTATTTG
1 AAATATACAAAAGATAAATTGTTTATTTG
34906 AA
1 AA
34908 GGTTAAGTTA
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
24 8 0.21
25 4 0.11
26 6 0.16
27 6 0.16
28 4 0.11
29 10 0.26
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (29 bp):
AAATATACAAAAGATAAATTGTTTATTTG
Found at i:34865 original size:53 final size:53
Alignment explanation
Indices: 34799--34907 Score: 218
Period size: 53 Copynumber: 2.1 Consensus size: 53
34789 TATATAGAGA
34799 GAAATATATTGTAATAATTATTCTTAAATATACAAAAGATAAATTGTTTATTT
1 GAAATATATTGTAATAATTATTCTTAAATATACAAAAGATAAATTGTTTATTT
34852 GAAATATATTGTAATAATTATTCTTAAATATACAAAAGATAAATTGTTTATTT
1 GAAATATATTGTAATAATTATTCTTAAATATACAAAAGATAAATTGTTTATTT
34905 GAA
1 GAA
34908 GGTTAAGTTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (53 bp):
GAAATATATTGTAATAATTATTCTTAAATATACAAAAGATAAATTGTTTATTT
Found at i:35874 original size:21 final size:21
Alignment explanation
Indices: 35795--35919 Score: 133
Period size: 21 Copynumber: 6.0 Consensus size: 21
35785 CTTCCGATAT
* * *
35795 ACCCTCTATGCCCGCAATAAC
1 ACCCGCTATGGCCGCAATAGC
* * *
35816 GCCTGTTATGGCCGCAATAGC
1 ACCCGCTATGGCCGCAATAGC
* * * * *
35837 GCCTGTTATAGCCGCAATAAC
1 ACCCGCTATGGCCGCAATAGC
*
35858 ACCCGCTATGGCTGCAATAGC
1 ACCCGCTATGGCCGCAATAGC
35879 ACCCGCTATGGCCGCAATAGC
1 ACCCGCTATGGCCGCAATAGC
*
35900 ATCCGCTATGGCCGCAATAG
1 ACCCGCTATGGCCGCAATAG
35920 TGGTAAATGC
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 88 1.00
ACGTcount: A:0.25, C:0.34, G:0.22, T:0.20
Consensus pattern (21 bp):
ACCCGCTATGGCCGCAATAGC
Found at i:37376 original size:19 final size:18
Alignment explanation
Indices: 37325--37378 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
37315 TTTTACATAC
37325 TAAAATTGATAT-TTTTAA
1 TAAAATT-ATATATTTTAA
* * *
37343 TAAAATAAAATATTTTAT
1 TAAAATTATATATTTTAA
37361 TAAAATTATATGATTTTA
1 TAAAATTATAT-ATTTTA
37379 GGTGTTTTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
17 3 0.10
18 20 0.69
19 6 0.21
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (18 bp):
TAAAATTATATATTTTAA
Found at i:44249 original size:20 final size:21
Alignment explanation
Indices: 44224--44272 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
44214 TATTTATTTT
44224 TTAAAAATAA-AAATAACTTA
1 TTAAAAATAATAAATAACTTA
* * *
44244 TTAAAAATAATAAATTATTTT
1 TTAAAAATAATAAATAACTTA
44265 TTAAAAAT
1 TTAAAAAT
44273 GTTATTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 10 0.40
21 15 0.60
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAAATAATAAATAACTTA
Found at i:45835 original size:13 final size:14
Alignment explanation
Indices: 45817--45847 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
45807 ATTTTAAAAT
45817 AAAATA-TTTTTTA
1 AAAATATTTTTTTA
45830 AAAATATTTTTTTA
1 AAAATATTTTTTTA
45844 AAAA
1 AAAA
45848 CTAAATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAAATATTTTTTTA
Found at i:54230 original size:12 final size:11
Alignment explanation
Indices: 54191--54227 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
54181 CACCAAAAGA
*
54191 AAAACTTAAAG
1 AAAACTTAATG
*
54202 AAAACCTAATG
1 AAAACTTAATG
54213 AAAACTTAATG
1 AAAACTTAATG
54224 AAAA
1 AAAA
54228 ACTGATGCCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.62, C:0.11, G:0.08, T:0.19
Consensus pattern (11 bp):
AAAACTTAATG
Found at i:55499 original size:36 final size:36
Alignment explanation
Indices: 55434--55727 Score: 290
Period size: 38 Copynumber: 8.3 Consensus size: 36
55424 TTTAAAAAAG
*
55434 AAAACA-TTTTGAAAA-TATGGGTAATATATAGTTTTT
1 AAAACATTTTTGAAAACTAT--ATAATATATAGTTTTT
* * *
55470 TAAATATTTTTGAAAACTATATAACATATAGTTTTT
1 AAAACATTTTTGAAAACTATATAATATATAGTTTTT
* *
55506 AAAACATTTTAGAAAA-TATATAACATATAG-TTTT
1 AAAACATTTTTGAAAACTATATAATATATAGTTTTT
* *
55540 AAAATCA-TTTTAAAAACTTATATAATATATAGTTTTA
1 AAAA-CATTTTTGAAAAC-TATATAATATATAGTTTTT
* *
55577 AAAACATTTTTGAATAAATTATATAATATATAGTTTTA
1 AAAACATTTTTG-A-AAACTATATAATATATAGTTTTT
* *
55615 AAAACATTTTTGAATAAATTATATAATATATAGTTTTA
1 AAAACATTTTTG-A-AAACTATATAATATATAGTTTTT
* *
55653 AAAACGTTTTTTAAAACT-TAT-ATA-ATA-TTTTT
1 AAAACATTTTTGAAAACTATATAATATATAGTTTTT
*
55685 AAAACA-TTTTGAAAACTATAT-A-ATATAGTTTTG
1 AAAACATTTTTGAAAACTATATAATATATAGTTTTT
55718 AAAAC-TTTTT
1 AAAACATTTTT
55728 AAATATAATA
Statistics
Matches: 225, Mismatches: 20, Indels: 29
0.82 0.07 0.11
Matches are distributed among these distances:
31 11 0.05
32 16 0.07
33 16 0.07
34 18 0.08
35 19 0.08
36 50 0.22
37 21 0.09
38 71 0.32
39 3 0.01
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (36 bp):
AAAACATTTTTGAAAACTATATAATATATAGTTTTT
Found at i:55689 original size:32 final size:30
Alignment explanation
Indices: 55640--55727 Score: 88
Period size: 32 Copynumber: 2.8 Consensus size: 30
55630 AAATTATATA
* *
55640 ATAT-ATAGTTTTAAAAACGTTTTTTAAAACTT
1 ATATAATA-TTTTTAAAAC-TTTTTGAAAAC-T
*
55672 ATATAATATTTTTAAAACATTTTGAAAACT
1 ATATAATATTTTTAAAACTTTTTGAAAACT
55702 ATATAATATAGTTTTGAAAACTTTTT
1 ATATAATAT--TTTT-AAAACTTTTT
55728 AAATATAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
30 10 0.21
31 9 0.19
32 17 0.35
33 12 0.25
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.47
Consensus pattern (30 bp):
ATATAATATTTTTAAAACTTTTTGAAAACT
Found at i:55749 original size:28 final size:29
Alignment explanation
Indices: 55702--55762 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 29
55692 TTTGAAAACT
* *
55702 ATATAATATAGTTTTGAAAACT-TTTT-AA
1 ATATAATATAG-TTTAAAAAATATTTTGAA
55730 ATATAATATAGTTTAAAAAATATTTTGAA
1 ATATAATATAGTTTAAAAAATATTTTGAA
55759 ATAT
1 ATAT
55763 GTATTATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 8 0.28
28 15 0.52
29 6 0.21
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.44
Consensus pattern (29 bp):
ATATAATATAGTTTAAAAAATATTTTGAA
Found at i:55824 original size:11 final size:10
Alignment explanation
Indices: 55800--55834 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
55790 ATTATTATTA
55800 TTTATTTTTT
1 TTTATTTTTT
55810 TTTATTTTCTT
1 TTTATTTT-TT
55821 TTTATGTTTTT
1 TTTAT-TTTTT
55832 TTT
1 TTT
55835 TCAGGGTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.35
11 12 0.52
12 3 0.13
ACGTcount: A:0.09, C:0.03, G:0.03, T:0.86
Consensus pattern (10 bp):
TTTATTTTTT
Found at i:62756 original size:165 final size:165
Alignment explanation
Indices: 62257--63663 Score: 2651
Period size: 165 Copynumber: 8.6 Consensus size: 165
62247 ACCTGCCACC
* *
62257 AAGACCTTCGAGTTCAACTACGCTTAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
62322 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
62387 CATAACTCAAGGCTAGAAGGGTTATCTGTGACC--
131 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
62420 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
62485 AAGGGCTATCTGCCAAAGA-CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
62549 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
62584 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
62649 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
62714 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
62749 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG-A-ATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
62812 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
62877 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
*
62912 AAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
62977 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
63042 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
63077 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG--CA-CATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
63139 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
63204 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
63239 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
63304 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
63369 CATAACTCAAGGCT-GAAGGGTTATC--TGACCAA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
*
63401 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCA-TTGCAGTATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
63465 AAGGGCTATCTGCCAAAGA-CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
63529 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
131 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
*
63564 AAGACCTTCGAGTTCGACTCCGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* **
63629 AAGGGCTATCTGCTAAAGACCTTCGAGTTCGATTA
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
63664 TATTCAACTT
Statistics
Matches: 1221, Mismatches: 10, Indels: 24
0.97 0.01 0.02
Matches are distributed among these distances:
160 59 0.05
161 51 0.04
162 287 0.24
163 293 0.24
164 138 0.11
165 393 0.32
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (165 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAA
Found at i:63705 original size:327 final size:329
Alignment explanation
Indices: 62257--63663 Score: 2631
Period size: 327 Copynumber: 4.3 Consensus size: 329
62247 ACCTGCCACC
* *
62257 AAGACCTTCGAGTTCAACTACGCTTAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
62322 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
62387 CATAACTCAAGGCTAGAAGGGTTATCTGTGACC--AAGACCTTCGAGTTCGACTACGCTCAGCTC
131 CATAACTCAAGGCTAGAAGGGTTATC-GTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
62450 CAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA-CCCCGAGTTC
195 CAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTC
62514 GATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTG
260 GATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTG
62579 ACCAA
325 ACCAA
62584 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
62649 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
62714 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
131 CATAACTCAAGGCTAGAAGGGTTATC-GTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
62779 CAAGG-A-ATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTC
195 CAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTC
62842 GATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTG
260 GATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTG
62907 ACCAA
325 ACCAA
*
62912 AAGACCTTCGAGTTCGACTACGCTTAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
62977 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
63042 CATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
131 CATAACTCAAGGCTAGAAGGGTTATC-GTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTC
63107 CAAGG--CA-CATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTC
195 CAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTC
63169 GATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTG
260 GATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTG
63234 ACCAA
325 ACCAA
63239 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
63304 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
63369 CATAACTCAAGGCT-GAAGGGTTATC-TGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
131 CATAACTCAAGGCTAGAAGGGTTATCGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
*
63432 AAGGCACATCA-TTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGA-CCCCGAGTTCG
196 AAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCG
63495 ATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGA
261 ATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGA
63560 CCAA
326 CCAA
*
63564 AAGACCTTCGAGTTCGACTCCGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
1 AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
* **
63629 AAGGGCTATCTGCTAAAGACCTTCGAGTTCGATTA
66 AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTA
63664 TATTCAACTT
Statistics
Matches: 1064, Mismatches: 9, Indels: 16
0.98 0.01 0.01
Matches are distributed among these distances:
324 42 0.04
325 176 0.17
326 53 0.05
327 477 0.45
328 281 0.26
329 35 0.03
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (329 bp):
AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAG
AAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTACAG
CATAACTCAAGGCTAGAAGGGTTATCGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAGCTCC
AAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCG
ATTACACTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGA
CCAA
Found at i:64369 original size:37 final size:36
Alignment explanation
Indices: 64303--64630 Score: 287
Period size: 37 Copynumber: 9.4 Consensus size: 36
64293 TTTTAAAAAA
*
64303 AAAACA-TTTTGAAAA-TATGGGTAATATATAGTTTTTT
1 AAAACATTTTTGAAAACTAT--ATAATATATAG-TTTTT
* *
64340 AAAATATTTTTGAAAACTATATAACATATAGTTTTT
1 AAAACATTTTTGAAAACTATATAATATATAGTTTTT
* * *
64376 AAAACATTTTAGAAAATATATATAACATATAG-TTTT
1 AAAACATTTTTGAAAA-CTATATAATATATAGTTTTT
* *
64412 AAAATCA-TTTTAAAAACT-TATAATATATAG-TTTA
1 AAAA-CATTTTTGAAAACTATATAATATATAGTTTTT
* *
64446 AAAACATTTTTGAATAAATTATATAATATATAGTTTTA
1 AAAACATTTTTG-A-AAACTATATAATATATAGTTTTT
* *
64484 AAAACATTTTTGAATAAATATATAATATATAGTTTTA
1 AAAACATTTTTGAA-AACTATATAATATATAGTTTTT
* *
64521 AAAACGTTTTTTAAAACT-TAT-ATA-ATA-TTTTT
1 AAAACATTTTTGAAAACTATATAATATATAGTTTTT
*
64553 AAAACA-TTTTGAAAACTATAT-A-ATATAGTTTTG
1 AAAACATTTTTGAAAACTATATAATATATAGTTTTT
* **
64586 AAAAC-TTTTT--TAA--ATATAATATATAGTTTAA
1 AAAACATTTTTGAAAACTATATAATATATAGTTTTT
*
64617 AAAATATTTTTGAA
1 AAAACATTTTTGAA
64631 TATGTATTAT
Statistics
Matches: 246, Mismatches: 26, Indels: 41
0.79 0.08 0.13
Matches are distributed among these distances:
29 4 0.02
30 1 0.00
31 26 0.11
32 21 0.09
33 18 0.07
34 25 0.10
35 5 0.02
36 42 0.17
37 76 0.31
38 25 0.10
39 3 0.01
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.43
Consensus pattern (36 bp):
AAAACATTTTTGAAAACTATATAATATATAGTTTTT
Found at i:64469 original size:108 final size:106
Alignment explanation
Indices: 64324--64610 Score: 336
Period size: 108 Copynumber: 2.7 Consensus size: 106
64314 AAAATATGGG
* *
64324 TAATATATAGTTTTTTAAAATATTTTTGAAAACTATATAACATATAGTTTTTAAAACATTTTAGA
1 TAATATATAG--TTTTAAAACATTTTTGAAAACTATATAA-ATATAGTTTTAAAAACATTTTAGA
*
64389 A-AATATATATAACATATAGTTTTAAAATC-ATTTTAAAAACTTA
63 ATAA-ATATATAACATATAGTTTTAAAAACGATTTTAAAAACTTA
* * *
64432 TAATATATAGTTTAAAAACATTTTTGAATAAATTATATAATATATAGTTTTAAAAACATTTTTGA
1 TAATATATAGTTTTAAAACATTTTTG-A-AAACTATATAA-ATATAGTTTTAAAAACATTTTAGA
* * *
64497 ATAAATATATAATATATAGTTTTAAAAACGTTTTTTAAAACTTA
63 ATAAATATATAACATATAGTTTTAAAAACGATTTTAAAAACTTA
* * *
64541 T-ATA-ATATTTTTAAAACA-TTTTGAAAACTATAT-AATATAGTTTTGAAAACTTTTTTA-AAT
1 TAATATATAGTTTTAAAACATTTTTGAAAACTATATAAATATAGTTTTAAAAAC-ATTTTAGAAT
64601 ATAATATATA
65 A-AATATATA
64611 GTTTAAAAAA
Statistics
Matches: 157, Mismatches: 16, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
102 19 0.12
103 13 0.08
104 8 0.05
105 1 0.01
106 19 0.12
107 13 0.08
108 69 0.44
109 15 0.10
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (106 bp):
TAATATATAGTTTTAAAACATTTTTGAAAACTATATAAATATAGTTTTAAAAACATTTTAGAATA
AATATATAACATATAGTTTTAAAAACGATTTTAAAAACTTA
Found at i:76641 original size:21 final size:21
Alignment explanation
Indices: 76617--76660 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
76607 CAATGACAAG
76617 TGTGGA-TCGTCAATAAATCAA
1 TGTGGACT-GTCAATAAATCAA
* *
76638 TGTGTACTGTTAATAAATCAA
1 TGTGGACTGTCAATAAATCAA
76659 TG
1 TG
76661 AATTTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.34
Consensus pattern (21 bp):
TGTGGACTGTCAATAAATCAA
Found at i:88006 original size:148 final size:148
Alignment explanation
Indices: 87738--88035 Score: 517
Period size: 148 Copynumber: 2.0 Consensus size: 148
87728 ATGTTGGGCA
* * *
87738 TAATGTTTTAATGTGATAGAGGCAATTAGGATTAAACCCACTTTTCCCTAAAAAGCCTACCCTTT
1 TAATGTTTTAATGTGATAGAGACAATTAGGATTAAACCCACTTTTCCCCAAAAAGCCTACCATTT
*
87803 ATATATCCACTAGTGAACCACTTTTTGAGCCTTTATCATTTTTCTTTGTTTTTACCACATAATTA
66 ATATATCCACTAGTGAACCACTTTTTGAGCATTTATCATTTTTCTTTGTTTTTACCACATAATTA
87868 AACCCAAACCTTTATTTT
131 AACCCAAACCTTTATTTT
*
87886 TAATGTTTTAATGTTATAG-GAACAATTAGGATTAAACCCACTTTTCCCCAAAAAGCCTACCATT
1 TAATGTTTTAATGTGATAGAG-ACAATTAGGATTAAACCCACTTTTCCCCAAAAAGCCTACCATT
*
87950 TATATATCCACTAGTGAAGCACTTTTTGAGCATTTATCATTTTTCTTTGTTTTTACCACATAATT
65 TATATATCCACTAGTGAACCACTTTTTGAGCATTTATCATTTTTCTTTGTTTTTACCACATAATT
*
88015 AAACCCAAGCCTTTATTTT
130 AAACCCAAACCTTTATTTT
88034 TA
1 TA
88036 TCCCTCTTTT
Statistics
Matches: 142, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
147 1 0.01
148 141 0.99
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (148 bp):
TAATGTTTTAATGTGATAGAGACAATTAGGATTAAACCCACTTTTCCCCAAAAAGCCTACCATTT
ATATATCCACTAGTGAACCACTTTTTGAGCATTTATCATTTTTCTTTGTTTTTACCACATAATTA
AACCCAAACCTTTATTTT
Found at i:88133 original size:17 final size:18
Alignment explanation
Indices: 88098--88140 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 18
88088 TATGTTCCTT
88098 ATTTTATT-TTTTTCATC
1 ATTTTATTATTTTTCATC
*
88115 ATTTTATTATTTTT-TTC
1 ATTTTATTATTTTTCATC
88132 ATTTT-TTAT
1 ATTTTATTAT
88141 ATTTGCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 15 0.62
18 5 0.21
ACGTcount: A:0.19, C:0.07, G:0.00, T:0.74
Consensus pattern (18 bp):
ATTTTATTATTTTTCATC
Found at i:88232 original size:20 final size:19
Alignment explanation
Indices: 88209--88255 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
88199 ATAAAAAAGC
88209 AAAAAAAATGAAAAAAG-GTG
1 AAAAAAAA--AAAAAAGAGTG
*
88229 AAAAAGAAAAAAAAAGATTG
1 AAAAA-AAAAAAAAAGAGTG
88249 AAAAAAA
1 AAAAAAA
88256 TTATGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 9 0.38
20 12 0.50
21 3 0.12
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.09
Consensus pattern (19 bp):
AAAAAAAAAAAAAAGAGTG
Found at i:92825 original size:36 final size:36
Alignment explanation
Indices: 92774--92847 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
92764 TGACTATAAG
92774 ATAGTATATGCTTAGAACTTTTTGAACATATTGACA
1 ATAGTATATGCTTAGAACTTTTTGAACATATTGACA
*
92810 ATAGTATATGTTTAGAACTTTTTGAACATATTGACA
1 ATAGTATATGCTTAGAACTTTTTGAACATATTGACA
92846 AT
1 AT
92848 GTACATAGGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (36 bp):
ATAGTATATGCTTAGAACTTTTTGAACATATTGACA
Found at i:94075 original size:29 final size:26
Alignment explanation
Indices: 94023--94075 Score: 79
Period size: 29 Copynumber: 1.9 Consensus size: 26
94013 TAGCATATTT
94023 AAAAATAAAACTTAAAATAAAAGAAA
1 AAAAATAAAACTTAAAATAAAAGAAA
94049 AAAAATGAAAACTTGAAAAATAAAAGA
1 AAAAAT-AAAACTT--AAAATAAAAGA
94076 TAATCCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 6 0.25
27 7 0.29
29 11 0.46
ACGTcount: A:0.74, C:0.04, G:0.08, T:0.15
Consensus pattern (26 bp):
AAAAATAAAACTTAAAATAAAAGAAA
Found at i:96330 original size:24 final size:23
Alignment explanation
Indices: 96286--96335 Score: 55
Period size: 24 Copynumber: 2.1 Consensus size: 23
96276 TTCGTTTAGC
* ** *
96286 GTTCGTTTAATGTTCGTGAACGT
1 GTTCGTTTAACGTTCACGAACAT
96309 GTTCGTTTATACGTTCACGAACAT
1 GTTCGTTTA-ACGTTCACGAACAT
96333 GTT
1 GTT
96336 TATGAACATG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (23 bp):
GTTCGTTTAACGTTCACGAACAT
Found at i:96370 original size:22 final size:22
Alignment explanation
Indices: 96344--96397 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
96334 TTTATGAACA
96344 TGTTCGTTTAACATT-TATTTAG
1 TGTTCGTTTAACATTGT-TTTAG
* *
96366 TGTTCGTTTAGCATTGTTTTGG
1 TGTTCGTTTAACATTGTTTTAG
*
96388 TGTTTGTTTA
1 TGTTCGTTTA
96398 TCGTTCGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 27 0.96
23 1 0.04
ACGTcount: A:0.15, C:0.07, G:0.20, T:0.57
Consensus pattern (22 bp):
TGTTCGTTTAACATTGTTTTAG
Found at i:97247 original size:14 final size:15
Alignment explanation
Indices: 97221--97249 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
97211 TATAAAAACA
97221 TTAAAAATGTAAAAG
1 TTAAAAATGTAAAAG
97236 TTAAAAAT-TAAAAG
1 TTAAAAATGTAAAAG
97250 ATCTAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.28
Consensus pattern (15 bp):
TTAAAAATGTAAAAG
Found at i:99345 original size:3 final size:3
Alignment explanation
Indices: 99334--99385 Score: 72
Period size: 3 Copynumber: 17.7 Consensus size: 3
99324 AATTTTTTTA
*
99334 TAT TA- TAT TAT TAT TATT TAT TAA TAT TAT TAT TAT TAT TAT T-T
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT
99378 TAT TAT TA
1 TAT TAT TA
99386 ACAAAAATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
2 4 0.09
3 37 0.84
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:99345 original size:22 final size:22
Alignment explanation
Indices: 99320--99385 Score: 71
Period size: 25 Copynumber: 2.8 Consensus size: 22
99310 TGTCCGAATC
99320 TATTAATTTTTTTATATTA-TAT
1 TATT-ATTTTTTTATATTATTAT
99342 TATTATTATTTATTAATATTATTAT
1 TATTATT-TTT-TT-ATATTATTAT
*
99367 TATTATTATTTTATTATTA
1 TATTATTTTTTTA-TATTA
99386 ACAAAAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
21 3 0.08
22 8 0.21
23 9 0.24
24 8 0.21
25 10 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTATTTTTTTATATTATTAT
Found at i:100977 original size:30 final size:30
Alignment explanation
Indices: 100941--101030 Score: 110
Period size: 30 Copynumber: 3.0 Consensus size: 30
100931 TTTTTGTTAA
* *
100941 TACCATTTTAGTCCCTTAAGTTTTTATTTT
1 TACCATTTTAGTCCTTTAAGTTTCTATTTT
* * *
100971 TTCCATTTTATTCCTTTAACTTTCTATTTT
1 TACCATTTTAGTCCTTTAAGTTTCTATTTT
* *
101001 TACTA-TTTAGTCCTTTAAGTTTCTGTTTT
1 TACCATTTTAGTCCTTTAAGTTTCTATTTT
101030 T
1 T
101031 GTTGTTTAGC
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
29 22 0.44
30 28 0.56
ACGTcount: A:0.18, C:0.17, G:0.06, T:0.60
Consensus pattern (30 bp):
TACCATTTTAGTCCTTTAAGTTTCTATTTT
Found at i:101001 original size:29 final size:29
Alignment explanation
Indices: 100943--101030 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
100933 TTTGTTAATA
* *
100943 CCATTTTAGTCCCTTAAGTTTTTATTTTTT
1 CCATTTTAGTCCTTTAAGTTTCTA-TTTTT
* *
100973 CCATTTTATTCCTTTAACTTTCTATTTTT
1 CCATTTTAGTCCTTTAAGTTTCTATTTTT
* *
101002 AC-TATTTAGTCCTTTAAGTTTCTGTTTTT
1 CCAT-TTTAGTCCTTTAAGTTTCTATTTTT
101031 GTTGTTTAGC
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
28 1 0.02
29 28 0.57
30 20 0.41
ACGTcount: A:0.17, C:0.17, G:0.06, T:0.60
Consensus pattern (29 bp):
CCATTTTAGTCCTTTAAGTTTCTATTTTT
Found at i:101038 original size:29 final size:29
Alignment explanation
Indices: 100977--101066 Score: 92
Period size: 29 Copynumber: 3.1 Consensus size: 29
100967 TTTTTTCCAT
* * *
100977 TTTATTCCTTTAACTTTCTATTTTTACTA
1 TTTAGTCCTTTAAATTTCTGTTTTTACTA
* ** *
101006 TTTAGTCCTTTAAGTTTCTGTTTTTGTTG
1 TTTAGTCCTTTAAATTTCTGTTTTTACTA
*
101035 TTTAG-CCTTTTAAATTTCTGTTTTAACTA
1 TTTAGTCC-TTTAAATTTCTGTTTTTACTA
101064 TTT
1 TTT
101067 TAGCCCTTCA
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
28 2 0.04
29 47 0.96
ACGTcount: A:0.18, C:0.13, G:0.08, T:0.61
Consensus pattern (29 bp):
TTTAGTCCTTTAAATTTCTGTTTTTACTA
Found at i:102118 original size:22 final size:23
Alignment explanation
Indices: 102076--102118 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
102066 AAGTCATAAC
*
102076 TGTTTTTTAAAATAATAATTAAT
1 TGTTTTATAAAATAATAATTAAT
*
102099 TGTTTTATAAAA-AATGATTA
1 TGTTTTATAAAATAATAATTA
102119 TCACAACTAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (23 bp):
TGTTTTATAAAATAATAATTAAT
Found at i:102592 original size:45 final size:45
Alignment explanation
Indices: 102542--102629 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
102532 TGTAGTATAC
*
102542 ATCTATTCTATTATATTTCATGAGATTCATAAACATAAGCAATAT
1 ATCTATTCTACTATATTTCATGAGATTCATAAACATAAGCAATAT
*
102587 ATCTATTCTACTATATTTCATGAGATTCATAAACCTAAGCAAT
1 ATCTATTCTACTATATTTCATGAGATTCATAAACATAAGCAAT
102630 GATACATCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (45 bp):
ATCTATTCTACTATATTTCATGAGATTCATAAACATAAGCAATAT
Found at i:116560 original size:26 final size:26
Alignment explanation
Indices: 116530--116588 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 26
116520 CAAGGTGTTA
* *
116530 AGTCAATAAGATGCACTTTCAGTATC
1 AGTCAATAAAATACACTTTCAGTATC
* * * *
116556 AGTCAGTAAAATATACTTTTAGTGTC
1 AGTCAATAAAATACACTTTCAGTATC
116582 AGTCAAT
1 AGTCAAT
116589 GTACAAGATA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (26 bp):
AGTCAATAAAATACACTTTCAGTATC
Found at i:118154 original size:41 final size:41
Alignment explanation
Indices: 118021--118238 Score: 114
Period size: 40 Copynumber: 5.3 Consensus size: 41
118011 AATTGATACT
* * * * *
118021 TTAGCGGCGTTTGTTGTAA-AAACGCTGCAATAGATTTG-ACA
1 TTAGTGGCGTTT-TT-TAACAAACGCCGCAATAGAGTGGTAAA
* * * * **
118062 TATAGTGGCGTTTTTACAAAAAATGCCGCAATAGGGTGGTTTA
1 T-TAGTGGCGTTTTT-TAACAAACGCCGCAATAGAGTGGTAAA
* *
118105 TT-GCGGCGTTTTTTAACAAACGGCGCAATAGAGTGGTAAA
1 TTAGTGGCGTTTTTTAACAAACGCCGCAATAGAGTGGTAAA
*
118145 TTAGTGGCG-TTTATACCACAAACGCCGCAATAGA-T--TAACA
1 TTAGTGGCGTTTTTTA--ACAAACGCCGCAATAGAGTGGTAA-A
* *
118185 TATAGTGGCG--TTTTAGCCAAAACGCCGTAATAGA-TCGGTAAA
1 T-TAGTGGCGTTTTTTA-AC-AAACGCCGCAATAGAGT-GGTAAA
*
118227 TTAGCGGCGTTT
1 TTAGTGGCGTTT
118239 ATACCAAAAA
Statistics
Matches: 137, Mismatches: 26, Indels: 26
0.72 0.14 0.14
Matches are distributed among these distances:
39 4 0.03
40 48 0.35
41 36 0.26
42 43 0.31
43 6 0.04
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.29
Consensus pattern (41 bp):
TTAGTGGCGTTTTTTAACAAACGCCGCAATAGAGTGGTAAA
Found at i:118195 original size:82 final size:83
Alignment explanation
Indices: 118115--118272 Score: 216
Period size: 82 Copynumber: 1.9 Consensus size: 83
118105 TTGCGGCGTT
* * *
118115 TTTTA-AC-AAACGGCGCAATAGAGT-GGTAAATTAGTGGCGTTTATACCACAAACGCCGCAATA
1 TTTTAGACAAAACGCCGCAATAGA-TCGGTAAATTAGCGGCGTTTATACCAAAAACGCCGCAATA
118177 GATTA-ACATATAGTGGCG
65 GATTACACATATAGTGGCG
* * * *
118195 TTTTAGCCAAAACGCCGTAATAGATCGGTAAATTAGCGGCGTTTATACCAAAAATGCCGTAATAG
1 TTTTAGACAAAACGCCGCAATAGATCGGTAAATTAGCGGCGTTTATACCAAAAACGCCGCAATAG
118260 ATTACACATATAG
66 ATTACACATATAG
118273 AGGCATTTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
80 5 0.07
81 2 0.03
82 52 0.78
83 8 0.12
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.26
Consensus pattern (83 bp):
TTTTAGACAAAACGCCGCAATAGATCGGTAAATTAGCGGCGTTTATACCAAAAACGCCGCAATAG
ATTACACATATAGTGGCG
Found at i:118282 original size:42 final size:41
Alignment explanation
Indices: 118150--118282 Score: 139
Period size: 42 Copynumber: 3.2 Consensus size: 41
118140 GTAAATTAGT
* * *
118150 GGCGTTTATACCACAAACGCCGCAATAGATTAACATATAGT
1 GGCGTTTATACCAAAAACGCCGTAATAGATTAACATATAGA
*
118191 GGCGTTT-TAGCC-AAAACGCCGTAATAGATCGGTAA-AT-TAGC
1 GGCGTTTATA-CCAAAAACGCCGTAATAGAT---TAACATATAGA
*
118232 GGCGTTTATACCAAAAATGCCGTAATAGATTACACATATAGA
1 GGCGTTTATACCAAAAACGCCGTAATAGATTA-ACATATAGA
*
118274 GGCATTTAT
1 GGCGTTTAT
118283 TCTTAAAACA
Statistics
Matches: 77, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
39 2 0.03
40 18 0.23
41 23 0.30
42 31 0.40
43 3 0.04
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (41 bp):
GGCGTTTATACCAAAAACGCCGTAATAGATTAACATATAGA
Found at i:120063 original size:41 final size:41
Alignment explanation
Indices: 119779--120063 Score: 320
Period size: 41 Copynumber: 6.9 Consensus size: 41
119769 CTATAGGTAA
* * *
119779 GTACTTTAGTGGTGTTTTTATACAAACGCCGTTATAGAATC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
* * * *
119820 GTACATTAGTGGCGTTTTTATACAAACGACGCTATATACTA
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
* * *
119861 GTACTTTAGTGGCGTTTCTATACAAACGCCACTATATACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
* * * *
119902 ATACTTTAGTGGCGTTTTGA-ATCTAAACACCGCTATAAACTC
1 GTACTTTAGTGGCGTTTTTATA-C-AAACGCCGCTATAGACTC
** * * * *
119944 GTACTTTAGCAGTGTTTTTATATAAACGCCGCGATAGACTA
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
*
119985 GTACTTTAGTGGTGTTTTTATACAAACGCCGCTATAGACTC
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
* * * *
120026 GTACCTTAGTGGCGTTTTTAGATAAACGCCGCAATAGA
1 GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGA
120064 TATAATATTT
Statistics
Matches: 203, Mismatches: 38, Indels: 6
0.82 0.15 0.02
Matches are distributed among these distances:
40 1 0.00
41 171 0.84
42 30 0.15
43 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.34
Consensus pattern (41 bp):
GTACTTTAGTGGCGTTTTTATACAAACGCCGCTATAGACTC
Found at i:120079 original size:41 final size:41
Alignment explanation
Indices: 120034--120144 Score: 168
Period size: 43 Copynumber: 2.7 Consensus size: 41
120024 TCGTACCTTA
*
120034 GTGGCGTTTTTAGATAAACGCCGCAATAGATATAATATTTT
1 GTGGCATTTTTAGATAAACGCCGCAATAGATATAATATTTT
120075 GTGGCATTTTTCTAGATAAACGCCGCAATAGATATAATATTTT
1 GTGGCA-TTTT-TAGATAAACGCCGCAATAGATATAATATTTT
* * *
120118 GCGGCATTTTTAAATAAACGTCGCAAT
1 GTGGCATTTTTAGATAAACGCCGCAAT
120145 TGTATTCTCC
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
41 20 0.31
42 8 0.12
43 36 0.56
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.35
Consensus pattern (41 bp):
GTGGCATTTTTAGATAAACGCCGCAATAGATATAATATTTT
Found at i:120175 original size:41 final size:42
Alignment explanation
Indices: 120130--120223 Score: 138
Period size: 41 Copynumber: 2.3 Consensus size: 42
120120 GGCATTTTTA
* *
120130 AATAAACGTCGCAATTGTATTCTCCT-TTAGTGGC-TTTTTGT
1 AATAAACGCCGCAATTGTATTCT-CTGTTAGTGGCATTTTCGT
*
120171 AATAAACGCCGCAATTGTTTTCTCTGTTAGTGGCATTTTCGT
1 AATAAACGCCGCAATTGTATTCTCTGTTAGTGGCATTTTCGT
120213 AATAAACGCCG
1 AATAAACGCCG
120224 TAATAGTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
40 2 0.04
41 29 0.60
42 17 0.35
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.38
Consensus pattern (42 bp):
AATAAACGCCGCAATTGTATTCTCTGTTAGTGGCATTTTCGT
Found at i:121439 original size:16 final size:16
Alignment explanation
Indices: 121414--121448 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
121404 TGCTACCTAC
121414 TTTTACGGTGTTTCAA
1 TTTTACGGTGTTTCAA
*
121430 TTTTATGGTGTTTCAA
1 TTTTACGGTGTTTCAA
121446 TTT
1 TTT
121449 ATTTGTCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.17, C:0.09, G:0.17, T:0.57
Consensus pattern (16 bp):
TTTTACGGTGTTTCAA
Found at i:123173 original size:17 final size:18
Alignment explanation
Indices: 123151--123196 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 18
123141 AAGCAGAGAA
123151 AGAAGCAGCG-CACAGAG
1 AGAAGCAGCGACACAGAG
123168 AGAAGCAGCGCAACACAGAG
1 AGAAGCAGCG--ACACAGAG
123188 AGAAGCAGC
1 AGAAGCAGC
123197 ATATCAGCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 10 0.38
20 16 0.62
ACGTcount: A:0.43, C:0.24, G:0.33, T:0.00
Consensus pattern (18 bp):
AGAAGCAGCGACACAGAG
Found at i:123724 original size:43 final size:43
Alignment explanation
Indices: 123605--123773 Score: 137
Period size: 43 Copynumber: 3.9 Consensus size: 43
123595 TTTTTATCAG
* * * *
123605 AAACGCCGCAAAACATCAACACCTACTGCGGCGTTT-TAGC-GAA
1 AAACGCCACTAAATATCAACACCTATTGCGGCGTTTGT--CTGAA
* * * *
123648 AAACGCCGCTAAACATCATA-ACCTCTTGTGGCGTTTGTCTGAA
1 AAACGCCACTAAATATCA-ACACCTATTGCGGCGTTTGTCTGAA
* * * * *
123691 AAACGCTACTAAATATTAACACCTATTGCGGCGTTTTTATGAC
1 AAACGCCACTAAATATCAACACCTATTGCGGCGTTTGTCTGAA
** * *
123734 AAACGCCACTAAATATCAATTCCTACTGCGTCGTTTGTCT
1 AAACGCCACTAAATATCAACACCTATTGCGGCGTTTGTCT
123774 TAACGCCGAA
Statistics
Matches: 101, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
42 2 0.02
43 97 0.96
44 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.16, T:0.27
Consensus pattern (43 bp):
AAACGCCACTAAATATCAACACCTATTGCGGCGTTTGTCTGAA
Found at i:123909 original size:53 final size:53
Alignment explanation
Indices: 123829--123935 Score: 182
Period size: 53 Copynumber: 2.0 Consensus size: 53
123819 GTAAAAAAAC
123829 GCCACAAAAAGCCTGTTTTGCTGTAGTGCGTGAGAAAGGGTTGCATGAGACATAT
1 GCCACAAAAAGCCTGTTTTGCTGTAGTGCGTGAGAAAGGG--GCATGAGACATAT
123884 GCCAC-AAAAGCCTG-TTTGCTGTAGTGCGTGAGAAAGGGGCATGAGACATAT
1 GCCACAAAAAGCCTGTTTTGCTGTAGTGCGTGAGAAAGGGGCATGAGACATAT
123935 G
1 G
123936 ATAATGTGTT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
51 14 0.27
53 24 0.46
54 9 0.17
55 5 0.10
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (53 bp):
GCCACAAAAAGCCTGTTTTGCTGTAGTGCGTGAGAAAGGGGCATGAGACATAT
Found at i:124096 original size:16 final size:19
Alignment explanation
Indices: 124061--124099 Score: 57
Period size: 16 Copynumber: 2.2 Consensus size: 19
124051 TTTTTAAAAA
124061 ATTTAAAATTATTGTATAT
1 ATTTAAAATTATTGTATAT
124080 ATTT-AAATT-TT-TATAT
1 ATTTAAAATTATTGTATAT
124096 ATTT
1 ATTT
124100 TTATTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 9 0.45
17 2 0.10
18 5 0.25
19 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
ATTTAAAATTATTGTATAT
Found at i:124101 original size:10 final size:10
Alignment explanation
Indices: 124086--124140 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
124076 ATATATTTAA
124086 ATTTTTATAT
1 ATTTTTATAT
*
124096 ATTTTTATTAA
1 ATTTTTA-TAT
124107 ATTTTT-TAT
1 ATTTTTATAT
* *
124116 TTTTTTTTAT
1 ATTTTTATAT
*
124126 -TTTTTATTT
1 ATTTTTATAT
124135 ATTTTT
1 ATTTTT
124141 TAAAAATTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
9 14 0.38
10 15 0.41
11 8 0.22
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
ATTTTTATAT
Found at i:124106 original size:21 final size:20
Alignment explanation
Indices: 124081--124141 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
124071 ATTGTATATA
124081 TTTAAATTTTTATATATTTT
1 TTTAAATTTTTATATATTTT
124101 TATTAAATTTTT-TAT-TTTT
1 T-TTAAATTTTTATATATTTT
* * *
124120 TTTTATTTTTTATTTATTTT
1 TTTAAATTTTTATATATTTT
124140 TT
1 TT
124142 AAAAATTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 8 0.23
19 7 0.20
20 10 0.29
21 10 0.29
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTAAATTTTTATATATTTT
Found at i:124126 original size:28 final size:28
Alignment explanation
Indices: 124086--124142 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
124076 ATATATTTAA
124086 ATTTTTATATA-TTTTTATTAAATTTTTT
1 ATTTTTATATATTTTTTATT-AATTTTTT
* * *
124114 ATTTTTTTTTATTTTTTATTTATTTTTT
1 ATTTTTATATATTTTTTATTAATTTTTT
124142 A
1 A
124143 AAAATTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (28 bp):
ATTTTTATATATTTTTTATTAATTTTTT
Found at i:124127 original size:17 final size:18
Alignment explanation
Indices: 124107--124142 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
124097 TTTTTATTAA
124107 ATTTTTTATTT-TTTTTT
1 ATTTTTTATTTATTTTTT
124124 ATTTTTTATTTATTTTTT
1 ATTTTTTATTTATTTTTT
124142 A
1 A
124143 AAAATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.61
18 7 0.39
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (18 bp):
ATTTTTTATTTATTTTTT
Found at i:124142 original size:11 final size:11
Alignment explanation
Indices: 124111--124142 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
124101 TATTAAATTT
124111 TTTATTTTTT-
1 TTTATTTTTTA
124121 TTTATTTTTTA
1 TTTATTTTTTA
124132 TTTATTTTTTA
1 TTTATTTTTTA
124143 AAAATTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:136629 original size:18 final size:17
Alignment explanation
Indices: 136608--136656 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 17
136598 TTTTTTTATA
136608 ATTTTATTAAAAAATTTT
1 ATTTT-TTAAAAAATTTT
136626 ATTTTTTAAAAAATTTAT
1 ATTTTTTAAAAAATTT-T
*
136644 TTCTTTTTAAAAA
1 AT-TTTTTAAAAA
136657 TTTAAAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
17 11 0.39
18 7 0.25
19 10 0.36
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTTTTAAAAAATTTT
Found at i:136636 original size:17 final size:18
Alignment explanation
Indices: 136602--136660 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
136592 TTTAATTTTT
136602 TTTATAATTTTATTAAAAAA
1 TTTAT-ATTTT-TTAAAAAA
136622 TTT-TATTTTTTAAAAAA
1 TTTATATTTTTTAAAAAA
*
136639 TTTAT-TTCTTTTTAAAAA
1 TTTATATT-TTTTAAAAAA
136657 TTTA
1 TTTA
136661 AAAATTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
17 13 0.36
18 19 0.53
19 1 0.03
20 3 0.08
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTATATTTTTTAAAAAA
Found at i:136871 original size:14 final size:14
Alignment explanation
Indices: 136838--136876 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
136828 GACTTTTTCA
136838 TGATA-TTAATTTT
1 TGATATTTAATTTT
*
136851 TTA-ATTTAATTTT
1 TGATATTTAATTTT
136864 TGATATTTAATTT
1 TGATATTTAATTT
136877 ATTAATTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 1 0.05
13 12 0.55
14 9 0.41
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (14 bp):
TGATATTTAATTTT
Found at i:136887 original size:12 final size:12
Alignment explanation
Indices: 136843--136890 Score: 53
Period size: 12 Copynumber: 3.8 Consensus size: 12
136833 TTTCATGATA
136843 TTAATTTTTTAAT
1 TTAA-TTTTTAAT
136856 TTAATTTTTGATAT
1 TTAATTTTT-A-AT
136870 TTAATTTATTAA-
1 TTAATTT-TTAAT
136882 TTAATTTTT
1 TTAATTTTT
136891 TTAAATTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
11 2 0.06
12 12 0.38
13 6 0.19
14 10 0.31
15 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTAATTTTTAAT
Found at i:136891 original size:27 final size:26
Alignment explanation
Indices: 136838--136890 Score: 81
Period size: 26 Copynumber: 2.0 Consensus size: 26
136828 GACTTTTTCA
*
136838 TGATATTAATTTTTTAATTTAATTTT
1 TGATATTAATTTATTAATTTAATTTT
136864 TGATATTTAATTTATTAA-TTAATTTT
1 TGATA-TTAATTTATTAATTTAATTTT
136890 T
1 T
136891 TTAAATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (26 bp):
TGATATTAATTTATTAATTTAATTTT
Found at i:136899 original size:14 final size:13
Alignment explanation
Indices: 136842--136899 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 13
136832 TTTTCATGAT
136842 ATTAATTTTTTAA
1 ATTAATTTTTTAA
* *
136855 TTTAATTTTTGATA
1 ATTAATTTTTTA-A
* *
136869 TTTAATTTATT-A
1 ATTAATTTTTTAA
136881 ATTAATTTTTTTAA
1 ATTAA-TTTTTTAA
136895 ATTAA
1 ATTAA
136900 ATATGGTAAA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
12 5 0.14
13 15 0.42
14 16 0.44
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (13 bp):
ATTAATTTTTTAA
Found at i:139639 original size:17 final size:16
Alignment explanation
Indices: 139598--139639 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
139588 AAATAACTTT
139598 TAAAATAATTTTAAGA
1 TAAAATAATTTTAAGA
139614 -AAAATAATTTTAAAAGA
1 TAAAATAATTTT--AAGA
139631 TAAAA-AATT
1 TAAAATAATT
139640 GATCTGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 11 0.48
17 8 0.35
18 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (16 bp):
TAAAATAATTTTAAGA
Found at i:140926 original size:2 final size:2
Alignment explanation
Indices: 140919--140984 Score: 116
Period size: 2 Copynumber: 33.5 Consensus size: 2
140909 CTTGTATTAT
140919 TA TA TA TA -A 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
*
140960 TA TG TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
140985 GTATGCATTC
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:141490 original size:4 final size:4
Alignment explanation
Indices: 141483--141526 Score: 88
Period size: 4 Copynumber: 11.0 Consensus size: 4
141473 TATGTGTGTC
141483 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT ATTT
141527 TATTCATCAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
ATTT
Found at i:142207 original size:3 final size:3
Alignment explanation
Indices: 142192--142266 Score: 80
Period size: 3 Copynumber: 25.0 Consensus size: 3
142182 TTTGCCCGTT
* * * *
142192 TTA TTA GTA TTA TTA TAA TTG TTA TTA TTA TTA TTA TTA TTA -TA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
142239 TTA TTA TTA TTAA TAA ATA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA TTA TTA
142267 CATATTACAG
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
2 2 0.03
3 54 0.93
4 2 0.03
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:144003 original size:18 final size:19
Alignment explanation
Indices: 143977--144012 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
143967 ATGTATATAT
143977 AATTAAT-AAATTTTCTTA
1 AATTAATAAAATTTTCTTA
*
143995 AATTTATAAAATTTTCTT
1 AATTAATAAAATTTTCTT
144013 TTATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTAATAAAATTTTCTTA
Found at i:144960 original size:17 final size:16
Alignment explanation
Indices: 144931--144990 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 16
144921 ATATATTTAC
144931 ATTTTTATATTTTTATTAA
1 ATTTTTAT-TTTTTA--AA
144950 ATTTTTATTTTTTAAA
1 ATTTTTATTTTTTAAA
*
144966 AATTTTATTTATTTTAAA
1 ATTTTTA-TT-TTTTAAA
*
144984 AGTTTTA
1 ATTTTTA
144991 AAATTTAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
16 8 0.22
17 2 0.05
18 19 0.51
19 8 0.22
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
ATTTTTATTTTTTAAA
Found at i:150010 original size:18 final size:17
Alignment explanation
Indices: 149987--150020 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
149977 GCCTTAATTT
149987 TTAATTAAAATTTTTAGG
1 TTAATT-AAATTTTTAGG
*
150005 TTAATTATATTTTTAG
1 TTAATTAAATTTTTAG
150021 CCACTGCACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (17 bp):
TTAATTAAATTTTTAGG
Done.