Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold90
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: 1653315
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.32
Warning! 63894 characters in sequence are not A, C, G, or T
File 2 of 10
Found at i:127191 original size:7 final size:7
Alignment explanation
Indices: 127174--127229 Score: 71
Period size: 7 Copynumber: 8.0 Consensus size: 7
127164 TTCTTGGGTT
127174 TTTTTTG
1 TTTTTTG
127181 -TTTTTG
1 TTTTTTG
127187 TTTTTTG
1 TTTTTTG
127194 TTTTTTG
1 TTTTTTG
127201 TTTTTTTG
1 -TTTTTTG
127209 TTTTTT-
1 TTTTTTG
*
127215 TTTTATTT
1 TTTT-TTG
127223 TTTTTTG
1 TTTTTTG
127230 GGTGTAAAGG
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
6 10 0.23
7 23 0.52
8 11 0.25
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.88
Consensus pattern (7 bp):
TTTTTTG
Found at i:127225 original size:28 final size:28
Alignment explanation
Indices: 127173--127229 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
127163 TTTCTTGGGT
127173 TTTTTTTGTTTTTGTTTTTTGTTTTTTG
1 TTTTTTTGTTTTTGTTTTTTGTTTTTTG
* *
127201 TTTTTTTGTTTTTTTTTTATTTTTTTTTG
1 TTTTTTTGTTTTTGTTTT-TTGTTTTTTG
127230 GGTGTAAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.88
Consensus pattern (28 bp):
TTTTTTTGTTTTTGTTTTTTGTTTTTTG
Found at i:136965 original size:19 final size:19
Alignment explanation
Indices: 136941--136980 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
136931 AAATAATGAG
*
136941 AATGAATAGCAAGAAAAAA
1 AATGAACAGCAAGAAAAAA
* *
136960 AATGAACATCAATAAAAAA
1 AATGAACAGCAAGAAAAAA
136979 AA
1 AA
136981 AGTGGCCCTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.70, C:0.07, G:0.10, T:0.12
Consensus pattern (19 bp):
AATGAACAGCAAGAAAAAA
Found at i:139830 original size:18 final size:18
Alignment explanation
Indices: 139783--139830 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
139773 GCCAGCAGGG
*
139783 AACATAGTAAAACAGGATA
1 AACATAGT-AAACAAGATA
* * *
139802 AGCTTACTAAACAAGATA
1 AACATAGTAAACAAGATA
139820 AACATAGTAAA
1 AACATAGTAAA
139831 GCAGGGAACA
Statistics
Matches: 22, Mismatches: 7, Indels: 1
0.73 0.23 0.03
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.56, C:0.12, G:0.12, T:0.19
Consensus pattern (18 bp):
AACATAGTAAACAAGATA
Found at i:141080 original size:18 final size:20
Alignment explanation
Indices: 141057--141098 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
141047 TTTGATGTTT
141057 ATTATG-TTGTGTGA-ATGA
1 ATTATGCTTGTGTGATATGA
*
141075 ATTATGCTTGTTTGATATGA
1 ATTATGCTTGTGTGATATGA
141095 ATTA
1 ATTA
141099 CGGTCTATAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 7 0.33
20 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (20 bp):
ATTATGCTTGTGTGATATGA
Found at i:143160 original size:21 final size:21
Alignment explanation
Indices: 143121--143197 Score: 109
Period size: 22 Copynumber: 3.6 Consensus size: 21
143111 AGATTTGACA
*
143121 AAGGGGGAGAAATGCTTTGATT
1 AAGGGGGAGAAAT-TTTTGATT
143143 AAGGGGGAGAAATTTTTGATT
1 AAGGGGGAGAAATTTTTGATT
* *
143164 AAAGGGGAGAAATTCTTTAATT
1 AAGGGGGAGAAATT-TTTGATT
143186 AAGGGGGAGAAA
1 AAGGGGGAGAAA
143198 AACAAAAACT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 20 0.40
22 30 0.60
ACGTcount: A:0.38, C:0.03, G:0.34, T:0.26
Consensus pattern (21 bp):
AAGGGGGAGAAATTTTTGATT
Found at i:143873 original size:33 final size:33
Alignment explanation
Indices: 143836--143958 Score: 187
Period size: 33 Copynumber: 3.7 Consensus size: 33
143826 GTATCGATAT
143836 GTGGTACAATGTATCGATACATTGTATACATAC
1 GTGGTACAATGTATCGATACATTGTATACATAC
*
143869 GTGGTACAATGTATCGATACATTGTATACATAA
1 GTGGTACAATGTATCGATACATTGTATACATAC
143902 GTGGTACAATGTATCGATACATTGTAT-CGATAC
1 GTGGTACAATGTATCGATACATTGTATAC-ATAC
* *
143935 GTGGTA-AATTATATCAATACATTG
1 GTGGTACAA-TGTATCGATACATTG
143959 CTTGTAACGG
Statistics
Matches: 84, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
32 3 0.04
33 81 0.96
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (33 bp):
GTGGTACAATGTATCGATACATTGTATACATAC
Found at i:145235 original size:33 final size:32
Alignment explanation
Indices: 145193--145254 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
145183 CACACCCAGA
*
145193 TGTATCGATACAT-TATGCTTTGTATCGATATAT
1 TGTATCGATACATGT-T-CATTGTATCGATATAT
145226 TGTATCGATACATGTTCATTGTATCGATA
1 TGTATCGATACATGTTCATTGTATCGATA
145255 CATGGACAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 12 0.44
33 14 0.52
34 1 0.04
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATATAT
Found at i:145248 original size:19 final size:20
Alignment explanation
Indices: 145224--145278 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 20
145214 GTATCGATAT
**
145224 ATTGTATCGATACATGTTC-
1 ATTGTATCGATACATGGACA
145243 ATTGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
145263 ATTGTATCGATACATG
1 ATTGTATCGATACATG
145279 AGATTGGCAG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:145344 original size:13 final size:13
Alignment explanation
Indices: 145323--145353 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
145313 CGATACATGG
*
145323 TACAATGTATCGA
1 TACATTGTATCGA
145336 TACATTGTATCGA
1 TACATTGTATCGA
145349 TACAT
1 TACAT
145354 GATGAATTGT
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:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:145365 original size:33 final size:33
Alignment explanation
Indices: 145307--145375 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
145297 CTACCACTGT
*
145307 TTGTATCGATACATGGTACAATGTATCGATACA
1 TTGTATCGATACATGATACAATGTATCGATACA
* *
145340 TTGTATCGATACATGATGA-ATTGTATCGATGCA
1 TTGTATCGATACATGAT-ACAATGTATCGATACA
145373 TTG
1 TTG
145376 CTTGTAACGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
33 31 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATACAATGTATCGATACA
Found at i:153471 original size:21 final size:21
Alignment explanation
Indices: 153425--153508 Score: 114
Period size: 22 Copynumber: 3.9 Consensus size: 21
153415 AATTTTTTGA
* *
153425 TTTGATAAAGGGGGAGAAATGC
1 TTTGATTAAGGGGGAGAAAT-T
153447 TTTGATTAAGGGGGAGAAATT
1 TTTGATTAAGGGGGAGAAATT
*
153468 TTTGATTAAAGGGGAGAAATT
1 TTTGATTAAGGGGGAGAAATT
*
153489 CTTTAATTAAGGGGGAGAAA
1 -TTTGATTAAGGGGGAGAAA
153509 AACAAAAACT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 20 0.36
22 36 0.64
ACGTcount: A:0.37, C:0.02, G:0.32, T:0.29
Consensus pattern (21 bp):
TTTGATTAAGGGGGAGAAATT
Found at i:153486 original size:43 final size:43
Alignment explanation
Indices: 153425--153508 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
153415 AATTTTTTGA
*
153425 TTTGATAAAGGGGGAGAAATGCTTTGATTAAGGGGGAGAAATT
1 TTTGATAAAGGGGGAGAAATGCTTTAATTAAGGGGGAGAAATT
*
153468 TTTGATTAAA-GGGGAGAAATTCTTTAATTAAGGGGGAGAAA
1 TTTGA-TAAAGGGGGAGAAATGCTTTAATTAAGGGGGAGAAA
153509 AACAAAAACT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 34 0.89
44 4 0.11
ACGTcount: A:0.37, C:0.02, G:0.32, T:0.29
Consensus pattern (43 bp):
TTTGATAAAGGGGGAGAAATGCTTTAATTAAGGGGGAGAAATT
Found at i:154092 original size:19 final size:20
Alignment explanation
Indices: 154064--154118 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 20
154054 ATATCGATAT
* **
154064 ATTGTTTCGATACATGTTC-
1 ATTGTATCGATACATGGACA
154083 ATTGTATCGATACATGGACA
1 ATTGTATCGATACATGGACA
154103 ATTGTATCGATACATG
1 ATTGTATCGATACATG
154119 AGATTGGCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 16 0.50
20 16 0.50
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (20 bp):
ATTGTATCGATACATGGACA
Found at i:157633 original size:87 final size:87
Alignment explanation
Indices: 157401--157829 Score: 514
Period size: 87 Copynumber: 4.9 Consensus size: 87
157391 TTGCAGTCTT
* * * ** *
157401 TCTTTTTTCCTATAAAAAAGAATTCGATTCTTAGATATAATTTGTGCATTAGTCTAAATCTTGTA
1 TCTTTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCT-AATCTTGAA
*
157466 GTCTGACATTTACAATTAATCAA
65 GTCTGACATTTACAATCAATCAA
** * *
157489 TCTTTTTTTCTATAAAAAAGAATCTAATTCTTAGATATAATTCATGCATTAGTCTAATCATTGCA
1 TCTTTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATC-TTGAA
*
157554 GTCTGATATTTACAATCAATCAA
65 GTCTGACATTTACAATCAATCAA
* **
157577 TCTTTTTTTCTATAAAAAA-AATCCGATTCTAAGATATAATTCATGCATTAGTCTAATCATTGCC
1 TCTTTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATC-TTGAA
* * *
157641 GTCTGATATTTATAATCAGTCAA
65 GTCTGACATTTACAATCAATCAA
*
157664 --TTTTTTT-TATAAAAAAGAATTCGATTCTCAGATATAATTCATGCATTAGTCTAATTCTTGAA
1 TCTTTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAA-TCTTGAA
*
157726 GTCTGA-AGTTTACAATCAGTCAA
65 GTCTGACA-TTTACAATCAATCAA
* * * *
157749 -CTTTTTTTTTTAATAAAAAA-AA-CTGACTCTCAGATATAAGTCATGCATTAGTCTAATCCTTG
1 TC-TTTTTTTCT-ATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAAT-CTTG
157811 AAGTCTGACATTTACAATC
63 AAGTCTGACATTTACAATC
157830 GATTCTCAAA
Statistics
Matches: 307, Mismatches: 24, Indels: 21
0.87 0.07 0.06
Matches are distributed among these distances:
84 10 0.03
85 65 0.21
86 3 0.01
87 124 0.40
88 97 0.32
89 8 0.03
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (87 bp):
TCTTTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCTTGAAG
TCTGACATTTACAATCAATCAA
Found at i:157709 original size:172 final size:173
Alignment explanation
Indices: 157401--157829 Score: 530
Period size: 172 Copynumber: 2.5 Consensus size: 173
157391 TTGCAGTCTT
* * * ** *
157401 TCTTTTTTCCTATAAAAAAGAATTCGATTCTTAGATATAATTTGTGCATTAGTCTAAATCTTGTA
1 TCTTTTTTTCTATAAAAAA-AATCCGATTCTAAGATATAATTCATGCATTAGTCT-AATCTTGAA
* *
157466 GTCTGACATTTACAATTAATCAATCTTTTTTTCTATAAAAAAGAATCTAATTCTTAGATATAATT
64 GTCTGACATTTACAATCAATCAA-CTTTTTTTCTATAAAAAAGAATCTAATTCTCAGATATAATT
*
157531 CATGCATTAGTCTAA-TCATTGCAGTCTGATA-TTTACAATCAATCAA
128 CATGCATTAGTCTAATTC-TTGAAGTCTGA-AGTTTACAATCAATCAA
**
157577 TCTTTTTTTCTATAAAAAAAATCCGATTCTAAGATATAATTCATGCATTAGTCTAATCATTGCCG
1 TCTTTTTTTCTATAAAAAAAATCCGATTCTAAGATATAATTCATGCATTAGTCTAATC-TTGAAG
* * * *
157642 TCTGATATTTATAATCAGTCAA-TTTTTTT-TATAAAAAAGAAT-TCGATTCTCAGATATAATTC
65 TCTGACATTTACAATCAATCAACTTTTTTTCTATAAAAAAGAATCT-AATTCTCAGATATAATTC
*
157704 ATGCATTAGTCTAATTCTTGAAGTCTGAAGTTTACAATCAGTCAA
129 ATGCATTAGTCTAATTCTTGAAGTCTGAAGTTTACAATCAATCAA
* * * * *
157749 -CTTTTTTTTTTAATAAAAAAAA-CTGACTCTCAGATATAAGTCATGCATTAGTCTAATCCTTGA
1 TC-TTTTTTTCT-ATAAAAAAAATCCGATTCTAAGATATAATTCATGCATTAGTCTAAT-CTTGA
157812 AGTCTGACATTTACAATC
63 AGTCTGACATTTACAATC
157830 GATTCTCAAA
Statistics
Matches: 222, Mismatches: 24, Indels: 18
0.84 0.09 0.07
Matches are distributed among these distances:
171 3 0.01
172 124 0.56
173 20 0.09
174 4 0.02
175 53 0.24
176 18 0.08
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (173 bp):
TCTTTTTTTCTATAAAAAAAATCCGATTCTAAGATATAATTCATGCATTAGTCTAATCTTGAAGT
CTGACATTTACAATCAATCAACTTTTTTTCTATAAAAAAGAATCTAATTCTCAGATATAATTCAT
GCATTAGTCTAATTCTTGAAGTCTGAAGTTTACAATCAATCAA
Found at i:157850 original size:57 final size:57
Alignment explanation
Indices: 157776--157883 Score: 189
Period size: 57 Copynumber: 1.9 Consensus size: 57
157766 AAAAACTGAC
*
157776 TCTCAGATATAAGTCATGCATTAGTCTAATCCTTGAAGTCTGACATTTACAATCGAT
1 TCTCAAATATAAGTCATGCATTAGTCTAATCCTTGAAGTCTGACATTTACAATCGAT
* *
157833 TCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAGTCTGACATTTACA
1 TCTCAAATATAAGTCATGCATTAGTCTAATCCTTGAAGTCTGACATTTACA
157884 GTCAATCAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (57 bp):
TCTCAAATATAAGTCATGCATTAGTCTAATCCTTGAAGTCTGACATTTACAATCGAT
Found at i:157950 original size:144 final size:142
Alignment explanation
Indices: 157684--157978 Score: 360
Period size: 144 Copynumber: 2.0 Consensus size: 142
157674 AAAAAAGAAT
* * *
157684 TCGATTCTCAGATATAATTCATGCATTAGTCTAATTCTTGAAGTCTGAAGTTTACAATCAGTCAA
1 TCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGAAGTCTGAAGTTTACAATCAATCAA
157749 CTTTTTTTTTTAATAAAAAAAACTGACTCTCAGATATAAGTCATGCATTAGTCTAATCCTTGAAG
66 CTTTTTTTTTTAATAAAAAAAACTGACTCTCAGATATAAGTCATGC--TAGTCTAATCCTTGAAG
157814 TCTGACATTTACAA
129 TCTGACATTTACAA
* *
157828 TCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAGTCTGACA-TTTACAGTCAATCA
1 TCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGAAGTCTGA-AGTTTACAATCAATCA
* * * * * *
157892 ACCTTTCTTTTTTGTCTATAAAAAAGAATTGATTTTCAGATATAATTCATGCATTAATCTAAT-C
65 A-CTTT-TTTTTT-T-AATAAAAAA-AACTGACTCTCAGATATAAGTCATGC--TAGTCTAATCC
* *
157956 TTTACAGTTTGACATTTACAA
123 TTGA-AGTCTGACATTTACAA
157977 TC
1 TC
157979 AATTAACTTT
Statistics
Matches: 131, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
144 58 0.44
145 5 0.04
146 6 0.05
147 1 0.01
148 12 0.09
149 49 0.37
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (142 bp):
TCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGAAGTCTGAAGTTTACAATCAATCAA
CTTTTTTTTTTAATAAAAAAAACTGACTCTCAGATATAAGTCATGCTAGTCTAATCCTTGAAGTC
TGACATTTACAA
Found at i:157996 original size:92 final size:91
Alignment explanation
Indices: 157830--158011 Score: 256
Period size: 92 Copynumber: 2.0 Consensus size: 91
157820 ATTTACAATC
* * *
157830 GATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAGTCTGACATTTACAGTCAATCAACC
1 GATTCTCAAATATAATTCATGCATTAATCTAATCCTTACAGTCTGACATTTACAATCAATCAACC
*
157895 TTTCTTTTTTGTCTATAAAAAAGAATT
66 TTTCTTTTTT-TCCATAAAAAAGAATT
* * * * * *
157922 GATTTTCAGATATAATTCATGCATTAATCTAATCTTTACAGTTTGACATTTACAATCAATTAACT
1 GATTCTCAAATATAATTCATGCATTAATCTAATCCTTACAGTCTGACATTTACAATCAATCAACC
*
157987 TTTCTTTTTTTCCCTAAAAAAGAAT
66 TTTCTTTTTTTCCATAAAAAAGAAT
158012 CCAATTCTAA
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
91 13 0.16
92 66 0.84
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (91 bp):
GATTCTCAAATATAATTCATGCATTAATCTAATCCTTACAGTCTGACATTTACAATCAATCAACC
TTTCTTTTTTTCCATAAAAAAGAATT
Found at i:158025 original size:92 final size:92
Alignment explanation
Indices: 157826--158028 Score: 248
Period size: 92 Copynumber: 2.2 Consensus size: 92
157816 TGACATTTAC
* * * *
157826 AATCGATTCTCAA-ATATAATTCATGCATTAGTCTAATCCTTGCAGTCTGACATTTACAGTCAAT
1 AATCAATTCT-AAGATATAATTCATGCATTAATCTAATCCTTACAGTCTGACATTTACAATCAAT
*
157890 CAACCTTTCTTTTTTGTCTATAAAAAAG
65 CAACCTTTCTTTTTTGTCCATAAAAAAG
** * * * * *
157918 AATTGATTTTCAGATATAATTCATGCATTAATCTAATCTTTACAGTTTGACATTTACAATCAATT
1 AATCAATTCTAAGATATAATTCATGCATTAATCTAATCCTTACAGTCTGACATTTACAATCAATC
* *
157983 AACTTTTCTTTTTT-TCCCTAAAAAAG
66 AACCTTTCTTTTTTGTCCATAAAAAAG
158009 AATCCAATTCTAAGATATAA
1 AAT-CAATTCTAAGATATAA
158029 CCATATTTAT
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
91 14 0.15
92 79 0.85
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.40
Consensus pattern (92 bp):
AATCAATTCTAAGATATAATTCATGCATTAATCTAATCCTTACAGTCTGACATTTACAATCAATC
AACCTTTCTTTTTTGTCCATAAAAAAG
Found at i:158976 original size:124 final size:123
Alignment explanation
Indices: 158622--158979 Score: 479
Period size: 124 Copynumber: 2.9 Consensus size: 123
158612 TATTTTTAAT
* *
158622 AAAAATAATATTTAATTAAGTTTAAAAAATTTATATTAACAAATTAAAATATTAATTA-T-TTTC
1 AAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATTTT
* * * ** * * * *
158685 TTAAAAATTAAAAAATTTAAATAAAAATAAAAATGGTTTATTATTATTTTTAATAAAATT
66 TTAAAAATAAAAAAATTTTAATATAAA-AAAGGT-TTTTATTATAATTTTCAATAAAATA
* * *
158745 AAAAATTATATTTAATTAAGTTT-AAAAAGTTACATTAACAAATTAAAATTTTAATTATTATATT
1 AAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTAT-TT
* * *
158809 TTTAAAAAAATAAAAAATTTTAAAATAAAAAGGGTTTTTATTATAATTTTCAATAAAATA
65 TTTAAAAATA-AAAAAATTTTAATATAAAAAAGGTTTTTATTATAATTTTCAATAAAATA
158869 AAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATGTT
1 AAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTAT-TT
* *
158934 TTTTAAAATAAAAAAATTTTAATTTAAAAAAGGTTTTTATTATAAT
65 TTTAAAAATAAAAAAATTTTAATATAAAAAAGGTTTTTATTATAAT
158980 AATATTTTTA
Statistics
Matches: 204, Mismatches: 26, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
122 31 0.15
123 23 0.11
124 77 0.38
125 58 0.28
126 15 0.07
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (123 bp):
AAAAATAATATTTAATTAAGTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATTATTTT
TTAAAAATAAAAAAATTTTAATATAAAAAAGGTTTTTATTATAATTTTCAATAAAATA
Found at i:159321 original size:23 final size:23
Alignment explanation
Indices: 159263--159322 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
159253 TTTATTTAAA
159263 TAATGATAAATTTTTTTAATTTCT
1 TAATG-TAAATTTTTTTAATTTCT
* * *
159287 TAA-ATATTATTTTTTTAATTTGT
1 TAATGTA-AATTTTTTTAATTTCT
159310 TAATGTAAATTTT
1 TAATGTAAATTTT
159323 CTAAAATTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
22 2 0.07
23 22 0.76
24 5 0.17
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (23 bp):
TAATGTAAATTTTTTTAATTTCT
Found at i:159364 original size:35 final size:34
Alignment explanation
Indices: 159325--159481 Score: 102
Period size: 35 Copynumber: 4.3 Consensus size: 34
159315 TAAATTTTCT
*
159325 AAAATTTAATTAAATATTATTTTTTATTTTATTAA
1 AAAATATAATTAAATATTATTTTTTATTTT-TTAA
* * *
159360 AAAATAATAA-TAAAAAATACTTTTTATTTTTATAA
1 AAAAT-ATAATTAAATATTATTTTTTATTTTT-TAA
* **
159395 AAATATATAATTAATATTTTAATTTTTTAATGTAATTTTTTT
1 AAA-ATATAATTAA-ATATT-ATTTTTT-A--T--TTTTTAA
* *
159437 AAACT-TAATTAAATATTATTTTTAATTTTATTAA
1 AAAATATAATTAAATATTATTTTTTATTTT-TTAA
159471 AAAATAATAAT
1 AAAAT-ATAAT
159482 AATAAACCTT
Statistics
Matches: 92, Mismatches: 16, Indels: 27
0.68 0.12 0.20
Matches are distributed among these distances:
33 3 0.03
34 7 0.08
35 33 0.36
36 12 0.13
37 3 0.03
38 12 0.13
39 5 0.05
40 7 0.08
41 2 0.02
42 4 0.04
43 4 0.04
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (34 bp):
AAAATATAATTAAATATTATTTTTTATTTTTTAA
Found at i:159451 original size:111 final size:116
Alignment explanation
Indices: 159299--159579 Score: 353
Period size: 111 Copynumber: 2.4 Consensus size: 116
159289 AATATTATTT
* * * * *
159299 TTTTAATTTGTTAATGTAAATTTTCTAAAATTTAATTAAATATTATTTTTTATTTTATTAAAAAA
1 TTTTAATTTTTTAATGTAAATTTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAAA
159364 TAATAATAA-AAA-ATACTT-TTT-A-TTTTTA-TAAAAATATATAATTAATA
66 TAATAATAATAAACATACTTATTTAATTTTTTATTAAAAA-A-ATAATTAATA
159411 TTTTAATTTTTTAATGT-AATTTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAAA
1 TTTTAATTTTTTAATGTAAATTTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAAA
* ** *
159475 TAATAATAATAAACCTTTTTTAATTTAATTTTTTATTTTAAAAAATAATTAATA
66 TAATAATAATAAA-CATACTT-ATTTAATTTTTTA-TTAAAAAAATAATTAATA
* *
159529 TTTT-ATTTTATTAATATAAATTTTTTTAAAGTTAATTAAATATTATTTTTA
1 TTTTAATTTT-TTAATGTAAATTTTTTTAAACTTAATTAAATATTATTTTTA
159580 TTAAAAAATA
Statistics
Matches: 147, Mismatches: 11, Indels: 15
0.85 0.06 0.09
Matches are distributed among these distances:
111 52 0.35
112 19 0.13
114 3 0.02
116 3 0.02
117 6 0.04
118 26 0.18
119 33 0.22
120 5 0.03
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (116 bp):
TTTTAATTTTTTAATGTAAATTTTTTTAAACTTAATTAAATATTATTTTTAATTTTATTAAAAAA
TAATAATAATAAACATACTTATTTAATTTTTTATTAAAAAAATAATTAATA
Found at i:159543 original size:20 final size:19
Alignment explanation
Indices: 159520--159583 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 19
159510 TTTTAAAAAA
159520 TAATTAATATTTTATTTTAT
1 TAATTAA-ATTTTATTTTAT
*
159540 TAATATAAATTTT-TTTAAAGT
1 TAAT-TAAATTTTATTT-TA-T
*
159561 TAATTAAATATTATTTTTAT
1 TAATTAAATTTTA-TTTTAT
159581 TAA
1 TAA
159584 AAAATAATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
19 3 0.08
20 21 0.58
21 9 0.25
22 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TAATTAAATTTTATTTTAT
Found at i:160079 original size:17 final size:17
Alignment explanation
Indices: 160031--160081 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
160021 TATTAGATTA
**
160031 AAAATAAATTATTATGAT
1 AAAATAAATTAAAAT-AT
*
160049 AAAATATA-TAAAATAT
1 AAAATAAATTAAAATAT
160065 AAAATAAATTAAAATAT
1 AAAATAAATTAAAATAT
160082 GATACGAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 9 0.32
17 12 0.43
18 7 0.25
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATAAATTAAAATAT
Found at i:160983 original size:33 final size:31
Alignment explanation
Indices: 160945--161009 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
160935 TATATTAAAA
160945 ATATATAAATTTTAATATATTTTTATATTTGTGTT
1 ATAT-TAAATTTTAAT-T-TTTTT-TATTTGTGTT
**
160980 ATATTTTATTTTAATTTTTTTTATTTGTGT
1 ATATTAAATTTTAATTTTTTTTATTTGTGT
161010 CATGTTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 9 0.32
32 5 0.18
33 1 0.04
34 9 0.32
35 4 0.14
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.66
Consensus pattern (31 bp):
ATATTAAATTTTAATTTTTTTTATTTGTGTT
Found at i:165239 original size:18 final size:18
Alignment explanation
Indices: 165192--165244 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
165182 GCCAGAAAGG
165192 AACATAGTAAAACAGGATA
1 AACATAGT-AAACAGGATA
* * *
165211 AGCTTACTAAACAGGATA
1 AACATAGTAAACAGGATA
165229 AACATAGTAAAGCAGG
1 AACATAGTAAA-CAGG
165245 GAACTTAGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.51, C:0.13, G:0.19, T:0.17
Consensus pattern (18 bp):
AACATAGTAAACAGGATA
Found at i:166390 original size:13 final size:13
Alignment explanation
Indices: 166372--166398 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
166362 CTACCACTGT
166372 TTGTATCGATACA
1 TTGTATCGATACA
166385 TTGTATCGATACA
1 TTGTATCGATACA
166398 T
1 T
166399 GATGAATTAT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:168402 original size:12 final size:12
Alignment explanation
Indices: 168385--168413 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
168375 TGCTTTTGAT
168385 GAATTAGTATTA
1 GAATTAGTATTA
168397 GAATTAGTATTA
1 GAATTAGTATTA
168409 GAATT
1 GAATT
168414 TGAATCTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (12 bp):
GAATTAGTATTA
Found at i:170497 original size:15 final size:17
Alignment explanation
Indices: 170466--170498 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
170456 AGCATGATGA
170466 AAGCATCCAAAATGAAG
1 AAGCATCCAAAATGAAG
170483 AAGC-TCCAAAA-GAAG
1 AAGCATCCAAAATGAAG
170498 A
1 A
170499 TGAACAAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 7 0.44
17 4 0.25
ACGTcount: A:0.55, C:0.18, G:0.18, T:0.09
Consensus pattern (17 bp):
AAGCATCCAAAATGAAG
Found at i:172427 original size:18 final size:20
Alignment explanation
Indices: 172404--172445 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
172394 TTTGATGTTT
172404 ATTATG-TTGTGTGA-ATGA
1 ATTATGCTTGTGTGATATGA
*
172422 ATTATGCTTGTTTGATATGA
1 ATTATGCTTGTGTGATATGA
172442 ATTA
1 ATTA
172446 GGGTCTACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 7 0.33
20 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.21, T:0.48
Consensus pattern (20 bp):
ATTATGCTTGTGTGATATGA
Found at i:172589 original size:13 final size:13
Alignment explanation
Indices: 172571--172597 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
172561 ACAACATTCC
172571 TTGTATCGATACA
1 TTGTATCGATACA
172584 TTGTATCGATACA
1 TTGTATCGATACA
172597 T
1 T
172598 AAGGTACTAT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:172726 original size:21 final size:22
Alignment explanation
Indices: 172687--172727 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
172677 AAACCCTAAC
*
172687 AATCTTTCTTCAAAATTCTTCA
1 AATCTTTCTACAAAATTCTTCA
*
172709 AATCTTT-TACAAATTTCTT
1 AATCTTTCTACAAAATTCTT
172728 GTTTTTCACT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.49
Consensus pattern (22 bp):
AATCTTTCTACAAAATTCTTCA
Found at i:174523 original size:21 final size:21
Alignment explanation
Indices: 174486--174558 Score: 101
Period size: 22 Copynumber: 3.4 Consensus size: 21
174476 TTGACAAAGA
*
174486 GGGAGAAATGCTTTGATTAAGG
1 GGGAGAAAT-TTTTGATTAAGG
*
174508 GGGAGAAATTTTTGATTAAAG
1 GGGAGAAATTTTTGATTAAGG
*
174529 GGGAGAAATTCTTTAATTAAGG
1 GGGAGAAATT-TTTGATTAAGG
174551 GGGAGAAA
1 GGGAGAAA
174559 AACAAAAACT
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
21 20 0.43
22 26 0.57
ACGTcount: A:0.37, C:0.03, G:0.33, T:0.27
Consensus pattern (21 bp):
GGGAGAAATTTTTGATTAAGG
Found at i:175122 original size:13 final size:13
Alignment explanation
Indices: 175104--175161 Score: 58
Period size: 13 Copynumber: 5.0 Consensus size: 13
175094 ACATTATGCT
175104 TTGTATCGATACA
1 TTGTATCGATACA
175117 TTGTATCGATACA
1 TTGTATCGATACA
175130 -TG--T---T-CA
1 TTGTATCGATACA
*
175136 TTGTAACGATACA
1 TTGTATCGATACA
175149 TTGTATCGATACA
1 TTGTATCGATACA
175162 AGTTCATTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
6 2 0.06
7 3 0.08
10 1 0.03
12 3 0.08
13 27 0.75
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:175139 original size:19 final size:19
Alignment explanation
Indices: 175115--175202 Score: 80
Period size: 19 Copynumber: 4.9 Consensus size: 19
175105 TGTATCGATA
175115 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
*
175134 CATTGTAACGAT--A----
1 CATTGTATCGATACATGTT
*
175147 CATTGTATCGATACAAGTT
1 CATTGTATCGATACATGTT
* **
175166 CATTGTAACGATACATGGA
1 CATTGTATCGATACATGTT
175185 CAATTGTATCGATACATG
1 C-ATTGTATCGATACATG
175203 AGATTGGCAG
Statistics
Matches: 55, Mismatches: 7, Indels: 13
0.73 0.09 0.17
Matches are distributed among these distances:
13 11 0.20
15 1 0.02
17 1 0.02
19 27 0.49
20 15 0.27
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:175146 original size:32 final size:32
Alignment explanation
Indices: 175085--175181 Score: 142
Period size: 32 Copynumber: 3.0 Consensus size: 32
175075 CACACCCAGA
* *
175085 TGTATCGATACAT-TATGCTTTGTATCGATACAT
1 TGTATCGATACATGT-T-CATTGTAACGATACAT
175118 TGTATCGATACATGTTCATTGTAACGATACAT
1 TGTATCGATACATGTTCATTGTAACGATACAT
*
175150 TGTATCGATACAAGTTCATTGTAACGATACAT
1 TGTATCGATACATGTTCATTGTAACGATACAT
175182 GGACAATTGT
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
32 45 0.75
33 14 0.23
34 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTAACGATACAT
Found at i:176427 original size:13 final size:13
Alignment explanation
Indices: 176409--176435 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
176399 ACATTATGCT
176409 TTGTATCGATACA
1 TTGTATCGATACA
176422 TTGTATCGATACA
1 TTGTATCGATACA
176435 T
1 T
176436 GTTCATTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:176465 original size:20 final size:19
Alignment explanation
Indices: 176419--176471 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
176409 TTGTATCGAT
*
176419 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
176438 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
176457 ACAATTGTATCGATA
1 AC-ATTGTATCGATA
176472 TATGAGATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:176541 original size:13 final size:13
Alignment explanation
Indices: 176520--176572 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
176510 CGATACATGG
*
176520 TACAATGTATCGA
1 TACATTGTATCGA
176533 TACATTGTATCGA
1 TACATTGTATCGA
176546 TACA-TG-AT-G-
1 TACATTGTATCGA
176555 -A-ATTGTATCGA
1 TACATTGTATCGA
176566 TACATTG
1 TACATTG
176573 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:176546 original size:33 final size:33
Alignment explanation
Indices: 176504--176572 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
176494 TTACCACTGT
*
176504 TTGTATCGATACATGGT-ACAATGTATCGATACA
1 TTGTATCGATACATGATGA-AATGTATCGATACA
*
176537 TTGTATCGATACATGATGAATTGTATCGATACA
1 TTGTATCGATACATGATGAAATGTATCGATACA
176570 TTG
1 TTG
176573 CTTGTAACGG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.36
Consensus pattern (33 bp):
TTGTATCGATACATGATGAAATGTATCGATACA
Found at i:182626 original size:13 final size:13
Alignment explanation
Indices: 182608--182634 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
182598 ACAACATTCC
182608 TTGTATCGATACA
1 TTGTATCGATACA
182621 TTGTATCGATACA
1 TTGTATCGATACA
182634 T
1 T
182635 GGGTTACTAT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:184563 original size:21 final size:22
Alignment explanation
Indices: 184524--184622 Score: 130
Period size: 22 Copynumber: 4.5 Consensus size: 22
184514 AGATTTGACA
184524 AAGGGGGAGAAATGCTTTGATT
1 AAGGGGGAGAAATGCTTTGATT
*
184546 AAGGGGGAGAAAT-TTTTGATT
1 AAGGGGGAGAAATGCTTTGATT
*
184567 AAAGGGGAGAAATGCTTTGATT
1 AAGGGGGAGAAATGCTTTGATT
* * *
184589 AAGGTGGATAAAT-TTTTGATT
1 AAGGGGGAGAAATGCTTTGATT
184610 AAAGGGGGAGAAA
1 -AAGGGGGAGAAA
184623 AACAAAAAGG
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
21 26 0.39
22 40 0.61
ACGTcount: A:0.36, C:0.02, G:0.33, T:0.28
Consensus pattern (22 bp):
AAGGGGGAGAAATGCTTTGATT
Found at i:184578 original size:43 final size:44
Alignment explanation
Indices: 184523--184622 Score: 175
Period size: 43 Copynumber: 2.3 Consensus size: 44
184513 TAGATTTGAC
184523 AAAGGGGGAGAAATGCTTTGATTAAGGGGGAGAAATTTTTGATT
1 AAAGGGGGAGAAATGCTTTGATTAAGGGGGAGAAATTTTTGATT
* *
184567 AAA-GGGGAGAAATGCTTTGATTAAGGTGGATAAATTTTTGATT
1 AAAGGGGGAGAAATGCTTTGATTAAGGGGGAGAAATTTTTGATT
184610 AAAGGGGGAGAAA
1 AAAGGGGGAGAAA
184623 AACAAAAAGG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
43 41 0.77
44 12 0.23
ACGTcount: A:0.37, C:0.02, G:0.33, T:0.28
Consensus pattern (44 bp):
AAAGGGGGAGAAATGCTTTGATTAAGGGGGAGAAATTTTTGATT
Found at i:185182 original size:13 final size:13
Alignment explanation
Indices: 185164--185190 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
185154 ACATTATGCT
185164 TTGTATCGATACA
1 TTGTATCGATACA
185177 TTGTATCGATACA
1 TTGTATCGATACA
185190 T
1 T
185191 GGACAATTGT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:185278 original size:13 final size:13
Alignment explanation
Indices: 185262--185287 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
185252 ATGGTACAAT
185262 GTATCGATACATG
1 GTATCGATACATG
185275 GTATCGATACATG
1 GTATCGATACATG
185288 ATGAATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTATCGATACATG
Found at i:185284 original size:33 final size:33
Alignment explanation
Indices: 185242--185306 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
185232 ACCACTGTTT
*
185242 GTATCGATACATGGT-ACAATGTATCGATACATG
1 GTATCGATACATGATGA-AATGTATCGATACATG
*
185275 GTATCGATACATGATGAATTGTATCGATACAT
1 GTATCGATACATGATGAAATGTATCGATACAT
185307 TGCTTGTAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.34, C:0.14, G:0.20, T:0.32
Consensus pattern (33 bp):
GTATCGATACATGATGAAATGTATCGATACATG
Found at i:188610 original size:88 final size:86
Alignment explanation
Indices: 188509--188703 Score: 255
Period size: 88 Copynumber: 2.2 Consensus size: 86
188499 TTGCAGTCTT
* * * ** *
188509 TCTTTTTTCCTATAAAAAAGAATCTGATTCTTAGATATAATTTGTGCATTAGTCTAAATCTTGTA
1 TCTTTTTTTCTATAAAAAAGAAT-TAATTCTCAGATATAATTCATGCATTAGTCT-AATCTTGAA
*
188574 GTCTGACATTTACAATTAATCAA
64 GTCTGACATTTACAATCAATCAA
* **
188597 TCTTTTTTTCTATAAAAAAGAATATAATTCTCAGATATAATTCATGCATTAGTCTAATCCTCGCT
1 TCTTTTTTTCTATAAAAAAGAAT-TAATTCTCAGATATAATTCATGCATTAGTCTAAT-CTTGAA
*
188662 GTCTGATATTTACAATCAATCAA
64 GTCTGACATTTACAATCAATCAA
188685 TCTTTTTTTCTATAAAAAA
1 TCTTTTTTTCTATAAAAAA
188704 ATCAGATATA
Statistics
Matches: 95, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
87 3 0.03
88 92 0.97
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (86 bp):
TCTTTTTTTCTATAAAAAAGAATTAATTCTCAGATATAATTCATGCATTAGTCTAATCTTGAAGT
CTGACATTTACAATCAATCAA
Found at i:188716 original size:78 final size:80
Alignment explanation
Indices: 188541--188927 Score: 345
Period size: 86 Copynumber: 4.6 Consensus size: 80
188531 TCTGATTCTT
** * * *
188541 AGATATAATTTGTGCATTAGTCTAAAT-CTTGTAGTCTGACATTTACAATTAATCAATCTTTTTT
1 AGATATAATTCATGCATTAGTCT-AATCCTTGAAGTCTGATATTTACAATCAATCAATC-TTTTT
*
188605 TCTATAAAAAAGAATATAATTCTC
64 T-TAT-AATAA-AA-A-AA-T-TC
* **
188629 AGATATAATTCATGCATTAGTCTAATCCTCGCTGTCTGATATTTACAATCAATCAATCTTTTTTT
1 AGATATAATTCATGCATTAGTCTAATCCTTGAAGTCTGATATTTACAATCAATCAATCTTTTTTT
*
188694 CT-ATAAAAAAA-TC
66 ATAATAAAAAAATTC
* ** *
188707 AGATATAATTCATGCATTAGTCTAATCATTGCCGTCTGATATTTACAATCAGTCAAT-TTTTTTT
1 AGATATAATTCATGCATTAGTCTAATCCTTGAAGTCTGATATTTACAATCAATCAATCTTTTTTT
*
188771 ATAAAAAAGAATTCAATTCTC
66 ATAATAAA-AA---AA-T-TC
* *
188792 AGATATAGTTCATGCATTAGTCTAATTCTTGAAGTCTGA-AGTTTACAATCAATCAA-CTTTTTT
1 AGATATAATTCATGCATTAGTCTAATCCTTGAAGTCTGATA-TTTACAATCAATCAATC-TTTTT
*
188855 TTTTAATAAAAAAACTGATTCTC
64 TTATAAT-AAAAAA---A-T-TC
* *
188878 AGATATAATTTATGCATTAGTCTAATCCTTGAAGTCTGACATTTACAATC
1 AGATATAATTCATGCATTAGTCTAATCCTTGAAGTCTGATATTTACAATC
188928 GATTCTCAAA
Statistics
Matches: 256, Mismatches: 26, Indels: 36
0.81 0.08 0.11
Matches are distributed among these distances:
77 8 0.03
78 59 0.23
79 2 0.01
81 2 0.01
82 3 0.01
83 3 0.01
84 4 0.02
85 50 0.20
86 65 0.25
87 13 0.05
88 47 0.18
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (80 bp):
AGATATAATTCATGCATTAGTCTAATCCTTGAAGTCTGATATTTACAATCAATCAATCTTTTTTT
ATAATAAAAAAATTC
Found at i:188806 original size:163 final size:168
Alignment explanation
Indices: 188541--188927 Score: 486
Period size: 163 Copynumber: 2.3 Consensus size: 168
188531 TCTGATTCTT
* * *
188541 AGATATAATTTGTGCATTAGTCTAAATCTTGTAGTCTGACATTTACAATTAATCAATCTTTTTTT
1 AGATATAATTTATGCATTAGTCT-AATCTTGAAGTCTGACATTTACAATCAATCAA-CTTTTTTT
**
188606 CTATAAAAAAGAATATAATTCTCAGATATAATTCATGCATTAGTCTAATCCTCGCTGTCTGATA-
64 CTATAAAAAAGAATATAATTCTCAGATATAATTCATGCATTAGTCTAATCCTCGAAGTCTGA-AG
188670 TTTACAATCAATCAA-TCTTTTTTTCT-AT-AAAAAA-A-TC
128 TTTACAATCAATCAACT-TTTTTTTCTAATAAAAAAACATTC
* ** * *
188707 AGATATAATTCATGCATTAGTCTAATCATTGCCGTCTGATATTTACAATCAGTCAA-TTTTTTT-
1 AGATATAATTTATGCATTAGTCTAATC-TTGAAGTCTGACATTTACAATCAATCAACTTTTTTTC
* * *
188770 TATAAAAAAGAAT-TCAATTCTCAGATATAGTTCATGCATTAGTCTAATTCTTGAAGTCTGAAGT
65 TATAAAAAAGAATAT-AATTCTCAGATATAATTCATGCATTAGTCTAATCCTCGAAGTCTGAAGT
*
188834 TTACAATCAATCAACTTTTTTTTTTAATAAAAAAACTGATTCTC
129 TTACAATCAATCAACTTTTTTTTCTAATAAAAAAAC--A-T-TC
188878 AGATATAATTTATGCATTAGTCTAATCCTTGAAGTCTGACATTTACAATC
1 AGATATAATTTATGCATTAGTCTAAT-CTTGAAGTCTGACATTTACAATC
188928 GATTCTCAAA
Statistics
Matches: 191, Mismatches: 17, Indels: 21
0.83 0.07 0.09
Matches are distributed among these distances:
162 2 0.01
163 77 0.40
164 10 0.05
165 10 0.05
166 44 0.23
168 1 0.01
171 46 0.24
172 1 0.01
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (168 bp):
AGATATAATTTATGCATTAGTCTAATCTTGAAGTCTGACATTTACAATCAATCAACTTTTTTTCT
ATAAAAAAGAATATAATTCTCAGATATAATTCATGCATTAGTCTAATCCTCGAAGTCTGAAGTTT
ACAATCAATCAACTTTTTTTTCTAATAAAAAAACATTC
Found at i:188959 original size:57 final size:57
Alignment explanation
Indices: 188871--188981 Score: 195
Period size: 57 Copynumber: 1.9 Consensus size: 57
188861 TAAAAAAACT
* *
188871 GATTCTCAGATATAATTTATGCATTAGTCTAATCCTTGAAGTCTGACATTTACAATC
1 GATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGAAGTCTGACATTTACAATC
*
188928 GATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAGTCTGACATTTACA
1 GATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGAAGTCTGACATTTACA
188982 GTTAATCAAC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.38
Consensus pattern (57 bp):
GATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGAAGTCTGACATTTACAATC
Found at i:189085 original size:92 final size:91
Alignment explanation
Indices: 188928--189109 Score: 283
Period size: 92 Copynumber: 2.0 Consensus size: 91
188918 ATTTACAATC
* * * * *
188928 GATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAGTCTGACATTTACAGTTAATCAACT
1 GATTCTCAAATATAATTCATGCATTAATCTAATCCTTACAGTCTGACACTTACAATCAATCAACT
*
188993 TTTCTTTTTTGTCTATAAAAAAGAATT
66 TTTCTTTTTT-TCCATAAAAAAGAATT
* *
189020 GATTCTCAAATATAATTCATGCATTAATCTAATCTTTACAGTCTGACACTTACAATCAATTAACT
1 GATTCTCAAATATAATTCATGCATTAATCTAATCCTTACAGTCTGACACTTACAATCAATCAACT
189085 TTTCTTTTTTTCCATAAAAAAGAAT
66 TTTCTTTTTTTCCATAAAAAAGAAT
189110 CCAATTCTAA
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 14 0.17
92 68 0.83
ACGTcount: A:0.35, C:0.17, G:0.08, T:0.41
Consensus pattern (91 bp):
GATTCTCAAATATAATTCATGCATTAATCTAATCCTTACAGTCTGACACTTACAATCAATCAACT
TTTCTTTTTTTCCATAAAAAAGAATT
Found at i:189117 original size:92 final size:92
Alignment explanation
Indices: 188924--189127 Score: 277
Period size: 92 Copynumber: 2.2 Consensus size: 92
188914 TGACATTTAC
* * * * * *
188924 AATCGATTCTCAAATATAATTCATGCATTAGTCTAATCCTTGCAGTCTGACATTTACAGTTAATC
1 AATCAATTCTCAAATATAATTCATGCATTAATCTAATCCTTACAGTCTGACACTTACAATCAATC
*
188989 AACTTTTCTTTTTTGTCTATAAAAAAG
66 AACTTTTCTTTTTTGTCCATAAAAAAG
** * *
189016 AATTGATTCTCAAATATAATTCATGCATTAATCTAATCTTTACAGTCTGACACTTACAATCAATT
1 AATCAATTCTCAAATATAATTCATGCATTAATCTAATCCTTACAGTCTGACACTTACAATCAATC
189081 AACTTTTCTTTTTT-TCCATAAAAAAG
66 AACTTTTCTTTTTTGTCCATAAAAAAG
189107 AATCCAATTCT-AAGATATAAT
1 AAT-CAATTCTCAA-ATATAAT
189128 CATATTTATT
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
91 16 0.16
92 83 0.84
ACGTcount: A:0.36, C:0.17, G:0.07, T:0.40
Consensus pattern (92 bp):
AATCAATTCTCAAATATAATTCATGCATTAATCTAATCCTTACAGTCTGACACTTACAATCAATC
AACTTTTCTTTTTTGTCCATAAAAAAG
Found at i:189715 original size:29 final size:29
Alignment explanation
Indices: 189683--189738 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
189673 AATTTAAAAA
* *
189683 ATTTTTAA-AATAATAATGTATTAATTATT
1 ATTTTTAATAAAAATAATAT-TTAATTATT
189712 ATTTTTAATAAAAATAATATTTAATTA
1 ATTTTTAATAAAAATAATATTTAATTA
189739 AGTTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (29 bp):
ATTTTTAATAAAAATAATATTTAATTATT
Found at i:189980 original size:123 final size:121
Alignment explanation
Indices: 189721--190078 Score: 429
Period size: 123 Copynumber: 2.9 Consensus size: 121
189711 TATTTTTAAT
** *
189721 AAAAATAATATTTAATTAAGTTTAAAAAATTTTTATTAACAAATTAAAATATTAATTA-T-TTTC
1 AAAAATAATATTTAATTAAGTTTAAAAAA-TTACATTAACAAATTAAAATATTAATTATTATTTT
* * *
189784 TTAAAAATTAAAAAATTTAAATAAAAATAAAAATGGTTTATTATTAT--TTTTTAATAAAATT
65 TTAAAAAATAAAAAATTT---T--AAATAAAAAAGGTTT-TTATTATAATTTTTAATAAAATA
* *
189845 AAAAATTATATTTAATTAAGTTTAAAAAATTACATTAAC-AATTAAAATTTTAATTATTATATTT
1 AAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATATTAATTATTAT-TTT
*
189909 TTAAAAAAATAAAAAATTTTAGAATAAAAAGGGTTTTTATTATAATTTTTAATAAAATA
65 TT-AAAAAATAAAAAATTTTA-AATAAAAAAGGTTTTTATTATAATTTTTAATAAAATA
* *
189968 AAAAATAATATTTAATTAAGTTTTAAAAATTTACATTAACAAATTAAAATATTAATTATTATGTT
1 AAAAATAATATTTAATTAAG-TTTAAAAAATTACATTAACAAATTAAAATATTAATTATTATTTT
** * *
190033 TTCTAAAATAAAAATTTTTAATTTAAAAAAGGTTTTATATTATAAT
65 TTAAAAAATAAAAAATTTTAA-ATAAAAAAGGTTTT-TATTATAAT
190079 AATATATTTT
Statistics
Matches: 206, Mismatches: 17, Indels: 22
0.84 0.07 0.09
Matches are distributed among these distances:
121 8 0.04
122 30 0.15
123 69 0.33
124 60 0.29
125 24 0.12
126 15 0.07
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.43
Consensus pattern (121 bp):
AAAAATAATATTTAATTAAGTTTAAAAAATTACATTAACAAATTAAAATATTAATTATTATTTTT
TAAAAAATAAAAAATTTTAAATAAAAAAGGTTTTTATTATAATTTTTAATAAAATA
Found at i:190422 original size:23 final size:23
Alignment explanation
Indices: 190364--190423 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
190354 TTTATTTAAA
190364 TAATGATAAATTTTTTTAATTTCT
1 TAATG-TAAATTTTTTTAATTTCT
* *
190388 TAAATGT-TATTTTTTTAATTTGT
1 T-AATGTAAATTTTTTTAATTTCT
190411 TAATGTAAATTTT
1 TAATGTAAATTTT
190424 CTAAAATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 5 0.16
23 20 0.65
24 2 0.06
25 4 0.13
ACGTcount: A:0.32, C:0.02, G:0.07, T:0.60
Consensus pattern (23 bp):
TAATGTAAATTTTTTTAATTTCT
Found at i:190663 original size:19 final size:18
Alignment explanation
Indices: 190618--190672 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
190608 TTTTAAAAAA
*
190618 TAATTATATTTTATTTAT
1 TAATTAAATTTTATTTAT
190636 TAATGTAAATTTT-TTTAAGT
1 TAAT-TAAATTTTATTT-A-T
190656 TAATTAAATATTTATTT
1 TAATTAAAT-TTTATTT
190673 TTTATAAAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 7 0.23
19 13 0.42
20 8 0.26
21 3 0.10
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (18 bp):
TAATTAAATTTTATTTAT
Found at i:190850 original size:14 final size:15
Alignment explanation
Indices: 190831--190880 Score: 68
Period size: 14 Copynumber: 3.5 Consensus size: 15
190821 GTATTTATAA
190831 AAAAAATCTATTT-T
1 AAAAAATCTATTTAT
*
190845 AAAAAATAT-TTTAT
1 AAAAAATCTATTTAT
190859 AAAAAATCTATTTAT
1 AAAAAATCTATTTAT
*
190874 CAAAAAT
1 AAAAAAT
190881 AAAAAAATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
13 3 0.10
14 17 0.55
15 11 0.35
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (15 bp):
AAAAAATCTATTTAT
Found at i:190869 original size:28 final size:30
Alignment explanation
Indices: 190822--190881 Score: 88
Period size: 28 Copynumber: 2.1 Consensus size: 30
190812 TTTCTCAACG
190822 TATTTATAAAAAAAATCTATTT-TAAAAAA
1 TATTTATAAAAAAAATCTATTTATAAAAAA
* *
190851 TATTT-TATAAAAAATCTATTTATCAAAAA
1 TATTTATAAAAAAAATCTATTTATAAAAAA
190880 TA
1 TA
190882 AAAAAATTCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 15 0.54
29 13 0.46
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (30 bp):
TATTTATAAAAAAAATCTATTTATAAAAAA
Found at i:191214 original size:40 final size:39
Alignment explanation
Indices: 191165--191247 Score: 103
Period size: 40 Copynumber: 2.1 Consensus size: 39
191155 ATTATGATAA
**
191165 AATATATAAAATATGAAATAAATTAAAATATGATACGAATAT
1 AATATA-AAAATAAAAAAT-AATTAAAATATGATA-GAATAT
* *
191207 AATATAAAAATAAAAAATAATTCAAATATGATATAATAT
1 AATATAAAAATAAAAAATAATTAAAATATGATAGAATAT
191246 AA
1 AA
191248 AAAATAACAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
39 7 0.19
40 14 0.38
41 10 0.27
42 6 0.16
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (39 bp):
AATATAAAAATAAAAAATAATTAAAATATGATAGAATAT
Found at i:191996 original size:39 final size:39
Alignment explanation
Indices: 191942--192095 Score: 130
Period size: 39 Copynumber: 3.7 Consensus size: 39
191932 ATGGTTAAGG
191942 TGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTTA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTTA
* *
191981 TGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGTCTTAAAGACAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTAGG-CTT-------A
* * * * *
192027 GGTGCTAATATGCTAATTCAATGCCAGCAATATCAGGCTTA
1 --TGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTTA
* *
192068 TGCCAATGTGCTGATTTAAGGCCAGCGA
1 TGCCAATATGCTGATTCAAGGCCAGCGA
192096 CATTGGTCTT
Statistics
Matches: 89, Mismatches: 15, Indels: 22
0.71 0.12 0.17
Matches are distributed among these distances:
38 2 0.02
39 55 0.62
41 1 0.01
46 1 0.01
48 28 0.31
49 2 0.02
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (39 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTTA
Found at i:192072 original size:87 final size:86
Alignment explanation
Indices: 191938--192146 Score: 337
Period size: 87 Copynumber: 2.4 Consensus size: 86
191928 AAAGATGGTT
* *
191938 AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTAGGCTTATGCCAATGTGCTGATTCAAGGC
1 AAGGTGCCAATATGCTGATTCAA-GCCAGCAATATCAGGCTTATGCCAATGTGCTGATTCAAGGC
192003 CAGCGACATTGGTCTTAAAGAC
65 CAGCGACATTGGTCTTAAAGAC
* * *
192025 AAGGTGCTAATATGCTAATTCAATGCCAGCAATATCAGGCTTATGCCAATGTGCTGATTTAAGGC
1 AAGGTGCCAATATGCTGATTCAA-GCCAGCAATATCAGGCTTATGCCAATGTGCTGATTCAAGGC
*
192090 CAGCGACATTGGTCTTGAAGAC
65 CAGCGACATTGGTCTTAAAGAC
192112 AAGGTGCCAATATGCTGATTCAAGACCAGCAATAT
1 AAGGTGCCAATATGCTGATTCAAG-CCAGCAATAT
192147 TGGACTTAAG
Statistics
Matches: 112, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
86 1 0.01
87 111 0.99
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (86 bp):
AAGGTGCCAATATGCTGATTCAAGCCAGCAATATCAGGCTTATGCCAATGTGCTGATTCAAGGCC
AGCGACATTGGTCTTAAAGAC
Found at i:192141 original size:48 final size:48
Alignment explanation
Indices: 192068--192206 Score: 154
Period size: 51 Copynumber: 2.8 Consensus size: 48
192058 ATCAGGCTTA
* * * * *
192068 TGCCAATGTGCTGATTTAAGGCCAGCGACATTGGTCTTGAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-AAGAGAAAGG
* *
192116 TGCCAATATGCTGATTCAAGACCAGCAATATTGGACTTAAGATGGTAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGA--G-AAAGG
* *
192167 TGTCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAA
192207 AGGTACCACA
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
47 4 0.05
48 32 0.42
51 40 0.53
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (48 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAGAGAAAGG
Found at i:192324 original size:33 final size:34
Alignment explanation
Indices: 192212--192574 Score: 170
Period size: 33 Copynumber: 11.6 Consensus size: 34
192202 CTTAAAGGTA
* * *
192212 CCAC-AGAGTTGTGGACTTACAAGAAAAAAGGATG
1 CCACGAGAGTTGTGGACTTAAAAGGAAAGA-GATG
* * *
192246 CCACG-GAGGTGTGGGA-TTAAAAGGGAAAAAGGTG
1 CCACGAGAGTTGT-GGACTTAAAA-GGAAAGAGATG
* *
192280 CCGC-AAAGTTGTGGACTTAAAAGGAAAGAGATG
1 CCACGAGAGTTGTGGACTTAAAAGGAAAGAGATG
192313 CCACGAG-GTTGTGGACTT---A--AAAG-GATG
1 CCACGAGAGTTGTGGACTTAAAAGGAAAGAGATG
*
192340 CCACG-GGGTTGTGGACTT---A--AAAG-GATG
1 CCACGAGAGTTGTGGACTTAAAAGGAAAGAGATG
* * * *
192367 CCACG-GAGTTATGGGCTTAAAAAAGAATA-AGGTG
1 CCACGAGAGTTGTGGACTT-AAAAGGAA-AGAGATG
*
192401 CCAC-AGAGTTGTGGACTTAAAAGGAATA-AGGTG
1 CCACGAGAGTTGTGGACTTAAAAGGAA-AGAGATG
* * * * *
192434 CCCCG-GAGTTATGGACTT---TGAAAAG-GGTG
1 CCACGAGAGTTGTGGACTTAAAAGGAAAGAGATG
* * *
192463 CCAC-AGAGTTGTAGACTTAAAAAGAAAAAGATG
1 CCACGAGAGTTGTGGACTTAAAAGGAAAGAGATG
192496 CCACG-GAGTTGTGGACTTAAAA-G---G-G-TG
1 CCACGAGAGTTGTGGACTTAAAAGGAAAGAGATG
* *
192523 CCAC-AGAGTTATGGACTTAAAAGGAAAAAGAGTG
1 CCACGAGAGTTGTGGACTTAAAAGGAAAGAGA-TG
* *
192557 ACATG-GAGTTGTGGACTT
1 CCACGAGAGTTGTGGACTT
192575 TGAAAAGAAA
Statistics
Matches: 259, Mismatches: 37, Indels: 66
0.72 0.10 0.18
Matches are distributed among these distances:
26 1 0.00
27 66 0.25
28 6 0.02
29 19 0.07
30 4 0.02
31 1 0.00
32 5 0.02
33 80 0.31
34 68 0.26
35 9 0.03
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.20
Consensus pattern (34 bp):
CCACGAGAGTTGTGGACTTAAAAGGAAAGAGATG
Found at i:192343 original size:27 final size:26
Alignment explanation
Indices: 192304--192388 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 26
192294 ACTTAAAAGG
192304 AAAGAGATGCCACGAGGTTGTGGACTTA
1 AAAG-GATGCCACG-GGTTGTGGACTTA
192332 AAAGGATGCCACGGGGTTGTGGACTTA
1 AAAGGATGCCAC-GGGTTGTGGACTTA
* *
192359 AAAGGATGCCACGGAGTTATGGGCTTA
1 AAAGGATGCCACGG-GTTGTGGACTTA
192386 AAA
1 AAA
192389 AAGAATAAGG
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
26 2 0.04
27 46 0.87
28 5 0.09
ACGTcount: A:0.32, C:0.14, G:0.33, T:0.21
Consensus pattern (26 bp):
AAAGGATGCCACGGGTTGTGGACTTA
Found at i:192374 original size:121 final size:123
Alignment explanation
Indices: 192237--192484 Score: 315
Period size: 121 Copynumber: 2.0 Consensus size: 123
192227 CTTACAAGAA
* ** *
192237 AAAAGGATGCCACGGAGGTGTGGGATTAAAAGGGAAAAAGGTGCCGCAAAGTTGTGGACTTAAAA
1 AAAAGGATGCCACGGAGGTATGGGATTAAAAAAGAAAAAGGTGCCACAAAGTTGTGGACTTAAAA
* * * *
192302 GGAA-AGAGATGCCAC-GAGGTTGTGGAC-TT-AAAAGGATGCCACGGGGTTGTGGACTT
66 GGAATA-AGATGCCACGGA-GTTATGGACTTTGAAAAGGATGCCACAGAGTTGTAGACTT
* * * *
192358 AAAAGGATGCCACGGAGTTATGGGCTTAAAAAAGAATAAGGTGCCACAGAGTTGTGGACTTAAAA
1 AAAAGGATGCCACGGAGGTATGGGATTAAAAAAGAAAAAGGTGCCACAAAGTTGTGGACTTAAAA
* * *
192423 GGAATAAGGTGCCCCGGAGTTATGGACTTTGAAAAGGGTGCCACAGAGTTGTAGACTT
66 GGAATAAGATGCCACGGAGTTATGGACTTTGAAAAGGATGCCACAGAGTTGTAGACTT
192481 AAAA
1 AAAA
192485 AGAAAAAGAT
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
121 76 0.70
122 5 0.05
123 27 0.25
ACGTcount: A:0.35, C:0.13, G:0.32, T:0.20
Consensus pattern (123 bp):
AAAAGGATGCCACGGAGGTATGGGATTAAAAAAGAAAAAGGTGCCACAAAGTTGTGGACTTAAAA
GGAATAAGATGCCACGGAGTTATGGACTTTGAAAAGGATGCCACAGAGTTGTAGACTT
Found at i:192480 original size:62 final size:62
Alignment explanation
Indices: 192397--192581 Score: 266
Period size: 62 Copynumber: 3.0 Consensus size: 62
192387 AAAAGAATAA
* * *
192397 GGTGCCACAGAGTTGTGGACTTAAAAGGAATAAGGTGCCCCGGAGTTATGGACTTTGAAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAG
* * *
192459 GGTGCCACAGAGTTGTAGACTTAAAAAGAAAAAGATGCCACGGAGTTGTGGAC-TT-AAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAG
* * *
192519 GGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGAGTGACATGGAGTTGTGGACTTTGAAAAG
1 GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAG-GTGCCACGGAGTTGTGGACTTTGAAAAG
192582 AAAAAGGTAC
Statistics
Matches: 108, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
60 36 0.33
61 18 0.17
62 49 0.45
63 5 0.05
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (62 bp):
GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGGTGCCACGGAGTTGTGGACTTTGAAAAG
Found at i:192525 original size:27 final size:27
Alignment explanation
Indices: 192494--192546 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
192484 AAGAAAAAGA
* *
192494 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACAGAGTTATGGACTTAAAAGGG
192521 TGCCACAGAGTTATGGACTTAAAAGG
1 TGCCACAGAGTTATGGACTTAAAAGG
192547 AAAAAGAGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.30, C:0.15, G:0.32, T:0.23
Consensus pattern (27 bp):
TGCCACAGAGTTATGGACTTAAAAGGG
Found at i:192657 original size:30 final size:30
Alignment explanation
Indices: 192581--192667 Score: 115
Period size: 28 Copynumber: 3.0 Consensus size: 30
192571 ACTTTGAAAA
* *
192581 GAAAAAGGTACCATTGACTTGTGGGCTTTT
1 GAAAAAGATGCCATTGACTTGTGGGCTTTT
* *
192611 G--AAGGTTGCCATTGACTTGTGGGCTTTT
1 GAAAAAGATGCCATTGACTTGTGGGCTTTT
*
192639 GAAAAAGATGCCACTGACTTGTGGGCTTT
1 GAAAAAGATGCCATTGACTTGTGGGCTTT
192668 GGAAGGTGAG
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 25 0.51
30 24 0.49
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (30 bp):
GAAAAAGATGCCATTGACTTGTGGGCTTTT
Found at i:193075 original size:37 final size:37
Alignment explanation
Indices: 193033--193117 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
193023 AAAGATGAAG
*
193033 CACAAATGCATCATGCAAAATGAAATGTCATGAATGT
1 CACAAATGCATCATACAAAATGAAATGTCATGAATGT
*
193070 CACAAATGCATCATACAAAATGAAATGTTATGAATGT
1 CACAAATGCATCATACAAAATGAAATGTCATGAATGT
193107 CACAAATGCAT
1 CACAAATGCAT
193118 AATTGTGGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (37 bp):
CACAAATGCATCATACAAAATGAAATGTCATGAATGT
Found at i:193209 original size:28 final size:27
Alignment explanation
Indices: 193158--193211 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
193148 GACCAAAGCC
*
193158 ATTACAAGTTTCTTGAATCCTTTGGGA
1 ATTACAAGTTTCATGAATCCTTTGGGA
* *
193185 ATTACAATTTGTCATGATTCCTTTGGG
1 ATTACAAGTT-TCATGAATCCTTTGGG
193212 GATCAGCACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.24, C:0.15, G:0.19, T:0.43
Consensus pattern (27 bp):
ATTACAAGTTTCATGAATCCTTTGGGA
Found at i:194165 original size:21 final size:20
Alignment explanation
Indices: 194141--194190 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 20
194131 CAGTCAGACC
*
194141 TTTTTTTTTTTGGTTTGTTTT
1 TTTTTTTTTTT-GTTTGTTTG
194162 TTTTTTGTTTTTGTTTGTTTG
1 TTTTTT-TTTTTGTTTGTTTG
194183 TTTTTTTT
1 TTTTTTTT
194191 GCGGAGGATG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 2 0.07
21 20 0.74
22 5 0.19
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (20 bp):
TTTTTTTTTTTGTTTGTTTG
Found at i:194174 original size:17 final size:17
Alignment explanation
Indices: 194142--194191 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
194132 AGTCAGACCT
*
194142 TTTTTTTTTTG-GTTTG
1 TTTTTTTTTTGTTTTTG
194158 TTTTTTTTTTGTTTTTG
1 TTTTTTTTTTGTTTTTG
*
194175 TTTGTTTGTTT-TTTTTG
1 TTT-TTTTTTTGTTTTTG
194192 CGGAGGATGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 11 0.37
17 13 0.43
18 6 0.20
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (17 bp):
TTTTTTTTTTGTTTTTG
Found at i:195130 original size:9 final size:9
Alignment explanation
Indices: 195116--195164 Score: 53
Period size: 9 Copynumber: 5.4 Consensus size: 9
195106 ATAAAAAATT
195116 AAAAATCAA
1 AAAAATCAA
* *
195125 AGAAATAAA
1 AAAAATCAA
*
195134 AAAAATTAA
1 AAAAATCAA
*
195143 AAAGATCAA
1 AAAAATCAA
*
195152 AAAAATTAA
1 AAAAATCAA
195161 AAAA
1 AAAA
195165 TACTAATAGA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.14
Consensus pattern (9 bp):
AAAAATCAA
Found at i:195139 original size:18 final size:17
Alignment explanation
Indices: 195116--195166 Score: 66
Period size: 18 Copynumber: 2.9 Consensus size: 17
195106 ATAAAAAATT
*
195116 AAAAATCAAAGAAATAAA
1 AAAAATTAAA-AAATAAA
*
195134 AAAAATTAAAAAGATCAA
1 AAAAATTAAAAA-ATAAA
195152 AAAAATTAAAAAATA
1 AAAAATTAAAAAATA
195167 CTAATAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 4 0.14
18 25 0.86
ACGTcount: A:0.76, C:0.04, G:0.04, T:0.16
Consensus pattern (17 bp):
AAAAATTAAAAAATAAA
Found at i:196546 original size:28 final size:30
Alignment explanation
Indices: 196470--196546 Score: 99
Period size: 28 Copynumber: 2.7 Consensus size: 30
196460 GAAATAAAGC
196470 CGGGGTTGGAGTATCCCC--TCGAAAATAA
1 CGGGGTTGGAGTATCCCCGATCGAAAATAA
** *
196498 TAGGGTTGGAGTATCCTCGAT-G-AAATAA
1 CGGGGTTGGAGTATCCCCGATCGAAAATAA
196526 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
196547 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 39 0.95
29 1 0.02
30 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.25
Consensus pattern (30 bp):
CGGGGTTGGAGTATCCCCGATCGAAAATAA
Found at i:196607 original size:51 final size:51
Alignment explanation
Indices: 196529--196696 Score: 205
Period size: 51 Copynumber: 3.3 Consensus size: 51
196519 GAAATAACGG
*
196529 GGTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGA
1 GGTTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGA
* * * * *
196580 GGTTAGAGTATCCCCGCTTATGGAAAATTGGTGTTTTAGAAATAAAA-CTGG
1 GGTTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATC-GA
* * * * *
196631 GGTTGGAGTATCCCCAATTGTGAAAAACTGGTGTATTGGGAATAAAATC-A
1 GGTTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGA
196681 GGGTTAGAGTATCCCC
1 -GGTTAGAGTATCCCC
196697 TCGGAAATAA
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
50 1 0.01
51 95 0.98
52 1 0.01
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (51 bp):
GGTTAGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGA
Found at i:199101 original size:20 final size:19
Alignment explanation
Indices: 199076--199149 Score: 94
Period size: 20 Copynumber: 3.7 Consensus size: 19
199066 AAAATGCCTG
*
199076 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATG-AA
* *
199096 AATGTATTGATACAATGAGC
1 AATGTATCGATACAATGA-A
199116 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATG-AA
199136 AATGTATCGATACA
1 AATGTATCGATACA
199150 TCTGGATAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACAATGAA
Found at i:199829 original size:41 final size:40
Alignment explanation
Indices: 199739--199838 Score: 112
Period size: 41 Copynumber: 2.5 Consensus size: 40
199729 GTCCCATTTT
* * * *
199739 TTGAGGACAAAGGAAAAGAGAATGAAATAGGTCTTGCTCC
1 TTGAGGACAAAAGAAAAAAGAAAGAAATAGGTCCTGCTCC
* *
199779 TTGAGGACAAAAGAAAAAAGAAAAGGAA-AGTGTCCTGCTTC
1 TTGAGGACAAAAGAAAAAAG-AAAGAAATAG-GTCCTGCTCC
199820 TTGAGGACAAAATGAAAAA
1 TTGAGGACAAAA-GAAAAA
199839 GAGTACGTCC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
40 20 0.39
41 25 0.49
42 6 0.12
ACGTcount: A:0.46, C:0.11, G:0.25, T:0.18
Consensus pattern (40 bp):
TTGAGGACAAAAGAAAAAAGAAAGAAATAGGTCCTGCTCC
Found at i:199980 original size:45 final size:42
Alignment explanation
Indices: 199886--200125 Score: 270
Period size: 42 Copynumber: 5.6 Consensus size: 42
199876 GAAAACGGAA
*
199886 TGCGTCCTACTCTTTGAGGACAAAAGAAAGAGGAAAATAAAG
1 TGCGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAG
* *
199928 TACGTCCTGCTCTTTGAGGACAAAAGGGTAAAGAAGG-GAATAAAG
1 TGCGTCCTGCTCTTTGAGGACAAAA--G-AAAG-AGGAAAATAAAG
* *
199973 TGTGTCCTGCTCTTTGAGGAC-AAAGAAAGAGGAAAATGAAG
1 TGCGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAG
* * *
200014 TGCGTCCTGCTCTTTGAGGACAAAAGAGAAAAAAGG-GAATGAAG
1 TGCGTCCTGCTCTTTGAGGAC-AAA-AG-AAAGAGGAAAATAAAG
* *
200058 TGTGTCCTGCTCTTTGAGGACAAAGGAAAGAGGAAAATAAAG
1 TGCGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAG
** *
200100 TGCGTCCCACTCTATGAGGACTAAAA
1 TGCGTCCTGCTCTTTGAGGAC-AAAA
200126 AGTGCCACCA
Statistics
Matches: 167, Mismatches: 20, Indels: 21
0.80 0.10 0.10
Matches are distributed among these distances:
40 3 0.02
41 36 0.22
42 48 0.29
43 8 0.05
44 33 0.20
45 36 0.22
46 3 0.02
ACGTcount: A:0.38, C:0.15, G:0.27, T:0.20
Consensus pattern (42 bp):
TGCGTCCTGCTCTTTGAGGACAAAAGAAAGAGGAAAATAAAG
Found at i:200004 original size:86 final size:85
Alignment explanation
Indices: 199889--200125 Score: 357
Period size: 86 Copynumber: 2.7 Consensus size: 85
199879 AACGGAATGC
* *
199889 GTCCTACTCTTTGAGGACAAAAGAAAGAGGAAAATAAAGTACGTCCTGCTCTTTGAGGACAAAAG
1 GTCCTGCTCTTTGAGGAC-AAAGAAAGAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAG
* *
199954 GGTAAAGAAGGGAATAAAGTGT
65 AG-AAAAAAGGGAATAAAGTGT
*
199976 GTCCTGCTCTTTGAGGACAAAGAAAGAGGAAAATGAAGTGCGTCCTGCTCTTTGAGGACAAAAGA
1 GTCCTGCTCTTTGAGGACAAAGAAAGAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGA
*
200041 GAAAAAAGGGAATGAAGTGT
66 GAAAAAAGGGAATAAAGTGT
** *
200061 GTCCTGCTCTTTGAGGACAAAGGAAAGAGGAAAATAAAGTGCGTCCCACTCTATGAGGACTAAAA
1 GTCCTGCTCTTTGAGGACAAA-GAAAGAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC-AAAA
200126 AGTGCCACCA
Statistics
Matches: 138, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
85 38 0.28
86 79 0.57
87 21 0.15
ACGTcount: A:0.38, C:0.14, G:0.27, T:0.20
Consensus pattern (85 bp):
GTCCTGCTCTTTGAGGACAAAGAAAGAGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAAGA
GAAAAAAGGGAATAAAGTGT
Found at i:200192 original size:61 final size:60
Alignment explanation
Indices: 200090--200361 Score: 252
Period size: 61 Copynumber: 4.5 Consensus size: 60
200080 AAGGAAAGAG
* ** * * **
200090 GAAAATAAAGTGCGTCCCACTCTATGAGGACTAAAAAGTGCCACCAACTCATGTGGGCTTT
1 GAAAAGAAAG-GCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
* *
200151 GAAAAAGAAAGGCGTCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT
1 G-AAAAGAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
* * * * *
200212 GCAAAGAGAAA-GCATCCTGCTCTTTAAGGATTGGAAAA-TGCCACCAACTTGGGTAGGCTTT
1 G-AAA-AGAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT
* ** *
200273 GAAAGGAAAAGGTATCCTGCTCTTTGAGGGATTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAG-AAAGGCGTCCTGCTCTTTGA-GGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTT
*
200336 ----A-AAAGGCGTTCTGCTCTTTGAGGACT
1 GAAAAGAAAGGCGTCCTGCTCTTTGAGGACT
200362 AAAGGGCGAA
Statistics
Matches: 176, Mismatches: 28, Indels: 19
0.79 0.13 0.09
Matches are distributed among these distances:
56 4 0.02
57 17 0.10
59 1 0.01
60 6 0.03
61 101 0.57
62 26 0.15
63 21 0.12
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.25
Consensus pattern (60 bp):
GAAAAGAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:200436 original size:94 final size:96
Alignment explanation
Indices: 200286--200458 Score: 289
Period size: 94 Copynumber: 1.8 Consensus size: 96
200276 AGGAAAAGGT
*
200286 ATCCTGCTCTTTGAGGGATTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGT-TCTGC
1 ATCCTGCTCTTTGAGGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCT-TGC
*
200350 TCTTTGAGGACTAAAGGGCGAAAGGAGAGAGC
65 TCTTTGAAGACTAAAGGGCGAAAGGAGAGAGC
*
200382 ATCCTGCTCTTTGA-GGACTAG-GAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCT
1 ATCCTGCTCTTTGAGGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCT
200445 CTTTGAAGACTAAA
66 CTTTGAAGACTAAA
200459 AAAAATGCCA
Statistics
Matches: 73, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
94 52 0.71
95 7 0.10
96 14 0.19
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (96 bp):
ATCCTGCTCTTTGAGGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCTTGCT
CTTTGAAGACTAAAGGGCGAAAGGAGAGAGC
Found at i:200607 original size:29 final size:29
Alignment explanation
Indices: 200575--200662 Score: 67
Period size: 28 Copynumber: 3.1 Consensus size: 29
200565 TTAAGGACTA
200575 GAAAAGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGTGCCACCAACTTGTGTGGGCTTT
** ** * * *
200604 G-AAAG-GCGTCTTACTCTTTGAGGAC--T
1 GAAAAGTGCCACCAACT-TGTGTGGGCTTT
*
200630 GAAAGGTGCCACCAACTTGTGTGGGCTTT
1 GAAAAGTGCCACCAACTTGTGTGGGCTTT
200659 GAAA
1 GAAA
200663 GGCGTCCTAC
Statistics
Matches: 39, Mismatches: 15, Indels: 10
0.61 0.23 0.16
Matches are distributed among these distances:
26 2 0.05
27 15 0.38
28 16 0.41
29 6 0.15
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.27
Consensus pattern (29 bp):
GAAAAGTGCCACCAACTTGTGTGGGCTTT
Found at i:200624 original size:117 final size:117
Alignment explanation
Indices: 200383--200663 Score: 364
Period size: 117 Copynumber: 2.4 Consensus size: 117
200373 GGAGAGAGCA
* * *
200383 TCCTGCTCTTTGAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGCGTCTT
1 TCCTACTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCATCCT
*
200442 GCTCTTTGAAGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
65 GCTCTTTGAAGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
* *
200495 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCATCCT
1 TCCTACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAG-AAAAGGCATCCT
* * * *
200560 GCT-TTTTAAGGACT-AGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
65 GCTCTTTGAA-GACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
*
200612 TCTTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAG
1 TCCTACTCTTTGAGGACTGGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAG
200664 GCGTCCTACT
Statistics
Matches: 149, Mismatches: 11, Indels: 13
0.86 0.06 0.08
Matches are distributed among these distances:
111 2 0.01
112 43 0.29
116 4 0.03
117 83 0.56
118 17 0.11
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (117 bp):
TCCTACTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCATCCTG
CTCTTTGAAGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGCG
Found at i:200646 original size:55 final size:55
Alignment explanation
Indices: 200383--200685 Score: 349
Period size: 55 Copynumber: 5.3 Consensus size: 55
200373 GGAGAGAGCA
* *
200383 TCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * * * * *
200438 TCTTGCTCTTTGAAGACTAAAAAAAATGCCACCAACTTGTGTGGGCTTTAAAAGGTG
1 TCCTGCTCTTTGAGGACT--AGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* * *
200495 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGAAAAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT----G--AAAGGCG
* *
200556 TCCTGCTTTTTAAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
* *
200612 TCTTACTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
*
200667 TCCTACTCTTT-ATGGACTA
1 TCCTGCTCTTTGA-GGACTA
200686 AAGGGTGAAA
Statistics
Matches: 213, Mismatches: 23, Indels: 23
0.82 0.09 0.09
Matches are distributed among these distances:
54 4 0.02
55 91 0.43
56 20 0.09
57 49 0.23
58 1 0.00
61 22 0.10
62 26 0.12
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCG
Found at i:200804 original size:100 final size:100
Alignment explanation
Indices: 200617--201000 Score: 516
Period size: 100 Copynumber: 3.9 Consensus size: 100
200607 AGGCGTCTTA
* * *
200617 CTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCGTCCTACTCT
1 CTCTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCT
200676 TT-ATGGACTAAAGGGTGAAAGGAGAGAGCGTCCTG
66 TTGA-GGACTAAAGGGTGAAAGGAGAGAGCGTCCTG
*
200711 CTCTTTGAGAACTAAAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCT
1 CTCTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCT
* * *
200776 TTGAGGATTAAAGGGTGAAAAGAGAGAGCGTCTTG
66 TTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTG
* * * * * *
200811 GTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCTTTCTCT
1 CTCTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCT
*
200876 TTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTA
66 TTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTG
* * *
200911 CTCTTTGAGGACTAGAAGATGCCACCAACTTGTTTGGGCTTTAAAAGGAAAAGACGTCCTGCTCT
1 CTCTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCT
*
200976 TTG-GGAACTGAAA-AGTGAAAGGAGA
66 TTGAGG-ACT-AAAGGGTGAAAGGAGA
201001 AAGTTTAGAT
Statistics
Matches: 255, Mismatches: 26, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
94 39 0.15
99 3 0.01
100 209 0.82
101 4 0.02
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (100 bp):
CTCTTTGAGGACTAAAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCT
TTGAGGACTAAAGGGTGAAAGGAGAGAGCGTCCTG
Found at i:201975 original size:1 final size:1
Alignment explanation
Indices: 201971--202036 Score: 60
Period size: 1 Copynumber: 66.0 Consensus size: 1
201961 TTTTTTCCTC
* * * * * * * *
201971 TTTTTTCTTTGTTTTGTTTTTTTTTGTTTTTTTTGTTTTTTGTTTTTTTGTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
202036 T
1 T
202037 AAAAAAGAAT
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (1 bp):
T
Found at i:201985 original size:9 final size:8
Alignment explanation
Indices: 201973--202035 Score: 69
Period size: 8 Copynumber: 7.9 Consensus size: 8
201963 TTTTCCTCTT
201973 TTTTCTTTG
1 TTTT-TTTG
*
201982 TTTTGTT-
1 TTTTTTTG
201989 TTTTTTTG
1 TTTTTTTG
201997 TTTTTTT-
1 TTTTTTTG
202004 TGTTTTTTG
1 T-TTTTTTG
202013 TTTTTTTG
1 TTTTTTTG
202021 TTGTTTTT-
1 TT-TTTTTG
202029 TTTTTTT
1 TTTTTTT
202036 TAAAAAAGAA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
7 12 0.25
8 26 0.54
9 10 0.21
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (8 bp):
TTTTTTTG
Found at i:201985 original size:10 final size:9
Alignment explanation
Indices: 201971--202036 Score: 73
Period size: 9 Copynumber: 7.3 Consensus size: 9
201961 TTTTTTCCTC
*
201971 TTTTTTCTT
1 TTTTTTGTT
*
201980 TGTTTTGTTT
1 TTTTTTG-TT
201990 TTTTTTGTT
1 TTTTTTGTT
201999 TTTTTTGTT
1 TTTTTTGTT
202008 TTTTGTT-TT
1 TTTT-TTGTT
*
202017 TTTGTTGTT
1 TTTTTTGTT
202026 TTTTTT-TT
1 TTTTTTGTT
202034 TTT
1 TTT
202037 AAAAAAGAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
8 7 0.14
9 32 0.65
10 10 0.20
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (9 bp):
TTTTTTGTT
Found at i:201990 original size:26 final size:26
Alignment explanation
Indices: 201961--202018 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
201951 AGATTCTTCT
201961 TTTTTTCCTCTTTTTTCTT-TGTTTTG
1 TTTTTTCCTCTTTTTT-TTGTGTTTTG
** * *
201987 TTTTTTTTTGTTTTTTTTGTTTTTTG
1 TTTTTTCCTCTTTTTTTTGTGTTTTG
202013 TTTTTT
1 TTTTTT
202019 TGTTGTTTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.00, C:0.07, G:0.09, T:0.84
Consensus pattern (26 bp):
TTTTTTCCTCTTTTTTTTGTGTTTTG
Found at i:201996 original size:15 final size:14
Alignment explanation
Indices: 201971--202036 Score: 80
Period size: 14 Copynumber: 4.7 Consensus size: 14
201961 TTTTTTCCTC
*
201971 TTTTTTCTTTGTTT
1 TTTTTTTTTTGTTT
201985 TGTTTTTTTTTGTTT
1 T-TTTTTTTTTGTTT
* *
202000 TTTTTGTTTT-TTG
1 TTTTTTTTTTGTTT
*
202013 TTTTTTTGTTGTTT
1 TTTTTTTTTTGTTT
202027 TTTTTTTTTT
1 TTTTTTTTTT
202037 AAAAAAGAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
13 10 0.23
14 20 0.47
15 13 0.30
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (14 bp):
TTTTTTTTTTGTTT
Found at i:202000 original size:24 final size:24
Alignment explanation
Indices: 201973--202036 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
201963 TTTTCCTCTT
201973 TTTTCTTTGTTTTGTT-TTTTTTTG
1 TTTTCTTTGTTTT-TTGTTTTTTTG
*
201997 TTTTTTTTGTTTTTTGTTTTTTTG
1 TTTTCTTTGTTTTTTGTTTTTTTG
* *
202021 TTGTTTTTTTTTTTTT
1 TT-TTCTTTGTTTTTT
202037 AAAAAAGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
23 2 0.06
24 22 0.61
25 12 0.33
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (24 bp):
TTTTCTTTGTTTTTTGTTTTTTTG
Found at i:202019 original size:26 final size:26
Alignment explanation
Indices: 201971--202036 Score: 98
Period size: 26 Copynumber: 2.5 Consensus size: 26
201961 TTTTTTCCTC
*
201971 TTTTTTCTTTGTTTTGTTTTTTT-TTG
1 TTTTTT-TTTTTTTTGTTTTTTTGTTG
201997 TTTTTTTTGTTTTTTGTTTTTTTGTTG
1 TTTTTTTT-TTTTTTGTTTTTTTGTTG
202024 TTTTTTTTTTTTT
1 TTTTTTTTTTTTT
202037 AAAAAAGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
25 2 0.05
26 24 0.65
27 11 0.30
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (26 bp):
TTTTTTTTTTTTTTGTTTTTTTGTTG
Found at i:202035 original size:19 final size:18
Alignment explanation
Indices: 201971--202036 Score: 87
Period size: 18 Copynumber: 3.6 Consensus size: 18
201961 TTTTTTCCTC
* *
201971 TTTTTTCTTTGTTTTGTT
1 TTTTTTTTTTTTTTTGTT
201989 TTTTTTTGTTTTTTTTGTT
1 TTTTTTT-TTTTTTTTGTT
* *
202008 TTTTGTTTTTTTGTTGTT
1 TTTTTTTTTTTTTTTGTT
202026 TTTTTTTTTTT
1 TTTTTTTTTTT
202037 AAAAAAGAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
18 26 0.62
19 16 0.38
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.88
Consensus pattern (18 bp):
TTTTTTTTTTTTTTTGTT
Found at i:214606 original size:79 final size:79
Alignment explanation
Indices: 214424--214607 Score: 181
Period size: 79 Copynumber: 2.3 Consensus size: 79
214414 GCAATGGCGC
* * * * * *
214424 TGGAGTATCCCCGATTATGGAAAATCTGTGTTCTGGAAATAAAATCGGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCCGATTATGAAAAATCAGTATTCTGAAAATAAAATCGAGGTTGGAGTATCCCATC
* * *
214489 GGAAATTATAGGGA
66 GAAAATAACAGGGA
* *** * *
214503 TGAAGTATCCTTAACTAT-AGAAAATCAGTATTTTGAAAATAAAATCGAGGTTGGAGTATCCCAT
1 TGGAGTATCCCCGATTATGA-AAAATCAGTATTCTGAAAATAAAATCGAGGTTGGAGTATCCCAT
* * *
214567 TGAAAATAACGGGGT
65 CGAAAATAACAGGGA
*
214582 TGGAGTATCCCCGATTGTGAAAAATC
1 TGGAGTATCCCCGATTATGAAAAATC
214608 GATGATTTAG
Statistics
Matches: 79, Mismatches: 24, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
79 78 0.99
80 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (79 bp):
TGGAGTATCCCCGATTATGAAAAATCAGTATTCTGAAAATAAAATCGAGGTTGGAGTATCCCATC
GAAAATAACAGGGA
Found at i:214640 original size:51 final size:51
Alignment explanation
Indices: 214576--214695 Score: 170
Period size: 51 Copynumber: 2.4 Consensus size: 51
214566 TTGAAAATAA
* * *
214576 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGA-TTTAGAAATAAGGC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAAT-ATTTTAAAAATAAAGC
* *
214627 CGGGGTTGAAGTATCCCCGATTGTGAGAAATCAATATTTTAAAAATAAAGC
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAAAAATAAAGC
*
214678 TGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
214696 TCGAAAATAA
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
50 1 0.02
51 60 0.98
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAAAAATAAAGC
Found at i:214712 original size:158 final size:157
Alignment explanation
Indices: 214548--214880 Score: 411
Period size: 158 Copynumber: 2.1 Consensus size: 157
214538 AAAATAAAAT
214548 CGAGGTTGGAGTATCCC-ATTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATG
1 CGAGGTTGGAGTATCCCGA-TG-AAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATG
** * *
214612 ATTTAGAAATAAGGCCGGGGTT-GAAGTATCCCCGATTGT-GAGAAATCAATATTTTAAAAATAA
64 ATTTAGAAATAAAACCGAGGTTAG-AGTATCCCCGATTATGGA-AAATCAATATTTTAAAAATAA
* * * * *
214675 AGCTGGGGTTGGAGTATCCCCTCGAAAATAA
127 AACCGAGGTTAGAGTATCCCCTCAAAAATAA
* * * *
214706 CGAGGTTGGAGTATGCCCGATGAAATAACGGGGTTTGAGTATCCCCGATTGTGAAAAATTGGTGT
1 CGAGGTTGGAGTAT-CCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGA
* * *** *
214771 TTTGGAAATAAAATCGAGGTTAGAGTATCCCCGATTATGGAAAATTGGTGTTTTAAAAATAAAAC
65 TTTAGAAATAAAACCGAGGTTAGAGTATCCCCGATTATGGAAAATCAATATTTTAAAAATAAAAC
*
214836 CGAGGTTAGAGTATCCCCTCAAAAATGA
130 CGAGGTTAGAGTATCCCCTCAAAAATAA
*
214864 CGGGGTTGGAGTATCCC
1 CGAGGTTGGAGTATCCC
214881 TAATTGTGAA
Statistics
Matches: 150, Mismatches: 21, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
157 3 0.02
158 138 0.92
159 8 0.05
160 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.27
Consensus pattern (157 bp):
CGAGGTTGGAGTATCCCGATGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGATGAT
TTAGAAATAAAACCGAGGTTAGAGTATCCCCGATTATGGAAAATCAATATTTTAAAAATAAAACC
GAGGTTAGAGTATCCCCTCAAAAATAA
Found at i:214752 original size:28 final size:30
Alignment explanation
Indices: 214679--214754 Score: 97
Period size: 28 Copynumber: 2.7 Consensus size: 30
214669 AAATAAAGCT
214679 GGGGTTGGAGTATCCCC--TCGAAAATAAC
1 GGGGTTGGAGTATCCCCGATCGAAAATAAC
* *
214707 GAGGTTGGAGTATGCCCGAT-G-AAATAAC
1 GGGGTTGGAGTATCCCCGATCGAAAATAAC
*
214735 GGGGTTTGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
214755 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 39 0.95
29 1 0.02
30 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.32, T:0.24
Consensus pattern (30 bp):
GGGGTTGGAGTATCCCCGATCGAAAATAAC
Found at i:214802 original size:51 final size:51
Alignment explanation
Indices: 214737--214853 Score: 180
Period size: 51 Copynumber: 2.3 Consensus size: 51
214727 GAAATAACGG
* * ** *
214737 GGTTTGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAAATCGA
1 GGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTTAAAAATAAAACCGA
*
214788 GGTTAGAGTATCCCCGATTATGGAAAATTGGTGTTTTAAAAATAAAACCGA
1 GGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTTAAAAATAAAACCGA
214839 GGTTAGAGTATCCCC
1 GGTTAGAGTATCCCC
214854 TCAAAAATGA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 60 1.00
ACGTcount: A:0.32, C:0.13, G:0.24, T:0.31
Consensus pattern (51 bp):
GGTTAGAGTATCCCCGATTATGAAAAATTGGTGTTTTAAAAATAAAACCGA
Found at i:214927 original size:79 final size:79
Alignment explanation
Indices: 214793--215011 Score: 242
Period size: 79 Copynumber: 2.8 Consensus size: 79
214783 ATCGAGGTTA
* * * * ** *
214793 GAGTATCCCCGATTATGGAAAATTGGTGTTTTAAAAATAAAACC-GAGGTTAGAGTATCCCCTCA
1 GAGTATCCCCAATTATGAAAAACTGATGTTTTGGAAATAAAACCGGA-GTTGGAGTATCCCCTCA
* * *
214857 AAAATGACGGGGTTG
65 AAAATAACGAGATTG
* * * * * **
214872 GAGTATCCCTAATTGTGAAAAACTGGTGTTTTGGGAATAAAATCGGAGTTGGAGTATCCCCTCGG
1 GAGTATCCCCAATTATGAAAAACTGATGTTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCAA
214937 AAATAACGAGATTG
66 AAATAACGAGATTG
* * *
214951 GAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAGTATCCCC
1 GAGTATCCCCAATTATGAAAAACTGATGTTTTGGAAATAAAACCGGAGTTGGAGTATCCCC
215012 GAGATGAAAA
Statistics
Matches: 116, Mismatches: 23, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
79 114 0.98
80 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.25, T:0.27
Consensus pattern (79 bp):
GAGTATCCCCAATTATGAAAAACTGATGTTTTGGAAATAAAACCGGAGTTGGAGTATCCCCTCAA
AAATAACGAGATTG
Found at i:217309 original size:20 final size:18
Alignment explanation
Indices: 217262--217365 Score: 83
Period size: 20 Copynumber: 5.6 Consensus size: 18
217252 AAAATGCCTG
*
217262 AATGTATCGATACATTATAA
1 AATGTATCGATACA--ATGA
*
217282 AATATATCGATACAATGA
1 AATGTATCGATACAATGA
217300 GTAATGTATCGATAC-----
1 --AATGTATCGATACAATGA
217315 AATGTATCGATACAATGA
1 AATGTATCGATACAATGA
217333 GCAATGTATCGATACAATGCAA
1 --AATGTATCGATACAATG--A
217355 AATGTATCGAT
1 AATGTATCGAT
217366 GCATATGGGT
Statistics
Matches: 70, Mismatches: 3, Indels: 22
0.74 0.03 0.23
Matches are distributed among these distances:
13 13 0.19
18 3 0.04
20 53 0.76
22 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (18 bp):
AATGTATCGATACAATGA
Found at i:217328 original size:33 final size:33
Alignment explanation
Indices: 217286--217351 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
217276 TTATAAAATA
*
217286 TATCGATACAATGAGTAATGTATCGATACAATG
1 TATCGATACAATGAGCAATGTATCGATACAATG
217319 TATCGATACAATGAGCAATGTATCGATACAATG
1 TATCGATACAATGAGCAATGTATCGATACAATG
217352 CAAAATGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (33 bp):
TATCGATACAATGAGCAATGTATCGATACAATG
Found at i:217350 original size:13 final size:13
Alignment explanation
Indices: 217302--217331 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
217292 TACAATGAGT
217302 AATGTATCGATAC
1 AATGTATCGATAC
217315 AATGTATCGATAC
1 AATGTATCGATAC
217328 AATG
1 AATG
217332 AGCAATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:218505 original size:51 final size:50
Alignment explanation
Indices: 218374--218506 Score: 135
Period size: 50 Copynumber: 2.6 Consensus size: 50
218364 AAAATTAGTA
* * * * *
218374 TTTTAGAGATAACAACGGGGCTAGAGTATCACTGATTATGGAAAAACGGTG
1 TTTTAGAAATAA-AACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
* * *
218425 TTTTA-AAAAAAAATTGGGGTTAGAGTATCCCCGATTAT-GAAAAATTGATG
1 TTTTAGAAATAAAA-CGGGGTTAGAGTATCCCCGATTATGGAAAAA-CGATG
*
218475 TTTTAGAAATAAAACCGGGGTTGGAGTATCCC
1 TTTTAGAAATAAAA-CGGGGTTAGAGTATCCC
218507 TTCAGAAATA
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
49 8 0.12
50 32 0.48
51 27 0.40
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (50 bp):
TTTTAGAAATAAAACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
Found at i:218651 original size:79 final size:79
Alignment explanation
Indices: 218440--219024 Score: 910
Period size: 79 Copynumber: 7.4 Consensus size: 79
218430 AAAAAAAATT
*
218440 GGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
*
218505 CCTTC-AGAAATAAC
66 CCCTCGA-AAATAAC
* * * * *
218519 GAGG-TGGGGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
218583 CCCTCGAAAATAAC
66 CCCTCGAAAATAAC
*
218597 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
218662 CCCTC-AGAAATAAC
66 CCCTCGA-AAATAAC
* * *
218676 GGGGTTGGAGTATCCCTGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
218741 CCCTCGAAAATAAC
66 CCCTCGAAAATAAC
* *
218755 GGGGTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
218820 CCCTC-AGAAATAAC
66 CCCTCGA-AAATAAC
* * *
218834 AGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
218899 CCCTCGAAAATAAC
66 CCCTCGAAAATAAC
* *
218913 GGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
*
218978 CCCAT-GGAAATAAC
66 CCC-TCGAAAATAAC
* *
218992 GGGATTGGAGTATCCCCGATTGTGAAAAATTGA
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGA
219025 GAAACTTAAC
Statistics
Matches: 465, Mismatches: 34, Indels: 14
0.91 0.07 0.03
Matches are distributed among these distances:
78 71 0.15
79 391 0.84
80 3 0.01
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (79 bp):
GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
CCCTCGAAAATAAC
Found at i:218761 original size:158 final size:158
Alignment explanation
Indices: 218440--219022 Score: 1026
Period size: 158 Copynumber: 3.7 Consensus size: 158
218430 AAAAAAAATT
* *
218440 GGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATC
* * * *
218505 CCTTCAGAAATAACGAGG-TGGGGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACC
66 CCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACC
218569 GGGGTTGGAGTATCCCCTCGAAAATAAC
131 GGGGTTGGAGTATCCCCTCGAAAATAAC
218597 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATC
*
218662 CCCTCAGAAATAACGGGGTTGGAGTATCCCTGATTATGAAAAATTAATATTTTAGAAATAAAACC
66 CCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACC
218727 GGGGTTGGAGTATCCCCTCGAAAATAAC
131 GGGGTTGGAGTATCCCCTCGAAAATAAC
*
218755 GGGGTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATC
*
218820 CCCTCAGAAATAACAGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACC
66 CCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACC
218885 GGGGTTGGAGTATCCCCTCGAAAATAAC
131 GGGGTTGGAGTATCCCCTCGAAAATAAC
*
218913 GGGGTTGGAGTATCCTCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATC
* * *
218978 CCCAT-GGAAATAACGGGATTGGAGTATCCCCGATTGTGAAAAATT
66 CCC-TCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATT
219023 GAGAAACTTA
Statistics
Matches: 408, Mismatches: 16, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
157 79 0.19
158 328 0.80
159 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.27
Consensus pattern (158 bp):
GGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATC
CCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACC
GGGGTTGGAGTATCCCCTCGAAAATAAC
Found at i:220286 original size:34 final size:35
Alignment explanation
Indices: 220235--220367 Score: 173
Period size: 35 Copynumber: 3.9 Consensus size: 35
220225 TCATTTTTAT
*
220235 CCATCATTCCATACCTTCATTTTT-TATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
* *
220269 CCATCATTCTATGCCTTCATTTTTATATTCCGTGC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
* ** * *
220304 CCATCATCCCATG--TTTTTTTTTTTATTTCATGC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
220337 CCATCATTCCATGCCTTCATTTTTATATTCC
1 CCATCATTCCATGCCTTCATTTTTATATTCC
220368 TTGATTTTCA
Statistics
Matches: 81, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
33 27 0.33
34 22 0.27
35 32 0.40
ACGTcount: A:0.18, C:0.29, G:0.05, T:0.47
Consensus pattern (35 bp):
CCATCATTCCATGCCTTCATTTTTATATTCCATGC
Found at i:220961 original size:15 final size:15
Alignment explanation
Indices: 220950--220986 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
220940 GGGGGACAGT
220950 AATGAAATGGACATC
1 AATGAAATGGACATC
220965 AATGAAATGG-CATGC
1 AATGAAATGGACAT-C
220980 AATGAAA
1 AATGAAA
220987 GGAAGAGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 3 0.14
15 18 0.86
ACGTcount: A:0.49, C:0.11, G:0.22, T:0.19
Consensus pattern (15 bp):
AATGAAATGGACATC
Found at i:221285 original size:97 final size:97
Alignment explanation
Indices: 221167--221441 Score: 417
Period size: 97 Copynumber: 2.8 Consensus size: 97
221157 AATTTTGTTT
* * * *** * *
221167 ATCGGGGATACACCAACCTCATTTCTCCGAGGGGATACTCCAACCTTGTTTTTAAACTTATAAAA
1 ATCGGGGATACTCCAACCTCATTTCTCCGAAGGGATACTCAAACCCCATTTTTAAACTCATCAAA
221232 ATTTAAATCTTATTTTC-GATTAAATTGTCATA
66 ATTTAAATCTTATTTTCAG-TTAAATTGTCATA
* *
221264 ATCGGGGATACTCCAACCTCATTCCTTCGAAGGGATACTCAAACCCCATTTTTAAACTCATCAAA
1 ATCGGGGATACTCCAACCTCATTTCTCCGAAGGGATACTCAAACCCCATTTTTAAACTCATCAAA
*
221329 ATTTAAATCTTATTTTCAGTTAAATTGTCATC
66 ATTTAAATCTTATTTTCAGTTAAATTGTCATA
* *
221361 ATCGGGGATACTCCAACCCCATTTCTCCGAAGGGATACTCTAACCCCATTTTTAAACTCATCAAA
1 ATCGGGGATACTCCAACCTCATTTCTCCGAAGGGATACTCAAACCCCATTTTTAAACTCATCAAA
221426 ATTTAAATCTTATTTT
66 ATTTAAATCTTATTTT
221442 GTCCAAATTA
Statistics
Matches: 162, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
97 161 0.99
98 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.35
Consensus pattern (97 bp):
ATCGGGGATACTCCAACCTCATTTCTCCGAAGGGATACTCAAACCCCATTTTTAAACTCATCAAA
ATTTAAATCTTATTTTCAGTTAAATTGTCATA
Found at i:221464 original size:69 final size:69
Alignment explanation
Indices: 221391--221548 Score: 237
Period size: 69 Copynumber: 2.3 Consensus size: 69
221381 ATTTCTCCGA
*
221391 AGGGATACTCTAACCCCATTTTTAAACTCATCAAAATTTAAATCTTATTTTGTCCAAATTATCAT
1 AGGGATACTCTAACCCCATTTTTAAACTCATCAAAATTTAAATCTTATTTTATCCAAATTATCAT
221456 T-TT
66 TGTT
* * * *
221459 CAGGGATACTCCAATCCTATTTTTAAACTCATCAAAATTTAAGTCTTATTTTATCCAAATTATCA
1 -AGGGATACTCTAACCCCATTTTTAAACTCATCAAAATTTAAATCTTATTTTATCCAAATTATCA
221524 TTGTT
65 TTGTT
* *
221529 GGGGATATTCTAACCCCATT
1 AGGGATACTCTAACCCCATT
221549 CCTCTGAGGG
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
69 76 0.97
70 2 0.03
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.40
Consensus pattern (69 bp):
AGGGATACTCTAACCCCATTTTTAAACTCATCAAAATTTAAATCTTATTTTATCCAAATTATCAT
TGTT
Found at i:229780 original size:20 final size:20
Alignment explanation
Indices: 229757--229829 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
229747 ACAATTCAAA
229757 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
229777 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
229798 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
229818 GTATCGATACAT
1 GTATCGATACAT
229830 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:229801 original size:21 final size:21
Alignment explanation
Indices: 229775--229850 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
229765 ACATGTTGCA
229775 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
229796 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
229816 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
229837 ATGTATCGATACAT
1 ATGTATCGATACAT
229851 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:229808 original size:41 final size:41
Alignment explanation
Indices: 229757--229850 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
229747 ACAATTCAAA
*
229757 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
229798 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
229839 GTATCGATACAT
1 GTATCGATACAT
229851 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:229907 original size:13 final size:13
Alignment explanation
Indices: 229889--229914 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
229879 TACAGCAAGT
229889 ATGTATCGATACA
1 ATGTATCGATACA
229902 ATGTATCGATACA
1 ATGTATCGATACA
229915 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:232162 original size:21 final size:21
Alignment explanation
Indices: 232129--232173 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
232119 TTGCAAGTTG
*
232129 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
232151 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
232171 AAA
1 AAA
232174 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:233997 original size:15 final size:15
Alignment explanation
Indices: 233977--234007 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
233967 TAAAAATGTC
*
233977 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
233992 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
234007 C
1 C
234008 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:236101 original size:20 final size:20
Alignment explanation
Indices: 236022--236101 Score: 79
Period size: 20 Copynumber: 3.8 Consensus size: 20
236012 AATGTCCAAA
*
236022 ATGTATCGATACATGTTTCT
1 ATGTATCGATACATTTTTCT
* *
236042 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACAT-T----TTTCT
236067 ATGTATCGATACATTTTTCT
1 ATGTATCGATACATTTTTCT
*
236087 TTGTATCGATACATT
1 ATGTATCGATACATT
236102 GTATCTATAC
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
20 31 0.63
24 1 0.02
25 17 0.35
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCT
Found at i:236105 original size:13 final size:13
Alignment explanation
Indices: 236087--236125 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
236077 ACATTTTTCT
236087 TTGTATCGATACA
1 TTGTATCGATACA
*
236100 TTGTATCTATACA
1 TTGTATCGATACA
*
236113 CTGTATCGATACA
1 TTGTATCGATACA
236126 GGGTGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Done.