Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000625.1 Hibiscus syriacus cultivar Beakdansim tig00001213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 57603
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Found at i:1235 original size:18 final size:16
Alignment explanation
Indices: 1190--1269 Score: 78
Period size: 15 Copynumber: 5.1 Consensus size: 16
1180 AAAGAGATAG
1190 AAAAAAGAAAAAA-AA
1 AAAAAAGAAAAAAGAA
* **
1205 AAACAAG-CGAAAGAA
1 AAAAAAGAAAAAAGAA
1220 AATAAAGAGAAAAAAGAA
1 AA-AAA-AGAAAAAAGAA
*
1238 AGAAAAGAAAAAA-AA
1 AAAAAAGAAAAAAGAA
1253 AAAAAA-AAAAAAGAA
1 AAAAAAGAAAAAAGAA
1268 AA
1 AA
1270 GAGAAAAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 10
0.74 0.11 0.14
Matches are distributed among these distances:
14 9 0.17
15 21 0.40
16 10 0.19
17 5 0.10
18 7 0.13
ACGTcount: A:0.84, C:0.03, G:0.12, T:0.01
Consensus pattern (16 bp):
AAAAAAGAAAAAAGAA
Found at i:1246 original size:5 final size:5
Alignment explanation
Indices: 1192--1271 Score: 53
Period size: 5 Copynumber: 16.2 Consensus size: 5
1182 AGAGATAGAA
* * * *
1192 AAAAG AAAA- AAAAA AACAAG CGAAAG AAAAT AAAGAG AAAAA AGAAAG
1 AAAAG AAAAG AAAAG AA-AAG -AAAAG AAAAG AAA-AG AAAAG A-AAAG
1240 AAAAG AAAA- AAAA- AAAA- AAAA- AAAAG AAAAG A
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG A
1272 GAAAAAAATT
Statistics
Matches: 62, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
4 20 0.32
5 28 0.45
6 13 0.21
7 1 0.02
ACGTcount: A:0.82, C:0.03, G:0.14, T:0.01
Consensus pattern (5 bp):
AAAAG
Found at i:1266 original size:39 final size:39
Alignment explanation
Indices: 1188--1279 Score: 100
Period size: 39 Copynumber: 2.4 Consensus size: 39
1178 ACAAAGAGAT
** * *
1188 AGAAAAAAGAAAAAAAAAAACAAGCGAAAGAAAATAAAG
1 AGAAAAAAGAAAAAAAAAAACAAGAAAAAAAAAAAAAAG
*
1227 AGAAAAAAGAAAGAAAAGAAA-AA-AAAAAAAAAAAAAA-
1 AGAAAAAAGAAA-AAAAAAAACAAGAAAAAAAAAAAAAAG
*
1264 AGAAAAGAGAAAAAAA
1 AGAAAAAAGAAAAAAA
1280 TTAAAAAGAA
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
36 4 0.09
37 11 0.24
38 10 0.22
39 14 0.30
40 7 0.15
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.01
Consensus pattern (39 bp):
AGAAAAAAGAAAAAAAAAAACAAGAAAAAAAAAAAAAAG
Found at i:1285 original size:26 final size:27
Alignment explanation
Indices: 1188--1298 Score: 63
Period size: 28 Copynumber: 4.0 Consensus size: 27
1178 ACAAAGAGAT
* *
1188 AGAAAAAAGAAAAAAAAAAA-CAAGCGAA
1 AGAAAAAA-AAAAAAAAAAAGAAAG-AAA
1216 AGAAAATAAAGAGAAAAAAGAAAG--A-AAA
1 AGAAAA-AAA-A-AAAAAA-AAAGAAAGAAA
1244 -GAAAAAAAAAAAAAAAAA-AAAGAAA
1 AGAAAAAAAAAAAAAAAAAGAAAGAAA
* * *
1269 AGAGAAAAAAATTAAAAAGAAGAAACAAA
1 AGA-AAAAAAA-AAAAAAAAAGAAAGAAA
1298 A
1 A
1299 TAGAACAAGT
Statistics
Matches: 67, Mismatches: 4, Indels: 23
0.71 0.04 0.24
Matches are distributed among these distances:
23 3 0.04
24 7 0.10
25 4 0.06
26 5 0.07
27 12 0.18
28 16 0.24
29 10 0.15
30 7 0.10
31 3 0.04
ACGTcount: A:0.81, C:0.03, G:0.14, T:0.03
Consensus pattern (27 bp):
AGAAAAAAAAAAAAAAAAAGAAAGAAA
Found at i:2208 original size:12 final size:12
Alignment explanation
Indices: 2174--2221 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
2164 AGGGCAGCAT
*
2174 TTTTTCAAAAAA
1 TTTTTCAAAATA
*
2186 TTTTAT-TAAATA
1 TTTT-TCAAAATA
2198 TTTTTCAAAATTA
1 TTTTTCAAAA-TA
2211 TTTTTCAAAAT
1 TTTTTCAAAAT
2222 TTGAATATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
11 1 0.03
12 16 0.53
13 13 0.43
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (12 bp):
TTTTTCAAAATA
Found at i:2212 original size:13 final size:13
Alignment explanation
Indices: 2196--2222 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2186 TTTTATTAAA
2196 TATTTTTCAAAAT
1 TATTTTTCAAAAT
2209 TATTTTTCAAAAT
1 TATTTTTCAAAAT
2222 T
1 T
2223 TGAATATAAA
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:0.37, C:0.07, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTTTTCAAAAT
Found at i:2403 original size:44 final size:45
Alignment explanation
Indices: 2348--2432 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
2338 AAGAAATGGT
* *
2348 AATGTTAGGGCA-TTTTTGAAGGCCTATGTCATCCAAAAATGATA
1 AATGTTAGGGCATTTTTTGAAGGCCCATATCATCCAAAAATGATA
* *
2392 AATGTTGGGGCATTTTTTTAAGGCCCATATCATCCAAAAAT
1 AATGTTAGGGCATTTTTTGAAGGCCCATATCATCCAAAAAT
2433 ACAAGATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 11 0.31
45 25 0.69
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (45 bp):
AATGTTAGGGCATTTTTTGAAGGCCCATATCATCCAAAAATGATA
Found at i:5388 original size:33 final size:34
Alignment explanation
Indices: 5320--5434 Score: 205
Period size: 34 Copynumber: 3.4 Consensus size: 34
5310 AAGGTCTTGA
*
5320 GTTTCAAGAGAAACATTTTCAAAGGTTTTTTTGT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTGT
5354 GTTTCAAGAGAAACAATTTCAAAGG-TTTTTTGT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTGT
5387 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTGT
1 GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTGT
*
5421 GTTTCAAGATAAAC
1 GTTTCAAGAGAAAC
5435 TGTCTCAAGG
Statistics
Matches: 78, Mismatches: 2, Indels: 2
0.95 0.02 0.02
Matches are distributed among these distances:
33 33 0.42
34 45 0.58
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (34 bp):
GTTTCAAGAGAAACAATTTCAAAGGTTTTTTTGT
Found at i:5490 original size:67 final size:65
Alignment explanation
Indices: 5417--5592 Score: 212
Period size: 65 Copynumber: 2.7 Consensus size: 65
5407 AAAGGTTTTT
* * * * *
5417 TTGTGTTTCAAGATAAACTGTCTCAAGGGAGGCAAAATTTTGTTTCAA-GAGAAACATATTCAAA
1 TTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTAAAGGA-AAACAGATTCAAA
5481 GA
64 GA
* *
5483 TTGGTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTTGTTTAAAGGAAAACAGGTTCAAAG
1 TT-GTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGGAAAACAGATTCAAAG
5548 A
65 A
* * *
5549 TTTTGCTTCAA-AGGAAACCGTCTCAAGAGAGACAAAATTTGTTT
1 TTGTGTTTCAAGA-GAAACTGTCTCAAGAGAGACAAAATTTGTTT
5593 TGAAAGAAAC
Statistics
Matches: 96, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
64 1 0.01
65 36 0.38
66 26 0.27
67 33 0.34
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (65 bp):
TTGTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGGAAAACAGATTCAAAGA
Found at i:5725 original size:66 final size:64
Alignment explanation
Indices: 5598--5907 Score: 350
Period size: 66 Copynumber: 4.6 Consensus size: 64
5588 TGTTTTGAAA
* * * ** *
5598 GAAACTGTCTCACGGGAGACAAAATTTTTTTTAAGGAAAACAGGTTCAAATATTTTATTTCAAGG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGAAAACAAATTCAAAT-TTTTGTTTCAAGG
*
5663 GAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGTTTTTGTTTCAAG
1 GAAACTGTCTCAAGAGAGACAAAA-TTTGTTTTAAGGAAAACAAATTCAAA-TTTTTGTTTCAAG
5728 G
64 G
* * ** *
5729 GAAACCGTATCAAGAGAGACAAAATTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTTG
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAG-GAAAA-----C-A-A-ATTCAAATTTTTG
*
5794 ATTCAAGG
57 TTTCAAGG
*
5802 GAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGTTTTTGTTTCAAG
1 GAAACTGTCTCAAGAGAGACAAAA-TTTGTTTTAAGGAAAACAAATTCAAA-TTTTTGTTTCAAG
5867 G
64 G
*
5868 GAAACCGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAA
1 GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAG-GAAA
5908 CTATCTCAAG
Statistics
Matches: 208, Mismatches: 23, Indels: 27
0.81 0.09 0.10
Matches are distributed among these distances:
65 47 0.23
66 101 0.49
67 2 0.01
68 1 0.00
71 1 0.00
72 1 0.00
73 40 0.19
74 15 0.07
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.28
Consensus pattern (64 bp):
GAAACTGTCTCAAGAGAGACAAAATTTGTTTTAAGGAAAACAAATTCAAATTTTTGTTTCAAGG
Found at i:5734 original size:167 final size:168
Alignment explanation
Indices: 5420--5806 Score: 512
Period size: 167 Copynumber: 2.3 Consensus size: 168
5410 GGTTTTTTTG
* * * *
5420 TGTTTCAAGATAAACTGTCTCAAGGGAGGCAAAATTTTGTTTCAAGAGAAACATATTCAAAGATT
1 TGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACAGATTCAAAGATT
* * **
5485 GGTGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATTTGTTTAAAGGAAAACAGGTTCAAAGAT
66 GGTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGGAAAACAAATTCAAAGAT
*
5550 TTTGCTTCAAAGGAAACCGTCTCAAGAGAGACAAAATT
131 TTTGCTTCAAAGGAAACCGTATCAAGAGAGACAAAATT
* * * *
5588 TGTTTTGAA-AGAAACTGTCTCACGGGAGACAAAATTTT-TTTTAAG-GAAAACAGGTTCAAATA
1 TGTTTT-AAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAG-AAACAGATTCAAAGA
* * *
5650 TT-TTATTTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAA
64 TTGGTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTTGTTTAAAGGAAAACAAATTCAAA
* * *
5714 GTTTTTGTTTCAAGGGAAACCGTATCAAGAGAGACAAAATT
128 GATTTTGCTTCAAAGGAAACCGTATCAAGAGAGACAAAATT
* * * *
5755 TGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAATTTTGATTCAAGGGAAAC
1 TGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAAC
5807 TGTCTCAAGA
Statistics
Matches: 189, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
166 34 0.18
167 112 0.59
168 40 0.21
169 3 0.02
ACGTcount: A:0.40, C:0.12, G:0.20, T:0.28
Consensus pattern (168 bp):
TGTTTTAAGAGAAACTGTCTCAAGGGAGACAAAATTTTGTTTCAAGAGAAACAGATTCAAAGATT
GGTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTAAAGGAAAACAAATTCAAAGAT
TTTGCTTCAAAGGAAACCGTATCAAGAGAGACAAAATT
Found at i:5820 original size:37 final size:37
Alignment explanation
Indices: 5716--5935 Score: 201
Period size: 36 Copynumber: 6.2 Consensus size: 37
5706 AATTCAAAGT
* *
5716 TTTTGTTTCAAGGGAAACCGTATCAAGAGAGACAAAA
1 TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
5753 -TTTGTTTTAAGAGAAAATGTCTCAAGAGAGACAAAA
1 TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
5789 TTTTGATTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * ** *
5826 CTTTGTTTCAA-GGAAA-----AC-A-A-ATTCAAAGT
1 TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAA-A
*
5855 TTTTGTTTCAAGGGAAACCGTCTCAAGAGAGACAAAA
1 TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * * *
5892 -TTTGTTTTAAGAGAAACTATCTCAAGAGAGACAACA
1 TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
5928 CTTTGTTT
1 TTTTGTTT
5936 TGAGTAAATT
Statistics
Matches: 146, Mismatches: 25, Indels: 24
0.75 0.13 0.12
Matches are distributed among these distances:
28 5 0.03
29 11 0.08
30 6 0.04
31 1 0.01
35 1 0.01
36 68 0.47
37 49 0.34
38 5 0.03
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (37 bp):
TTTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:5820 original size:139 final size:139
Alignment explanation
Indices: 5656--5925 Score: 513
Period size: 139 Copynumber: 1.9 Consensus size: 139
5646 AATATTTTAT
5656 TTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGTTTTTG
1 TTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGTTTTTG
*
5721 TTTCAAGGGAAACCGTATCAAGAGAGACAAAATTTGTTTTAAGAGAAAATGTCTCAAGAGAGACA
66 TTTCAAGGGAAACCGTATCAAGAGAGACAAAATTTGTTTTAAGAGAAAATATCTCAAGAGAGACA
5786 AAATTTTGA
131 AAATTTTGA
5795 TTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGTTTTTG
1 TTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGTTTTTG
* *
5860 TTTCAAGGGAAACCGTCTCAAGAGAGACAAAATTTGTTTTAAGAGAAACTATCTCAAGAGAGACA
66 TTTCAAGGGAAACCGTATCAAGAGAGACAAAATTTGTTTTAAGAGAAAATATCTCAAGAGAGACA
5925 A
131 A
5926 CACTTTGTTT
Statistics
Matches: 128, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 128 1.00
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.26
Consensus pattern (139 bp):
TTCAAGGGAAACTGTCTCAAGAGAGACAAAACTTTGTTTCAAGGAAAACAAATTCAAAGTTTTTG
TTTCAAGGGAAACCGTATCAAGAGAGACAAAATTTGTTTTAAGAGAAAATATCTCAAGAGAGACA
AAATTTTGA
Found at i:7324 original size:83 final size:85
Alignment explanation
Indices: 7215--7439 Score: 262
Period size: 94 Copynumber: 2.6 Consensus size: 85
7205 GGCAAGCTGA
*
7215 ATCCATAAAGCC-GGGCGTTTAACCAATTACTCTAGAGGGACAACTCAATAT-GTA-AAT-ACCT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTTCTCTAGAGGGACAACTCAATATAGTATAATCACCT
* *
7276 TTATCAGGTTAGCTGAATCTT
66 TTATCAGGCTAGCTGAA-ATT
* *
7297 ATCCATAAAGCCGGGGCGTTTAACCAATTTC-CTTAGGGGGACAGCTCAAGCTCTATTGTATAGT
1 ATCCATAAAGCCGGGGCGTTTAACCAATTTCTC-TAGAGGG--A---CAA-CTC-A--ATATAGT
7361 ATAATCACCTTTATCAGGCTAGCTGAAATT
56 ATAATCACCTTTATCAGGCTAGCTGAAATT
*
7391 ATCCATAAAGTCGGGGCGTTTAACCAATTTCTCTAGAGGGACAACTCAA
1 ATCCATAAAGCCGGGGCGTTTAACCAATTTCTCTAGAGGGACAACTCAA
7440 GCTTTATTGT
Statistics
Matches: 120, Mismatches: 8, Indels: 27
0.77 0.05 0.17
Matches are distributed among these distances:
82 13 0.11
83 23 0.19
85 1 0.01
87 1 0.01
88 6 0.05
89 6 0.05
90 1 0.01
92 4 0.03
93 3 0.03
94 41 0.34
95 21 0.17
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.28
Consensus pattern (85 bp):
ATCCATAAAGCCGGGGCGTTTAACCAATTTCTCTAGAGGGACAACTCAATATAGTATAATCACCT
TTATCAGGCTAGCTGAAATT
Found at i:7439 original size:94 final size:95
Alignment explanation
Indices: 7272--7452 Score: 285
Period size: 94 Copynumber: 1.9 Consensus size: 95
7262 ATATGTAAAT
* * *
7272 ACCTTTATCAGGTTAGCTGAATCTTATCCATAAAGCCGGGGCGTTTAACCAATTTCCTTAGGGGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTTCCTTAGAGGG
*
7337 ACAGCTCAAGCTCTATTGTATAGTATAATC
66 ACAACTCAAGCTCTATTGTATAGTATAATC
*
7367 ACCTTTATCAGGCTAGCTGAA-ATTATCCATAAAGTCGGGGCGTTTAACCAATTT-CTCTAGAGG
1 ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTTCCT-TAGAGG
*
7430 GACAACTCAAGCTTTATTGTATA
65 GACAACTCAAGCTCTATTGTATA
7453 TAAATAATAT
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
93 2 0.03
94 57 0.72
95 20 0.25
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.31
Consensus pattern (95 bp):
ACCTTTATCAGGCTAGCTGAATATTATCCATAAAGCCGGGGCGTTTAACCAATTTCCTTAGAGGG
ACAACTCAAGCTCTATTGTATAGTATAATC
Found at i:10402 original size:21 final size:19
Alignment explanation
Indices: 10359--10402 Score: 52
Period size: 21 Copynumber: 2.2 Consensus size: 19
10349 AAAAGTTAGC
*
10359 AAAATAAAAATGATAAAAT
1 AAAATAAAAATGATAAAAG
*
10378 AAAATAAATAAGTGATGAAAG
1 AAAATAAA-AA-TGATAAAAG
10399 AAAA
1 AAAA
10403 AACGAAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 8 0.38
20 2 0.10
21 11 0.52
ACGTcount: A:0.70, C:0.00, G:0.11, T:0.18
Consensus pattern (19 bp):
AAAATAAAAATGATAAAAG
Found at i:12714 original size:42 final size:42
Alignment explanation
Indices: 12655--12736 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 42
12645 TCATACTTAG
* * *
12655 TAAATCCTTCGGGTCATCTATAAGCCTTTTGAGCATGATGCT
1 TAAATCCTTCAGGTCATCTATAAGCCTTTAGAGCAAGATGCT
*
12697 TAAATCCTTCATGTCATCTATAAGCCTTTAGAGCAAGATG
1 TAAATCCTTCAGGTCATCTATAAGCCTTTAGAGCAAGATG
12737 ATAAGTCCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (42 bp):
TAAATCCTTCAGGTCATCTATAAGCCTTTAGAGCAAGATGCT
Found at i:13406 original size:267 final size:266
Alignment explanation
Indices: 12926--13816 Score: 1079
Period size: 267 Copynumber: 3.3 Consensus size: 266
12916 GAAGACAAGA
* * *
12926 GGAATAAGTCTGCCTCGATTCAATCTTCCCTGAAGAACAGTGAAATTAATCAACGTTTCCA-AGT
1 GGAACAAGTCTGCCTCGATTCAATATTCCCTGAAGAACAGTGAAATAAATCAACGTTTCCAGA-T
* * * *
12990 CTGATTTACCCTGAAGAAGTAAT-AGAGCAGATCCTCTTTTTCCAGATTTGATCTTCCCTGAAGA
65 CTGATCTACCCTGAAGAAGTAGTGA-AGTAGATCC-CATTTTCCAGATTTGATCTTCCCTGAAGA
* ** *
13054 AGTAGTGGAACAAGTCTACCTCGATTCAATATTCCCTGAAGAACAGTGGAACAAATCAATATTTC
128 AGAAGTGGAACAAGTCTACCTCGATTCAATATTCCCTGAAGAACAGTGGAATGAATCAACATTTC
* * * * *
13119 CATATCTGATTTACCCTGAAGAAGCAGTAGAGAAAATCCCTTTTTT-TAGATTTGATCTTCCCTA
193 CATATATGATATACCCTGAAGAAGCAGTGGAGCAAATCCCTTTTTTCTAGATTTGATCTTCCCTG
*
13183 AATAAGTAAT
258 AAGAAG-AAT
* * * * *
13193 GGAACAAGTCTGCCTCGATTCAATCTTCCTTGAAGAACAGTGAAATAAATCAATGCTTCCAGATA
1 GGAACAAGTCTGCCTCGATTCAATATTCCCTGAAGAACAGTGAAATAAATCAACGTTTCCAGATC
13258 TGATCTACCCTGAAGAAGTAGTGAAGTAGATCCCAGTTTTCCAGATTTGATCTTCCCTGAAGAAG
66 TGATCTACCCTGAAGAAGTAGTGAAGTAGATCCCA-TTTTCCAGATTTGATCTTCCCTGAAGAAG
* * * *
13323 AAGTGGAATAAGTCTACCTCGATTCAATCTTCACTGAAGAATAGTGGAATGAATCAACATTTCCA
130 AAGTGGAACAAGTCTACCTCGATTCAATATTCCCTGAAGAACAGTGGAATGAATCAACATTTCCA
* *
13388 TATATGATCTACCCTGAAGAAGCAGCGGAGCAAATCCCTTTTTTTTCTAGATTTGATCTTCCCTG
195 TATATGATATACCCTGAAGAAGCAGTGGAGCAAATCCC--TTTTTTCTAGATTTGATCTTCCCTG
13453 AAGAAGAAGT
258 AAGAAGAA-T
* * * * * *
13463 GGAACAAGTCTGCCTTGATTCAATATCCCCTGAAGAATAATGGAATAAATCAACGTTTCTAGATC
1 GGAACAAGTCTGCCTCGATTCAATATTCCCTGAAGAACAGTGAAATAAATCAACGTTTCCAGATC
* * * * * * * *
13528 TGATCTACCCTAAAGAAGCAGCGGAGTAGATCCCATTTTCCAGATTTGATATTCCTTGAGGAA-C
66 TGATCTACCCTGAAGAAGTAGTGAAGTAGATCCCATTTTCCAGATTTGATCTTCCCTGAAGAAGA
* * * *
13592 AGTGGAACAAGTCTGCCTCGATTCAATATTCCCTAAAGAACAGTGGAATGAATCAACATTTTCAG
131 AGTGGAACAAGTCTACCTCGATTCAATATTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAT
* * ** ** * *
13657 ATTTGATATACCTTGAAGAAGCAGTGGAGCAGGTCCCTTTTTTCCCGGATTTGATCTTCCCCGAG
196 ATATGATATACCCTGAAGAAGCAGTGGAGCAAATCCCTTTTTT-CTAGATTTGATCTTCCCTGAA
* *
13722 GAACATT
260 GAAGAAT
* * ** * * * *
13729 GGAACAAATCTGCCTCGATTCAATATTCCTTGAAGAATGGTGGAATGAATCAATGTTTCTAGATC
1 GGAACAAGTCTGCCTCGATTCAATATTCCCTGAAGAACAGTGAAATAAATCAACGTTTCCAGATC
**
13794 TGATCTACTTTGAAGAAGTAGTG
66 TGATCTACCCTGAAGAAGTAGTG
13817 GAACAAATAT
Statistics
Matches: 539, Mismatches: 77, Indels: 17
0.85 0.12 0.03
Matches are distributed among these distances:
266 83 0.15
267 225 0.42
268 90 0.17
269 33 0.06
270 108 0.20
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (266 bp):
GGAACAAGTCTGCCTCGATTCAATATTCCCTGAAGAACAGTGAAATAAATCAACGTTTCCAGATC
TGATCTACCCTGAAGAAGTAGTGAAGTAGATCCCATTTTCCAGATTTGATCTTCCCTGAAGAAGA
AGTGGAACAAGTCTACCTCGATTCAATATTCCCTGAAGAACAGTGGAATGAATCAACATTTCCAT
ATATGATATACCCTGAAGAAGCAGTGGAGCAAATCCCTTTTTTCTAGATTTGATCTTCCCTGAAG
AAGAAT
Found at i:13817 original size:134 final size:134
Alignment explanation
Indices: 12896--13818 Score: 957
Period size: 134 Copynumber: 6.9 Consensus size: 134
12886 TAATGTTTAA
* * * * * *
12896 TTTT-CAGATTTGATATT-CTTGAAG-ACAAGAGGAATAAGTCTGCCTCGATTCAATCTTCCCTG
1 TTTTCCAGATTTGATCTTCCCTGAAGAAGAAGTGGAACAAGTCTGCCTCGATTCAATATTCCCTG
* * * * * * *
12958 AAGAACAGTGAAATTAATCAACGTTTCCA-AGTCTGATTTACCCTGAAGAAGTAATAGAGCAGAT
66 AAGAACAGTGGAATAAATCAATGTTTCCAGA-TCTGATCTACCCTGAAGAAGCAGTGGAGCAGAT
13022 -CCTCT
130 CCCT-T
* *
13027 TTTTCCAGATTTGATCTTCCCTGAAGAAGTAGTGGAACAAGTCTACCTCGATTCAATATTCCCTG
1 TTTTCCAGATTTGATCTTCCCTGAAGAAGAAGTGGAACAAGTCTGCCTCGATTCAATATTCCCTG
* * * * * * *
13092 AAGAACAGTGGAACAAATCAATATTTCCATATCTGATTTACCCTGAAGAAGCAGTAGAGAAAATC
66 AAGAACAGTGGAATAAATCAATGTTTCCAGATCTGATCTACCCTGAAGAAGCAGTGGAGCAGATC
13157 CCTT
131 CCTT
* * * * *
13161 TTTT-TAGATTTGATCTTCCCTAAATAAGTAA-TGGAACAAGTCTGCCTCGATTCAATCTTCCTT
1 TTTTCCAGATTTGATCTTCCCTGAAGAAG-AAGTGGAACAAGTCTGCCTCGATTCAATATTCCCT
* * * * * *
13224 GAAGAACAGTGAAATAAATCAATGCTTCCAGATATGATCTACCCTGAAGAAGTAGTGAAGTAGAT
65 GAAGAACAGTGGAATAAATCAATGTTTCCAGATCTGATCTACCCTGAAGAAGCAGTGGAGCAGAT
**
13289 CCCAG
130 CCCTT
* * * *
13294 TTTTCCAGATTTGATCTTCCCTGAAGAAGAAGTGGAATAAGTCTACCTCGATTCAATCTTCACTG
1 TTTTCCAGATTTGATCTTCCCTGAAGAAGAAGTGGAACAAGTCTGCCTCGATTCAATATTCCCTG
* * ** * * * *
13359 AAGAATAGTGGAATGAATCAACATTTCCATATATGATCTACCCTGAAGAAGCAGCGGAGCAAATC
66 AAGAACAGTGGAATAAATCAATGTTTCCAGATCTGATCTACCCTGAAGAAGCAGTGGAGCAGATC
13424 CCTTTT
131 CC--TT
* * *
13430 TTTTCTAGATTTGATCTTCCCTGAAGAAGAAGTGGAACAAGTCTGCCTTGATTCAATATCCCCTG
1 TTTTCCAGATTTGATCTTCCCTGAAGAAGAAGTGGAACAAGTCTGCCTCGATTCAATATTCCCTG
* * * * * * *
13495 AAGAATAATGGAATAAATCAACGTTTCTAGATCTGATCTACCCTAAAGAAGCAGCGGAGTAGATC
66 AAGAACAGTGGAATAAATCAATGTTTCCAGATCTGATCTACCCTGAAGAAGCAGTGGAGCAGATC
*
13560 CC-A
131 CCTT
* * * * *
13563 TTTTCCAGATTTGATATTCCTTGAGGAA-CAGTGGAACAAGTCTGCCTCGATTCAATATTCCCTA
1 TTTTCCAGATTTGATCTTCCCTGAAGAAGAAGTGGAACAAGTCTGCCTCGATTCAATATTCCCTG
* ** * * * * *
13627 AAGAACAGTGGAATGAATCAACATTTTCAGATTTGATATACCTTGAAGAAGCAGTGGAGCAGGTC
66 AAGAACAGTGGAATAAATCAATGTTTCCAGATCTGATCTACCCTGAAGAAGCAGTGGAGCAGATC
13692 CCTT
131 CCTT
* * * * * * *
13696 TTTTCCCGGATTTGATCTTCCCCGAGGAA-CATTGGAACAAATCTGCCTCGATTCAATATTCCTT
1 TTTT-CCAGATTTGATCTTCCCTGAAGAAGAAGTGGAACAAGTCTGCCTCGATTCAATATTCCCT
** * * ** *
13760 GAAGAATGGTGGAATGAATCAATGTTTCTAGATCTGATCTACTTTGAAGAAGTAGTGGA
65 GAAGAACAGTGGAATAAATCAATGTTTCCAGATCTGATCTACCCTGAAGAAGCAGTGGA
13819 ACAAATATGC
Statistics
Matches: 664, Mismatches: 116, Indels: 21
0.83 0.14 0.03
Matches are distributed among these distances:
131 4 0.01
132 98 0.15
133 146 0.22
134 296 0.45
135 4 0.01
136 116 0.17
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (134 bp):
TTTTCCAGATTTGATCTTCCCTGAAGAAGAAGTGGAACAAGTCTGCCTCGATTCAATATTCCCTG
AAGAACAGTGGAATAAATCAATGTTTCCAGATCTGATCTACCCTGAAGAAGCAGTGGAGCAGATC
CCTT
Found at i:13830 original size:87 final size:87
Alignment explanation
Indices: 13728--13888 Score: 250
Period size: 87 Copynumber: 1.9 Consensus size: 87
13718 CGAGGAACAT
* * * ** * *
13728 TGGAACAAATCTGCCTCGATTCAATATTCCTTGAAGAATGGTGGAATGAATCAATGTTTCTAGAT
1 TGGAACAAATATGCCTCAATTCAATATTCCCTGAAGAACAGTGGAATGAATCAACGTTTCCAGAT
13793 CTGATCTACTTTGAAGAAGTAG
66 CTGATCTACTTTGAAGAAGTAG
*
13815 TGGAACAAATATGCCTCAATTCAATATTCCCTGATGAACAGTGGAATGAATCAACGTTTCCAGAT
1 TGGAACAAATATGCCTCAATTCAATATTCCCTGAAGAACAGTGGAATGAATCAACGTTTCCAGAT
13880 CTGATCTAC
66 CTGATCTAC
13889 CCTAAAGAAG
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 66 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (87 bp):
TGGAACAAATATGCCTCAATTCAATATTCCCTGAAGAACAGTGGAATGAATCAACGTTTCCAGAT
CTGATCTACTTTGAAGAAGTAG
Found at i:13985 original size:220 final size:221
Alignment explanation
Indices: 13592--14021 Score: 592
Period size: 220 Copynumber: 2.0 Consensus size: 221
13582 CTTGAGGAAC
* * * *
13592 AGTGGAACAAGTCTGCCTCGATTCAATATTCCCTAAAGAACAGTGGAATGAATCAACATTTTCAG
1 AGTGGAACAAATATGCCTCAATTCAATATTCCCTAAAGAACAGTGGAATGAATCAACATTTCCAG
* * * * ** * ** *
13657 ATTTGATATACCTTGAAGAAGCAGTGGAGCAGGTCCCTTTTTTCCCGGATTTGATCTTCCCCGAG
66 ATCTGATATACCCTAAAGAAGAAGCAGAGCAGATCCCTTTTTTCCCAAATTTGATCTTCCACGAG
* * * * * * *
13722 GAACATTGGAACAAATCTGCCTCGATTCAATATTCCTTGAAGAATGGTGGAATGAATCAATGTTT
131 GAACAGTGGAACAAATATGCCTCAATTCAATATTCCCTGAAGAATAGTGGAATCAATCAACGTTT
*
13787 CTAGATCTGATCTACTTTGAAGAAGT
196 CCAGATCTGATCTACTTTGAAGAAGT
* * *
13813 AGTGGAACAAATATGCCTCAATTCAATATTCCCTGATGAACAGTGGAATGAATCAACGTTTCCAG
1 AGTGGAACAAATATGCCTCAATTCAATATTCCCTAAAGAACAGTGGAATGAATCAACATTTCCAG
* *
13878 ATCTGATCTACCCTAAAGAAGAAGCAGAGCAGAT-CCTTTTTTCCCAAATTTGATCTTCCATGAG
66 ATCTGATATACCCTAAAGAAGAAGCAGAGCAGATCCCTTTTTTCCCAAATTTGATCTTCCACGAG
* *
13942 GAACAGTGGAATAAATATGCCTCAATTTAATATTCCCTGAAGAATAGTGGAATCAATCAACGTTT
131 GAACAGTGGAACAAATATGCCTCAATTCAATATTCCCTGAAGAATAGTGGAATCAATCAACGTTT
14007 CCAGATCTGATCTAC
196 CCAGATCTGATCTAC
14022 CCTAAAGAGC
Statistics
Matches: 180, Mismatches: 29, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
220 96 0.53
221 84 0.47
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (221 bp):
AGTGGAACAAATATGCCTCAATTCAATATTCCCTAAAGAACAGTGGAATGAATCAACATTTCCAG
ATCTGATATACCCTAAAGAAGAAGCAGAGCAGATCCCTTTTTTCCCAAATTTGATCTTCCACGAG
GAACAGTGGAACAAATATGCCTCAATTCAATATTCCCTGAAGAATAGTGGAATCAATCAACGTTT
CCAGATCTGATCTACTTTGAAGAAGT
Found at i:16270 original size:127 final size:128
Alignment explanation
Indices: 16041--16271 Score: 315
Period size: 127 Copynumber: 1.8 Consensus size: 128
16031 TGTTGACCGA
*
16041 CCGTTGACTTTGACCAAAAAGTCAAAATTTTCAAAAAATTATATTTTATGGTTTTTGACATCCTG
1 CCGTTGACTTTGACAAAAAAGT-AAAATTTTCAAAAAATTATATTTTATGGTTTTTGACATCCTG
* * * * *
16106 AGTCCGATTCCGAAGTCCGTTTTTCCAAATTCGAACCCGAAAGCCTTGAAATTGTCAGTCAAAC
65 AATCCGAATCCGAAGTCCGTTTATCCAAAATCAAACCCGAAAGCCTTGAAATTGTCAGTCAAAC
* ** *
16170 CCGTTGACTTTGACAAAAAAGT-TAATTTTTGAAAAATTATATTTTAT-GTTTTTCGACGTCCTG
1 CCGTTGACTTTGACAAAAAAGTAAAATTTTCAAAAAATTATATTTTATGGTTTTT-GACATCCTG
*
16233 AATCCGAATCCGAAGTTCGTTTCAT-CAAAATCAAACCCG
65 AATCCGAATCCGAAGTCCGTTT-ATCCAAAATCAAACCCG
16272 GTAAGTTATT
Statistics
Matches: 89, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
126 6 0.07
127 61 0.69
128 1 0.01
129 21 0.24
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (128 bp):
CCGTTGACTTTGACAAAAAAGTAAAATTTTCAAAAAATTATATTTTATGGTTTTTGACATCCTGA
ATCCGAATCCGAAGTCCGTTTATCCAAAATCAAACCCGAAAGCCTTGAAATTGTCAGTCAAAC
Found at i:19904 original size:2 final size:2
Alignment explanation
Indices: 19897--19941 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
19887 ATTTATACTG
19897 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19939 TA T
1 TA T
19942 TTCATTCATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21856 original size:2 final size:2
Alignment explanation
Indices: 21851--21894 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
21841 ACACACACAC
21851 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21893 AT
1 AT
21895 TTGTAGAGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:24898 original size:22 final size:22
Alignment explanation
Indices: 24872--24915 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
24862 TATTTTATCA
*
24872 TTTTA-TAGTTTATGATATATAT
1 TTTTAGTA-TTTATAATATATAT
*
24894 TTTTAGTATTTTTAATATATAT
1 TTTTAGTATTTATAATATATAT
24916 ATATATATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (22 bp):
TTTTAGTATTTATAATATATAT
Found at i:24911 original size:20 final size:19
Alignment explanation
Indices: 24888--24975 Score: 59
Period size: 19 Copynumber: 4.9 Consensus size: 19
24878 AGTTTATGAT
24888 ATATATTTTTAGTATTTTTA
1 ATATATTTTTA-TATTTTTA
* *
24908 ATATA----TATATATAT-
1 ATATATTTTTATATTTTTA
24922 ATAT-TTTTTA-ATTTTTA
1 ATATATTTTTATATTTTTA
24939 ATAATATTTTTAGTA-TTTTA
1 AT-ATATTTTTA-TATTTTTA
*
24959 ATATATATTTAT-TTTTT
1 ATATATTTTTATATTTTT
24976 GGTAATTTTA
Statistics
Matches: 53, Mismatches: 5, Indels: 22
0.66 0.06 0.28
Matches are distributed among these distances:
14 4 0.08
15 5 0.09
16 6 0.11
17 4 0.08
18 7 0.13
19 14 0.26
20 12 0.23
21 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (19 bp):
ATATATTTTTATATTTTTA
Found at i:24927 original size:32 final size:30
Alignment explanation
Indices: 24886--24945 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 30
24876 ATAGTTTATG
24886 ATATATA-TTTTTAGTATTTTTAATATATATAT
1 ATATATATTTTTTA--ATTTTTAATA-ATATAT
24918 ATATATATTTTTTAATTTTTAATAATAT
1 ATATATATTTTTTAATTTTTAATAATAT
24946 TTTTAGTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 4 0.15
31 10 0.37
32 7 0.26
33 6 0.22
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (30 bp):
ATATATATTTTTTAATTTTTAATAATATAT
Found at i:24950 original size:19 final size:21
Alignment explanation
Indices: 24900--24968 Score: 79
Period size: 20 Copynumber: 3.2 Consensus size: 21
24890 ATATTTTTAG
*
24900 TATTTTTAATATATATATATATA
1 TATTTTTAATAT-TTTA-ATATA
24923 TATTTTTTAAT-TTTTAATA-A
1 TA-TTTTTAATATTTTAATATA
*
24943 TATTTTTAGTATTTTAATATA
1 TATTTTTAATATTTTAATATA
24964 TATTT
1 TATTT
24969 ATTTTTTGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 7 0.17
20 11 0.27
21 9 0.22
22 3 0.07
23 3 0.07
24 8 0.20
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.62
Consensus pattern (21 bp):
TATTTTTAATATTTTAATATA
Found at i:24996 original size:21 final size:21
Alignment explanation
Indices: 24962--25018 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
24952 TATTTTAATA
* *
24962 TATATTTATTTTTTGGTAATTT
1 TATATTTA-ATTTTAGTAATTT
* * *
24984 TATTTTTACTTTTAGTATTTT
1 TATATTTAATTTTAGTAATTT
25005 TATATTTAATTTTA
1 TATATTTAATTTTA
25019 CATATATTTG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
21 22 0.76
22 7 0.24
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (21 bp):
TATATTTAATTTTAGTAATTT
Found at i:27802 original size:22 final size:24
Alignment explanation
Indices: 27766--27816 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
27756 ATTTTAGAGG
*
27766 ATAAAAATATGATTTAAAAAAT-T
1 ATAAAAAAATGATTTAAAAAATAT
*
27789 ATAAAAAAAT-ATTTAAAACATAT
1 ATAAAAAAATGATTTAAAAAATAT
27812 ATAAA
1 ATAAA
27817 TTTAAAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.40
23 15 0.60
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (24 bp):
ATAAAAAAATGATTTAAAAAATAT
Found at i:28251 original size:26 final size:27
Alignment explanation
Indices: 28221--28277 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
28211 GTTTGCTTTA
*
28221 ATTTTT-AATATTATGTTTATTTA-TTT
1 ATTTTTGAATA-TATGTTTATTCAGTTT
*
28247 ATTTTTGAATATATTTTTATTCAGTTT
1 ATTTTTGAATATATGTTTATTCAGTTT
28274 ATTT
1 ATTT
28278 AGCGTTCACG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
26 16 0.59
27 11 0.41
ACGTcount: A:0.26, C:0.02, G:0.05, T:0.67
Consensus pattern (27 bp):
ATTTTTGAATATATGTTTATTCAGTTT
Found at i:31729 original size:17 final size:17
Alignment explanation
Indices: 31709--31742 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
31699 TTTCTATCCC
31709 TTTCCTT-TTCTTATCAT
1 TTTCCTTCTTCTT-TCAT
31726 TTTCCTTCTTCTTTCAT
1 TTTCCTTCTTCTTTCAT
31743 ATTCTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTCCTTCTTCTTTCAT
Found at i:36605 original size:15 final size:15
Alignment explanation
Indices: 36585--36635 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
36575 GACCCATAGT
36585 TTCCTCTCGAATTTG
1 TTCCTCTCGAATTTG
* *
36600 TTCCTCTC-TATAT-
1 TTCCTCTCGAATTTG
36613 TTCCTCTCGAATTTG
1 TTCCTCTCGAATTTG
36628 TTCCTCTC
1 TTCCTCTC
36636 TATATATTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
13 8 0.27
14 6 0.20
15 16 0.53
ACGTcount: A:0.12, C:0.31, G:0.08, T:0.49
Consensus pattern (15 bp):
TTCCTCTCGAATTTG
Found at i:36618 original size:13 final size:14
Alignment explanation
Indices: 36598--36640 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
36588 CTCTCGAATT
36598 TGTTCCTCTCTATA
1 TGTTCCTCTCTATA
* *
36612 T-TTCCTCTCGAATT
1 TGTTCCTCTC-TATA
36626 TGTTCCTCTCTATA
1 TGTTCCTCTCTATA
36640 T
1 T
36641 ATTATATTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
13 8 0.35
14 7 0.30
15 8 0.35
ACGTcount: A:0.14, C:0.28, G:0.07, T:0.51
Consensus pattern (14 bp):
TGTTCCTCTCTATA
Found at i:36624 original size:28 final size:28
Alignment explanation
Indices: 36584--36640 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
36574 TGACCCATAG
36584 TTTCCTCTCGAATTTGTTCCTCTCTATA
1 TTTCCTCTCGAATTTGTTCCTCTCTATA
36612 TTTCCTCTCGAATTTGTTCCTCTCTATA
1 TTTCCTCTCGAATTTGTTCCTCTCTATA
36640 T
1 T
36641 ATTATATTGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.14, C:0.28, G:0.07, T:0.51
Consensus pattern (28 bp):
TTTCCTCTCGAATTTGTTCCTCTCTATA
Found at i:37851 original size:16 final size:16
Alignment explanation
Indices: 37826--37910 Score: 125
Period size: 16 Copynumber: 5.3 Consensus size: 16
37816 GGTATTACCC
*
37826 GACCTATTTTCAACCT
1 GACCTGTTTTCAACCT
37842 GACCTGTTTTCAACCT
1 GACCTGTTTTCAACCT
* *
37858 GACTTGTTTTTAACCT
1 GACCTGTTTTCAACCT
37874 GACCTGTTTTCAACCT
1 GACCTGTTTTCAACCT
* *
37890 GAGCTGTTTTTAACCT
1 GACCTGTTTTCAACCT
37906 GACCT
1 GACCT
37911 ATAAATGATC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 61 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (16 bp):
GACCTGTTTTCAACCT
Found at i:38202 original size:14 final size:14
Alignment explanation
Indices: 38180--38226 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
38170 ATGCAAAGGA
*
38180 AATTAATATAGTTT
1 AATTTATATAGTTT
38194 AATTTATATA----
1 AATTTATATAGTTT
38204 AA-TTATATAGTTT
1 AATTTATATAGTTT
38217 AATTTATATA
1 AATTTATATA
38227 ATGACAAAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
13 2 0.07
14 16 0.59
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (14 bp):
AATTTATATAGTTT
Found at i:38213 original size:23 final size:24
Alignment explanation
Indices: 38179--38227 Score: 91
Period size: 23 Copynumber: 2.1 Consensus size: 24
38169 AATGCAAAGG
38179 AAATTAATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
38203 AAATT-ATATAGTTTAATTTATAT
1 AAATTAATATAGTTTAATTTATAT
38226 AA
1 AA
38228 TGACAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
AAATTAATATAGTTTAATTTATAT
Found at i:38554 original size:15 final size:15
Alignment explanation
Indices: 38534--38570 Score: 65
Period size: 15 Copynumber: 2.4 Consensus size: 15
38524 TAATTTACTT
38534 TATATAGTTTATATA
1 TATATAGTTTATATA
38549 TATATAGTTTATATA
1 TATATAGTTTATATA
38564 TACTATA
1 TA-TATA
38571 CATGGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (15 bp):
TATATAGTTTATATA
Found at i:38956 original size:14 final size:14
Alignment explanation
Indices: 38934--39003 Score: 63
Period size: 14 Copynumber: 5.1 Consensus size: 14
38924 TCCATTCAAA
38934 TTAGGGTTTATGGT
1 TTAGGGTTTATGGT
*
38948 TTAGTGTTTATGGT
1 TTAGGGTTTATGGT
** **
38962 TTAAAGTTTA-GAA
1 TTAGGGTTTATGGT
*
38975 TTAGGGTTTATGAT
1 TTAGGGTTTATGGT
*
38989 TTA-GGTTTAGGGT
1 TTAGGGTTTATGGT
39002 TT
1 TT
39004 CTATAAACTA
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
13 19 0.42
14 26 0.58
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (14 bp):
TTAGGGTTTATGGT
Found at i:38991 original size:20 final size:20
Alignment explanation
Indices: 38932--39003 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
38922 AGTCCATTCA
*
38932 AATTAGGGTTTATGGTTTAG
1 AATTAGGGTTTATGATTTAG
** * *
38952 TGTTTATGGTTTA-AAGTTTAG
1 -AATTAGGGTTTATGA-TTTAG
38973 AATTAGGGTTTATGATTTAG
1 AATTAGGGTTTATGATTTAG
**
38993 GTTTAGGGTTT
1 AATTAGGGTTT
39004 CTATAAACTA
Statistics
Matches: 38, Mismatches: 11, Indels: 5
0.70 0.20 0.09
Matches are distributed among these distances:
20 23 0.61
21 15 0.39
ACGTcount: A:0.24, C:0.00, G:0.28, T:0.49
Consensus pattern (20 bp):
AATTAGGGTTTATGATTTAG
Found at i:39522 original size:21 final size:20
Alignment explanation
Indices: 39457--39522 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
39447 TCCATTTACA
*
39457 TTAGGGTTTATGATTTAGTAT
1 TTAGGGTTTATGGTTTAG-AT
* * *
39478 TTAGTGTTTGTGGTTTAAAGT
1 TTAGGGTTTATGGTTTAGA-T
39499 TTAGGGTTTATGGTTTATGAT
1 TTAGGGTTTATGGTTTA-GAT
39520 TTA
1 TTA
39523 AGATTTCTAT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.26, T:0.53
Consensus pattern (20 bp):
TTAGGGTTTATGGTTTAGAT
Found at i:39617 original size:2 final size:2
Alignment explanation
Indices: 39612--39681 Score: 113
Period size: 2 Copynumber: 34.0 Consensus size: 2
39602 TTATATAGTT
39612 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
39654 TA TA TA TA TA TA GTT TA TA TA TA CTA TA
1 TA TA TA TA TA TA -TA TA TA TA TA -TA TA
39682 CATGGTTTAT
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
2 61 0.95
3 3 0.05
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.50
Consensus pattern (2 bp):
TA
Found at i:40157 original size:48 final size:49
Alignment explanation
Indices: 40103--40197 Score: 138
Period size: 49 Copynumber: 2.0 Consensus size: 49
40093 ATGATTTAAG
** * *
40103 GTTTCTATAAACTATATATTTTA-CTACTTTATATAGTTTATGTATAGT
1 GTTTCTATAAACTATATAAGTAATCTACTTTATATAGTTTATATATAGT
*
40151 GTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATA
1 GTTTCTATAAACTATATAAGTAATCTACTTTATATAGTTTATATATA
40198 TATATATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 20 0.49
49 21 0.51
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (49 bp):
GTTTCTATAAACTATATAAGTAATCTACTTTATATAGTTTATATATAGT
Found at i:40195 original size:2 final size:2
Alignment explanation
Indices: 40190--40225 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
40180 TTATATAGTT
40190 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
40226 CATGGTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:40242 original size:544 final size:541
Alignment explanation
Indices: 38313--40585 Score: 2524
Period size: 523 Copynumber: 4.1 Consensus size: 541
38303 TTTTGGAAAT
* *
38313 ACATTAGTTTACAAAGG-CCAATACATAAGCCCACTCTTTTATTACAAATATATATGCATTAGTG
1 ACATTAGTTTACATAGGCCCAATGC--AAGCCCACTCTTTTATTACAAATATATATGCATTAGTG
*
38377 CTAGTCCATTTAAATTAGGATTTATGGTTTAGTG-TTATGGTTTAAAGTTTAGAATTAGGG-TTA
64 CTAGTCCATTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAAGTTTAGAATTAGGGTTTA
* *
38440 TGATTTAGGGTTTAGGGTTTCTATAAACTATATATTTTATTACTTTATATAGTTTATGCATAGTA
129 TGATTTA-----TAGGGTTTCTATAAACTATATATTTTACTACTTTATATAGTTTATGCATAGTG
* *
38505 TTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATATAGTTTATATATACTAT
189 TTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATATAATTTATATATAATAT
38570 ACATGGTTTATACATACATATTATATAAAATTATTTAATAAAATTAATAA-TATTTAAATGTAAA
254 ACATGGTTTATACATACATATTATATAAAATTATTTAATAAAATTAATAATTATTTAAATGTAAA
*
38634 TTATATAAAACATGATTAATGAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTC
319 TTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTC
38699 ATAAATAGTAGTACATGTCATATTAATTTAAATTGCATAATTTGTATTTTAGTTGCATGTTAGGT
384 ATAAATAGTAGTACATGTCATATTAATTTAAATTGCATAATTTGTATTTTAGTTGCATGTTAGGT
* *
38764 TAATTCACATTAATGACTCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAATAA
449 TAATTCACATTAATGGCTCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCAAAAAATAA
38829 GTCCATTTGCAATAGTGCTAGTCCATTA
514 GTCCATTTGCAATAGTGCTAGTCCATTA
38857 ACATTAGTTTACATAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCT
1 ACATTAGTTTACATAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCT
*
38922 AGTCCATTCAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAAGTTTAGAATTAGGGTTTATG
66 AGTCCATTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAAGTTTAGAATTAGGGTTTATG
*
38987 ATTTAGGTTTAGGGTTTCTATAAACTATATATTTTATTACTTTATATAGTTTATGCATAGTGTTT
131 ATTTA----TAGGGTTTCTATAAACTATATATTTTACTACTTTATATAGTTTATGCATAGTGTTT
*
39052 CTATAAACTATATAAGTAATTTACTTTATATAG---------------TTTATATATACTATACA
192 CTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATATAATTTATATATAATATACA
* *
39102 TGGTTTATACATACATATTATAAAAAAATA-TT--T--AA-TAA-AATTATTTAAATGTAAATTA
257 TGGTTTATACATACATATTATATAAAATTATTTAATAAAATTAATAATTATTTAAATGTAAATTA
39160 TATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATA
322 TATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATA
* *
39225 AATAGTAGTTCATGTCATATTAATTTAAATTGCATAATTTGTGTTTTAGTTGCATGTTAGGTTAA
387 AATAGTAGTACATGTCATATTAATTTAAATTGCATAATTTGTATTTTAGTTGCATGTTAGGTTAA
*
39290 TTCACATTAATGGCTCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACTAAAAAATAAGTC
452 TTCACATTAATGGCTCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCAAAAAATAAGTC
*
39355 AATTTGCAATAGTGCTAGTCCATTA
517 CATTTGCAATAGTGCTAGTCCATTA
* *
39380 ACATTAGTTTACATAGGCCCAGTGCAAGCCCACTCTTTTATTACAAATATATATGCAATAGTGCT
1 ACATTAGTTTACATAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCT
* * ** *
39445 AGTCCATTTACATTAGGGTTTATGATTTAGTATTTAGTGTTTGTGGTTTAAAGTTTAGGGTTTAT
66 AGTCCATTTAAATTAGGGTTTATG-----G--TTTAGTGTTTATGGTTTAAAGTTTA-GAATTAG
* * *
39510 GGTTTATGATTTA-A-GATTTCTATAAACTTTATATTTTACTACTTTATATAGTTTATGTATAGT
123 GGTTTATGATTTATAGGGTTTCTATAAACTATATATTTTACTACTTTATATAGTTTATGCATAGT
* *
39573 GTTTCTATAAACTATCTAAGTAATTTACTTTATATAGTTTATATATATAT-ATATATATAT-ATA
188 GTTTCTATAAACTATATAAGTAATTTACTTTATATAGTTTATATATATATAATTTATATATAATA
* * * * * ** ** * *
39636 TATAT-ATATATATATATATATATATATATAGTTTATATATACTATACATGGTTTATACATACAT
253 TACATGGTTTATACATACATAT-TATATA-AAATTAT-T-TA--ATA-A-AATTAATA-AT-TAT
* * * * * * ***
39700 ATTATAT-AAAATTATTTAATAAAATTAATAAAATTA--T-TTAAATGTAAATTA-TATAAAACA
308 -TTAAATGTAAATTATATAA-AACA-TGAT-TAATTAGGTGTTAAA--T-AATTAGTATGTCACA
* * * * *
39760 -TG-AT-TAATTAGGTGTTAAATAATTAGTATGTCACAT-TGCATATTATATGGTTCATAAATAG
366 TTGCATATTA-TATG-GTT-CATAAATAGTA-GT-ACATGT-CATATTA-A---TT--TAAATTG
** * * * * ** * * * *
39821 TTGTACATGTCATACTAATTTAAATTGCATAATTTGTATTTTAGTTGCATGTTAGGTTAAT-TCA
419 -CATA-AT-T--T-GT-ATTTTAGTTGC---ATGT-TAGGTTAATT-CA---CA--TTAATGGCT
* * * * * * **
39885 CATTAATGGCTCATT-TATTTTGTTG-GTATG-AATAAGTAATAATAAAACTAAAAAATAAGTCC
467 CATTTAT---T--TTGT-TGTT-ATGAATAAGTAATAA-TAAAACCAAAA------AATAAGTCC
*
39947 ATTTGCAATATTGCTAGTCCATTA
518 ATTTGCAATAGTGCTAGTCCATTA
* * *
39971 ACATTAGTTTACATAGGCTCAATGCAAGCCCATTCTTTTATTAC-AA-ATATATGCATTAGTGTT
1 ACATTAGTTTACATAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCT
40034 AGTCCATTTAAATTA-GGTTTATGGTTTA-T-TTTATGGTTTAAAGTTTAGAATTAGGGTTTATG
66 AGTCCATTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAAGTTTAGAATTAGGGTTTATG
*
40096 ATTTA-A-GGTTTCTATAAACTATATATTTTACTACTTTATATAGTTTATGTATAGTGTTTCTAT
131 ATTTATAGGGTTTCTATAAACTATATATTTTACTACTTTATATAGTTTATGCATAGTGTTTCTAT
40159 AAACTATATAAGTAATTTACTTTATATAGTTTATATATATATATATATATATATATATATATATA
196 AAACTATATAAGTAATTTACTTTATATAG--T-T-TATATATATATA-AT-T-TATATATA-ATA
40224 TACATGGTTTATACATACATATTATATAAAATTATTTAATAAAATTAATAAAATTATTTAAATGT
253 TACATGGTTTATACATACATATTATATAAAATTATTTAATAAAATTAAT--AATTATTTAAATGT
* * *
40289 AAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGCCACATTCCTTATTATATGG
316 AAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGG
* * *
40354 TTCATAAATAGTAGTACATGTCATATTAATTTCATTTGCATAATTAGTATTTTAGTTGCATGTTA
381 TTCATAAATAGTAGTACATGTCATATTAATTTAAATTGCATAATTTGTATTTTAGTTGCATGTTA
* * *
40419 GGTTAATTCACATTAATAGCCCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCCAAAAA
446 GGTTAATTCACATTAATGGCTCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCAAAAAA
40484 TAAGTCCATTTGCAATAGTGCTAGTCCATTA
511 TAAGTCCATTTGCAATAGTGCTAGTCCATTA
* * *
40515 ACATTAATTTAGATAGGCCCAATGTAAGCCCACTCTTTTATTACAAATATATATATGCATTAGTG
1 ACATTAGTTTACATAGGCCCAATGCAAGCCCACTCTTTTATTAC-AA-ATATATATGCATTAGTG
*
40580 ATAGTC
64 CTAGTC
40586 TTTTTACATT
Statistics
Matches: 1455, Mismatches: 151, Indels: 242
0.79 0.08 0.13
Matches are distributed among these distances:
522 2 0.00
523 318 0.22
524 2 0.00
525 81 0.06
526 2 0.00
528 3 0.00
529 45 0.03
530 24 0.02
531 17 0.01
537 12 0.01
538 11 0.01
539 11 0.01
541 1 0.00
542 1 0.00
543 70 0.05
544 205 0.14
545 16 0.01
546 2 0.00
547 1 0.00
548 20 0.01
549 2 0.00
550 15 0.01
551 8 0.01
552 2 0.00
553 4 0.00
554 27 0.02
555 21 0.01
556 20 0.01
557 13 0.01
558 10 0.01
559 3 0.00
560 7 0.00
561 3 0.00
562 2 0.00
564 15 0.01
565 3 0.00
566 2 0.00
567 1 0.00
568 1 0.00
569 3 0.00
570 3 0.00
571 12 0.01
573 2 0.00
574 3 0.00
575 7 0.00
576 3 0.00
577 11 0.01
578 114 0.08
579 37 0.03
580 22 0.02
581 35 0.02
582 16 0.01
583 6 0.00
584 8 0.01
585 19 0.01
586 10 0.01
587 5 0.00
588 21 0.01
589 41 0.03
590 2 0.00
591 72 0.05
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.43
Consensus pattern (541 bp):
ACATTAGTTTACATAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCATTAGTGCT
AGTCCATTTAAATTAGGGTTTATGGTTTAGTGTTTATGGTTTAAAGTTTAGAATTAGGGTTTATG
ATTTATAGGGTTTCTATAAACTATATATTTTACTACTTTATATAGTTTATGCATAGTGTTTCTAT
AAACTATATAAGTAATTTACTTTATATAGTTTATATATATATAATTTATATATAATATACATGGT
TTATACATACATATTATATAAAATTATTTAATAAAATTAATAATTATTTAAATGTAAATTATATA
AAACATGATTAATTAGGTGTTAAATAATTAGTATGTCACATTGCATATTATATGGTTCATAAATA
GTAGTACATGTCATATTAATTTAAATTGCATAATTTGTATTTTAGTTGCATGTTAGGTTAATTCA
CATTAATGGCTCATTTATTTTGTTGTTATGAATAAGTAATAATAAAACCAAAAAATAAGTCCATT
TGCAATAGTGCTAGTCCATTA
Found at i:40301 original size:591 final size:586
Alignment explanation
Indices: 39133--40225 Score: 1842
Period size: 591 Copynumber: 1.9 Consensus size: 586
39123 AAAAAAATAT
39133 TTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTAT
1 TTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTAT
* *
39198 GTCACATTGCATATTATATGGTTCATAAATAGTAGTTCATGTCATATTAATTTAAATTGCATAAT
66 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATACTAATTTAAATTGCATAAT
* *
39263 TTGTGTTTTAGTTGCATGTTAGGTTAATTCACATTAATGGCTCATTTATTTTGTTGTTATGAATA
131 TTGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATGGCTCATTTATTTTGTTGGTATGAATA
39328 AGTAATAATAAAACTAAAAAATAAGTCAATTTGCAATAGTGCTAGTCCATTAACATTAGTTTACA
196 AGTAATAATAAAACTAAAAAATAAGTCAATTTGCAATAGTGCTAGTCCATTAACATTAGTTTACA
* *
39393 TAGGCCCAGTGCAAGCCCACTCTTTTATTACAAATATATATGCAATAGTGCTAGTCCATTTACAT
261 TAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCAATAGTGCTAGTCCATTTAAAT
* ** *
39458 TAGGGTTTATGATTTAGTATTTAGTGTTTGTGGTTTAAAGTTTAGGGTTTATGGTTTATGATTTA
326 TAGGGTTTATG---T-G-ATTTAGTGTTTATGGTTTAAAGTTTAGGAATTAGGGTTTATGATTTA
*
39523 AGATTTCTATAAACTTTATATTTTACTACTTTATATAGTTTATGTATAGTGTTTCTATAAACTAT
386 AGATTTCTATAAACTATATATTTTACTACTTTATATAGTTTATGTATAGTGTTTCTATAAACTAT
*
39588 CTAAGTAATTTACTTTATATAGTTTATATATATATATATATATATATATATATATATATATATAT
451 ATAAGTAATTTACTTTATATAGTTTATATATATATATATATATATATATATATATATATATATAT
* * * * * * *
39653 ATATATATATATAGTTTATATATACTATACATGGTTTATACATACATATTATATAAAATTATTTA
516 ACATATATATAAAATTTATATAAACTATAAATGATTTATACATACAAATTATATAAAATTATTTA
39718 ATAAAA
581 ATAAAA
39724 TTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTAT
1 TTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTAT
*
39789 GTCACATTGCATATTATATGGTTCATAAATAGTTGTACATGTCATACTAATTTAAATTGCATAAT
66 GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATACTAATTTAAATTGCATAAT
39854 TTGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATGGCTCATTTATTTTGTTGGTATGAATA
131 TTGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATGGCTCATTTATTTTGTTGGTATGAATA
* *
39919 AGTAATAATAAAACTAAAAAATAAGTCCATTTGCAATATTGCTAGTCCATTAACATTAGTTTACA
196 AGTAATAATAAAACTAAAAAATAAGTCAATTTGCAATAGTGCTAGTCCATTAACATTAGTTTACA
* * * *
39984 TAGGCTCAATGCAAGCCCATTCTTTTATTAC-AA-ATATATGCATTAGTGTTAGTCCATTTAAAT
261 TAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCAATAGTGCTAGTCCATTTAAAT
*
40047 TA-GGTTTATG-G-TTTA-T-TTTATGGTTTAAAGTTTA-GAATTAGGGTTTATGATTTAAGGTT
326 TAGGGTTTATGTGATTTAGTGTTTATGGTTTAAAGTTTAGGAATTAGGGTTTATGATTTAAGATT
40106 TCTATAAACTATATATTTTACTACTTTATATAGTTTATGTATAGTGTTTCTATAAACTATATAAG
391 TCTATAAACTATATATTTTACTACTTTATATAGTTTATGTATAGTGTTTCTATAAACTATATAAG
40171 TAATTTACTTTATATAGTTTATATATATATATATATATATATATATATATATATA
456 TAATTTACTTTATATAGTTTATATATATATATATATATATATATATATATATATA
40226 CATGGTTTAT
Statistics
Matches: 482, Mismatches: 20, Indels: 13
0.94 0.04 0.03
Matches are distributed among these distances:
578 139 0.29
579 17 0.04
580 1 0.00
581 4 0.01
583 1 0.00
588 8 0.02
589 29 0.06
590 2 0.00
591 281 0.58
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (586 bp):
TTAATAAAATTATTTAAATGTAAATTATATAAAACATGATTAATTAGGTGTTAAATAATTAGTAT
GTCACATTGCATATTATATGGTTCATAAATAGTAGTACATGTCATACTAATTTAAATTGCATAAT
TTGTATTTTAGTTGCATGTTAGGTTAATTCACATTAATGGCTCATTTATTTTGTTGGTATGAATA
AGTAATAATAAAACTAAAAAATAAGTCAATTTGCAATAGTGCTAGTCCATTAACATTAGTTTACA
TAGGCCCAATGCAAGCCCACTCTTTTATTACAAATATATATGCAATAGTGCTAGTCCATTTAAAT
TAGGGTTTATGTGATTTAGTGTTTATGGTTTAAAGTTTAGGAATTAGGGTTTATGATTTAAGATT
TCTATAAACTATATATTTTACTACTTTATATAGTTTATGTATAGTGTTTCTATAAACTATATAAG
TAATTTACTTTATATAGTTTATATATATATATATATATATATATATATATATATATATATACATA
TATATAAAATTTATATAAACTATAAATGATTTATACATACAAATTATATAAAATTATTTAATAAA
A
Found at i:44383 original size:176 final size:173
Alignment explanation
Indices: 44082--44421 Score: 502
Period size: 176 Copynumber: 1.9 Consensus size: 173
44072 GGCCTGAAGA
* * * *
44082 ACTTACCAATTTTGGAAATATTTTACTAGGTAAGAAACTTTGGAGATCACTTTCTTACTTTTCAA
1 ACTTAACAATTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAA
* * *
44147 AAATTTCATATTCTGAAAATACTAAATGAAAAACTTTGAAAATCGCTTTCTTATTTTTCAAATTA
66 AAATTTCATATTCTAAAAATACTAAATGAAAAACTTTGAAAATCGCTTTCTCAATTTTCAAA-T-
* * *
44212 TCATATGAAAGCATCTTTCCCGAAGGTCTTATAGATGACCTAGAAT
129 T-ATATGAAAGCATCTTGCCCAAAGATCTTATAGATGACCTAGAAT
*
44258 ACTTAACAATTTTAGAAATAGTTTACTAGGTAAGAACCTTTGGAAATCACTTTCTTACTTTTCAA
1 ACTTAACAATTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAA
* * * *
44323 AAATTTCATTTTCTAAAAATATTAAATGAGAAGCTTTGAAAA-CTGCTTTCTCAATTTTCAAATT
66 AAATTTCATATTCTAAAAATACTAAATGAAAAACTTTGAAAATC-GCTTTCTCAATTTTCAAATT
44387 ATATGAAAGCATCTTGCCCAAAGATCTTATAGATG
130 ATATGAAAGCATCTTGCCCAAAGATCTTATAGATG
44422 GCCCAAATGA
Statistics
Matches: 148, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
173 32 0.22
174 1 0.01
175 2 0.01
176 113 0.76
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (173 bp):
ACTTAACAATTTTAGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAA
AAATTTCATATTCTAAAAATACTAAATGAAAAACTTTGAAAATCGCTTTCTCAATTTTCAAATTA
TATGAAAGCATCTTGCCCAAAGATCTTATAGATGACCTAGAAT
Found at i:44753 original size:42 final size:41
Alignment explanation
Indices: 44687--44778 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 41
44677 AGATGGCCCA
* *
44687 AAGGACTTATCATCTTGCTTGAAAGACTGACAAATGACCCG
1 AAGGACTTATCATCATGCTCGAAAGACTGACAAATGACCCG
* * ** *
44728 AAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCG
1 AAGGACTT-ATCATCATGCTCGAAAGACTGACAAATGACCCG
44770 AAGGACTTA
1 AAGGACTTA
44779 CCAATTTTGT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 8 0.19
42 34 0.81
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.25
Consensus pattern (41 bp):
AAGGACTTATCATCATGCTCGAAAGACTGACAAATGACCCG
Found at i:44990 original size:42 final size:41
Alignment explanation
Indices: 44943--45036 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 41
44933 TAGATAGTCT
* *
44943 GAAGGACTTATCATCTTTCTCAAAAGACTGACAGAT-GACCCC
1 GAAGGACTTATCATCATGCTCAAAAGACTGACAGATCG--CCC
* * * *
44985 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATCGCCC
1 GAAGGACTT-ATCATCATGCTCAAAAGACTGACAGATCGCCC
45027 GAAGGACTTA
1 GAAGGACTTA
45037 CCAATTTTGG
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.02
42 19 0.44
43 22 0.51
44 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (41 bp):
GAAGGACTTATCATCATGCTCAAAAGACTGACAGATCGCCC
Found at i:45081 original size:257 final size:256
Alignment explanation
Indices: 44258--45166 Score: 1279
Period size: 260 Copynumber: 3.5 Consensus size: 256
44248 GACCTAGAAT
* * * *
44258 ACTTAACAATTTTAGAAATAGTTTACTAGGTAAGAACCTTTGGAAATCACTTTCTTACTTTTCAA
1 ACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAA
* * *
44323 AAATTTCATTTTCTAAAAATATTAAATGAGAAGCTTTGAAAA-CTGCTTTCTCAATTTTCAAATT
66 AAATTTCATTTTCTAAAAATATTAAATGAGAAACTTTGAAAATC-ACTTTCTCATTTTTCAAATT
* * * * * *
44387 ATATGAAAGCATCTTGCCCAAAGATCTTATAGATGGCCCAAATGACTTATCGTCATGCTCGAAAG
130 ATATAAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCAAAGGACTTATCATCTTGCTCGAAAG
* * * * *
44452 ACTGAAAGATGACCTGAAGGATTTAATCATCATGCTCGAAAAACTTTCTGATGGCCTGAAGG
195 ACTGACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
*
44514 ACTTGCCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAA
1 ACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTC-A
* * * *
44579 AAAATTT-ATATTCTGAAAATACTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTTCAAGT
65 AAAATTTCATTTTCTAAAAATATTAAATGAGAAACTTTGAAAATCACTTTCTCA-TTTTTCAAAT
* * *
44643 TATCATATGAAAACATCTTGCTCGAAGGTCTTATAGATGGCCCAAAGGACTTATCATCTTGCTTG
129 TAT-ATA--AAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCAAAGGACTTATCATCTTGCTCG
*
44708 AAAGACTGACAAATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAG
191 AAAGACTGACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAG
44773 G
256 G
* * * * *
44774 ACTTACCAATTTTGTAAGTAATTTACTAGGTAAGAAACTTTGGTAATTGCTTTCTTACTTTTCAA
1 ACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAA
* * *
44839 AAGTTTCATTTTCTGAAAATATTAAATGAGAAACTTTGAAAATCACTTTCTTATTTTTCAAATTA
66 AAATTTCATTTTCTAAAAATATTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAATTA
* * * ** * *
44904 TCATAAAAGCATCTTACCCGAAGGTCTTATAGATAGTCTGAAGGACTTATCATCTTTCTCAAAAG
131 T-ATAAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCAAAGGACTTATCATCTTGCTCGAAAG
*
44969 ACTGACAGATGACCCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATCGCCCGAAGG
195 ACTGACAGATGA-CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
*
45032 ACTTACCAATTTTGGAAATAGTTTACT-GGTAAGAAACTTTGGAAATTGCTTTCTTACTTTTCAA
1 ACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAA
* **
45096 AAATTTTATTTTCTAAAAAT-TCTAAATGAGAAACTTTGAAAAT-TGTTTCTCATTTTTCAAATT
66 AAATTTCATTTTCTAAAAATAT-TAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAATT
45159 ATATAAAA
130 ATATAAAA
45167 ACAACTTAAT
Statistics
Matches: 584, Mismatches: 60, Indels: 19
0.88 0.09 0.03
Matches are distributed among these distances:
255 6 0.01
256 117 0.20
257 155 0.27
258 75 0.13
259 23 0.04
260 208 0.36
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (256 bp):
ACTTACCAATTTTGGAAATAGTTTACTAGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAA
AAATTTCATTTTCTAAAAATATTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTCAAATTA
TATAAAAGCATCTTGCCCGAAGGTCTTATAGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGA
CTGACAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
Found at i:55398 original size:6 final size:5
Alignment explanation
Indices: 55380--55464 Score: 60
Period size: 5 Copynumber: 18.2 Consensus size: 5
55370 AAAAAGATGA
* * * *
55380 AAAAG AAAAG AAAAG GAAA- AAAAG GAAAG AAAA- AGAAG AAAA- AGAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
55427 AAAAAG AAAAG --AAG AAATA- AAAAG -AAAG -AAAG AAAAG A
1 -AAAAG AAAAG AAAAG AAA-AG AAAAG AAAAG AAAAG AAAAG A
55465 TAGGTAAGAA
Statistics
Matches: 63, Mismatches: 8, Indels: 18
0.71 0.09 0.20
Matches are distributed among these distances:
3 3 0.05
4 18 0.29
5 37 0.59
6 5 0.08
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (5 bp):
AAAAG
Found at i:55402 original size:9 final size:8
Alignment explanation
Indices: 55367--55462 Score: 66
Period size: 9 Copynumber: 10.6 Consensus size: 8
55357 TACCACATTT
55367 GAAAAAAA
1 GAAAAAAA
*
55375 GATGAAAAA
1 GA-AAAAAA
55384 GAAAAGAAAA
1 G-AAA-AAAA
55394 GGAAAAAAA
1 -GAAAAAAA
55403 GGAAAGAAAAA
1 -G-AA-AAAAA
55414 GAAGAAAAA
1 GAA-AAAAA
55423 GAAGAAAAA
1 GAA-AAAAA
*
55432 GAAAAGAA
1 GAAAAAAA
55440 GAAATAAAAA
1 G-AA-AAAAA
*
55450 GAAAGAAA
1 GAAAAAAA
55458 GAAAA
1 GAAAA
55463 GATAGGTAAG
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
8 15 0.20
9 37 0.50
10 16 0.22
11 6 0.08
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (8 bp):
GAAAAAAA
Found at i:55402 original size:14 final size:13
Alignment explanation
Indices: 55367--55464 Score: 83
Period size: 14 Copynumber: 7.2 Consensus size: 13
55357 TACCACATTT
55367 GAAAAAAAGATGAAA
1 GAAAAAAAGA--AAA
*
55382 -AAGAAAAGAAAA
1 GAAAAAAAGAAAA
*
55394 GGAAAAAAAGGAAA
1 -GAAAAAAAGAAAA
55408 GAAAAAGAAGAAAAA
1 GAAAAA-AAG-AAAA
55423 GAAGAAAAAGAAAA
1 GAA-AAAAAGAAAA
*
55437 GAAGAAATA-AAAA
1 GAA-AAAAAGAAAA
*
55450 GAAAGAAAGAAAA
1 GAAAAAAAGAAAA
55463 GA
1 GA
55465 TAGGTAAGAA
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
12 6 0.09
13 19 0.27
14 33 0.47
15 9 0.13
16 3 0.04
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (13 bp):
GAAAAAAAGAAAA
Found at i:55459 original size:18 final size:18
Alignment explanation
Indices: 55381--55461 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
55371 AAAAGATGAA
* *
55381 AAAGAAAAGAAAAGGAAAA
1 AAAG-AAAGAAAAAGAAAG
55400 AAAGGAAAGAAAAAG-AAG
1 AAA-GAAAGAAAAAGAAAG
*
55418 AAAAAGAAGAAAAAGAAA-
1 AAAGA-AAGAAAAAGAAAG
*
55436 AGAAGAAATAAAAAGAAAG
1 A-AAGAAAGAAAAAGAAAG
55455 AAAGAAA
1 AAAGAAA
55462 AGATAGGTAA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
17 1 0.02
18 32 0.62
19 18 0.35
20 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.21, T:0.01
Consensus pattern (18 bp):
AAAGAAAGAAAAAGAAAG
Found at i:57381 original size:131 final size:135
Alignment explanation
Indices: 57209--57598 Score: 454
Period size: 131 Copynumber: 2.9 Consensus size: 135
57199 TTTATATATG
* *** * * * *
57209 ATTTTCCCTCAAGAAGAAGTGGAATAGATCCCTCTCTTTCAAGATTTGATATTTCTTGAGTAAAA
1 ATTTTCCCTCAAGAAAAAGCAAAACAGATCCATCTCTTTCAAGATTTGATATTCCATGAGTAAAA
* *
57274 GTGGAACAAGTCTACCTCAATTCAATCTTCCCTGAGTAACA-TGGAATGAAT-AACTGTCC-CAG
66 GTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACTGTCCTCAG
57336 ATCTA
131 ATCTA
* * * * *
57341 ATTTT-CCTTAAGAAAAAGCGAGACAGATCCATCCCTTTCAAGATTTGATATTCCAT-ATGTAAC
1 ATTTTCCCTCAAGAAAAAGCAAAACAGATCCATCTCTTTCAAGATTTGATATTCCATGA-GTAAA
* * *
57404 AGTGAAACAAGTCTGCCTCGATTCAATCTTCCCTAAGTAACAGTGGAATAAATCAAC-GTCCTCA
65 AGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACTGTCCTCA
*
57468 GATCTG
130 GATCTA
* * * * * *
57474 ATTTTCCCTCAAGAAAAAGCAAAACAAACCCATATCTTTCAAGATTTGATATTCCCTGAGTTATA
1 ATTTTCCCTCAAGAAAAAGCAAAACAGATCCATCTCTTTCAAGATTTGATATTCCATGAGTAAAA
* * * *
57539 GTGGAACAAGTCTGCCTTGATTCAATATT-CATGAGTGACAGTGGAATGAATCAACT-TCCT
66 GTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACTGTCCT
57599 TGGAT
Statistics
Matches: 217, Mismatches: 34, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
130 1 0.00
131 83 0.38
132 18 0.08
133 41 0.19
134 73 0.34
135 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (135 bp):
ATTTTCCCTCAAGAAAAAGCAAAACAGATCCATCTCTTTCAAGATTTGATATTCCATGAGTAAAA
GTGGAACAAGTCTGCCTCGATTCAATCTTCCCTGAGTAACAGTGGAATGAATCAACTGTCCTCAG
ATCTA
Found at i:57528 original size:134 final size:133
Alignment explanation
Indices: 57243--57598 Score: 434
Period size: 134 Copynumber: 2.7 Consensus size: 133
57233 TAGATCCCTC
* * * *
57243 TCTTTCAAGATTTGATATTTCTTGAGTAAAAGTGGAACAAGTCTACCTCAATTCAATCTTCCCTG
1 TCTTTCAAGATTTGATATTCCATGAGTAAAAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTG
* * * * *
57308 AGTAACA-TGGAATGAAT-AACTGTCC-CAGATCTAATTTTCCTTAAGAAAAAGCGAGACAGATC
66 AGTAACAGTGGAATGAATCAAC-GTCCTCAGATCTAATTTTCCTCAAGAAAAAGCAAAACAAACC
*
57370 CATC
130 CATA
* * *
57374 CCTTTCAAGATTTGATATTCCAT-ATGTAACAGTGAAACAAGTCTGCCTCGATTCAATCTTCCCT
1 TCTTTCAAGATTTGATATTCCATGA-GTAAAAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCT
* * *
57438 AAGTAACAGTGGAATAAATCAACGTCCTCAGATCTGATTTTCCCTCAAGAAAAAGCAAAACAAAC
65 GAGTAACAGTGGAATGAATCAACGTCCTCAGATCTAATTTT-CCTCAAGAAAAAGCAAAACAAAC
57503 CCATA
129 CCATA
* * * * * *
57508 TCTTTCAAGATTTGATATTCCCTGAGTTATAGTGGAACAAGTCTGCCTTGATTCAATATT-CATG
1 TCTTTCAAGATTTGATATTCCATGAGTAAAAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTG
* *
57572 AGTGACAGTGGAATGAATCAACTTCCT
66 AGTAACAGTGGAATGAATCAACGTCCT
57599 TGGAT
Statistics
Matches: 191, Mismatches: 28, Indels: 10
0.83 0.12 0.04
Matches are distributed among these distances:
130 1 0.01
131 62 0.32
132 13 0.07
133 41 0.21
134 73 0.38
135 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (133 bp):
TCTTTCAAGATTTGATATTCCATGAGTAAAAGTGGAACAAGTCTGCCTCGATTCAATCTTCCCTG
AGTAACAGTGGAATGAATCAACGTCCTCAGATCTAATTTTCCTCAAGAAAAAGCAAAACAAACCC
ATA
Done.