Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008703.1 Hibiscus syriacus cultivar Beakdansim tig00111742_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: 1275178
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 6
Found at i:563797 original size:24 final size:23
Alignment explanation
Indices: 563727--563797 Score: 79
Period size: 24 Copynumber: 3.0 Consensus size: 23
563717 TCATGTTAGA
* *
563727 TATCATAACAGAACCCAAGTCAGG
1 TATCATAACAGAA-TCAAGTCATG
*
563751 TATCATAATAGAATCAAGGTCATG
1 TATCATAACAGAATCAA-GTCATG
*
563775 TATCATAACAGAATTCAAATCAT
1 TATCATAACAGAA-TCAAGTCAT
563798 AAATCAGATA
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
23 3 0.08
24 33 0.82
25 4 0.10
ACGTcount: A:0.44, C:0.18, G:0.13, T:0.25
Consensus pattern (23 bp):
TATCATAACAGAATCAAGTCATG
Found at i:568617 original size:18 final size:19
Alignment explanation
Indices: 568591--568653 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 19
568581 GTTATAATAA
568591 AATATTAATTATGATAATT
1 AATATTAATTATGATAATT
* *
568610 AA-ATTAATAAAT-ATACTT
1 AATATTAAT-TATGATAATT
568628 AATATACTAATTATGATAATT
1 AATAT--TAATTATGATAATT
568649 AATAT
1 AATAT
568654 ACTTTATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 13 0.37
19 6 0.17
20 2 0.06
21 14 0.40
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (19 bp):
AATATTAATTATGATAATT
Found at i:568671 original size:14 final size:15
Alignment explanation
Indices: 568650--568697 Score: 64
Period size: 13 Copynumber: 3.3 Consensus size: 15
568640 ATGATAATTA
568650 ATATACTTTATATTT
1 ATATACTTTATATTT
568665 A-ATAC-TTATATTT
1 ATATACTTTATATTT
*
568678 ATATACTTTAATACTT
1 ATATACTTT-ATATTT
568694 ATAT
1 ATAT
568698 CCAAACATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 9 0.31
14 8 0.28
15 3 0.10
16 9 0.31
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATACTTTATATTT
Found at i:568675 original size:13 final size:14
Alignment explanation
Indices: 568650--568685 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
568640 ATGATAATTA
568650 ATATACTTTATATTT
1 ATATAC-TTATATTT
568665 A-ATACTTATATTT
1 ATATACTTATATTT
568678 ATATACTT
1 ATATACTT
568686 TAATACTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 9 0.45
14 10 0.50
15 1 0.05
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATACTTATATTT
Found at i:569222 original size:2 final size:2
Alignment explanation
Indices: 569215--569276 Score: 65
Period size: 2 Copynumber: 31.0 Consensus size: 2
569205 TTAATACAAT
*
569215 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CT- TA TA CTT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
* *
569258 TA -A TT TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
569277 AAGAACCAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
1 2 0.04
2 46 0.92
3 2 0.04
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (2 bp):
TA
Found at i:570553 original size:136 final size:134
Alignment explanation
Indices: 570350--571267 Score: 740
Period size: 136 Copynumber: 6.7 Consensus size: 134
570340 GCAATGGAAA
* * * * * *
570350 CAAGCTAAGGCTGAATAAGTTCTCCTCATTATGAACTTCTTCTCCCT-TATCGGATGGGTTATTC
1 CAAGCTAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTC
** * ** * *
570414 TCATTACAAACTCTCCACTGGAAATGTTGATCCCTCAAGCGAGGTGTTTTTGATTCGAAGTGTTG
66 TCATTATGAACTCTCCACTGGAAATGTTGATCCCTCAAGTGAGGTGTTACTGATTC-AAATGTTA
570479 TGAAT
130 TGAAT
* * ** * *
570484 CGAGCAATAGGTCAAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTATT
1 CAAGCTA-AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTT
* * *
570549 CTCATTATGAACTCTCCATCT-GAAATG-TCATTCCCTCAAGTGAGGCGTCACTGATTTCAAATG
65 CTCATTATGAACTCTCCA-CTGGAAATGTTGA-TCCCTCAAGTGAGGTGTTACTGA-TTCAAATG
**
570612 CCATGAAT
127 TTATGAAT
* ** * * * * *
570620 CAA-TTGATAGGTCAAATAAGCTCTTTTTATTATGAACTTCTTCTCCCTTTGTCGGATGAGTTCT
1 CAAGCT-A-AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCT
* * * * ** ** * * *
570684 TCTCATTATGAACTATCCATTTGAAATGTTTATCCCTCAAGCAAGGCATCACTGATTTGAAATGC
64 TCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCAAGTGAGGTGTTACTGA-TTCAAATGT
*
570749 CATGAAT
128 TATGAAT
* * * * *
570756 AAAG-TGATAGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTTTGTGGGATGAGTTCT
1 CAAGCT-A-AGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCT
* * * ** *
570820 TCTTATTATGAACTCTCCACTGAAAATGTTAATCCCTTGAGTGAGGTGTTGCTGATTCAACTCCA
64 TCTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCAAGTGAGGTGTTACTGATTC-A----A
*
570885 TATGTGATGAAT
124 -ATGTTATGAAT
* * * * * * ** *
570897 CAAGCTAAGATTGAATAAGTTATTCTTATTATGAACTGCTTCTCTGT-TATCGGATTAGTTCTTC
1 CAAGCTAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTC
* * * *
570961 TCATTATGAACTCTCCACTGGAAATGTTGATTCCTCGAGTGAGGTGTTGCTGATTTAACTCCATA
66 TCATTATGAACTCTCCACTGGAAATGTTGATCCCTCAAGTGAGGTGTTACTGA--T---T-CAAA
*
571026 TGTGATGAAT
125 TGTTATGAAT
* * * *
571036 CGAGCTAAGGTTGAACAAGTTCTTCTCATTATGAACATT-TTCTCCCTC-ATCAGATGAGTTATT
1 CAAGCTAAGGTTGAACAAGCTCTTCTCATTATGAAC-TTCTTCTCCCTCTATCGGATGAGTTCTT
* * * *
571099 CGCATTATGAACTCTCCACTGGAAATGTTGATCCCTCGAGTAAGGTGTTGCTGATTCAACTCCAT
65 CTCATTATGAACTCTCCACTGGAAATGTTGATCCCTCAAGTGAGGTGTTACTGATTC-A----A-
571164 ATGTTATGAAT
124 ATGTTATGAAT
* * * * * *
571175 CGAGCTAAGGTTGAACAAGTTATT-TCATTATGAACTTATTCTCCCTC-ACCAGATGAGTTCTTC
1 CAAGCTAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTC
*
571238 TCATTATGAACTCTCTACTGGAAATGTTGA
66 TCATTATGAACTCTCCACTGGAAATGTTGA
571268 CTAGTTCATC
Statistics
Matches: 651, Mismatches: 102, Indels: 58
0.80 0.13 0.07
Matches are distributed among these distances:
133 1 0.00
134 7 0.01
135 39 0.06
136 275 0.42
137 10 0.02
138 62 0.10
139 206 0.32
140 33 0.05
141 14 0.02
142 1 0.00
144 2 0.00
145 1 0.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (134 bp):
CAAGCTAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTATCGGATGAGTTCTTC
TCATTATGAACTCTCCACTGGAAATGTTGATCCCTCAAGTGAGGTGTTACTGATTCAAATGTTAT
GAAT
Found at i:571175 original size:278 final size:278
Alignment explanation
Indices: 570764--571267 Score: 749
Period size: 278 Copynumber: 1.8 Consensus size: 278
570754 ATAAAGTGAT
* ** ** * **
570764 AGGTTGAACAAGCTCTTCTCATTATGAACTTTTTCTCCCTTTGTGGGATGAGTTCTTCTTATTAT
1 AGGTTGAACAAGCTCTTCTCATTATGAACATTTTCTCCCTTCATCAGATGAGTTATTCGCATTAT
* *
570829 GAACTCTCCACTGAAAATGTTAATCCCTTGAGTGAGGTGTTGCTGATTCAACTCCATATGTGATG
66 GAACTCTCCACTGAAAATGTTAATCCCTCGAGTAAGGTGTTGCTGATTCAACTCCATATGTGATG
* * * ** * * * *
570894 AATCAAGCTAAGATTGAATAAGTTATTCTTATTATGAACTGCTTCTCTGTTATCGGATTAGTTCT
131 AATCAAGCTAAGATTGAACAAGTTATT-TCATTATGAACTGATTCTCCCTCACCAGATGAGTTCT
570959 TCTCATTATGAACTCTCCACTGGAAATGTTGATTCCTCGAGTGAGGTGTTGCTGATTTAACTCCA
195 TCTCATTATGAACTCTCCACTGGAAATGTTGATTCCTCGAGTGAGGTGTTGCTGATTTAACTCCA
571024 TATGTGATGAATCGAGCTA
260 TATGTGATGAATCGAGCTA
*
571043 AGGTTGAACAAGTTCTTCTCATTATGAACATTTTCTCCC-TCATCAGATGAGTTATTCGCATTAT
1 AGGTTGAACAAGCTCTTCTCATTATGAACATTTTCTCCCTTCATCAGATGAGTTATTCGCATTAT
* * *
571107 GAACTCTCCACTGGAAATGTTGATCCCTCGAGTAAGGTGTTGCTGATTCAACTCCATATGTTATG
66 GAACTCTCCACTGAAAATGTTAATCCCTCGAGTAAGGTGTTGCTGATTCAACTCCATATGTGATG
* * *
571172 AATCGAGCTAAGGTTGAACAAGTTATTTCATTATGAACTTATTCTCCCTCACCAGATGAGTTCTT
131 AATCAAGCTAAGATTGAACAAGTTATTTCATTATGAACTGATTCTCCCTCACCAGATGAGTTCTT
*
571237 CTCATTATGAACTCTCTACTGGAAATGTTGA
196 CTCATTATGAACTCTCCACTGGAAATGTTGA
571268 CTAGTTCATC
Statistics
Matches: 198, Mismatches: 27, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
277 59 0.30
278 102 0.52
279 37 0.19
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (278 bp):
AGGTTGAACAAGCTCTTCTCATTATGAACATTTTCTCCCTTCATCAGATGAGTTATTCGCATTAT
GAACTCTCCACTGAAAATGTTAATCCCTCGAGTAAGGTGTTGCTGATTCAACTCCATATGTGATG
AATCAAGCTAAGATTGAACAAGTTATTTCATTATGAACTGATTCTCCCTCACCAGATGAGTTCTT
CTCATTATGAACTCTCCACTGGAAATGTTGATTCCTCGAGTGAGGTGTTGCTGATTTAACTCCAT
ATGTGATGAATCGAGCTA
Found at i:571853 original size:18 final size:18
Alignment explanation
Indices: 571827--571864 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
571817 TTGGAAATGG
*
571827 TTGCAAGGGTAGTCTTCA
1 TTGCAAGGGCAGTCTTCA
*
571845 TTGCTAGGGCAGTCTTCA
1 TTGCAAGGGCAGTCTTCA
571863 TT
1 TT
571865 CTTTTCCTGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.18, C:0.18, G:0.26, T:0.37
Consensus pattern (18 bp):
TTGCAAGGGCAGTCTTCA
Found at i:572128 original size:55 final size:55
Alignment explanation
Indices: 572069--572233 Score: 181
Period size: 54 Copynumber: 3.0 Consensus size: 55
572059 CAGGCTTCGC
* * * * *
572069 TTCTTTGAAAGTTTATTTAAAAATAATTAAGAAACTTCCAAAAATCATACTTAGT
1 TTCTTTGAAAGCTCATTTAAAAATAATCAAGAAACTTCCGAAAATCAAACTTAGT
* * * * * ** *
572124 TTCTTTAAAAACTCATTT-GAAATCATCAGGAAACTTTTGAAAATTAAACTTAGT
1 TTCTTTGAAAGCTCATTTAAAAATAATCAAGAAACTTCCGAAAATCAAACTTAGT
*
572178 TTCTTTGAAAGCTCATTTAAAAATAATCAAGAAAC-TCCTGAAAATCACACTTAGT
1 TTCTTTGAAAGCTCATTTAAAAATAATCAAGAAACTTCC-GAAAATCAAACTTAGT
572233 T
1 T
572234 CCTAAACAAA
Statistics
Matches: 86, Mismatches: 22, Indels: 4
0.77 0.20 0.04
Matches are distributed among these distances:
54 44 0.51
55 42 0.49
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (55 bp):
TTCTTTGAAAGCTCATTTAAAAATAATCAAGAAACTTCCGAAAATCAAACTTAGT
Found at i:574284 original size:8 final size:8
Alignment explanation
Indices: 574268--574382 Score: 90
Period size: 8 Copynumber: 13.4 Consensus size: 8
574258 TCTTTTTGAT
574268 TTTTCTTTC
1 TTTT-TTTC
574277 TTTTTTTC
1 TTTTTTTC
*
574285 TTTTTCTC
1 TTTTTTTC
574293 TTTTTCTTC
1 TTTTT-TTC
574302 TGTTTTTTC
1 T-TTTTTTC
574311 TCCTTTTTTC
1 T--TTTTTTC
574321 TCTTTTTTC
1 T-TTTTTTC
574330 TCTTTTTTC
1 T-TTTTTTC
574339 TCTTTTTT-
1 T-TTTTTTC
*
574347 TATTTTTTA
1 T-TTTTTTC
574356 TTTTTTAT-
1 TTTTTT-TC
*
574364 TTTTTTTG
1 TTTTTTTC
*
574372 TTTCTTTC
1 TTTTTTTC
574380 TTT
1 TTT
574383 ATGTTTTTGT
Statistics
Matches: 94, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
7 1 0.01
8 43 0.46
9 38 0.40
10 12 0.13
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.80
Consensus pattern (8 bp):
TTTTTTTC
Found at i:574288 original size:18 final size:17
Alignment explanation
Indices: 574248--574401 Score: 89
Period size: 19 Copynumber: 8.5 Consensus size: 17
574238 TCATTCTCCT
**
574248 TTTTTCTTTCTCTTTTTGA
1 TTTTT-TTTCT-TTTTTTC
574267 TTTTTCTTTCTTTTTTTC
1 TTTTT-TTTCTTTTTTTC
*
574285 -TTTTTCTCTTTTTCTTC
1 TTTTTTTTCTTTTT-TTC
*
574302 TGTTTTTTCTCCTTTTTTC
1 T-TTTTTT-TCTTTTTTTC
*
574321 TCTTTTTTCTCTTTTTTC
1 TTTTTTTTCT-TTTTTTC
*
574339 TCTTTTTTTATTTTTTAT-
1 T-TTTTTTTCTTTTTT-TC
*
574357 TTTTTATTTTTTTTGTTTC
1 TTTTT-TTTCTTTT-TTTC
* *
574376 TTTCTTTATGTTTTTGTT-
1 TTT-TTTTTCTTTTT-TTC
574394 TTTTTTTT
1 TTTTTTTT
574402 GTGTGTGTTT
Statistics
Matches: 110, Mismatches: 13, Indels: 26
0.74 0.09 0.17
Matches are distributed among these distances:
16 8 0.07
17 17 0.15
18 36 0.33
19 41 0.37
20 8 0.07
ACGTcount: A:0.03, C:0.14, G:0.03, T:0.80
Consensus pattern (17 bp):
TTTTTTTTCTTTTTTTC
Found at i:574289 original size:9 final size:9
Alignment explanation
Indices: 574248--574401 Score: 84
Period size: 9 Copynumber: 16.8 Consensus size: 9
574238 TCATTCTCCT
574248 TTTTTCTTTC
1 TTTTT-TTTC
* **
574258 TCTTTTTGA
1 TTTTTTTTC
574267 TTTTTCTTTC
1 TTTTT-TTTC
574277 -TTTTTTTC
1 TTTTTTTTC
*
574285 -TTTTTCTC
1 TTTTTTTTC
*
574293 TTTTTCTTC
1 TTTTTTTTC
*
574302 TGTTTTTTC
1 TTTTTTTTC
*
574311 TCCTTTTTTC
1 T-TTTTTTTC
*
574321 TCTTTTTTC
1 TTTTTTTTC
*
574330 TCTTTTTTC
1 TTTTTTTTC
*
574339 TCTTTTTTTA
1 T-TTTTTTTC
574349 TTTTTTATT-
1 TTTTTT-TTC
574358 TTTTATTTT-
1 TTTT-TTTTC
*
574367 TTTTGTTTC
1 TTTTTTTTC
* *
574376 TTTCTTTATG
1 TTT-TTTTTC
574386 TTTTTGTTT-
1 TTTTT-TTTC
574395 TTTTTTT
1 TTTTTTT
574402 GTGTGTGTTT
Statistics
Matches: 116, Mismatches: 19, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
8 16 0.14
9 67 0.58
10 33 0.28
ACGTcount: A:0.03, C:0.14, G:0.03, T:0.80
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:574289 original size:25 final size:26
Alignment explanation
Indices: 574258--574311 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
574248 TTTTTCTTTC
574258 TCTTTTT-GATTTTTCTTTCT-TTTTT
1 TCTTTTTCGATTTTTC-TTCTGTTTTT
**
574283 TCTTTTTCTCTTTTTCTTCTGTTTTT
1 TCTTTTTCGATTTTTCTTCTGTTTTT
574309 TCT
1 TCT
574312 CCTTTTTTCT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.02, C:0.17, G:0.04, T:0.78
Consensus pattern (26 bp):
TCTTTTTCGATTTTTCTTCTGTTTTT
Found at i:574328 original size:39 final size:41
Alignment explanation
Indices: 574241--574336 Score: 112
Period size: 39 Copynumber: 2.5 Consensus size: 41
574231 TATTTATTCA
* * * *
574241 TTCTCCTTTTT-TCTTTCTCTTTTTGATTTTTCTTTCTTTT
1 TTCTCTTTTTTCTCTTTTTCTTTCTGATTTTTCTTCCTTTT
*
574281 TT-TC-TTTTTCTCTTTTTC-TTCTGTTTTTTC-TCCTTTT
1 TTCTCTTTTTTCTCTTTTTCTTTCTGATTTTTCTTCCTTTT
574318 TTCTCTTTTTTCTCTTTTT
1 TTCTCTTTTTTCTCTTTTT
574337 TCTCTTTTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
37 8 0.16
38 17 0.35
39 22 0.45
40 2 0.04
ACGTcount: A:0.01, C:0.21, G:0.02, T:0.76
Consensus pattern (41 bp):
TTCTCTTTTTTCTCTTTTTCTTTCTGATTTTTCTTCCTTTT
Found at i:574346 original size:28 final size:28
Alignment explanation
Indices: 574276--574354 Score: 94
Period size: 27 Copynumber: 2.9 Consensus size: 28
574266 ATTTTTCTTT
574276 CTTTTTT-TC-TTTTTCTCTTTTTCTTCT
1 CTTTTTTCTCTTTTTTCTCTTTTT-TTCT
*
574303 GTTTTTTCTCCTTTTTTCTC-TTTTTTCT
1 CTTTTTTCT-CTTTTTTCTCTTTTTTTCT
*
574331 CTTTTTTCTCTTTTTT-TATTTTTT
1 CTTTTTTCTCTTTTTTCTCTTTTTT
574355 ATTTTTTATT
Statistics
Matches: 45, Mismatches: 3, Indels: 8
0.80 0.05 0.14
Matches are distributed among these distances:
26 1 0.02
27 18 0.40
28 13 0.29
29 5 0.11
30 8 0.18
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.78
Consensus pattern (28 bp):
CTTTTTTCTCTTTTTTCTCTTTTTTTCT
Found at i:574359 original size:6 final size:7
Alignment explanation
Indices: 574342--574401 Score: 61
Period size: 7 Copynumber: 8.6 Consensus size: 7
574332 TTTTTTCTCT
574342 TTTTTTA
1 TTTTTTA
574349 TTTTTTA
1 TTTTTTA
574356 TTTTTTA
1 TTTTTTA
574363 TTTTTT-
1 TTTTTTA
* *
574369 TTGTTTC
1 TTTTTTA
574376 TTTCTTTA
1 TTT-TTTA
*
574384 TGTTTTTG
1 T-TTTTTA
574392 TTTTTT-
1 TTTTTTA
574398 TTTT
1 TTTT
574402 GTGTGTGTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
6 9 0.20
7 27 0.59
8 8 0.17
9 2 0.04
ACGTcount: A:0.07, C:0.03, G:0.05, T:0.85
Consensus pattern (7 bp):
TTTTTTA
Found at i:580094 original size:45 final size:43
Alignment explanation
Indices: 580036--580154 Score: 123
Period size: 44 Copynumber: 2.7 Consensus size: 43
580026 GTACAAAGTC
580036 GAGGAGCCAGCAGAAA-GTAATAAGGTCTTACCCTTGCACATAGAA
1 GAGGAGCCAGCAGAAACGT-A-AA-GTCTTACCCTTGCACATAGAA
* * *
580081 GAGGAGCCTGCAGAAACGGTAAAGTTTTACCCTTGCACATAGCA
1 GAGGAGCCAGCAGAAAC-GTAAAGTCTTACCCTTGCACATAGAA
* ** *
580125 GAGAAGCTTGCTGAAACGGTAAAGTCTTAC
1 GAGGAGCCAGCAGAAAC-GTAAAGTCTTAC
580155 AAGTCATATG
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
44 45 0.69
45 17 0.26
46 1 0.02
47 2 0.03
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (43 bp):
GAGGAGCCAGCAGAAACGTAAAGTCTTACCCTTGCACATAGAA
Found at i:580121 original size:44 final size:44
Alignment explanation
Indices: 580060--580154 Score: 145
Period size: 44 Copynumber: 2.2 Consensus size: 44
580050 AAGTAATAAG
*
580060 GTCTTACCCTTGCACATAGAAGAGGAGCCTGCAGAAACGGTAAA
1 GTCTTACCCTTGCACATAGAAGAGAAGCCTGCAGAAACGGTAAA
* * * *
580104 GTTTTACCCTTGCACATAGCAGAGAAGCTTGCTGAAACGGTAAA
1 GTCTTACCCTTGCACATAGAAGAGAAGCCTGCAGAAACGGTAAA
580148 GTCTTAC
1 GTCTTAC
580155 AAGTCATATG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.23
Consensus pattern (44 bp):
GTCTTACCCTTGCACATAGAAGAGAAGCCTGCAGAAACGGTAAA
Found at i:580309 original size:28 final size:30
Alignment explanation
Indices: 580277--580336 Score: 81
Period size: 28 Copynumber: 2.1 Consensus size: 30
580267 TTCATACTTG
*
580277 GAAATCATATACAG-AA-ATACGGT-AATCA
1 GAAATCAAAT-CAGTAATATACGGTAAATCA
580305 GAAATCAAATCAGTAATATACGGTAAATCA
1 GAAATCAAATCAGTAATATACGGTAAATCA
580335 GA
1 GA
580337 TGTCGGATAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 3 0.11
28 11 0.39
29 7 0.25
30 7 0.25
ACGTcount: A:0.50, C:0.13, G:0.15, T:0.22
Consensus pattern (30 bp):
GAAATCAAATCAGTAATATACGGTAAATCA
Found at i:585992 original size:39 final size:39
Alignment explanation
Indices: 585917--586002 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
585907 ATGTACACCC
* * * *
585917 AGTAAGGGCTTACCTTGTGCACAAAGCAGAGGAGCCTGT
1 AGTAAGGACATACCTTGTGCACAAAGCAGAGAAGCCTGA
*
585956 ATTAAGGACATACCTTGAT-CACAAAG-ACGAGAAGCCTGA
1 AGTAAGGACATACCTTG-TGCACAAAGCA-GAGAAGCCTGA
585995 AGTAAGGA
1 AGTAAGGA
586003 TTTACCCTCA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.03
39 37 0.95
40 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.19
Consensus pattern (39 bp):
AGTAAGGACATACCTTGTGCACAAAGCAGAGAAGCCTGA
Found at i:587577 original size:29 final size:30
Alignment explanation
Indices: 587536--587596 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 30
587526 ATTTGATCCA
* * * * *
587536 AATTTAATCAAAATTTCACTTTGGTCCTCG
1 AATTAAATCAAAAATCCAATTTAGTCCTCG
587566 AATTAAAT-AAAAATCCAATTTAGTCCTCG
1 AATTAAATCAAAAATCCAATTTAGTCCTCG
587595 AA
1 AA
587597 AAATTTTCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
29 19 0.73
30 7 0.27
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.34
Consensus pattern (30 bp):
AATTAAATCAAAAATCCAATTTAGTCCTCG
Found at i:587742 original size:17 final size:17
Alignment explanation
Indices: 587720--587848 Score: 52
Period size: 18 Copynumber: 7.1 Consensus size: 17
587710 TGTATATGGA
587720 TATATAATAATATAAAG
1 TATATAATAATATAAAG
*
587737 TATATAAGT-ATA-CAAG
1 TATATAA-TAATATAAAG
*
587753 TATAATTAATATACATATAAG
1 TAT-A-TAATA-ATATA-AAG
*
587774 TATA-ATATATATAAAAAG
1 TATATA-ATA-ATATAAAG
* *
587792 TATAATTATAAAGACTAAAG
1 TAT-ATAAT-AATA-TAAAG
587812 TATATAAGT-ATATAAAAG
1 TATATAA-TAATAT-AAAG
*
587830 TATATACA-CATATAAAG
1 TATATA-ATAATATAAAG
587847 TA
1 TA
587849 CAACTGTATA
Statistics
Matches: 86, Mismatches: 10, Indels: 32
0.67 0.08 0.25
Matches are distributed among these distances:
16 6 0.07
17 19 0.22
18 27 0.31
19 18 0.21
20 10 0.12
21 6 0.07
ACGTcount: A:0.55, C:0.04, G:0.08, T:0.33
Consensus pattern (17 bp):
TATATAATAATATAAAG
Found at i:587776 original size:21 final size:19
Alignment explanation
Indices: 587750--587801 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
587740 ATAAGTATAC
587750 AAGTATAATTA-ATATACATA
1 AAGTATAATTATATATA-A-A
587770 TAAGTATAA-TATATATAAA
1 -AAGTATAATTATATATAAA
587789 AAGTATAATTATA
1 AAGTATAATTATA
587802 AAGACTAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 8 0.28
19 5 0.17
20 3 0.10
21 13 0.45
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (19 bp):
AAGTATAATTATATATAAA
Found at i:587897 original size:17 final size:16
Alignment explanation
Indices: 587877--588001 Score: 73
Period size: 17 Copynumber: 7.6 Consensus size: 16
587867 TATACACTTG
*
587877 TACTTTATATGTGTATA
1 TACTTTATATCT-TATA
587894 TACTTTATATACTT-TA
1 TACTTTATAT-CTTATA
587910 TA--TTATATACTTATA
1 TACTTTATAT-CTTATA
* * *
587925 TACTTTAGTATATACACTTG
1 TACTTTA-TATCT-TA--TA
*
587945 TACTTTATATGTGTATA
1 TACTTTATATCT-TATA
587962 TACTTTATATACTTATA
1 TACTTTATAT-CTTATA
*
587979 TACTCTATA--TTATA
1 TACTTTATATCTTATA
587993 TAC-TTATAT
1 TACTTTATAT
588002 ACTTTAGTCT
Statistics
Matches: 87, Mismatches: 11, Indels: 23
0.72 0.09 0.19
Matches are distributed among these distances:
13 4 0.05
14 18 0.21
15 4 0.05
16 4 0.05
17 38 0.44
18 6 0.07
19 5 0.06
20 8 0.09
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.52
Consensus pattern (16 bp):
TACTTTATATCTTATA
Found at i:587898 original size:23 final size:22
Alignment explanation
Indices: 587867--587966 Score: 64
Period size: 23 Copynumber: 4.4 Consensus size: 22
587857 TACACTTATA
* *
587867 TATACACTTGTACTTTATATGTG
1 TATATACTTATACTTTATA-GTG
587890 TATATACTTTATATACTTTATA-T-
1 TATATAC--T-TATACTTTATAGTG
*
587913 TATATACTTATA-TACTT-TAGTA
1 TATATACTTATACT--TTATAGTG
* *
587935 TATACACTTGTACTTTATATGTG
1 TATATACTTATACTTTATA-GTG
587958 TATATACTT
1 TATATACTT
587967 TATATACTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
19 1 0.02
20 6 0.10
21 6 0.10
22 12 0.20
23 24 0.39
24 1 0.02
25 1 0.02
26 10 0.16
ACGTcount: A:0.31, C:0.11, G:0.07, T:0.51
Consensus pattern (22 bp):
TATATACTTATACTTTATAGTG
Found at i:587926 original size:22 final size:22
Alignment explanation
Indices: 587890--588002 Score: 90
Period size: 22 Copynumber: 5.0 Consensus size: 22
587880 TTTATATGTG
587890 TATATACTTTATATACTTTATAT
1 TATATAC-TTATATACTTTATAT
587913 TATATACTTATATACTTTAGTA-
1 TATATACTTATATACTTTA-TAT
* *
587935 TATACAC-T-TGTACTTTATATGT
1 TATATACTTATATACTTTATA--T
*
587957 GTATATACTTTATATACTTATATAC
1 -TATATAC-TTATATACTT-TATAT
*
587982 TCTATA-TTATATACTTATATA
1 TATATACTTATATACTT-TATA
588003 CTTTAGTCTT
Statistics
Matches: 75, Mismatches: 6, Indels: 19
0.75 0.06 0.19
Matches are distributed among these distances:
19 2 0.03
20 8 0.11
21 1 0.01
22 33 0.44
23 15 0.20
24 5 0.07
25 1 0.01
26 6 0.08
27 4 0.05
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.51
Consensus pattern (22 bp):
TATATACTTATATACTTTATAT
Found at i:587936 original size:10 final size:8
Alignment explanation
Indices: 587890--588005 Score: 81
Period size: 8 Copynumber: 15.1 Consensus size: 8
587880 TTTATATGTG
587890 TATATACTT
1 TATATAC-T
587899 TATATACT
1 TATATACT
587907 T-TATA-T
1 TATATACT
587913 TATATACT
1 TATATACT
587921 TATATACT
1 TATATACT
587929 T-TAGTA--
1 TATA-TACT
*
587935 TATACAC-
1 TATATACT
*
587942 T-TGTACT
1 TATATACT
*
587949 T-TATATGT
1 TATATA-CT
587957 GTATATACTT
1 -TATATAC-T
587967 TATATACT
1 TATATACT
587975 TATATAC-
1 TATATACT
*
587982 TCTATA-T
1 TATATACT
587989 TATATACT
1 TATATACT
587997 TATATACT
1 TATATACT
588005 T
1 T
588006 TAGTCTTAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 25
0.73 0.07 0.21
Matches are distributed among these distances:
6 7 0.08
7 27 0.31
8 33 0.38
9 15 0.17
10 5 0.06
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.52
Consensus pattern (8 bp):
TATATACT
Found at i:587945 original size:68 final size:68
Alignment explanation
Indices: 587865--587997 Score: 232
Period size: 68 Copynumber: 2.0 Consensus size: 68
587855 TATACACTTA
*
587865 TATATACACTTGTACTTTATATGTGTATATACTTTATATACTT-TATATTATATACTTATATACT
1 TATATACACTTGTACTTTATATGTGTATATACTTTATATACTTATATACTATATA-TTATATACT
587929 TTAG
65 TTAG
*
587933 TATATACACTTGTACTTTATATGTGTATATACTTTATATACTTATATACTCTATATTATATACTT
1 TATATACACTTGTACTTTATATGTGTATATACTTTATATACTTATATACTATATATTATATACTT
587998 ATATACTTTA
Statistics
Matches: 62, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
68 53 0.85
69 9 0.15
ACGTcount: A:0.32, C:0.11, G:0.05, T:0.51
Consensus pattern (68 bp):
TATATACACTTGTACTTTATATGTGTATATACTTTATATACTTATATACTATATATTATATACTT
TAG
Found at i:588021 original size:22 final size:22
Alignment explanation
Indices: 587966--588037 Score: 62
Period size: 22 Copynumber: 3.4 Consensus size: 22
587956 TGTATATACT
*
587966 TTATATACTTATATACTCTATA
1 TTATATAATTATATACTCTATA
* * *
587988 TTATATACTTATATACTTTAGTC
1 TTATATAATTATATACTCTA-TA
*
588011 TTA-ATAA-T-TATACTTTATA
1 TTATATAATTATATACTCTATA
588030 -TATATAAT
1 TTATATAAT
588038 GTTACTTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
18 2 0.05
19 5 0.12
20 9 0.21
21 1 0.02
22 22 0.51
23 4 0.09
ACGTcount: A:0.38, C:0.10, G:0.01, T:0.51
Consensus pattern (22 bp):
TTATATAATTATATACTCTATA
Found at i:588022 original size:30 final size:31
Alignment explanation
Indices: 587890--588005 Score: 94
Period size: 31 Copynumber: 3.6 Consensus size: 31
587880 TTTATATGTG
* *
587890 TATATACTTTATATACTT-TATATTATATACT
1 TATATACTTTATATACTTATATACTCTATA-T
* * *
587921 TATATACTTTAGTATA-TACACTTGTACTTTATATGT
1 TATATACTTTA-TATACT-TA--TATACTCTATA--T
587957 GTATATACTTTATATACTTATATACTCTATAT
1 -TATATACTTTATATACTTATATACTCTATAT
587989 TATATAC-TTATATACTT
1 TATATACTTTATATACTT
588006 TAGTCTTAAT
Statistics
Matches: 69, Mismatches: 8, Indels: 17
0.73 0.09 0.18
Matches are distributed among these distances:
30 10 0.14
31 19 0.28
32 5 0.07
34 9 0.13
35 8 0.12
36 6 0.09
37 12 0.17
ACGTcount: A:0.34, C:0.11, G:0.03, T:0.52
Consensus pattern (31 bp):
TATATACTTTATATACTTATATACTCTATAT
Found at i:588136 original size:2 final size:2
Alignment explanation
Indices: 588129--588180 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
588119 AAAAAGTCTG
588129 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
588171 TA TA TA TA TA
1 TA TA TA TA TA
588181 AAGTTTTAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:588232 original size:8 final size:8
Alignment explanation
Indices: 588207--588287 Score: 84
Period size: 8 Copynumber: 10.5 Consensus size: 8
588197 TGTATATGGA
588207 TATATAA-
1 TATATAAG
588214 TAATATAAAG
1 T-ATAT-AAG
588224 TATATAAG
1 TATATAAG
588232 TAT-TAAG
1 TATATAAG
588239 --TATAAG
1 TATATAAG
588245 TATATAAG
1 TATATAAG
588253 TATATAA-
1 TATATAAG
588260 TATA-AAG
1 TATATAAG
*
588267 GATATAAG
1 TATATAAG
588275 TATATAAAG
1 TATAT-AAG
588284 TATA
1 TATA
588288 CACACATATA
Statistics
Matches: 63, Mismatches: 2, Indels: 16
0.78 0.02 0.20
Matches are distributed among these distances:
5 1 0.02
6 6 0.10
7 12 0.19
8 30 0.48
9 13 0.21
10 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.11, T:0.36
Consensus pattern (8 bp):
TATATAAG
Found at i:588274 original size:22 final size:22
Alignment explanation
Indices: 588213--588281 Score: 106
Period size: 22 Copynumber: 3.2 Consensus size: 22
588203 TGGATATATA
588213 ATAATATAAAGTATATAAGTAT
1 ATAATATAAAGTATATAAGTAT
588235 -TAAGTAT-AAGTATATAAGTAT
1 ATAA-TATAAAGTATATAAGTAT
*
588256 ATAATATAAAGGATATAAGTAT
1 ATAATATAAAGTATATAAGTAT
588278 ATAA
1 ATAA
588282 AGTATACACA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
21 20 0.47
22 23 0.53
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.35
Consensus pattern (22 bp):
ATAATATAAAGTATATAAGTAT
Found at i:588340 original size:22 final size:22
Alignment explanation
Indices: 588315--588456 Score: 91
Period size: 22 Copynumber: 6.3 Consensus size: 22
588305 TGTATATACT
588315 TTATATACTTATATACTTTATA
1 TTATATACTTATATACTTTATA
*
588337 TTATATACTTATATACTTTAGTC
1 TTATATACTTATATACTTTA-TA
* *
588360 TT-TATAATTATACT-TTTTATA
1 TTATATACTTATA-TACTTTATA
588381 TATAATATAC-T-TATACTTT-TA
1 T-T-ATATACTTATATACTTTATA
*
588402 TTAATTATACTTGTATACTTATATA
1 TT-A-TATACTTATATACTT-TATA
* *
588427 CTT-TATATTTA-AAACTTATATA
1 -TTATATACTTATATACTT-TATA
588449 CTTATATA
1 -TTATATA
588457 TTGAATTTGG
Statistics
Matches: 98, Mismatches: 9, Indels: 25
0.74 0.07 0.19
Matches are distributed among these distances:
20 3 0.03
21 11 0.11
22 53 0.54
23 22 0.22
24 5 0.05
25 2 0.02
26 2 0.02
ACGTcount: A:0.36, C:0.09, G:0.01, T:0.54
Consensus pattern (22 bp):
TTATATACTTATATACTTTATA
Found at i:588351 original size:30 final size:30
Alignment explanation
Indices: 588307--588456 Score: 119
Period size: 30 Copynumber: 4.7 Consensus size: 30
588297 AAAGTATGTG
588307 TATATACTTTATATACTTATATACTTTATAT
1 TATATAC-TTATATACTTATATACTTTATAT
588338 TATATACTTATATACTT-TAGT-CTTTATAAT
1 TATATACTTATATACTTATA-TACTTTAT-AT
** *
588368 TATACTTTTTATATA-TAATATACTTATACTTTTAT
1 TATA-TACTTATATACTTATATACTT-TA----TAT
*
588403 TAATTATACTTGTATACTTATATACTTTATAT
1 T-A-TATACTTATATACTTATATACTTTATAT
*
588435 T-TAAAACTTATATACTTATATA
1 TAT-ATACTTATATACTTATATA
588457 TTGAATTTGG
Statistics
Matches: 96, Mismatches: 9, Indels: 29
0.72 0.07 0.22
Matches are distributed among these distances:
29 9 0.09
30 36 0.38
31 20 0.21
32 6 0.06
35 3 0.03
36 11 0.11
37 11 0.11
ACGTcount: A:0.36, C:0.09, G:0.01, T:0.53
Consensus pattern (30 bp):
TATATACTTATATACTTATATACTTTATAT
Found at i:588434 original size:9 final size:8
Alignment explanation
Indices: 588307--588456 Score: 101
Period size: 8 Copynumber: 19.8 Consensus size: 8
588297 AAAGTATGTG
588307 TATATACTT
1 TATATAC-T
588316 TATATACT
1 TATATACT
588324 TATATACT
1 TATATACT
588332 T-TATA-T
1 TATATACT
588338 TATATACT
1 TATATACT
588346 TATATACT
1 TATATACT
588354 T-TAGT-CT
1 TATA-TACT
*
588361 T-TATAAT
1 TATATACT
**
588368 TATACTTTT
1 TATA-TACT
588377 TATATA-T
1 TATATACT
*
588384 AATATAC-
1 TATATACT
588391 T-TATACT
1 TATATACT
588398 T-T-TA-T
1 TATATACT
588403 TAATTATACT
1 T-A-TATACT
*
588413 TGTATACT
1 TATATACT
588421 TATATACT
1 TATATACT
*
588429 T-TATATT
1 TATATACT
*
588436 TA-AAACT
1 TATATACT
588443 TATATACT
1 TATATACT
588451 TATATA
1 TATATA
588457 TTGAATTTGG
Statistics
Matches: 114, Mismatches: 12, Indels: 31
0.73 0.08 0.20
Matches are distributed among these distances:
5 2 0.02
6 10 0.09
7 36 0.32
8 49 0.43
9 15 0.13
10 2 0.02
ACGTcount: A:0.36, C:0.09, G:0.01, T:0.53
Consensus pattern (8 bp):
TATATACT
Found at i:590984 original size:44 final size:44
Alignment explanation
Indices: 590935--591137 Score: 291
Period size: 44 Copynumber: 4.6 Consensus size: 44
590925 GGAATATGGT
* * *
590935 TTATGGATTAATGGCAAGTGTATTGGTAAAATAAGCTTAC-ACGC
1 TTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGA-GC
*
590979 TTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGA
1 TTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
*
591023 TTATGGAACAAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
1 TTATGGAA-TAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
591068 TTATGGAATAATGGTAAGTATATTGGTAAAATTATCTTACGAGC
1 TTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
* *
591112 TTATGGGATAAATGGTAAGTAGATTG
1 TTATGGAAT-AATGGTAAGTATATTG
591138 ATAAGAAATG
Statistics
Matches: 145, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
44 87 0.60
45 58 0.40
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (44 bp):
TTATGGAATAATGGTAAGTATATTGGTAAAATAAGCTTACGAGC
Found at i:591059 original size:89 final size:89
Alignment explanation
Indices: 590944--591137 Score: 300
Period size: 89 Copynumber: 2.2 Consensus size: 89
590934 TTTATGGATT
* *
590944 AATGGCAAGTGTATTGGTAAAATAAGCTTAC-ACGCTTATGGAATAATGGTAAGTATATTGGTAA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGA-GCTTATGGAATAATGGTAAGTATATTGGTAA
591008 AATAAGCTTACGAGATTATGGAACA
65 AATAAGCTTACGAGATTATGGAACA
591033 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
* * * * *
591098 ATTATCTTACGAGCTTATGGGATA
66 ATAAGCTTACGAGATTATGGAACA
*
591122 AATGGTAAGTAGATTG
1 AATGGTAAGTATATTG
591138 ATAAGAAATG
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
89 95 0.99
90 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.23, T:0.31
Consensus pattern (89 bp):
AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATAATGGTAAGTATATTGGTAAA
ATAAGCTTACGAGATTATGGAACA
Found at i:591510 original size:23 final size:23
Alignment explanation
Indices: 591477--591526 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
591467 GGAAGTTACA
591477 GTAGCAATTAATGTAGTAGTACT
1 GTAGCAATTAATGTAGTAGTACT
* *
591500 GTAGCACTTAATGTAGTAGTATT
1 GTAGCAATTAATGTAGTAGTACT
591523 GTAG
1 GTAG
591527 TAGTACATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.36
Consensus pattern (23 bp):
GTAGCAATTAATGTAGTAGTACT
Found at i:593115 original size:38 final size:38
Alignment explanation
Indices: 593063--593177 Score: 117
Period size: 38 Copynumber: 3.0 Consensus size: 38
593053 CGCTTTTCAA
* *
593063 GCTCCTCTACTTTGTGCACAGGATAAGACCTTACCGTA-
1 GCTCCTCTGCTTTGTGCACA-GATAAGACCTTACCGCAG
* * * *
593101 TCTCCT-TGGCTTTGTGCTCAGAGTAAGTCCTTACTGCAG
1 GCTCCTCT-GCTTTGTGCACAGA-TAAGACCTTACCGCAG
*
593140 GCTCCTCTGCTTTGTGCACAAGATAAGATCTTACCGCA
1 GCTCCTCTGCTTTGTGCAC-AGATAAGACCTTACCGCA
593178 TGCTTGTAAC
Statistics
Matches: 61, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
37 3 0.05
38 27 0.44
39 27 0.44
40 4 0.07
ACGTcount: A:0.21, C:0.28, G:0.20, T:0.31
Consensus pattern (38 bp):
GCTCCTCTGCTTTGTGCACAGATAAGACCTTACCGCAG
Found at i:593173 original size:39 final size:38
Alignment explanation
Indices: 593062--593177 Score: 112
Period size: 39 Copynumber: 3.0 Consensus size: 38
593052 CCGCTTTTCA
* * * *
593062 AGCTCCTCTACTTTGTGCACAGGATAAGACCTTACCGT
1 AGCTCCTCTGCTTTGTGCACAAGATAAGATCTTACCGC
* * *
593100 ATCTCCT-TGGCTTTGTGCTC-AGAGTAAG-TCCTTACTGC
1 AGCTCCTCT-GCTTTGTGCACAAGA-TAAGAT-CTTACCGC
593138 AGGCTCCTCTGCTTTGTGCACAAGATAAGATCTTACCGC
1 A-GCTCCTCTGCTTTGTGCACAAGATAAGATCTTACCGC
593177 A
1 A
593178 TGCTTGTAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 13
0.73 0.12 0.15
Matches are distributed among these distances:
37 3 0.05
38 26 0.43
39 27 0.44
40 5 0.08
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.31
Consensus pattern (38 bp):
AGCTCCTCTGCTTTGTGCACAAGATAAGATCTTACCGC
Found at i:594106 original size:40 final size:40
Alignment explanation
Indices: 594033--594233 Score: 296
Period size: 40 Copynumber: 5.0 Consensus size: 40
594023 ACCATAGTGC
*
594033 TACACATAA-GTCGTGCCCACCCTATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* * *
594072 TACACATAAGGTCATGCCCACCATTTACATCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
** * * *
594112 TACACATAAATTCATGCCCACCATATACACCAAAGTGTAC
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
594152 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
* *
594192 TACACATAAGGTCGTACCCACTATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
594232 TA
1 TA
594234 TAAACCTACA
Statistics
Matches: 144, Mismatches: 17, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 9 0.06
40 135 0.94
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.24
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:596831 original size:25 final size:24
Alignment explanation
Indices: 596804--596886 Score: 98
Period size: 22 Copynumber: 3.4 Consensus size: 24
596794 GTTACATTAT
596804 ATGTATATAAATATAAAGTACATA
1 ATGTATATAAATATAAAGTACATA
*
596828 TATGTATATAATAATATAAAGTATATA
1 -ATGTATAT-A-AATATAAAGTACATA
*
596855 AT-TATAT-AATATAAAGTATATA
1 ATGTATATAAATATAAAGTACATA
596877 ATTGTATATA
1 A-TGTATATA
596887 TAAAAATGGT
Statistics
Matches: 52, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
22 16 0.31
23 1 0.02
24 5 0.10
25 13 0.25
26 3 0.06
27 14 0.27
ACGTcount: A:0.52, C:0.01, G:0.07, T:0.40
Consensus pattern (24 bp):
ATGTATATAAATATAAAGTACATA
Found at i:596845 original size:27 final size:27
Alignment explanation
Indices: 596796--596865 Score: 94
Period size: 25 Copynumber: 2.7 Consensus size: 27
596786 TCAAGGGGGT
596796 TACATTATATGTATAT-A-AATATAAAG
1 TACA-TATATGTATATAATAATATAAAG
596822 TACATATATGTATATAATAATATAAAG
1 TACATATATGTATATAATAATATAAAG
*
596849 TATATA-AT-TATATAATA
1 TACATATATGTATATAATA
596866 TAAAGTATAT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
25 20 0.49
26 7 0.17
27 14 0.34
ACGTcount: A:0.51, C:0.03, G:0.06, T:0.40
Consensus pattern (27 bp):
TACATATATGTATATAATAATATAAAG
Found at i:596851 original size:17 final size:17
Alignment explanation
Indices: 596831--596863 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
596821 GTACATATAT
596831 GTATATAATAATATAAA
1 GTATATAATAATATAAA
*
596848 GTATATAATTATATAA
1 GTATATAATAATATAA
596864 TATAAAGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (17 bp):
GTATATAATAATATAAA
Found at i:597055 original size:34 final size:32
Alignment explanation
Indices: 597017--597079 Score: 90
Period size: 34 Copynumber: 1.9 Consensus size: 32
597007 TCCATTGTAT
597017 ATATAAACTATAAAGTATATATACATATATATCA
1 ATATAAACTAT-AAGTATAT-TACATATATATCA
* *
597051 ATATAAAGTATAAGTATATTATATATATA
1 ATATAAACTATAAGTATATTACATATATA
597080 GAGTAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 9 0.33
33 8 0.30
34 10 0.37
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (32 bp):
ATATAAACTATAAGTATATTACATATATATCA
Found at i:597130 original size:2 final size:2
Alignment explanation
Indices: 597111--597203 Score: 91
Period size: 2 Copynumber: 45.0 Consensus size: 2
597101 AGTATACAAG
* *
597111 TA TA TA -A TA TA AA GTA TA TA TA TA TA CT- TA TA CTT TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA
* *
597152 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CTT TA TA GTT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA
597196 TA TA TA TA
1 TA TA TA TA
597204 CTTCTATACT
Statistics
Matches: 76, Mismatches: 8, Indels: 14
0.78 0.08 0.14
Matches are distributed among these distances:
1 2 0.03
2 69 0.91
3 5 0.07
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:597142 original size:8 final size:8
Alignment explanation
Indices: 597131--597317 Score: 91
Period size: 8 Copynumber: 25.9 Consensus size: 8
597121 AAAGTATATA
597131 TATATAC-
1 TATATACT
597138 T-TATACTT
1 TATATAC-T
597146 TATATA-T
1 TATATACT
597153 ATATATA-T
1 -TATATACT
597161 ATATATA-T
1 -TATATACT
597169 ATATATA-T
1 -TATATACT
597177 ATATATACT
1 -TATATACT
*
597186 T-TATAGT
1 TATATACT
597193 T-TATA--
1 TATATACT
597198 TATATACT
1 TATATACT
*
597206 TCTATACT
1 TATATACT
597214 T-TATA-T
1 TATATACT
597220 TA-ATAC-
1 TATATACT
597226 -ATATACT
1 TATATACT
597233 TATAT--T
1 TATATACT
*
597239 TA-ATGCT
1 TATATACT
597246 TATATA-T
1 TATATACT
597253 T-TATA-T
1 TATATACT
597259 TATATACT
1 TATATACT
*
597267 TATATGCT
1 TATATACT
*
597275 T-TATATT
1 TATATACT
*
597282 TA-ATATT
1 TATATACT
597289 TATATACT
1 TATATACT
597297 T-TATA-T
1 TATATACT
*
597303 TATATGCT
1 TATATACT
597311 TATATAC
1 TATATAC
597318 ATAATTTATA
Statistics
Matches: 149, Mismatches: 9, Indels: 43
0.74 0.04 0.21
Matches are distributed among these distances:
5 4 0.03
6 29 0.19
7 44 0.30
8 67 0.45
9 5 0.03
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (8 bp):
TATATACT
Found at i:597195 original size:7 final size:7
Alignment explanation
Indices: 597180--597301 Score: 62
Period size: 7 Copynumber: 17.6 Consensus size: 7
597170 TATATATATA
597180 TATACTT
1 TATACTT
*
597187 TATAGTT
1 TATACTT
*
597194 TATA-TA
1 TATACTT
597200 TATACTT
1 TATACTT
597207 CTATACTT
1 -TATACTT
597215 TATA-TT
1 TATACTT
* *
597221 AATAC-A
1 TATACTT
597227 TATAC-T
1 TATACTT
597233 TATA-TT
1 TATACTT
*
597239 TAATGCTT
1 T-ATACTT
597247 ATATA-TT
1 -TATACTT
597254 TATA-TT
1 TATACTT
597260 ATATACTT
1 -TATACTT
*
597268 ATATGCTT
1 -TATACTT
597276 TATA-TT
1 TATACTT
*
597282 TAATATTT
1 T-ATACTT
597290 ATATACTT
1 -TATACTT
597298 TATA
1 TATA
597302 TTATATGCTT
Statistics
Matches: 91, Mismatches: 12, Indels: 24
0.72 0.09 0.19
Matches are distributed among these distances:
6 29 0.32
7 33 0.36
8 27 0.30
9 2 0.02
ACGTcount: A:0.35, C:0.08, G:0.02, T:0.54
Consensus pattern (7 bp):
TATACTT
Found at i:597253 original size:15 final size:15
Alignment explanation
Indices: 597233--597299 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
597223 TACATATACT
597233 TATATTTAATGCTTA
1 TATATTTAATGCTTA
*
597248 TATATTT-AT-ATTA
1 TATATTTAATGCTTA
*
597261 TATACTTATATGCTT-
1 TATATTTA-ATGCTTA
**
597276 TATATTTAATATTTA
1 TATATTTAATGCTTA
597291 TATACTTTA
1 TATA-TTTA
597300 TATTATATGC
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
13 9 0.22
14 6 0.15
15 20 0.49
16 6 0.15
ACGTcount: A:0.34, C:0.06, G:0.03, T:0.57
Consensus pattern (15 bp):
TATATTTAATGCTTA
Found at i:597259 original size:6 final size:6
Alignment explanation
Indices: 597127--597293 Score: 68
Period size: 6 Copynumber: 25.8 Consensus size: 6
597117 ATATAAAGTA
* * * * * *
597127 TATATA TATACT TATACTT TATA-- TATATA TATATA TATATA TATATA
1 TATATT TATATT TATA-TT TATATT TATATT TATATT TATATT TATATT
* * * **
597174 TATATA TATACTT TATAGTT TATATA TATACTT CTATACTT TATATT AATACA
1 TATATT TATA-TT TATA-TT TATATT TATA-TT -TATA-TT TATATT TATATT
* * *
597227 TATACT TATATT TAATGCTT ATATATT TATATT ATATACTT ATATGCTT
1 TATATT TATATT T-AT-ATT -TATATT TATATT -TATA-TT -TAT-ATT
597276 TATATT TAATATT TATAT
1 TATATT T-ATATT TATAT
597294 ACTTTATATT
Statistics
Matches: 131, Mismatches: 17, Indels: 26
0.75 0.10 0.15
Matches are distributed among these distances:
4 4 0.03
6 69 0.53
7 38 0.29
8 19 0.15
9 1 0.01
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (6 bp):
TATATT
Found at i:597314 original size:44 final size:43
Alignment explanation
Indices: 597164--597333 Score: 160
Period size: 43 Copynumber: 4.1 Consensus size: 43
597154 TATATATATA
* * *
597164 TATATA-TATATATATATATACTT-TATAGTT-TATATATATACT
1 TATATACTTTATAT-TATATACTTATATACTTATATTTA-ATACT
* *
597206 TCTATACTTTATATTA-ATAC--ATATACTTATATTTAATGCT
1 TATATACTTTATATTATATACTTATATACTTATATTTAATACT
* *
597246 TATATA-TTTATATTATATACTTATATGCTTTATATTTAATATT
1 TATATACTTTATATTATATACTTATATAC-TTATATTTAATACT
* * *
597289 TATATACTTTATATTATATGCTTATATACATA-ATTT-ATAAT
1 TATATACTTTATATTATATACTTATATACTTATATTTAATACT
597330 TATA
1 TATA
597334 AATAATATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 17
0.78 0.09 0.12
Matches are distributed among these distances:
39 9 0.08
40 19 0.18
41 17 0.16
42 16 0.15
43 26 0.24
44 20 0.19
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (43 bp):
TATATACTTTATATTATATACTTATATACTTATATTTAATACT
Found at i:597316 original size:15 final size:15
Alignment explanation
Indices: 597226--597316 Score: 55
Period size: 13 Copynumber: 6.9 Consensus size: 15
597216 ATATTAATAC
*
597226 ATATACTTATAT-TT
1 ATATGCTTATATATT
597240 A-ATGCTTATATATT
1 ATATGCTTATATATT
*
597254 -TAT-ATTATATACTT
1 ATATGCTTATATA-TT
597268 ATATGCTT-TATATT
1 ATATGCTTATATATT
597282 -TA-----ATAT-TT
1 ATATGCTTATATATT
*
597290 ATATACTT-TATATT
1 ATATGCTTATATATT
597304 ATATGCTTATATA
1 ATATGCTTATATA
597317 CATAATTTAT
Statistics
Matches: 59, Mismatches: 4, Indels: 27
0.66 0.04 0.30
Matches are distributed among these distances:
8 2 0.03
9 5 0.08
13 21 0.36
14 18 0.31
15 11 0.19
16 2 0.03
ACGTcount: A:0.35, C:0.07, G:0.03, T:0.55
Consensus pattern (15 bp):
ATATGCTTATATATT
Found at i:597338 original size:17 final size:17
Alignment explanation
Indices: 597312--597351 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
597302 TTATATGCTT
* *
597312 ATATACATAATTTATAA
1 ATATAAATAATATATAA
*
597329 TTATAAATAATATATAA
1 ATATAAATAATATATAA
597346 ATATAA
1 ATATAA
597352 GTTGTATATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAAATAATATATAA
Found at i:597379 original size:19 final size:21
Alignment explanation
Indices: 597338--597382 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
597328 ATTATAAATA
*
597338 ATATATAAATATAAGTTGTAT
1 ATATATAAATATAAGTTGCAT
*
597359 ATATTTAAATATAA-TT-CAT
1 ATATATAAATATAAGTTGCAT
597378 ATATA
1 ATATA
597383 ATTTTTATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 6 0.29
20 2 0.10
21 13 0.62
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.44
Consensus pattern (21 bp):
ATATATAAATATAAGTTGCAT
Found at i:597562 original size:17 final size:18
Alignment explanation
Indices: 597540--597597 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 18
597530 CACACATTCT
*
597540 TATACTTTATATGTA-TA
1 TATACTTTATATATATTA
597557 TATACTTTATATTATATTA
1 TATACTTTATA-TATATTA
597576 TATACTTATATATATAATTA
1 TATACTT-TATATAT-ATTA
597596 TA
1 TA
597598 ATAATACAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
17 11 0.31
18 3 0.08
19 12 0.33
20 10 0.28
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (18 bp):
TATACTTTATATATATTA
Found at i:597654 original size:38 final size:38
Alignment explanation
Indices: 597576--597663 Score: 99
Period size: 38 Copynumber: 2.3 Consensus size: 38
597566 TATTATATTA
* *
597576 TATACTTATATATATAATTATAATAATACAAAGTATAAG
1 TATA-TTATATATATAAGTATAATAATACAAACTATAAG
*
597615 TATATTATATATATAAAGTATAATTATA-AAGACTA-AAG
1 TATATTATATATAT-AAGTATAATAATACAA-ACTATAAG
*
597653 TATATAATATA
1 TATATTATATA
597664 GAGTATATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
38 25 0.58
39 18 0.42
ACGTcount: A:0.52, C:0.03, G:0.06, T:0.39
Consensus pattern (38 bp):
TATATTATATATATAAGTATAATAATACAAACTATAAG
Found at i:597683 original size:27 final size:27
Alignment explanation
Indices: 597653--597718 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 27
597643 AAGACTAAAG
*
597653 TATATAATATAGAGTATATA-AAGTATA
1 TATATAATATAAAGTATA-ACAAGTATA
* *
597680 TATA-CATATAAAGTATAAGCATGTATA
1 TATATAATATAAAGTATAA-CAAGTATA
597707 TATATATATATA
1 TATATA-ATATA
597719 TAAACTATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
25 1 0.03
26 11 0.35
27 14 0.45
29 5 0.16
ACGTcount: A:0.50, C:0.03, G:0.09, T:0.38
Consensus pattern (27 bp):
TATATAATATAAAGTATAACAAGTATA
Found at i:597709 original size:38 final size:38
Alignment explanation
Indices: 597667--597746 Score: 99
Period size: 38 Copynumber: 2.1 Consensus size: 38
597657 TAATATAGAG
* * *
597667 TATATAAAGTATATATACA-TATAAAGTATAAGCATGTA
1 TATATAAA-TATATATAAACTATAAAGCAAAAGCATGTA
* *
597705 TATATATATATATATAAACTATAAAGCAAAAGTATGTA
1 TATATAAATATATATAAACTATAAAGCAAAAGCATGTA
597743 TATA
1 TATA
597747 ATTTTACTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
37 9 0.25
38 27 0.75
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (38 bp):
TATATAAATATATATAAACTATAAAGCAAAAGCATGTA
Found at i:597788 original size:15 final size:16
Alignment explanation
Indices: 597765--597797 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
597755 TTACAGTTTA
*
597765 TATAGTCTTTATA-AT
1 TATACTCTTTATATAT
597780 TATACTCTTTATATAT
1 TATACTCTTTATATAT
597796 TA
1 TA
597798 ATATACTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.33, C:0.09, G:0.03, T:0.55
Consensus pattern (16 bp):
TATACTCTTTATATAT
Found at i:597807 original size:25 final size:25
Alignment explanation
Indices: 597774--597897 Score: 85
Period size: 25 Copynumber: 4.8 Consensus size: 25
597764 ATATAGTCTT
597774 TATAATTATACTCTT-TATATATTA-A
1 TATAATTATACT-TTATAT-TATTATA
*
597799 TATACTTATACTTTATATTATTATA
1 TATAATTATACTTTATATTATTATA
* * *
597824 TATGTATATAAACTTT-TCTTA-TATA
1 TAT-AAT-TATACTTTATATTATTATA
*
597849 TATAATTTATAGTTTATATATATATATA
1 TATAA-TTATACTTTATAT-TAT-TATA
*
597877 TATACTTATATACTTTATATT
1 TATA-AT-TATACTTTATATT
597898 TAAACTATAT
Statistics
Matches: 77, Mismatches: 11, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
24 14 0.18
25 28 0.36
26 7 0.09
27 7 0.09
28 10 0.13
29 11 0.14
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (25 bp):
TATAATTATACTTTATATTATTATA
Found at i:597848 original size:2 final size:2
Alignment explanation
Indices: 597843--598185 Score: 79
Period size: 2 Copynumber: 175.0 Consensus size: 2
597833 AAACTTTTCT
* *
597843 TA TA TA TA TA -A TT TA TA GTT TA TA TA TA TA TA TA TA TA CT- TA
1 TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * * *
597885 TA TA CTT TA TA TT TA AA CTA TA TA AA CTA TA TA -A TT TA TA CA
1 TA TA -TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA
* * *
597927 TA -A TA TA TA TA -A TT TA TA -A T- TA TG CA TA -A TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
597963 T- TA TA -A GT- TG TA TA TA TT TA AA TA TA -A T- TCA TA TA TA -A
1 TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
* * * ** *
598001 TT TA TA TA TA AA T- TA TA TA GTT TA CG CA TA GTA TA TA -A TA -A
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA
* * * *
598042 TA TA AA TA TA AA CTA TA TA GTT TA TA TA TA TA GTT 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
* * *
598085 TA -A TA TA TA TA CTT TA TA TA TA CA CTA TA TA GTT TA TA T- TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA
* * *
598126 -A TA AA CTA TA TA T- TA TA TA CA TA -A TA TA TA TA TA -A TT TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
598165 TA TA TA GTA TA TGA TA -A TA TA
1 TA TA TA -TA TA T-A TA TA TA TA
598186 AAAATAAACT
Statistics
Matches: 241, Mismatches: 57, Indels: 86
0.63 0.15 0.22
Matches are distributed among these distances:
1 25 0.10
2 196 0.81
3 20 0.08
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (2 bp):
TA
Found at i:597895 original size:29 final size:29
Alignment explanation
Indices: 597780--597937 Score: 103
Period size: 29 Copynumber: 5.9 Consensus size: 29
597770 TCTTTATAAT
597780 TATACTCTT-TATATAT-TA-ATATAC-T-
1 TATACT-TTATATATATATATATATACTTA
*
597805 TATACTTTATAT-TAT-TATATAT-GTATA
1 TATACTTTATATATATATATATATACT-TA
* *
597832 TAAACTTT-TCT-TATATATATA-A-TT-
1 TATACTTTATATATATATATATATACTTA
*
597856 TATAGTTTATATATATATATATATACTTA
1 TATACTTTATATATATATATATATACTTA
* * *
597885 TATACTTTATATTTAAACTATATAAAC-TA
1 TATACTTTATATATATA-TATATATACTTA
* *
597914 TATAATTTATACATA-ATATATATA
1 TATACTTTATATATATATATATATA
597938 ATTTATAATT
Statistics
Matches: 106, Mismatches: 14, Indels: 24
0.74 0.10 0.17
Matches are distributed among these distances:
24 13 0.12
25 16 0.15
26 17 0.16
27 21 0.20
28 3 0.03
29 28 0.26
30 8 0.08
ACGTcount: A:0.41, C:0.07, G:0.01, T:0.51
Consensus pattern (29 bp):
TATACTTTATATATATATATATATACTTA
Found at i:598071 original size:13 final size:13
Alignment explanation
Indices: 598055--598106 Score: 67
Period size: 13 Copynumber: 4.3 Consensus size: 13
598045 AAATATAAAC
598055 TATATAGTTTATA
1 TATATAGTTTATA
598068 TATATAGTTTATA
1 TATATAGTTTATA
598081 TATATA----ATA
1 TATATAGTTTATA
*
598090 TATATACTTTATA
1 TATATAGTTTATA
598103 TATA
1 TATA
598107 CACTATATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
9 9 0.26
13 26 0.74
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (13 bp):
TATATAGTTTATA
Found at i:598155 original size:11 final size:11
Alignment explanation
Indices: 597843--598185 Score: 80
Period size: 11 Copynumber: 31.4 Consensus size: 11
597833 AAACTTTTCT
597843 TATATATATAA
1 TATATATATAA
* *
597854 TTTATAGT-TTA
1 TATATA-TATAA
597865 TATATATATATA
1 TATATATATA-A
*
597877 TATACTTATATAC
1 TATA--TATATAA
* *
597890 TTTATATTTAA
1 TATATATATAA
597901 -ACTATATA-AA
1 TA-TATATATAA
597911 CTATATAATTTATACA
1 -TATAT-A--TATA-A
597927 TA-ATATAT-A
1 TATATATATAA
*
597936 TA-ATTTATAA
1 TATATATATAA
**
597946 T-TATGCATAA
1 TATATATATAA
597956 TATATAATTATAA
1 TATAT-A-TATAA
*
597969 GT-TGTATAT-A
1 -TATATATATAA
* *
597979 TTTAAATATAA
1 TATATATATAA
597990 T-TCATATATAA
1 TAT-ATATATAA
*
598001 TTTATATATAA
1 TATATATATAA
*
598012 -AT-TATATAG
1 TATATATATAA
* *** *
598021 TTTACGCATAG
1 TATATATATAA
598032 TATATA-ATAA
1 TATATATATAA
*
598042 TATAAATATAA
1 TATATATATAA
*
598053 -ACTATATAGT-T
1 TA-TATATA-TAA
*
598064 TATATATATAG
1 TATATATATAA
*
598075 TTTATATAT-A
1 TATATATATAA
598085 TA-ATATAT-A
1 TATATATATAA
*
598094 TACTTTATAT-A
1 TA-TATATATAA
* *
598105 TACACTATATAG
1 TATA-TATATAA
*
598117 TTTATAT-TAA
1 TATATATATAA
* *
598127 TAAACTATATAT
1 TATA-TATATAA
*
598139 TATATACATAA
1 TATATATATAA
598150 TATATATATAA
1 TATATATATAA
* *
598161 TTTATATATAG
1 TATATATATAA
*
598172 TATAT-GATAA
1 TATATATATAA
598182 TATA
1 TATA
598186 AAAATAAACT
Statistics
Matches: 241, Mismatches: 55, Indels: 73
0.65 0.15 0.20
Matches are distributed among these distances:
9 24 0.10
10 43 0.18
11 130 0.54
12 19 0.08
13 10 0.04
14 11 0.05
15 3 0.01
16 1 0.00
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (11 bp):
TATATATATAA
Found at i:598166 original size:13 final size:13
Alignment explanation
Indices: 598041--598170 Score: 66
Period size: 13 Copynumber: 9.4 Consensus size: 13
598031 GTATATAATA
*
598041 ATATA-AATATAA
1 ATATATAATATAT
* *
598053 ACTATATAGTTTAT
1 A-TATATAATATAT
* *
598067 ATATATAGTTTAT
1 ATATATAATATAT
598080 ATATATAATATAT
1 ATATATAATATAT
* *
598093 ATACTTTATATATAC
1 ATA-TATA-ATATAT
* *
598108 ACTATATAGTTTAT
1 A-TATATAATATAT
598122 AT-TAATAAACTATAT
1 ATAT-AT-AA-TATAT
598137 ATTATATACATAATAT
1 A-TATATA-AT-ATAT
*
598153 ATATATAATTTAT
1 ATATATAATATAT
598166 ATATA
1 ATATA
598171 GTATATGATA
Statistics
Matches: 92, Mismatches: 14, Indels: 23
0.71 0.11 0.18
Matches are distributed among these distances:
12 2 0.02
13 41 0.45
14 15 0.16
15 22 0.24
16 11 0.12
17 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (13 bp):
ATATATAATATAT
Found at i:598175 original size:20 final size:19
Alignment explanation
Indices: 597842--598182 Score: 130
Period size: 20 Copynumber: 17.0 Consensus size: 19
597832 TAAACTTTTC
* *
597842 TTATATATATAATTTATAGT
1 TTATATATAT-ATATATAAT
*
597862 TTATATATATATATATATAC
1 TTATATATATATATATA-AT
* * *
597882 TTATATACTTTATATTTAAA
1 TTATATA-TATATATATAAT
*
597902 CTATATA-A-ACTATATAAT
1 TTATATATATA-TATATAAT
*
597920 TTATACATAATATATATAAT
1 TTATATAT-ATATATATAAT
597940 TTATAATTATGCATAATATATAA-
1 TTAT-A-TAT--AT-ATATATAAT
*
597963 TTATA-AGT-TGTATAT-AT
1 TTATATA-TATATATATAAT
*
597980 TTAAATATAATTCATATATAAT
1 TTATATAT-A-T-ATATATAAT
* *
598002 TTATATATAAATTATATAGT
1 TTATATATATA-TATATAAT
*
598022 TTACGCATAGTATATA-ATAAT
1 TTA--TATA-TATATATATAAT
* * * *
598043 ATAAATATAAACTATATAGT
1 TTATATATATA-TATATAAT
598063 TTATATATATAGT-T-T-AT
1 TTATATATATA-TATATAAT
* *
598080 ATATATA-ATATATATACT
1 TTATATATATATATATAAT
* *
598098 TTATATATACACTATATAGT
1 TTATATATATA-TATATAAT
*
598118 TTATAT-TAATAAACTATATAT
1 TTATATAT-ATATA-TATA-AT
598139 TATATACATAATATATATATAAT
1 T-TAT--AT-ATATATATATAAT
598162 TTATATATAGTATATGATAAT
1 TTATATATA-TATAT-ATAAT
598183 ATAAAAATAA
Statistics
Matches: 241, Mismatches: 41, Indels: 77
0.67 0.11 0.21
Matches are distributed among these distances:
15 1 0.00
16 5 0.02
17 19 0.08
18 24 0.10
19 20 0.08
20 88 0.37
21 30 0.12
22 23 0.10
23 12 0.05
24 14 0.06
25 4 0.02
26 1 0.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (19 bp):
TTATATATATATATATAAT
Found at i:598916 original size:44 final size:44
Alignment explanation
Indices: 598796--599060 Score: 311
Period size: 44 Copynumber: 6.0 Consensus size: 44
598786 CTATGTAAAC
*
598796 TGGTAAGGTCTTACCCTTACACATAGAAGAGGAGCCTTCAGAAA
1 TGGTAAGGTCTTACCCTTGCACATAGAAGAGGAGCCTTCAGAAA
* * * * *
598840 CGATAA-GTCTTACCCTTGCACATAGCATAGGAGCTTTCAGAAA
1 TGGTAAGGTCTTACCCTTGCACATAGAAGAGGAGCCTTCAGAAA
* * *
598883 TGGTAAGGTCTAACCCTTGTACATAGTAGAGGAGCCTTCAGAAA
1 TGGTAAGGTCTTACCCTTGCACATAGAAGAGGAGCCTTCAGAAA
* *
598927 TGGTAAGGTCTTACCCTTGCACATGGAAGAGGAGCCTTTAGAAA
1 TGGTAAGGTCTTACCCTTGCACATAGAAGAGGAGCCTTCAGAAA
* * * * *
598971 TGGTAAGGTCTTACCCTTTCATATAGCAA-AAGAGCCTTGAAAAA
1 TGGTAAGGTCTTACCCTTGCACATAG-AAGAGGAGCCTTCAGAAA
* * * *
599015 TGGTAATGTCTTACCCTTGCACGTAGCAA-AGAAGCCTTAAGAAA
1 TGGTAAGGTCTTACCCTTGCACATAG-AAGAGGAGCCTTCAGAAA
599059 TG
1 TG
599061 TCCTCCAACA
Statistics
Matches: 187, Mismatches: 32, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
43 37 0.20
44 148 0.79
45 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (44 bp):
TGGTAAGGTCTTACCCTTGCACATAGAAGAGGAGCCTTCAGAAA
Found at i:600398 original size:29 final size:29
Alignment explanation
Indices: 600366--600422 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
600356 TTTGGATATG
*
600366 AATTTAATCAAAATTTC-ATTTGGTCATCA
1 AATTTAATCAAAA-TTCAATTTAGTCATCA
600395 AATTTAATCAAAATTCAATTTAGTCATC
1 AATTTAATCAAAATTCAATTTAGTCATC
600423 GATAATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 3 0.12
29 23 0.88
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.40
Consensus pattern (29 bp):
AATTTAATCAAAATTCAATTTAGTCATCA
Found at i:602470 original size:14 final size:14
Alignment explanation
Indices: 602451--602480 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
602441 ATCGATTTTC
*
602451 TTCCTTTTTATCTT
1 TTCCTTTCTATCTT
602465 TTCCTTTCTATCTT
1 TTCCTTTCTATCTT
602479 TT
1 TT
602481 TTTTCTTCTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (14 bp):
TTCCTTTCTATCTT
Found at i:602472 original size:22 final size:21
Alignment explanation
Indices: 602447--602505 Score: 55
Period size: 23 Copynumber: 2.7 Consensus size: 21
602437 TTTGATCGAT
*
602447 TTTCTTCCTTTTTATCTTTTCC
1 TTTCTTCCTTTTTATCTTCT-C
* *
602469 TTTCTATCTTTTTTTTCTTCTC
1 TTTCT-TCCTTTTTATCTTCTC
* *
602491 TTTTTTTCTTTTTAT
1 TTTCTTCCTTTTTAT
602506 TCAAAATTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
21 7 0.24
22 10 0.34
23 12 0.41
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (21 bp):
TTTCTTCCTTTTTATCTTCTC
Found at i:602566 original size:10 final size:10
Alignment explanation
Indices: 602550--602587 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
602540 TTTTTTTTTG
602550 TTTTTTAT-T
1 TTTTTTATCT
602559 TCTTTTTATCT
1 T-TTTTTATCT
*
602570 TTTTCTATCT
1 TTTTTTATCT
602580 TTTTTTAT
1 TTTTTTAT
602588 TAATGTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 1 0.04
10 22 0.88
11 2 0.08
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTTATCT
Found at i:602573 original size:20 final size:20
Alignment explanation
Indices: 602539--602587 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
602529 TTATTTTTTG
* *
602539 CTTTTTTTTTGTTTTT-TAT
1 CTTTTTTTATCTTTTTCTAT
602558 -TTCTTTTTATCTTTTTCTAT
1 CTT-TTTTTATCTTTTTCTAT
602578 CTTTTTTTAT
1 CTTTTTTTAT
602588 TAATGTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 2 0.08
19 11 0.44
20 10 0.40
21 2 0.08
ACGTcount: A:0.08, C:0.10, G:0.02, T:0.80
Consensus pattern (20 bp):
CTTTTTTTATCTTTTTCTAT
Found at i:606875 original size:20 final size:19
Alignment explanation
Indices: 606838--606885 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
606828 TCTAAAACAT
606838 TTTTCAAAATATTATTTTG
1 TTTTCAAAATATTATTTTG
*
606857 ATTTTCAAAAT-TATCTTTTG
1 -TTTTCAAAATAT-TATTTTG
*
606877 CTTTCAAAA
1 TTTTCAAAA
606886 CTAAATCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.52
Consensus pattern (19 bp):
TTTTCAAAATATTATTTTG
Found at i:609510 original size:44 final size:43
Alignment explanation
Indices: 609386--609516 Score: 190
Period size: 44 Copynumber: 3.0 Consensus size: 43
609376 TGTTGGAGGA
* *
609386 CATTTCTGAAGGCTCCTCTGCTATGTGCAAGGATAAAACCTTAC
1 CATTTTTGAAGGCTCCTCTGCTATGTGCAAGG-TAAGACCTTAC
609430 CATTTTTGAAGGCTCCTCTGCTATGTGCAAGGGTAAGACCTTAC
1 CATTTTTGAAGGCTCCTCTGCTATGTGCAA-GGTAAGACCTTAC
* * *
609474 CATTTTTGCAGGCTCCTCTACTATGTGTAAGAGTAAGACCTTA
1 CATTTTTGAAGGCTCCTCTGCTATGTGCAAG-GTAAGACCTTA
609517 AAGCTTTTCG
Statistics
Matches: 80, Mismatches: 5, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
43 1 0.01
44 77 0.96
45 2 0.03
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (43 bp):
CATTTTTGAAGGCTCCTCTGCTATGTGCAAGGTAAGACCTTAC
Found at i:611603 original size:94 final size:95
Alignment explanation
Indices: 611430--611627 Score: 215
Period size: 94 Copynumber: 2.1 Consensus size: 95
611420 ATGCCCACGA
* * * *
611430 GGTACTATCGATACCATGATAAGGGTATCGATACCTAGCAACATGAAATCTAAAATTGGCATCGA
1 GGTAGTATCGATACCATGATAAGGGTAACGATACCTAGAAACATGAAACCTAAAATTGGCATCGA
* *
611495 TACCAGAAGGGGGTATCAGTACCATAGTAT
66 TACCAGAAAGGGGTATCAGTACCACAGTAT
* * * *
611525 GGTAGTATCGATACCATGGTTAA-GGTAACGATA-CTAGAAAACTTG-AACCTAGAATTGGTATC
1 GGTAGTATCGATACCAT-GATAAGGGTAACGATACCTAG-AAACATGAAACCTAAAATTGGCATC
* *
611587 GATACC-GTAAATGGGTATCGGTACCACAGTAT
64 GATACCAG-AAAGGGGTATCAGTACCACAGTAT
* *
611619 AGAAGTATC
1 GGTAGTATC
611628 AGTACCAGGG
Statistics
Matches: 86, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
93 1 0.01
94 51 0.59
95 30 0.35
96 4 0.05
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (95 bp):
GGTAGTATCGATACCATGATAAGGGTAACGATACCTAGAAACATGAAACCTAAAATTGGCATCGA
TACCAGAAAGGGGTATCAGTACCACAGTAT
Found at i:612156 original size:59 final size:58
Alignment explanation
Indices: 611955--612281 Score: 485
Period size: 58 Copynumber: 5.6 Consensus size: 58
611945 TGTACAAAAT
611955 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCAAAAAGA
1 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCAAAAAGA
* * * *
612013 TAAGAAATTCATACTAAGTGTGTGAATTTTTGTATTGGGCAATTTGTGTGCAAAAATA
1 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCAAAAAGA
* *
612071 TAAGAAATTCATACTAAGTGTGTGAATTTCCGTATTGGGCACTTTGTGTGCCAAAAAGA
1 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTG-CAAAAAGA
* * * * *
612130 TAAGAAATTCATGCTAAGTGTATGAATTTCCTTATTAGGCACTTTGTGTTCCAAAAAGA
1 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTG-TGCAAAAAGA
* * *
612189 TAAGAAATTCATACTAAGTGTATGAATTTTCATATTGGGCACATTGTGTGCGAAAAGA
1 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCAAAAAGA
*
612247 TAAGAAATTCATACTAAGTGTGA-GAATTTTTGTAT
1 TAAGAAATTCATACTAAGTGT-ATGAATTTTCGTAT
612282 AGGAAATTTA
Statistics
Matches: 244, Mismatches: 22, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
58 140 0.57
59 103 0.42
60 1 0.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (58 bp):
TAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCAAAAAGA
Found at i:612252 original size:176 final size:175
Alignment explanation
Indices: 611955--612275 Score: 518
Period size: 176 Copynumber: 1.8 Consensus size: 175
611945 TGTACAAAAT
* * *
611955 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCAAAAAGATAAGAAA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTTTGTGTCCAAAAAGATAAGAAA
* ** *
612020 TTCATACTAAGTGTGTGAATTTTTGTATTGGGCAATTTGTGTGCAAAAATATAAGAAATTCATAC
66 TTCATACTAAGTGTATGAATTTTCATATTGGGCAATTTGTGTGCAAAAAGATAAGAAATTCATAC
*
612085 TAAGTGTGTGAATTTCCGTATTGGGCACTTTGTGTGCCAAAAAGA
131 TAAGTGTGAGAATTTCCGTATTGGGCACTTTGTGTGCCAAAAAGA
* *
612130 TAAGAAATTCATGCTAAGTGTATGAATTTCCTTATTAGGCACTTTGTGTTCCAAAAAGATAAGAA
1 TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTTTGTG-TCCAAAAAGATAAGAA
*
612195 ATTCATACTAAGTGTATGAATTTTCATATTGGGCACA-TTGTGTGCGAAAAGATAAGAAATTCAT
65 ATTCATACTAAGTGTATGAATTTTCATATTGGGCA-ATTTGTGTGCAAAAAGATAAGAAATTCAT
612259 ACTAAGTGTGAGAATTT
129 ACTAAGTGTGAGAATTT
612276 TTGTATAGGA
Statistics
Matches: 133, Mismatches: 11, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
175 44 0.33
176 88 0.66
177 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (175 bp):
TAAGAAATTCATACTAAGTGTATGAATTTCCGTATTAGGCACTTTGTGTCCAAAAAGATAAGAAA
TTCATACTAAGTGTATGAATTTTCATATTGGGCAATTTGTGTGCAAAAAGATAAGAAATTCATAC
TAAGTGTGAGAATTTCCGTATTGGGCACTTTGTGTGCCAAAAAGA
Found at i:612615 original size:68 final size:68
Alignment explanation
Indices: 612536--612682 Score: 204
Period size: 68 Copynumber: 2.2 Consensus size: 68
612526 TATCTATGCT
* * * *
612536 AGTTATATGAAAGGCTAAGTACCTTTGAGGCCTAACTATGCATTTTACATAAAAGTTTCATTTAT
1 AGTTATATGAAAGGCTAAGTACCTTTGAGGCCTAACTATGCATTTGACAGAAAAGTGTCAATTAT
612601 ACC
66 ACC
* * * *
612604 AGTTATATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTTCATTTGACAGAAATGTGTCAATTAT
1 AGTTATATGAAAGGCTAAGTACCTTTGAGGCCTAACTATGCATTTGACAGAAAAGTGTCAATTAT
*
612669 GCC
66 ACC
*
612672 AGTTAGATGAA
1 AGTTATATGAA
612683 CTGTTAAACA
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.33
Consensus pattern (68 bp):
AGTTATATGAAAGGCTAAGTACCTTTGAGGCCTAACTATGCATTTGACAGAAAAGTGTCAATTAT
ACC
Found at i:612718 original size:29 final size:29
Alignment explanation
Indices: 612676--612736 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
612666 TATGCCAGTT
* *
612676 AGATGAACTGTTAAACACTGTTGAGTAAA
1 AGATGAACGGTTAAACACTGTTGAATAAA
*
612705 AGATGAACGGTTAAACATTGTTGAATAAA
1 AGATGAACGGTTAAACACTGTTGAATAAA
612734 AGA
1 AGA
612737 ATAATGAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.26
Consensus pattern (29 bp):
AGATGAACGGTTAAACACTGTTGAATAAA
Found at i:614681 original size:69 final size:69
Alignment explanation
Indices: 614570--614702 Score: 266
Period size: 69 Copynumber: 1.9 Consensus size: 69
614560 AAGCCAAAGT
614570 AATCGAGAGAGCTCAAGTGGAAACATTAGCAGCGGAACATATTTTGCATATGGGGAAAAGGGTTG
1 AATCGAGAGAGCTCAAGTGGAAACATTAGCAGCGGAACATATTTTGCATATGGGGAAAAGGGTTG
614635 GAGC
66 GAGC
614639 AATCGAGAGAGCTCAAGTGGAAACATTAGCAGCGGAACATATTTTGCATATGGGGAAAAGGGTT
1 AATCGAGAGAGCTCAAGTGGAAACATTAGCAGCGGAACATATTTTGCATATGGGGAAAAGGGTT
614703 AGAATGCCTT
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 64 1.00
ACGTcount: A:0.35, C:0.13, G:0.31, T:0.21
Consensus pattern (69 bp):
AATCGAGAGAGCTCAAGTGGAAACATTAGCAGCGGAACATATTTTGCATATGGGGAAAAGGGTTG
GAGC
Found at i:616462 original size:95 final size:95
Alignment explanation
Indices: 616335--616524 Score: 283
Period size: 95 Copynumber: 2.0 Consensus size: 95
616325 ATACCGATGA
* *
616335 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGCAACATCGAATCTAAAATTGGTATCGA
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGAAACATCGAACCTAAAATTGGTATCGA
* *
616400 TA-CTGGAAGGGGTTATTGGTACAATAGTAT
66 TATC-GGAAGGGGGTATCGGTACAATAGTAT
* * *
616430 GGTAGTATCGATACCATGGTAAGGGTATCGATACTAAGAAACTTTGAACCTAAAATTGGTATCGA
1 GGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGAAACATCGAACCTAAAATTGGTATCGA
* *
616495 TATCGTAAGGGGGTATCGGTACCATAGTAT
66 TATCGGAAGGGGGTATCGGTACAATAGTAT
616525 AGAAGTGTTG
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
95 84 0.99
96 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (95 bp):
GGTAGTATCGATACCATGGTAAGGGTATCGATACCAAGAAACATCGAACCTAAAATTGGTATCGA
TATCGGAAGGGGGTATCGGTACAATAGTAT
Found at i:616553 original size:95 final size:95
Alignment explanation
Indices: 616338--616560 Score: 243
Period size: 95 Copynumber: 2.3 Consensus size: 95
616328 CCGATGAGGT
* * * * *
616338 AGTATCGATACCATGGTAAGGGTATCGATACCAAGCAACATCGAATCTAAAATTGGTATCGATAC
1 AGTATCGATACCAGGGTAAGAGTATCGATACTAAGAAACATCGAACCTAAAATTGGTATCGATAC
* * * *
616403 TGGAAGGGGTTATTGGTACAATAGTATGGT
66 TGGAAGGGGGTATCGGTACAATAGTATAGA
* * * *
616433 AGTATCGATACCATGGTAAGGGTATCGATACTAAGAAACTTTGAACCTAAAATTGGTATCGATA-
1 AGTATCGATACCAGGGTAAGAGTATCGATACTAAGAAACATCGAACCTAAAATTGGTATCGATAC
* *
616497 TCGTAAGGGGGTATCGGTACCATAGTATAGA
66 T-GGAAGGGGGTATCGGTACAATAGTATAGA
* * * *
616528 AGTGTTGGTACCAGGGT-AGTAGTATCGACACTA
1 AGTATCGATACCAGGGTAAG-AGTATCGATACTA
616561 CTGAGCTTGG
Statistics
Matches: 109, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
94 3 0.03
95 106 0.97
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (95 bp):
AGTATCGATACCAGGGTAAGAGTATCGATACTAAGAAACATCGAACCTAAAATTGGTATCGATAC
TGGAAGGGGGTATCGGTACAATAGTATAGA
Found at i:617062 original size:59 final size:58
Alignment explanation
Indices: 616861--617174 Score: 409
Period size: 58 Copynumber: 5.4 Consensus size: 58
616851 TGTACAAAAT
* *
616861 TAAGAAATGCATACTAAGTGTATGAATTTTCATATTGGGCACTTTGTGTTG-AAAAAGA
1 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTG-TGCAAAAAGA
* * * * *
616919 TAAGAAATTCATAATAAGTGTGTCAA-TTTCTGTATTGGGCAGTTTGTGTGCAAAAATA
1 TAAGAAATTCATACTAAGTGTATGAATTTTC-GTATTGGGCACTTTGTGTGCAAAAAGA
* * * *
616977 TAAGAAATTCACACTAAGTGTGTGAATTTTCATATTGGGAACTTTGTGTGCCAAAAAGA
1 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTG-CAAAAAGA
* *
617036 TATGAAATTCATACTAAGTGTATGAATTTCCGTATTGGG-AGCTTTGTGTGCCAAAAAGA
1 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCA-CTTTGTGTG-CAAAAAGA
* * *
617095 TAAGAAATTCATATTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAACAAGA
1 TAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCAAAAAGA
*
617153 TAATAAATTCATACTAAGTGTA
1 TAAGAAATTCATACTAAGTGTA
617175 AGGATTTTTG
Statistics
Matches: 226, Mismatches: 24, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
57 6 0.03
58 110 0.49
59 109 0.48
60 1 0.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (58 bp):
TAAGAAATTCATACTAAGTGTATGAATTTTCGTATTGGGCACTTTGTGTGCAAAAAGA
Found at i:617082 original size:117 final size:117
Alignment explanation
Indices: 616856--617174 Score: 441
Period size: 117 Copynumber: 2.7 Consensus size: 117
616846 CTAAGTGTAC
*
616856 AAAAT-TAAGAAATGCATACTAAGTGTATGAATTTTCATATTGGGCACTTTGTGTTG-AAAAAGA
1 AAAATATAAGAAATTCATACTAAGTGTATGAATTTTCATATTGGGCACTTTGTG-TGCAAAAAGA
* * * *
616919 TAAGAAATTCATAATAAGTGTGTCAATTTCTGTATTGGGCAGTTTGTGTG-CA
65 TATGAAATTCATACTAAGTGTATCAATTTCCGTATTGGGCAGTTTGTGTGCCA
* * *
616971 AAAATATAAGAAATTCACACTAAGTGTGTGAATTTTCATATTGGGAACTTTGTGTGCCAAAAAGA
1 AAAATATAAGAAATTCATACTAAGTGTATGAATTTTCATATTGGGCACTTTGTGTG-CAAAAAGA
*
617036 TATGAAATTCATACTAAGTGTATGAATTTCCGTATTGGG-AGCTTTGTGTGCCA
65 TATGAAATTCATACTAAGTGTATCAATTTCCGTATTGGGCAG-TTTGTGTGCCA
* * * * *
617089 AAAAGATAAGAAATTCATATTAAGTGTATGAATTTCCGTATTGGGCACTTTGTGTGCAACAAGAT
1 AAAATATAAGAAATTCATACTAAGTGTATGAATTTTCATATTGGGCACTTTGTGTGCAAAAAGAT
617154 AAT-AAATTCATACTAAGTGTA
66 -ATGAAATTCATACTAAGTGTA
617175 AGGATTTTTG
Statistics
Matches: 181, Mismatches: 17, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
115 7 0.04
116 46 0.25
117 75 0.41
118 53 0.29
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (117 bp):
AAAATATAAGAAATTCATACTAAGTGTATGAATTTTCATATTGGGCACTTTGTGTGCAAAAAGAT
ATGAAATTCATACTAAGTGTATCAATTTCCGTATTGGGCAGTTTGTGTGCCA
Found at i:617477 original size:68 final size:68
Alignment explanation
Indices: 617402--617675 Score: 314
Period size: 68 Copynumber: 4.0 Consensus size: 68
617392 AAAAGATTTA
* * * * *
617402 AGGCCTAACTGTGTATATGATAAAAAGGTGTCATTTATGCCAGTTAGATTAAAGGTTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGTTAAGTGCCT
617467 TTG
66 TTG
** * * * *
617470 AGGCCTAACTGTGTGTTTTACAGAAATGTGTCATTTATGCGAGTTAAATGAAAGGTTAAGTGCCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGTTAAGTGCCT
617535 TTG
66 TTG
* * * * * *
617538 AGGCCTAACTGTACATCTGTCAGAGAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGTCT
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGTTAAGTGCCT
*
617603 TTC
66 TTG
* * * * * * * *
617606 AGGCCTAGCTATGCATTTGACAGAAAGATATCAATTATGCCAGTTAGATGAATGGTTAAGTACCG
1 AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGTTAAGTGCCT
617671 TTG
66 TTG
617674 AG
1 AG
617676 TAAAAGAATA
Statistics
Matches: 169, Mismatches: 37, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
68 169 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (68 bp):
AGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGTTAAGTGCCT
TTG
Found at i:617744 original size:81 final size:81
Alignment explanation
Indices: 617608--617844 Score: 269
Period size: 81 Copynumber: 2.9 Consensus size: 81
617598 TGTCTTTCAG
* * *
617608 GCCTAGCTATGCATTTGACAGAAAGATATCAATTATGCCAGTTAGATGAAT-GGTTAAGTACCGT
1 GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATG-ATCGGTTAAGTACCGT
*
617672 TGAGTAAAAGAATAATG
65 TGAGTAAAAGAATAATA
* * ** * *
617689 GCCTTGTTGTTTATTTGAAAGAAAGGTGTCAATTATGCCAGTTAGATGATCGGTTATGTACCGTT
1 GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGATCGGTTAAGTACCGTT
* * *
617754 GAGTAACATAATATTA
66 GAGTAAAAGAATAATA
* * * * * * * *
617770 TCCTAGCTGTGCATTTGACAGACATGTGTCAATTATTCCAGTTAGATGAACAGTTAAATACTGTT
1 GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGATCGGTTAAGTACCGTT
617835 GAGTAAAAGA
66 GAGTAAAAGA
617845 TGAACGGTTA
Statistics
Matches: 126, Mismatches: 29, Indels: 2
0.80 0.18 0.01
Matches are distributed among these distances:
80 2 0.02
81 124 0.98
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.32
Consensus pattern (81 bp):
GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGATCGGTTAAGTACCGTT
GAGTAAAAGAATAATA
Found at i:617855 original size:29 final size:29
Alignment explanation
Indices: 617813--617870 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
617803 TATTCCAGTT
* *
617813 AGATGAACAGTTAAATACTGTTGAGTAAA
1 AGATGAACAGTTAAACACTGTTGAATAAA
* *
617842 AGATGAACGGTTAAACATTGTTGAATAAA
1 AGATGAACAGTTAAACACTGTTGAATAAA
617871 TGAATAATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (29 bp):
AGATGAACAGTTAAACACTGTTGAATAAA
Found at i:619800 original size:2 final size:2
Alignment explanation
Indices: 619787--619846 Score: 93
Period size: 2 Copynumber: 30.0 Consensus size: 2
619777 TAAAATAAAC
*
619787 AT AT AA 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
* *
619829 AT AT GT AT AG AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
619847 TGAATGCATA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:620994 original size:3 final size:3
Alignment explanation
Indices: 620988--621022 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
620978 AATGATGATA
*
620988 AAT AAT AAT AAT AGT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
621023 CCAAAAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:622165 original size:17 final size:17
Alignment explanation
Indices: 622143--622180 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
622133 TTTTTCAATA
622143 TTAAAAGAA-CAAAAATT
1 TTAAAA-AATCAAAAATT
*
622160 TTAAAAAATCAGAAATT
1 TTAAAAAATCAAAAATT
622177 TTAA
1 TTAA
622181 CAGATGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (17 bp):
TTAAAAAATCAAAAATT
Found at i:624409 original size:2 final size:2
Alignment explanation
Indices: 624396--624441 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
624386 TAAAATAAAC
* * *
624396 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
624438 AT AT
1 AT AT
624442 TGAATGCATA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:625585 original size:3 final size:3
Alignment explanation
Indices: 625571--625616 Score: 67
Period size: 3 Copynumber: 15.7 Consensus size: 3
625561 TAATTAATTT
* *
625571 ATA ATG ATA ATA ATA ATA ATA ATA GTA ATA ATA ATA ATA AT- ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
625617 CCAAAAAATG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:627468 original size:24 final size:24
Alignment explanation
Indices: 627347--627459 Score: 165
Period size: 24 Copynumber: 4.7 Consensus size: 24
627337 ATCATAAAAT
*
627347 AATCCAGGTCAAGTA-TCAGATCAA
1 AATCCAGGTCAAGTATTCA-ATCAG
*
627371 AATCTAGGTCAAGTATTCAATCAG
1 AATCCAGGTCAAGTATTCAATCAG
627395 AATCCAGGTCAAGTATTCAATCAG
1 AATCCAGGTCAAGTATTCAATCAG
* *
627419 AATCCAGGTCAAGTATCCGATCAG
1 AATCCAGGTCAAGTATTCAATCAG
*
627443 AATCCAGGTCAGGTATT
1 AATCCAGGTCAAGTATT
627460 ATAATAGAAA
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
24 78 0.96
25 3 0.04
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (24 bp):
AATCCAGGTCAAGTATTCAATCAG
Found at i:630970 original size:3 final size:3
Alignment explanation
Indices: 630956--631004 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
630946 TAATTAATTT
* * *
630956 ATA ATG ATA ATA ATA ATA ATA ATA ATA GTA ATG ATA ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
631003 AT
1 AT
631005 CCAAAAAATG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:632160 original size:2 final size:2
Alignment explanation
Indices: 632110--632144 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
632100 CTTGTGTAGA
632110 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
632145 GTAAAATGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:632376 original size:12 final size:11
Alignment explanation
Indices: 632348--632394 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
632338 ATAACAAATA
* *
632348 AATAATATAAA
1 AATAATACAAG
632359 AATAATACAAG
1 AATAATACAAG
632370 TAATAATACAAG
1 -AATAATACAAG
*
632382 AATAATAAAAG
1 AATAATACAAG
632393 AA
1 AA
632395 AGAGAAAGTA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
11 21 0.66
12 11 0.34
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.21
Consensus pattern (11 bp):
AATAATACAAG
Found at i:632462 original size:71 final size:78
Alignment explanation
Indices: 632351--632511 Score: 194
Period size: 71 Copynumber: 2.1 Consensus size: 78
632341 ACAAATAAAT
*
632351 AATATAAAAATAATACAAGTAATAATACAAGAATAATAAAA-G-AAAGAGAA-AGTAAAAAAT-A
1 AATATAAAAATAATACAAGTAATAATACAAGAAGAATAAAAGGAAAAGAGAATAGTAAAAAATAA
632412 TAAATATAATA-A
66 TAAATATAATAGA
* * * *
632424 AATATAAAAAT-ATAC-A-TATATAATATAAGTAGAATAAAAGGAAAATATAATAGTAAAAAATA
1 AATATAAAAATAATACAAGTA-ATAATACAAGAAGAATAAAAGGAAAAGAGAATAGTAAAAAATA
*
632486 ATAAATATAATAGT
65 ATAAATATAATAGA
632500 AATAATAAAAAT
1 AAT-ATAAAAAT
632512 GCAAAGAAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
70 2 0.03
71 18 0.24
72 5 0.07
73 17 0.23
74 10 0.13
75 12 0.16
76 3 0.04
77 8 0.11
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.24
Consensus pattern (78 bp):
AATATAAAAATAATACAAGTAATAATACAAGAAGAATAAAAGGAAAAGAGAATAGTAAAAAATAA
TAAATATAATAGA
Found at i:633160 original size:37 final size:37
Alignment explanation
Indices: 633062--633163 Score: 132
Period size: 37 Copynumber: 2.8 Consensus size: 37
633052 GTGCTTGTGG
* * ** *
633062 ATCCTATCTTTAGGAGTTTAAATCATAATAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAACTCT
* *
633099 ATCATATTTTTAGGAGTTTAAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAACTCT
*
633136 ATCCTATTTTTAGGAGTTTGAATCCTAG
1 ATCCTATTTTTAGGAGTTTAAATCCTAG
633164 TAGGACGAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 56 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCCTAGCAAAACTCT
Found at i:633825 original size:58 final size:58
Alignment explanation
Indices: 633731--633868 Score: 240
Period size: 58 Copynumber: 2.4 Consensus size: 58
633721 AGTTGGATAT
* *
633731 CCTTCGTCGTGAAGCTGAAATCCAATATAAATATGGATGATGCTTGTGCGCACGATTC
1 CCTTCGTCGTGAAGTTGAAATCCAATATAAAGATGGATGATGCTTGTGCGCACGATTC
* *
633789 CCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGGATGATGCTTGTGTGCACGATTC
1 CCTTCGTCGTGAAGTTGAAATCCAATATAAAGATGGATGATGCTTGTGCGCACGATTC
633847 CCTTCGTCGTGAAGTTGAAATC
1 CCTTCGTCGTGAAGTTGAAATC
633869 GCGGGTGGCT
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 76 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.30
Consensus pattern (58 bp):
CCTTCGTCGTGAAGTTGAAATCCAATATAAAGATGGATGATGCTTGTGCGCACGATTC
Found at i:634292 original size:106 final size:106
Alignment explanation
Indices: 633955--635435 Score: 1985
Period size: 106 Copynumber: 14.0 Consensus size: 106
633945 GCATTGTTCT
* * ** * *
633955 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTATTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACA
* * * * * *
634019 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACGTGTGTTGTGTC
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
634061 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * * *
634120 TCAACCG-CCTCTTCGTCGTGAAGTTGAGCTT-CTATTGCCTTG
66 CCAGCGGTCC-CTTCGTCGTGAAGTTGAACTTGC-GTTGTC-TG
* * * ** * *
634162 G-GTTCAAGATCATTCATTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
634226 CCATCGGTTCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
634267 GAGTCCAATATCCTACGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTAACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
634332 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
634373 GAGTCCAATATCCTTCGTTGTGAAGATGAAATTGGCTCTAAAATTGCGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
634438 CCAGCGGTCCCTTCGTCGTGAAGTTTAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
634479 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
634544 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
634585 GAGTCCAGTATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
634650 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
634691 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * *
634756 CCAGCGGTCCCTTCATTGTGAAGTTGAACTTGCATTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
634797 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTATTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
634862 CCAGTGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
634903 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTAGGAATTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * * * * *
634968 CCAGTGGTCCCTTCATCATGAAGTTAAATTTGCATTTTTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** *
635009 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
635074 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
635115 GAGTCCAATATCCTTCGCTGTGAAGTTAAAATTGGCTCTGAAATTGGAAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * *
635180 CCAGTGGTCCCTTCGTCGTGAAGTTGTACTTGTGTTATCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
635221 GAGTCCAATATCCTTCCCTATGAAGTTGAAATTGGATCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
**
635286 CCATTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
635327 GAGTCCAATATCCTTCGCTGTGAAGTTGACATTGGCTCCGAAATTGGAAAATT-ATTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * * * *
635391 CCATCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
635432 GAGT
1 GAGT
635436 GGCATGATAT
Statistics
Matches: 1225, Mismatches: 137, Indels: 27
0.88 0.10 0.02
Matches are distributed among these distances:
99 2 0.00
100 68 0.06
101 5 0.00
102 4 0.00
104 3 0.00
105 54 0.04
106 1086 0.89
107 3 0.00
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.35
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:635836 original size:18 final size:18
Alignment explanation
Indices: 635810--635845 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
635800 GTTGAATCCC
*
635810 CAAATAATGCCCCAATAT
1 CAAAAAATGCCCCAATAT
635828 CAAAAAATGCCCCAATAT
1 CAAAAAATGCCCCAATAT
635846 TTGATGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.28, G:0.06, T:0.19
Consensus pattern (18 bp):
CAAAAAATGCCCCAATAT
Found at i:636288 original size:22 final size:22
Alignment explanation
Indices: 636262--636331 Score: 122
Period size: 22 Copynumber: 3.2 Consensus size: 22
636252 TTATGTTTGG
636262 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
636284 TCAAAGGTTTGGCATGTGATGC
1 TCAAAGGTTTGGCATTTGATGC
*
636306 TCATAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
636328 TCAA
1 TCAA
636332 CAGTTTGATG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:636983 original size:12 final size:11
Alignment explanation
Indices: 636956--636998 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
636946 TTCTTTTTGA
636956 TTTTTGTTCTTTC
1 TTTTT-TTC-TTC
636969 TTTCTTTTCTTC
1 TTT-TTTTCTTC
*
636981 TTTTTTACTTC
1 TTTTTTTCTTC
636992 TTTTTTT
1 TTTTTTT
636999 TTGCCCTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 13 0.48
12 6 0.22
13 6 0.22
14 2 0.07
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTTTTTCTTC
Found at i:641621 original size:28 final size:27
Alignment explanation
Indices: 641527--641621 Score: 77
Period size: 28 Copynumber: 3.3 Consensus size: 27
641517 AAATGAAAAG
641527 AAAAGAAAACAAATTAAGTAAAATGATAAA
1 AAAAGAAAACAAA-TAA-TAAAAT-ATAAA
* * * *
641557 ATGAAGAAAGCAAA-GATAAAATAGTAAGT
1 A-AAAGAAAACAAATAATAAAATA-TAA-A
641586 AAAA-AAAACAAATAATAAAATATATAA
1 AAAAGAAAACAAATAATAAAATATA-AA
641613 AAAAGAAAA
1 AAAAGAAAA
641622 GAAAAGAAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
27 14 0.27
28 24 0.47
29 2 0.04
30 1 0.02
31 10 0.20
ACGTcount: A:0.71, C:0.03, G:0.11, T:0.16
Consensus pattern (27 bp):
AAAAGAAAACAAATAATAAAATATAAA
Found at i:642241 original size:15 final size:15
Alignment explanation
Indices: 642223--642334 Score: 56
Period size: 15 Copynumber: 7.4 Consensus size: 15
642213 AAGAGAAAGT
642223 TAAAAAATATAATAA
1 TAAAAAATATAATAA
* *
642238 TAAAATATA-AAAAA
1 TAAAAAATATAATAA
* *
642252 TATACATATATAAT-A
1 TA-AAAAATATAATAA
* *
642267 TAAATAAGTAGAATAA
1 TAAA-AAATATAATAA
*
642283 -AAGGAAAATATAATAG
1 TAA--AAAATATAATAA
642299 T--AAAA-ATAATAA
1 TAAAAAATATAATAA
642311 TAAATATAATAGTAATAA
1 TAAA-A-AATA-TAATAA
642329 TAAAAA
1 TAAAAA
642335 TGCAAAGAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 25
0.66 0.11 0.23
Matches are distributed among these distances:
12 7 0.10
13 4 0.06
14 8 0.11
15 26 0.36
16 14 0.19
17 3 0.04
18 10 0.14
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (15 bp):
TAAAAAATATAATAA
Found at i:642242 original size:13 final size:13
Alignment explanation
Indices: 642226--642321 Score: 57
Period size: 12 Copynumber: 7.8 Consensus size: 13
642216 AGAAAGTTAA
642226 AAAATATAATAAT
1 AAAATATAATAAT
642239 -AAA-AT-ATAA-
1 AAAATATAATAAT
642248 AAAATATACAT-AT
1 AAAATATA-ATAAT
*
642261 ATAATATAAATAAGT
1 AAAATAT-AATAA-T
* **
642276 AGAATA-AA-AGG
1 AAAATATAATAAT
*
642287 AAAATATAATAGT
1 AAAATATAATAAT
642300 AAAA-ATAATAAT
1 AAAATATAATAAT
642312 -AAATATAATA
1 AAAATATAATA
642322 GTAATAATAA
Statistics
Matches: 65, Mismatches: 7, Indels: 23
0.68 0.07 0.24
Matches are distributed among these distances:
10 7 0.11
11 12 0.18
12 20 0.31
13 18 0.28
14 2 0.03
15 6 0.09
ACGTcount: A:0.67, C:0.01, G:0.05, T:0.27
Consensus pattern (13 bp):
AAAATATAATAAT
Found at i:642248 original size:22 final size:22
Alignment explanation
Indices: 642223--642270 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
642213 AAGAGAAAGT
642223 TAAAAAATATA-ATAATAAAATA
1 TAAAAAATATACAT-ATAAAATA
*
642245 TAAAAAATATACATATATAATA
1 TAAAAAATATACATATAAAATA
642267 TAAA
1 TAAA
642271 TAAGTAGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAAAAATATACATATAAAATA
Found at i:642309 original size:12 final size:12
Alignment explanation
Indices: 642287--642331 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
642277 GAATAAAAGG
642287 AAAATATAATAGT
1 AAAA-ATAATAGT
*
642300 AAAAATAATAAT
1 AAAAATAATAGT
*
642312 AAATATAATAGT
1 AAAAATAATAGT
*
642324 AATAATAA
1 AAAAATAA
642332 AAATGCAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (12 bp):
AAAAATAATAGT
Found at i:642940 original size:37 final size:37
Alignment explanation
Indices: 642890--642979 Score: 126
Period size: 37 Copynumber: 2.4 Consensus size: 37
642880 GGATCCTATC
* *
642890 TTTAGGAGTTTAAATCATAATAGAACTCTATCATATT
1 TTTAGGAGTTTAAATCATAACAAAACTCTATCATATT
* * *
642927 TTTAGGAGTTTAAATCCTAGCAAAATTCTATCATATT
1 TTTAGGAGTTTAAATCATAACAAAACTCTATCATATT
*
642964 TTTAGGAGTTTGAATC
1 TTTAGGAGTTTAAATC
642980 CTAGTAGGAC
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.41
Consensus pattern (37 bp):
TTTAGGAGTTTAAATCATAACAAAACTCTATCATATT
Found at i:644050 original size:20 final size:20
Alignment explanation
Indices: 644025--644083 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
644015 GAGGGCTGGA
644025 AACCGGTT-TGACCGGTTTTC
1 AACCGGTTCTGACCGG-TTTC
644045 AACCGGTTCTGACCGGTTTC
1 AACCGGTTCTGACCGGTTTC
* **
644065 GACCGGTTCAAACCGGTTT
1 AACCGGTTCTGACCGGTTT
644084 GACCTGTCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
20 28 0.80
21 7 0.20
ACGTcount: A:0.17, C:0.27, G:0.25, T:0.31
Consensus pattern (20 bp):
AACCGGTTCTGACCGGTTTC
Found at i:644061 original size:10 final size:9
Alignment explanation
Indices: 644026--644114 Score: 61
Period size: 10 Copynumber: 9.2 Consensus size: 9
644016 AGGGCTGGAA
644026 ACCGGTTTG
1 ACCGGTTTG
*
644035 ACCGGTTTTCA
1 ACCGG-TTT-G
644046 ACCGGTTCTG
1 ACCGGTT-TG
644056 ACCGGTTTCG
1 ACCGGTTT-G
**
644066 ACCGGTTCAA
1 ACCGGTT-TG
644076 ACCGGTTTG
1 ACCGGTTTG
* *
644085 ACCTGTCTG
1 ACCGGTTTG
*
644094 AACCGATTTG
1 -ACCGGTTTG
*
644104 ACCGGTCTG
1 ACCGGTTTG
644113 AC
1 AC
644115 GCGACCTGAC
Statistics
Matches: 61, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
9 22 0.36
10 33 0.54
11 6 0.10
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.29
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:644079 original size:30 final size:28
Alignment explanation
Indices: 644026--644087 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 28
644016 AGGGCTGGAA
644026 ACCGGTTTGACCGGTTTTCAACCGGTTCTG
1 ACCGGTTTGACCGG-TTTCAACCGGTT-TG
644056 ACCGGTTTCGACCGG-TTCAAACCGGTTTG
1 ACCGGTTT-GACCGGTTTC-AACCGGTTTG
644085 ACC
1 ACC
644088 TGTCTGAACC
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
29 8 0.27
30 16 0.53
31 6 0.20
ACGTcount: A:0.16, C:0.29, G:0.26, T:0.29
Consensus pattern (28 bp):
ACCGGTTTGACCGGTTTCAACCGGTTTG
Found at i:644097 original size:19 final size:19
Alignment explanation
Indices: 644075--644113 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
644065 GACCGGTTCA
* *
644075 AACCGGTTTGACCTGTCTG
1 AACCGATTTGACCGGTCTG
644094 AACCGATTTGACCGGTCTG
1 AACCGATTTGACCGGTCTG
644113 A
1 A
644114 CGCGACCTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.28
Consensus pattern (19 bp):
AACCGATTTGACCGGTCTG
Found at i:644124 original size:19 final size:19
Alignment explanation
Indices: 644102--644145 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
644092 TGAACCGATT
* *
644102 TGACCGGTCTGACGCGACC
1 TGACCGGACTGACCCGACC
*
644121 TGACCCGACTGACCCGACC
1 TGACCGGACTGACCCGACC
*
644140 CGACCG
1 TGACCG
644146 TTGACCGTTG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.18, C:0.43, G:0.27, T:0.11
Consensus pattern (19 bp):
TGACCGGACTGACCCGACC
Found at i:644153 original size:7 final size:7
Alignment explanation
Indices: 644141--644184 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
644131 GACCCGACCC
644141 GACCGTT
1 GACCGTT
644148 GACCGTT
1 GACCGTT
644155 GACCGTT
1 GACCGTT
*
644162 GACTGTT
1 GACCGTT
*
644169 GTCCG-T
1 GACCGTT
644175 GACCGTT
1 GACCGTT
644182 GAC
1 GAC
644185 TTCCTTTGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
6 5 0.16
7 27 0.84
ACGTcount: A:0.14, C:0.27, G:0.30, T:0.30
Consensus pattern (7 bp):
GACCGTT
Found at i:651359 original size:7 final size:7
Alignment explanation
Indices: 651347--651390 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
651337 TGCCCGACCC
651347 GACCGTT
1 GACCGTT
651354 GACCGTT
1 GACCGTT
*
651361 GACTGTT
1 GACCGTT
651368 GACCG-T
1 GACCGTT
651374 GACCGTT
1 GACCGTT
*
651381 GACCATT
1 GACCGTT
651388 GAC
1 GAC
651391 TTCCTTTGAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
6 6 0.18
7 27 0.82
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.27
Consensus pattern (7 bp):
GACCGTT
Found at i:651364 original size:27 final size:27
Alignment explanation
Indices: 651334--651391 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
651324 GACCAGACCC
*
651334 GACTGCCCGACC-CGACCGTTGACCGTT
1 GACTG-CCGACCGCGACCGTTGACCATT
** *
651361 GACTGTTGACCGTGACCGTTGACCATT
1 GACTGCCGACCGCGACCGTTGACCATT
651388 GACT
1 GACT
651392 TCCTTTGACC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 4 0.15
27 22 0.85
ACGTcount: A:0.17, C:0.33, G:0.26, T:0.24
Consensus pattern (27 bp):
GACTGCCGACCGCGACCGTTGACCATT
Found at i:651389 original size:20 final size:21
Alignment explanation
Indices: 651347--651390 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
651337 TGCCCGACCC
**
651347 GACCGTTGACCGTTGACTGTT
1 GACCGTTGACCGTTGACCATT
651368 GACCG-TGACCGTTGACCATT
1 GACCGTTGACCGTTGACCATT
651388 GAC
1 GAC
651391 TTCCTTTGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.18, C:0.27, G:0.27, T:0.27
Consensus pattern (21 bp):
GACCGTTGACCGTTGACCATT
Found at i:653013 original size:11 final size:11
Alignment explanation
Indices: 652984--653012 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
652974 CATCAAGTTA
652984 TTTGTTTTGTT
1 TTTGTTTTGTT
652995 TTTGTTTTGTT
1 TTTGTTTTGTT
653006 TTT-TTTT
1 TTTGTTTT
653013 TTGTGAGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (11 bp):
TTTGTTTTGTT
Done.