Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001981.1 Hibiscus syriacus cultivar Beakdansim tig00004035_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: 1059896
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 5
Found at i:277528 original size:225 final size:226
Alignment explanation
Indices: 277082--277579 Score: 856
Period size: 225 Copynumber: 2.2 Consensus size: 226
277072 TGGGGCTTTG
* *
277082 GAAATCCGACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAGCATAATAGG
1 GAAATCCGACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATAATAGG
* * **
277147 TAATGCTTATATAACTTAATAGGTAGCGCCTTTTTAAAGTTGATGGGGCTTTGGAAATTTGACGA
66 TAATGCTTATATAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTGGAAATCCGACGA
*
277212 TAACAAAATAGGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAA
131 CAACAAAATAGGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAA
* *
277277 TGTTACCAAAGTTTAAATTGATAGAGCCTTA
196 TGTTACCAAAGTTTAAACTAATAGAGCCTTA
* *
277308 GAAATCCGACGATAACATAACCGGTTAATTACTGGAAATATTATCAAGCATAATAACATATTAGG
1 GAAATCCGACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATAATAGG
277373 TAGA-GCTTATATAACGTAATAGGTAGCGCCTTTTTAAAGCTGAT-GGGCTTTGGAAATCCGACG
66 TA-ATGCTTATATAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTGGAAATCCGACG
*
277436 ACAACAAAATAGGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAATGCCTAAA
130 ACAACAAAATAGGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAA
*
277501 ATGTTACCAAAGTTTAAGCTAATAGAGCCTTA
195 ATGTTACCAAAGTTTAAACTAATAGAGCCTTA
277533 GAAATCCGACGATAACATAACCGGTTAATTACTGGAAACATTATCAA
1 GAAATCCGACGATAACATAACCGGTTAATTACTGGAAACATTATCAA
277580 TAATCGGTTT
Statistics
Matches: 257, Mismatches: 14, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
225 155 0.60
226 101 0.39
227 1 0.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.31
Consensus pattern (226 bp):
GAAATCCGACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATAATAGG
TAATGCTTATATAACGTAATAGGTAGCGCCTTTTTAAAGCTGATGGGGCTTTGGAAATCCGACGA
CAACAAAATAGGTTAATTACTTAATTTGTTATTAGTATTATCAACATATTAGGTAACGCCTAAAA
TGTTACCAAAGTTTAAACTAATAGAGCCTTA
Found at i:277956 original size:202 final size:201
Alignment explanation
Indices: 277579--278250 Score: 852
Period size: 202 Copynumber: 3.3 Consensus size: 201
277569 AACATTATCA
* * * * * * * * *
277579 ATAATCGGTTTTGATGTTTTAAGAATCAATATTTTTCATACTTGTATCAATACTTTATGTGTGCA
1 ATAATCGGTTTCGAAGTTTTAAGAATCGATATTTTTCATACTTGTATCGATACTTTCTTTTTACT
* * * * * * *
277644 TC-T-CGTTTGGGATGCATACTAGACAAAAACTATCGATACAAAT-ACAAAAAGTATTGATACTC
66 TCTTAAGTTTGGGAAGCATACTGGAC-AAAAGTATCGATACACATAAAAAAAAGTATTGATACTT
* * * * * * * *
277706 TATGTTTACATATCTTGTCATTAAACTGGTATATTTTTATCGCTAACATTGTAAATTTACCTATT
130 TATGTTAACGTATTTTATCA-TAAACCGATATCTTTTTACCGCTAACATTGTAAATTTACCTATT
*
277771 ACCTTCAA-
194 A-CTTTAAG
* *
277779 ATAATCGGTTTTGAAGTTTTAA-AATCGATATTTTTCATATTTGTATCGATACTTTCTTTTTACT
1 ATAATCGGTTTCGAAGTTTTAAGAATCGATATTTTTCATACTTGTATCGATACTTTCTTTTTACT
*
277843 TGCTTAAGTTTAGGAAGCATACTGGACATAAAGTATCGATACACATAAAAAAAAGTATTGATACT
66 T-CTTAAGTTTGGGAAGCATACTGGACA-AAAGTATCGATACACATAAAAAAAAGTATTGATACT
277908 TTATGTTAACGTATTTTATCATAAACCGATATCTTTTTACCGCTAACATTGTAAATTTACCTATT
129 TTATGTTAACGTATTTTATCATAAACCGATATCTTTTTACCGCTAACATTGTAAATTTACCTATT
277973 ACTTTAAG
194 ACTTTAAG
* * * * *
277981 TTAATCGGTTTCAAAGTTTTAAGAATCGATACTTTTCATGCTTGTATCGATACTTTCTCTTTACT
1 ATAATCGGTTTCGAAGTTTTAAGAATCGATATTTTTCATACTTGTATCGATACTTTCTTTTTACT
* * * *
278046 TACTTAAGATTGGGAAGCATACTGGACAAAAGTATCAATACACATAAAAAAAAGTATCGATATTT
66 T-CTTAAGTTTGGGAAGCATACTGGACAAAAGTATCGATACACATAAAAAAAAGTATTGATACTT
** * *
278111 TATGTTAACGTATTTTATCATAAACC-AGTATCTTTGAACCTCTAACATTGTAAAGTTACCTATT
130 TATGTTAACGTATTTTATCATAAACCGA-TATCTTTTTACCGCTAACATTGTAAATTTACCTATT
278175 ACTTTAAG
194 ACTTTAAG
* *
278183 TTAATCGGTTTCGAAGTTTCAAGAATCGATATTTTTCATACTTGTATCGATACTTTCTTTTTACT
1 ATAATCGGTTTCGAAGTTTTAAGAATCGATATTTTTCATACTTGTATCGATACTTTCTTTTTACT
278248 TCT
66 TCT
278251 AGTTTATGTT
Statistics
Matches: 416, Mismatches: 48, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
199 35 0.08
200 22 0.05
201 10 0.02
202 253 0.61
203 96 0.23
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (201 bp):
ATAATCGGTTTCGAAGTTTTAAGAATCGATATTTTTCATACTTGTATCGATACTTTCTTTTTACT
TCTTAAGTTTGGGAAGCATACTGGACAAAAGTATCGATACACATAAAAAAAAGTATTGATACTTT
ATGTTAACGTATTTTATCATAAACCGATATCTTTTTACCGCTAACATTGTAAATTTACCTATTAC
TTTAAG
Found at i:284448 original size:19 final size:19
Alignment explanation
Indices: 284420--284497 Score: 59
Period size: 19 Copynumber: 4.1 Consensus size: 19
284410 CATTTATACA
*
284420 ACCTACAATATCATTTTCT
1 ACCTATAATATCATTTTCT
* * *
284439 ACCTATAATATTATATAC-
1 ACCTATAATATCATTTTCT
** *
284457 AAGTATTAATATTTATTTTCT
1 ACCTA-TAATA-TCATTTTCT
*
284478 ACCTATAATATCAATTTCT
1 ACCTATAATATCATTTTCT
284497 A
1 A
284498 ACTCTAATCG
Statistics
Matches: 44, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
18 3 0.07
19 27 0.61
20 11 0.25
21 3 0.07
ACGTcount: A:0.37, C:0.17, G:0.01, T:0.45
Consensus pattern (19 bp):
ACCTATAATATCATTTTCT
Found at i:285306 original size:173 final size:174
Alignment explanation
Indices: 285081--285472 Score: 579
Period size: 173 Copynumber: 2.3 Consensus size: 174
285071 TTTTCTTTTA
* * * *
285081 AAAGTATTGATAATATGATATATTTACTTATTAAAGTATCGATACCTTCAACATATTTGGTAGCG
1 AAAGTATCGATAATATGATACATATACTTATAAAAGTATCGATACCTTCAACATATTTGGTAGCG
** ** * *
285146 CTTTACCGGTTTTGTCATATTTTAACTTGTTATATTGTCATGTATCGATACATGTTTATAATGTA
66 CTTTACCGGTTTTGTCATATTAAAACCGGTTATATTGTCATGTATCGATACATATTTATAAAGTA
*
285211 TCGATAC-TTATAGACGCTATTATTGTAATTCGTTTAAATTCCT
131 TCGATACTTTACAGACGCTATTATTGTAATTCGTTTAAATTCCT
* *
285254 AAAGTATCGATAATATGATACATATACTTATAAAAGTATCGATACCTTCAACATATTTGGTATCT
1 AAAGTATCGATAATATGATACATATACTTATAAAAGTATCGATACCTTCAACATATTTGGTAGCG
*
285319 CTTTACCGGTTTTGTCATATTAAAACCGGTTATATTGTCATGTATCGCTACATATTTATAAAGTA
66 CTTTACCGGTTTTGTCATATTAAAACCGGTTATATTGTCATGTATCGATACATATTTATAAAGTA
* * * *
285384 TTGATACTTTACAGGCGTTATTATTGTAATTCTTTTAAATTCCT
131 TCGATACTTTACAGACGCTATTATTGTAATTCGTTTAAATTCCT
* * * *
285428 AAAGTATCGATAATTTGGTGCATATACTTAGAAAAGTATCGATAC
1 AAAGTATCGATAATATGATACATATACTTATAAAAGTATCGATAC
285473 AAATTTCAAT
Statistics
Matches: 196, Mismatches: 22, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
173 123 0.63
174 73 0.37
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (174 bp):
AAAGTATCGATAATATGATACATATACTTATAAAAGTATCGATACCTTCAACATATTTGGTAGCG
CTTTACCGGTTTTGTCATATTAAAACCGGTTATATTGTCATGTATCGATACATATTTATAAAGTA
TCGATACTTTACAGACGCTATTATTGTAATTCGTTTAAATTCCT
Found at i:286865 original size:143 final size:147
Alignment explanation
Indices: 286617--286887 Score: 435
Period size: 143 Copynumber: 1.9 Consensus size: 147
286607 CATTAAAAAT
* * *
286617 AATAATAATTTAACTATTAGAAAATAGAAGATATGTAAAATGGTTCATAGTGTATATATATATAT
1 AATAATAATTTAACTATTAGAAAATAAAAGATATGTAAAACGGTCCATAGTG-ATATATATATAT
* *
286682 ATATAACTCAATTTGTGGTTTGACTTTTCATCCATCTCTTGTCTGTTAGTTATGTTTTGATGGGA
65 ATATAACTCAATTTGTGGTTTGACTTTTCATCCATCTCTTGTATGTTAGCTATGTTTTGATGGGA
286747 CATGGCCCCAATTTTAAA
130 CATGGCCCCAATTTTAAA
286765 AATAATAATTTAACTATTAGAAAAGTAAAAGATATGTAAAACGGTCCATAGTG-TATATATATA-
1 AATAATAATTTAACTATTAGAAAA-TAAAAGATATGTAAAACGGTCCATAGTGATATATATATAT
*
286828 A-A-AA-TCAATTTGTGGTTTGAGTTTTCATCCATCTCTTGTATGTTAGCTATGTTTTGATGG
65 ATATAACTCAATTTGTGGTTTGACTTTTCATCCATCTCTTGTATGTTAGCTATGTTTTGATGG
286888 AATCCCATAA
Statistics
Matches: 116, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
143 53 0.46
144 2 0.02
145 1 0.01
146 1 0.01
147 10 0.09
148 24 0.21
149 25 0.22
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (147 bp):
AATAATAATTTAACTATTAGAAAATAAAAGATATGTAAAACGGTCCATAGTGATATATATATATA
TATAACTCAATTTGTGGTTTGACTTTTCATCCATCTCTTGTATGTTAGCTATGTTTTGATGGGAC
ATGGCCCCAATTTTAAA
Found at i:289624 original size:53 final size:53
Alignment explanation
Indices: 289454--289813 Score: 411
Period size: 53 Copynumber: 6.9 Consensus size: 53
289444 TCTTCAAATG
* * ****
289454 ACGGGTCCGCTCCCTCTTG-TTCA-GGATTAAGGAACTCGAACAATCTTCTAAAA
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGT-A-GAACTCGAACAATCTTCTGCCT
* * * * *
289507 AC-GGTTCGCTCCCTATTGCTTCATGGAGTAGAACTCG-ATAATCTTCTTCTT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* * *
289558 ACGGGTTCGCTCCCTTTTGCTTCAGGGAGTAGAACTCGAATAATCTTCTTCCT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* *
289611 ACGGGTTCACTCCCTCTTGCTTCAGGGAGAAGAACTCGAACAATCTTCTGCCT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
* *
289664 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAAATCGAACAATC-TCTACCT
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
*
289716 ACAGGTTCG-TCCCCTCTTGCTTCAGGGAGTA-AACTC-AGACAATCTTCTGCCT
1 ACGGGTTCGCT-CCCTCTTGCTTCAGGGAGTAGAACTCGA-ACAATCTTCTGCCT
* *
289768 AC-AG-TC-CTCCCTCTTGCTTCAGGGAGTAAAACTCGAACAAT-TTCTG
1 ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTG
289814 GTGTGCTTCT
Statistics
Matches: 273, Mismatches: 24, Indels: 24
0.85 0.07 0.07
Matches are distributed among these distances:
49 25 0.09
50 14 0.05
51 24 0.09
52 96 0.35
53 110 0.40
54 4 0.01
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (53 bp):
ACGGGTTCGCTCCCTCTTGCTTCAGGGAGTAGAACTCGAACAATCTTCTGCCT
Found at i:289736 original size:158 final size:155
Alignment explanation
Indices: 289454--289813 Score: 414
Period size: 158 Copynumber: 2.3 Consensus size: 155
289444 TCTTCAAATG
* * *
289454 ACGGGTCCGCTCCCTCTTG-TTCA-GGATTAAGGAACTCGAACAATCTTCTAAAAACGGTTCGCT
1 ACGGGTTC-CTCCCTCTTGCTTCAGGGA-GAA-GAACTCGAACAATCTTCTGAAAACGGTTCGCT
* * * * * * *
289517 CCCTATTGCTTCATGGAGTAGAACTCGATAATCTTCTTCTTACGGGTTCGCTCCCTTTTGCTTCA
63 CCCTATTGCTTCAGGGAGTAGAAATCGACAATCTTCTACCTACAGGTTCGCTCCCTCTTGCTTCA
* *
289582 GGGAGTAGAACTC-GAATAATCTTCTTCCT
128 GGGAGTA-AACTCAG-ACAATCTTCTGCCT
***
289611 ACGGGTTCACTCCCTCTTGCTTCAGGGAGAAGAACTCGAACAATCTTCTGCCTACGGGTTCGCTC
1 ACGGGTTC-CTCCCTCTTGCTTCAGGGAGAAGAACTCGAACAATCTTCTGAAAAC-GGTTCGCTC
*
289676 CCTCTTGCTTCAGGGAGTAGAAATCGAACAATC-TCTACCTACAGGTTCG-TCCCCTCTTGCTTC
64 CCTATTGCTTCAGGGAGTAGAAATCG-ACAATCTTCTACCTACAGGTTCGCT-CCCTCTTGCTTC
289739 AGGGAGTAAACTCAGACAATCTTCTGCCT
127 AGGGAGTAAACTCAGACAATCTTCTGCCT
*
289768 AC-AG-TCCTCCCTCTTGCTTCAGGGAGTAA-AACTCGAACAAT-TTCTG
1 ACGGGTTCCTCCCTCTTGCTTCAGGGAG-AAGAACTCGAACAATCTTCTG
289814 GTGTGCTTCT
Statistics
Matches: 178, Mismatches: 18, Indels: 18
0.83 0.08 0.08
Matches are distributed among these distances:
153 5 0.03
154 32 0.18
155 4 0.02
156 1 0.01
157 57 0.32
158 71 0.40
159 8 0.04
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (155 bp):
ACGGGTTCCTCCCTCTTGCTTCAGGGAGAAGAACTCGAACAATCTTCTGAAAACGGTTCGCTCCC
TATTGCTTCAGGGAGTAGAAATCGACAATCTTCTACCTACAGGTTCGCTCCCTCTTGCTTCAGGG
AGTAAACTCAGACAATCTTCTGCCT
Found at i:290363 original size:20 final size:20
Alignment explanation
Indices: 290338--290387 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
290328 TCATCATCCT
290338 CGAAAGACTTACTGATGGCC
1 CGAAAGACTTACTGATGGCC
290358 CGAAAGACTTACTGATGGCC
1 CGAAAGACTTACTGATGGCC
*
290378 CGAAGGACTT
1 CGAAAGACTT
290388 CATCATCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.24, G:0.26, T:0.20
Consensus pattern (20 bp):
CGAAAGACTTACTGATGGCC
Found at i:290472 original size:142 final size:142
Alignment explanation
Indices: 290216--290514 Score: 465
Period size: 142 Copynumber: 2.1 Consensus size: 142
290206 TCATCTTGCT
* * *
290216 CGAAAGACTTACAAATGACCTGAAGGATTTCATCATCATGCTCGAAAGACTTACTGATGGATTTG
1 CGAAAGACTTACTAATGACCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGATTTG
** * *
290281 CTTCACTACTCTTTGGTGAAGGCTTACAAATTACCCGAAGGATTTAATCATCATCCTCGAAAGAC
66 CTTCACTACTCTTCCGTGAAAGCTTACAAATTACCCGAAGGATTTAATCATCATCCTCAAAAGAC
290346 TTACTGATGGCC
131 TTACTGATGGCC
* * * *
290358 CGAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTTGAAAGACTTACTGATGGGTTTG
1 CGAAAGACTTACTAATGACCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGATTTG
*
290423 CTTCACTACTCTTCCGTGAAAGCTTACAAATTACCCGAAGGATTTAATCATCATGCTCAAAAGAC
66 CTTCACTACTCTTCCGTGAAAGCTTACAAATTACCCGAAGGATTTAATCATCATCCTCAAAAGAC
*
290488 TTATTGATGGCC
131 TTACTGATGGCC
290500 CG-AAGAACTTACTAA
1 CGAAAG-ACTTACTAA
290515 GTGAGAAATT
Statistics
Matches: 142, Mismatches: 14, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
141 3 0.02
142 139 0.98
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (142 bp):
CGAAAGACTTACTAATGACCCGAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGATTTG
CTTCACTACTCTTCCGTGAAAGCTTACAAATTACCCGAAGGATTTAATCATCATCCTCAAAAGAC
TTACTGATGGCC
Found at i:290718 original size:42 final size:41
Alignment explanation
Indices: 290620--290726 Score: 115
Period size: 42 Copynumber: 2.6 Consensus size: 41
290610 ACCTGAAGGT
* * * * * *
290620 CTTATGGATGGCTCGAATGACTTATCATCTTGCTCTAAAGG
1 CTTATAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
* * *
290661 CTTACAGATGACCCGAAGGATTTCATCATCATGCTCGAAAGA
1 CTTATAGATGGCCCGAAGGACTT-ATCATCATGCTCGAAAGA
*
290703 CTTATTGATGGCCCGAAGGACTTA
1 CTTATAGATGGCCCGAAGGACTTA
290727 AATTGTTTAC
Statistics
Matches: 52, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
41 18 0.35
42 34 0.65
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (41 bp):
CTTATAGATGGCCCGAAGGACTTATCATCATGCTCGAAAGA
Found at i:295554 original size:18 final size:18
Alignment explanation
Indices: 295531--295570 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
295521 TCCACTGTTC
295531 AGCGTCATTCTTCAGTTT
1 AGCGTCATTCTTCAGTTT
295549 AGCGTCATTCTTCAGTTT
1 AGCGTCATTCTTCAGTTT
295567 AGCG
1 AGCG
295571 ACTCTTGTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (18 bp):
AGCGTCATTCTTCAGTTT
Found at i:301035 original size:53 final size:53
Alignment explanation
Indices: 300929--301038 Score: 141
Period size: 53 Copynumber: 2.1 Consensus size: 53
300919 GAAAAAGAAA
** * **
300929 TAAATTATGATTTGTCTTGTGTGTAGTAAGGTTTTGACATATATTTCTAGTTT
1 TAAATTATGATTTGTCTTGTGTGTAGTAAAATTTTGACATATACTTAAAGTTT
**
300982 TAAATTATGATTTGTCTTGTGTGTAGTAAAATTTTGTTATA-ACTTAAATGTTT
1 TAAATTATGATTTGTCTTGTGTGTAGTAAAATTTTGACATATACTTAAA-GTTT
301035 TAAA
1 TAAA
301039 AGGATGATTG
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
52 4 0.08
53 45 0.92
ACGTcount: A:0.29, C:0.05, G:0.16, T:0.50
Consensus pattern (53 bp):
TAAATTATGATTTGTCTTGTGTGTAGTAAAATTTTGACATATACTTAAAGTTT
Found at i:310769 original size:43 final size:43
Alignment explanation
Indices: 310708--310793 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 43
310698 CGATATCATT
310708 TTGGTAAAATTTGATTCTTATGGTAAGTTGAAATGTCATCTTG
1 TTGGTAAAATTTGATTCTTATGGTAAGTTGAAATGTCATCTTG
*
310751 TTGGTAAATTTTGATTCTTATGGTAAGTTGAAATGTCATCTTG
1 TTGGTAAAATTTGATTCTTATGGTAAGTTGAAATGTCATCTTG
310794 ATTGCAAAGA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.27, C:0.07, G:0.21, T:0.45
Consensus pattern (43 bp):
TTGGTAAAATTTGATTCTTATGGTAAGTTGAAATGTCATCTTG
Found at i:312256 original size:45 final size:45
Alignment explanation
Indices: 312196--312301 Score: 124
Period size: 45 Copynumber: 2.4 Consensus size: 45
312186 ATTGCAGCAT
* *
312196 TAATTATCCGTTAATAATATC-AATAGGTTGGTGGTTGATGGTTAA
1 TAATTATCCATTAATAA-ATCGAATAGATTGGTGGTTGATGGTTAA
* * ** * *
312241 TAATTATCCTTTAATAACTCGGGTAGATTGGTGGTTGGTGGTTAT
1 TAATTATCCATTAATAAATCGAATAGATTGGTGGTTGATGGTTAA
312286 TAATTATCCATTAATA
1 TAATTATCCATTAATA
312302 TCCCGGGTAG
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
44 2 0.04
45 50 0.96
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (45 bp):
TAATTATCCATTAATAAATCGAATAGATTGGTGGTTGATGGTTAA
Found at i:312309 original size:45 final size:45
Alignment explanation
Indices: 312223--312322 Score: 146
Period size: 45 Copynumber: 2.2 Consensus size: 45
312213 TATCAATAGG
* *
312223 TTGGTGGTTGATGGTTAATAATTATCCTTTAATAACTCGGGTAGA
1 TTGGTGGTTGATGGTTAATAATTATCCATTAATAACCCGGGTAGA
* * * *
312268 TTGGTGGTTGGTGGTTATTAATTATCCATTAATATCCCGGGTAGG
1 TTGGTGGTTGATGGTTAATAATTATCCATTAATAACCCGGGTAGA
312313 TTGGTGGTTG
1 TTGGTGGTTG
312323 TACATGAGAG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.21, C:0.09, G:0.29, T:0.41
Consensus pattern (45 bp):
TTGGTGGTTGATGGTTAATAATTATCCATTAATAACCCGGGTAGA
Found at i:315351 original size:15 final size:15
Alignment explanation
Indices: 315321--315364 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
315311 TTGCTTTCCA
*
315321 TTTTTTCATGTCTTTT
1 TTTTTTC-TTTCTTTT
*
315337 TTTCTT-TTTCTTTT
1 TTTTTTCTTTCTTTT
315351 TTTTTTCTTTCTTT
1 TTTTTTCTTTCTTT
315365 CTAACAACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
14 12 0.50
15 7 0.29
16 5 0.21
ACGTcount: A:0.02, C:0.14, G:0.02, T:0.82
Consensus pattern (15 bp):
TTTTTTCTTTCTTTT
Found at i:318276 original size:6 final size:6
Alignment explanation
Indices: 318265--318298 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
318255 TGCTTAATCG
* *
318265 AAATAA AAATAA AAACAA AAACAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAAT
318299 GTAACAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.82, C:0.06, G:0.00, T:0.12
Consensus pattern (6 bp):
AAATAA
Found at i:323260 original size:27 final size:27
Alignment explanation
Indices: 323202--323279 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
323192 CATATTATGG
* * * **
323202 ATAATATCAATAGTTTAATGAATGTGA
1 ATAATATCAATAATTGAATTAATACGA
323229 ATAATATCAATAATTGAATTAATACGA
1 ATAATATCAATAATTGAATTAATACGA
* * *
323256 TTAATATAAATATTTGAATTAATA
1 ATAATATCAATAATTGAATTAATA
323280 TGATGGATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (27 bp):
ATAATATCAATAATTGAATTAATACGA
Found at i:323289 original size:27 final size:27
Alignment explanation
Indices: 323231--323289 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
323221 GAATGTGAAT
* *
323231 AATATCAATAATTGAATTAATACGATT
1 AATATAAATAATTGAATTAATACGATG
* *
323258 AATATAAATATTTGAATTAATATGATG
1 AATATAAATAATTGAATTAATACGATG
*
323285 GATAT
1 AATAT
323290 TTGTTGATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.47, C:0.03, G:0.10, T:0.39
Consensus pattern (27 bp):
AATATAAATAATTGAATTAATACGATG
Found at i:323400 original size:27 final size:27
Alignment explanation
Indices: 323312--323418 Score: 97
Period size: 27 Copynumber: 4.0 Consensus size: 27
323302 TATTTTAATG
*** **
323312 AATATGATTAATATCAATAGAAAAAGA
1 AATATGATTAATATCAATAGTTGAATT
* * *
323339 AATGTGAATAATACCAATAGTTGAATT
1 AATATGATTAATATCAATAGTTGAATT
* *
323366 AATGTGATTAATATCAATATTTGAATT
1 AATATGATTAATATCAATAGTTGAATT
** *
323393 AATATGATGGATATTAATAGTTGAAT
1 AATATGATTAATATCAATAGTTGAAT
323419 GATGGATATT
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.47, C:0.04, G:0.14, T:0.36
Consensus pattern (27 bp):
AATATGATTAATATCAATAGTTGAATT
Found at i:334080 original size:23 final size:22
Alignment explanation
Indices: 334030--334092 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 22
334020 AGAATAATTA
334030 TGTCTTTATGACA--TATTTCTC
1 TGTCTTTATGACACGT-TTTCTC
*
334051 TGCCTTTATGACACGTTTATCTC
1 TGTCTTTATGACACGTTT-TCTC
* *
334074 TGTCTTTGTGGCACGTTTT
1 TGTCTTTATGACACGTTTT
334093 TCTTTGACTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 12 0.34
22 3 0.09
23 20 0.57
ACGTcount: A:0.14, C:0.21, G:0.16, T:0.49
Consensus pattern (22 bp):
TGTCTTTATGACACGTTTTCTC
Found at i:335727 original size:71 final size:71
Alignment explanation
Indices: 335619--335870 Score: 184
Period size: 71 Copynumber: 3.6 Consensus size: 71
335609 CCTTTAGTTA
* * * * * * * * * *
335619 TGTGTTTGGCTTCCTCCATGACTGAGGGTTCGCCTACTAACGGGGTTTCTTATATTAATGAGGCT
1 TGTGTTCGACTTCCTCTATGACTGAGGGTTCGTCTACTAACAGGATATCGTACATGAATGAGGCT
335684 TAGGGT
66 TAGGGT
* * * * *
335690 TGTGTTCGACTTCCTCTATGAGTGAGGGTTTGTCTACTAACATGATATCGTCCATGATTGAGGCT
1 TGTGTTCGACTTCCTCTATGACTGAGGGTTCGTCTACTAACAGGATATCGTACATGAATGAGGCT
*
335755 TGGGGT
66 TAGGGT
* * * * * * * * **
335761 TGTGTTCAACTTCCTCTATGATTTAGGGTTCGTATACTAATAGGGTATCCTCCATGACCGAGGCT
1 TGTGTTCGACTTCCTCTATGACTGAGGGTTCGTCTACTAACAGGATATCGTACATGAATGAGGCT
* * *
335826 CAAGAT
66 TAGGGT
* * * *
335832 TGCGTTCAACTTCTTCTATGTA-TGA-GGTTTGTCTACTAA
1 TGTGTTCGACTTCCTCTATG-ACTGAGGGTTCGTCTACTAA
335871 TGAGGTGTCC
Statistics
Matches: 144, Mismatches: 36, Indels: 3
0.79 0.20 0.02
Matches are distributed among these distances:
70 12 0.08
71 131 0.91
72 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.37
Consensus pattern (71 bp):
TGTGTTCGACTTCCTCTATGACTGAGGGTTCGTCTACTAACAGGATATCGTACATGAATGAGGCT
TAGGGT
Found at i:339850 original size:20 final size:20
Alignment explanation
Indices: 339825--339864 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
339815 TTTAGTTTCA
339825 ATTCATCCAATATCGATACT
1 ATTCATCCAATATCGATACT
*
339845 ATTCATCCAGTATCGATACT
1 ATTCATCCAATATCGATACT
339865 CAAACCCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (20 bp):
ATTCATCCAATATCGATACT
Found at i:342888 original size:34 final size:29
Alignment explanation
Indices: 342849--342920 Score: 135
Period size: 29 Copynumber: 2.5 Consensus size: 29
342839 CATATTATTA
342849 TACATGACATGAATTCATATTATATGTAT
1 TACATGACATGAATTCATATTATATGTAT
*
342878 TACATGACATGAATTCATATTATATGTTT
1 TACATGACATGAATTCATATTATATGTAT
342907 TACATGACATGAAT
1 TACATGACATGAAT
342921 ATGCAGAAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (29 bp):
TACATGACATGAATTCATATTATATGTAT
Found at i:342976 original size:30 final size:30
Alignment explanation
Indices: 342942--343000 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
342932 GTTATATGAG
* *
342942 CTATGTGATAAAGGTATGTAAATGATATGC
1 CTATGTGATAAAGGTATGGAAATAATATGC
342972 CTATGTGATAAAGGTATGGAAATAATATG
1 CTATGTGATAAAGGTATGGAAATAATATG
343001 TCTACGCGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.05, G:0.24, T:0.32
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGGAAATAATATGC
Found at i:343311 original size:24 final size:24
Alignment explanation
Indices: 343246--343313 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
343236 CAATATTATA
*
343246 TGGCACTACGGTGCAAAATTCTACG
1 TGGCACTTCGGTGC-AAATTCTACG
* *
343271 CGGTC-CTTTGG-GACAAATTCTACG
1 TGG-CACTTCGGTG-CAAATTCTACG
343295 TGGCACTTCGGTGCAAATT
1 TGGCACTTCGGTGCAAATT
343314 TATACGAGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
23 1 0.03
24 24 0.71
25 8 0.24
26 1 0.03
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.28
Consensus pattern (24 bp):
TGGCACTTCGGTGCAAATTCTACG
Found at i:343853 original size:12 final size:12
Alignment explanation
Indices: 343836--343862 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
343826 TTTTTACAAA
343836 AGTTACTGTAGC
1 AGTTACTGTAGC
343848 AGTTACTGTAGC
1 AGTTACTGTAGC
343860 AGT
1 AGT
343863 GAACATTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (12 bp):
AGTTACTGTAGC
Found at i:353092 original size:54 final size:54
Alignment explanation
Indices: 353004--353679 Score: 815
Period size: 54 Copynumber: 12.5 Consensus size: 54
352994 CTATGTGTAC
* *
353004 TATCGGCACTAAGTGTGCAACCCAC-GAAATTCATAATAAGTTTATGAACGACCA
1 TATCGGCACTAAGTGTGCAACCCACAG-AATTCATAATATGTTTATGAACGACCG
** * *
353058 TATCAACACTAAGTGTACAACCCACATAATTCATAATATGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCG
* * * * * * *
353112 TAT-GGACATTAAGTGTGCAATCCACGGAATTCATAATATATTTATGAACAATCA
1 TATCGG-CACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCG
353166 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCG
* * *
353220 TATTGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGATCA
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCG
* * *
353274 TATCGGCACTAAGTGTGCAACCCATAGAATTCATAATATGTTTATGAATGATCG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCG
* ** * **
353328 TATCGGTACTAAGTGTGCAACCCATGGAATTCATAATATGTTTATGAATGATTG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCG
* *
353382 TATCGACACTAAGTGTGCAACCCACAAAATTCATAATATGTTTATGAACGACCG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCG
* ** *
353436 TATCGACACTAAGTGTGCAACCCATGGAATTCATAATATGTTTATGAATGACCG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCG
* *
353490 TATCGGCACTAAGTGTGCAACCCATAGAATTCATAATATGTTTATGAAAGACCG
1 TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCG
* * * *
353544 TATCAGCACTAAGTGTGCAA-CCA-TGAAATTCATAATAAGTTTATGAACGATCG
1 TATCGGCACTAAGTGTGCAACCCACAG-AATTCATAATATGTTTATGAACGACCG
* * * ** * * * *
353597 TATCAGTATTAAGTGTTTAATCCA-AGAAATTCATAATGA-GCTTATGAATGATCG
1 TATCGGCACTAAGTGTGCAACCCACAG-AATTCATAAT-ATGTTTATGAACGACCG
* * * *
353651 TATCGACACTATGTGTGCACCCCAAAGAA
1 TATCGGCACTAAGTGTGCAACCCACAGAA
353680 CGTATACTAT
Statistics
Matches: 545, Mismatches: 70, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
52 1 0.00
53 43 0.08
54 496 0.91
55 5 0.01
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.29
Consensus pattern (54 bp):
TATCGGCACTAAGTGTGCAACCCACAGAATTCATAATATGTTTATGAACGACCG
Found at i:354639 original size:13 final size:13
Alignment explanation
Indices: 354621--354648 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
354611 ATGGGTGTTA
354621 CATTTATTGATAT
1 CATTTATTGATAT
354634 CATTTATTGATAT
1 CATTTATTGATAT
354647 CA
1 CA
354649 GAGCTATAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.11, G:0.07, T:0.50
Consensus pattern (13 bp):
CATTTATTGATAT
Found at i:358063 original size:29 final size:30
Alignment explanation
Indices: 358013--358070 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
358003 CAATTTCGAT
* **
358013 TTCTGAACTTTTCAAAGTTTATACTTTAGC
1 TTCTAAACTTTTCAAAACTTATACTTTAGC
*
358043 TTCTAAAC-TTTCAAAACTTATATTTTAG
1 TTCTAAACTTTTCAAAACTTATACTTTAG
358071 TCACAAGACA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.47
Consensus pattern (30 bp):
TTCTAAACTTTTCAAAACTTATACTTTAGC
Found at i:359855 original size:20 final size:20
Alignment explanation
Indices: 359837--359920 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
359827 ATCGTAATGT
*
359837 GATACTGACTATCGCAATGC
1 GATACTGACTATCGCAACGC
* * *
359857 GATAAT-ACAAAATCGCAACGA
1 GATACTGAC--TATCGCAACGC
*
359878 GATACTGACTTTCGCAACGC
1 GATACTGACTATCGCAACGC
* *
359898 GATTCTGACTTTCGCAACGC
1 GATACTGACTATCGCAACGC
359918 GAT
1 GAT
359921 TTACATAGCG
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
19 2 0.04
20 35 0.67
21 13 0.25
22 2 0.04
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (20 bp):
GATACTGACTATCGCAACGC
Found at i:359921 original size:20 final size:20
Alignment explanation
Indices: 359869--359921 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
359859 TAATACAAAA
* *
359869 TCGCAACGAGATACTGACTT
1 TCGCAACGCGATTCTGACTT
359889 TCGCAACGCGATTCTGACTT
1 TCGCAACGCGATTCTGACTT
359909 TCGCAACGCGATT
1 TCGCAACGCGATT
359922 TACATAGCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGCAACGCGATTCTGACTT
Found at i:360512 original size:19 final size:19
Alignment explanation
Indices: 360476--360517 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
360466 ACGAGAGAAT
*
360476 CGCAACGCGAAATAAAAAA
1 CGCAACGCGAAACAAAAAA
* *
360495 CGCAACGCGAAACCAAAAT
1 CGCAACGCGAAACAAAAAA
360514 CGCA
1 CGCA
360518 TTGCGATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.29, G:0.17, T:0.05
Consensus pattern (19 bp):
CGCAACGCGAAACAAAAAA
Found at i:360540 original size:19 final size:19
Alignment explanation
Indices: 360513--360677 Score: 125
Period size: 19 Copynumber: 9.1 Consensus size: 19
360503 GAAACCAAAA
*
360513 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
360532 TCGTGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
360551 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
360570 TCGCGTTACGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
360584 TCTCGTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
360603 TCGCGTTGCGATTTTC---
1 TCGCGTTGCGATTTTCATT
* **
360619 T--CGTTACGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
360636 TCCACGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
360656 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
360676 TC
1 TC
360678 AACCAAAAGA
Statistics
Matches: 114, Mismatches: 20, Indels: 24
0.72 0.13 0.15
Matches are distributed among these distances:
14 18 0.16
16 3 0.03
17 4 0.04
19 59 0.52
20 29 0.25
21 1 0.01
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:360602 original size:33 final size:33
Alignment explanation
Indices: 360565--360652 Score: 122
Period size: 33 Copynumber: 2.6 Consensus size: 33
360555 GTTGCGATTT
* *
360565 TCATTTCGCGTTACGATTCTCTCGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCACGATAG
* *
360598 TCATTTCGCGTTGCGATTTTCTCGTTACGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCACGATAG
*
360631 TCATTTCCACGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
360653 ATTATCTCGT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 35 0.73
34 13 0.27
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.40
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCACGATAG
Found at i:360654 original size:20 final size:20
Alignment explanation
Indices: 360631--360677 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
360621 GTTACGATAG
360631 TCATTTCCACGTTGCGATTC
1 TCATTTCCACGTTGCGATTC
* *
360651 TCATTAT-CTCGTTGCGATTT
1 TCATT-TCCACGTTGCGATTC
360671 TCATTTC
1 TCATTTC
360678 AACCAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.04
20 21 0.91
21 1 0.04
ACGTcount: A:0.15, C:0.26, G:0.13, T:0.47
Consensus pattern (20 bp):
TCATTTCCACGTTGCGATTC
Found at i:362546 original size:91 final size:90
Alignment explanation
Indices: 362364--362539 Score: 266
Period size: 91 Copynumber: 1.9 Consensus size: 90
362354 TAGATTGCTT
362364 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTT
*
362429 GTCTTTTTGTTTTGTCTTTTAGTTGA
66 GTC-TTTTGATTTGTCTTTTAGTTGA
* *
362455 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
362520 ATTTGTC-TTT-ATTTGTCTTT
62 ATTTGTCTTTTGATTTGTCTTT
362540 GGTTGAAAGT
Statistics
Matches: 78, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
91 35 0.45
92 9 0.12
93 6 0.08
94 2 0.03
95 26 0.33
ACGTcount: A:0.23, C:0.13, G:0.17, T:0.47
Consensus pattern (90 bp):
AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAACTGTTTATTAACACTGTGAAGTTAGTATTT
GTCTTTTGATTTGTCTTTTAGTTGA
Found at i:362844 original size:42 final size:42
Alignment explanation
Indices: 362793--362970 Score: 189
Period size: 42 Copynumber: 4.2 Consensus size: 42
362783 CCACTTCTAT
* *
362793 CGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATTCCTCGAGAGTCCCCTCCCAC
* * * * * * *
362835 CGTTCAAGAGGCCACTGTCATCCCTCAAGAGTTCACTCCTAT
1 CGTTCAAGAGGCCACTATCATTCCTCGAGAGTCCCCTCCCAC
* *
362877 CGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATTCCTCGAGAGTCCCCTCCCAC
* * *
362919 CGTTCAAGAGGCCACTGTCA-TCGTTGAAGAGGT-CCCTCCCAC
1 CGTTCAAGAGGCCACTATCATTCCTCG-AGA-GTCCCCTCCCAC
*
362961 CATTCAAGAG
1 CGTTCAAGAG
362971 CCCGATTCAC
Statistics
Matches: 110, Mismatches: 24, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
41 4 0.04
42 104 0.95
43 2 0.02
ACGTcount: A:0.22, C:0.36, G:0.20, T:0.22
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATTCCTCGAGAGTCCCCTCCCAC
Found at i:362928 original size:21 final size:21
Alignment explanation
Indices: 362904--362970 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
362894 TCATTCCTCG
362904 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
362925 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
362946 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
362967 AGAG
1 AGAG
362971 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:362949 original size:84 final size:84
Alignment explanation
Indices: 362764--362940 Score: 327
Period size: 84 Copynumber: 2.1 Consensus size: 84
362754 GCCCAAATCG
* *
362764 ACTGCCATCCCTCAAGAGTCCACTTCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCC
1 ACTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCC
362829 TCCCACCGTTCAAGAGGCC
66 TCCCACCGTTCAAGAGGCC
*
362848 ACTGTCATCCCTCAAGAGTTCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCC
1 ACTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCC
362913 TCCCACCGTTCAAGAGGCC
66 TCCCACCGTTCAAGAGGCC
362932 ACTGTCATC
1 ACTGTCATC
362941 GTTGAAGAGG
Statistics
Matches: 90, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.21, C:0.37, G:0.18, T:0.24
Consensus pattern (84 bp):
ACTGTCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTATCATTCCTCGAGAGTCCCC
TCCCACCGTTCAAGAGGCC
Found at i:362970 original size:84 final size:84
Alignment explanation
Indices: 362798--362970 Score: 265
Period size: 84 Copynumber: 2.1 Consensus size: 84
362788 TCTATCGTTG
362798 AAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTGTCATCCCTCAA
1 AAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTGTCATCCCTCAA
* * * * *
362863 GAGTTCACTCCTATCGTTG
66 GAGGTCACTCCCACCATTC
** *
362882 AAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTGTCATCGTTGAA
1 AAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTGTCATCCCTCAA
*
362947 GAGGTCCCTCCCACCATTC
66 GAGGTCACTCCCACCATTC
362966 AAGAG
1 AAGAG
362971 CCCGATTCAC
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.23, C:0.36, G:0.19, T:0.22
Consensus pattern (84 bp):
AAGAGGCCCCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTGTCATCCCTCAA
GAGGTCACTCCCACCATTC
Found at i:364347 original size:14 final size:14
Alignment explanation
Indices: 364328--364363 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
364318 ATTGTTTAAT
364328 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
364342 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
364356 TGATTTGT
1 TGATTTGT
364364 TTAACTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:364507 original size:14 final size:14
Alignment explanation
Indices: 364485--364549 Score: 58
Period size: 14 Copynumber: 4.3 Consensus size: 14
364475 AATGCGAAAT
364485 GAAAATCGCAACGA
1 GAAAATCGCAACGA
*
364499 GAGAATCGCAACGCGAAA
1 GAAAATCGCAA--CG--A
364517 TGAAAATCGCAACGA
1 -GAAAATCGCAACGA
* *
364532 GATAATCGCAACGT
1 GAAAATCGCAACGA
364546 GAAA
1 GAAA
364550 TTAAATTCGC
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
14 25 0.61
15 1 0.02
16 2 0.05
17 2 0.05
18 1 0.02
19 10 0.24
ACGTcount: A:0.46, C:0.20, G:0.23, T:0.11
Consensus pattern (14 bp):
GAAAATCGCAACGA
Found at i:364515 original size:33 final size:33
Alignment explanation
Indices: 364470--364559 Score: 135
Period size: 33 Copynumber: 2.7 Consensus size: 33
364460 AAAAAGTACT
*
364470 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
364503 ATCGCAACGCGAAATGAAAATCGCAACGAGATA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* * *
364536 ATCGCAACGTGAAATTAAATTCGC
1 ATCGCAACGCGAAATGAAAATCGC
364560 GTTGCGATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.16
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:364529 original size:19 final size:19
Alignment explanation
Indices: 364470--364530 Score: 69
Period size: 19 Copynumber: 3.5 Consensus size: 19
364460 AAAAAGTACT
*
364470 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
*
364489 ATCGCAA--CG--A-GAGA
1 ATCGCAACGCGAAATGAAA
364503 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
364522 ATCGCAACG
1 ATCGCAACG
364531 AGATAATCGC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 10 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 19 0.54
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:364577 original size:19 final size:19
Alignment explanation
Indices: 364555--364685 Score: 94
Period size: 19 Copynumber: 7.7 Consensus size: 19
364545 TGAAATTAAA
*
364555 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
364574 TTCGCATTGCGA--TTC-C
1 TTCGCATTGCGATTTTCAT
*
364590 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
364607 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
364621 TTAGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
364640 TTCGCATTGCGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
364656 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
364673 TTCGCATTGCGAT
1 TTCGCATTGCGAT
364686 AGTAATTTCC
Statistics
Matches: 84, Mismatches: 13, Indels: 30
0.66 0.10 0.24
Matches are distributed among these distances:
14 23 0.27
16 13 0.15
17 13 0.15
19 35 0.42
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:364601 original size:33 final size:32
Alignment explanation
Indices: 364559--364685 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
364549 ATTAAATTCG
364559 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
364592 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
364625 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
364658 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
364686 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:364635 original size:66 final size:66
Alignment explanation
Indices: 364552--364684 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
364542 ACGTGAAATT
*
364552 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
364617 G
66 G
*
364618 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
364683 G
66 G
364684 A
1 A
364685 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:366993 original size:12 final size:12
Alignment explanation
Indices: 366976--367000 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
366966 TCTTCGGTGA
366976 CTTTTTCTTCTT
1 CTTTTTCTTCTT
366988 CTTTTTCTTCTT
1 CTTTTTCTTCTT
367000 C
1 C
367001 AGGGTTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:367209 original size:24 final size:24
Alignment explanation
Indices: 367175--367228 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
367165 CTGAAACATC
*
367175 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
367199 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
367223 ATCAAA
1 ATCAAA
367229 TTTCGAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:368221 original size:20 final size:20
Alignment explanation
Indices: 368196--368305 Score: 195
Period size: 20 Copynumber: 5.5 Consensus size: 20
368186 ATTCATTTGA
368196 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
368216 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
368236 CTATTGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
368256 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
368276 CTATCGCAACGCG-AAATAG
1 CTATCGCAACGCGAAAATGG
368295 CTATCGCAACG
1 CTATCGCAACG
368306 ACAAAATCGC
Statistics
Matches: 87, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
19 16 0.18
20 71 0.82
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:368355 original size:14 final size:14
Alignment explanation
Indices: 368336--368389 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
368326 GAAAATCGCA
368336 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
368350 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
*
368367 CATTGCGATTCTCTCG
1 --TTGCGATTTTCTCG
368383 TTGCGAT
1 TTGCGAT
368390 AGTCAGTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.46
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:368355 original size:33 final size:33
Alignment explanation
Indices: 368318--368388 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 33
368308 AAAATCGCAA
*
368318 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTCTCTCGT
** ** **
368351 TGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTCTCTCGT
368384 TGCGA
1 TGCGA
368389 TAGTCAGTTT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.20, C:0.21, G:0.21, T:0.38
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTCTCTCGT
Found at i:368407 original size:20 final size:20
Alignment explanation
Indices: 368382--368420 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
368372 CGATTCTCTC
368382 GTTGCGATAGTCAGTTTTGT
1 GTTGCGATAGTCAGTTTTGT
*
368402 GTTGCGATAGTCTGTTTTG
1 GTTGCGATAGTCAGTTTTG
368421 CCTTCAACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.13, C:0.10, G:0.31, T:0.46
Consensus pattern (20 bp):
GTTGCGATAGTCAGTTTTGT
Found at i:370415 original size:20 final size:20
Alignment explanation
Indices: 370392--370445 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
370382 GAAACTTAAA
370392 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
* *
370412 ATCGCAACGCGGAAATGGCT
1 ATCGCAACGCGAAAATGACT
*
370432 ATCGCAATGCGAAA
1 ATCGCAACGCGAAA
370446 TAAAAATCGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.37, C:0.24, G:0.24, T:0.15
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:370526 original size:20 final size:19
Alignment explanation
Indices: 370492--370546 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
370482 TTGCGATTTT
*
370492 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
370511 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
370531 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
370547 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:371054 original size:18 final size:18
Alignment explanation
Indices: 371028--371072 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
371018 GTCGATCAGA
*
371028 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
371046 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
371064 TGATGGCTC
1 TGATGGCTC
371073 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:372441 original size:20 final size:20
Alignment explanation
Indices: 372393--372451 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
372383 AATAGTTTCT
** *
372393 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
372413 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
372433 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
372452 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:372740 original size:22 final size:22
Alignment explanation
Indices: 372713--372756 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
372703 AGATGAGATA
372713 GACGGATTTCGCCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
*
372735 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCGGAGATGGG
372757 TGAGAGAGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.16, G:0.45, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCGGAGATGGG
Found at i:372994 original size:20 final size:20
Alignment explanation
Indices: 372924--373058 Score: 121
Period size: 20 Copynumber: 6.7 Consensus size: 20
372914 CGCTTTGAAA
*
372924 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* * *
372945 ATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGATAGTCAGT
* *
372965 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
372985 ATCTCATTGCGATTTTGT-ATT
1 ATCGCATTGCGA--TAGTCAGT
*
373006 ATCGCATTGCGATAGTAAGT
1 ATCGCATTGCGATAGTCAGT
*
373026 ATCGCATTACGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
373046 ATCGCATTGCGAT
1 ATCGCATTGCGAT
373059 TTTCCCAATT
Statistics
Matches: 94, Mismatches: 16, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
19 5 0.05
20 63 0.67
21 24 0.26
22 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.23, T:0.33
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:373030 original size:61 final size:61
Alignment explanation
Indices: 372924--373061 Score: 195
Period size: 61 Copynumber: 2.3 Consensus size: 61
372914 CGCTTTGAAA
* * * * *
372924 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTACGAAAGTCAGT
* * * *
372985 ATCTCATTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTACGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTACGAAAGTCAGT
373046 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
373062 CCCAATTCGT
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 67 1.00
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGATTTTGTATTATCGCATTGCGAAAGTAAGAATCGCATTACGAAAGTCAGT
Found at i:373077 original size:61 final size:61
Alignment explanation
Indices: 372924--373079 Score: 152
Period size: 61 Copynumber: 2.6 Consensus size: 61
372914 CGCTTTGAAA
* ** * * * * *
372924 ATCGCATTGCGATTATGTATTATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTACGAAAGTCAGT
* ** * * * *
372985 ATCTCATTGCGATTTTGTATTATCGCATTGCGATAGTAAGTATCGCATTACGATAGTCAGT
1 ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTACGAAAGTCAGT
*
373046 ATCGCATTGCGATTTTCCCAAT-TCGTGTTGCGAT
1 ATCGCATTGCGATTTT-CCAATATCGCGTTGCGAT
373080 TTACTTATTC
Statistics
Matches: 79, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
61 77 0.97
62 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (61 bp):
ATCGCATTGCGATTTTCCAATATCGCGTTGCGATAGTAAGAATCGCATTACGAAAGTCAGT
Found at i:373169 original size:21 final size:21
Alignment explanation
Indices: 373129--373169 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
373119 ACTGTAGACC
**
373129 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
373150 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
373170 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:373556 original size:18 final size:18
Alignment explanation
Indices: 373533--373567 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
373523 AGTATTGTCT
*
373533 ATTAAAAGTATTATTGAG
1 ATTAAAAATATTATTGAG
*
373551 ATTAAAAATATTCTTGA
1 ATTAAAAATATTATTGA
373568 AATTTGGTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.03, G:0.11, T:0.40
Consensus pattern (18 bp):
ATTAAAAATATTATTGAG
Found at i:378600 original size:10 final size:10
Alignment explanation
Indices: 378587--378616 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
378577 GATCCATTCA
378587 TTTCAATTTG
1 TTTCAATTTG
378597 TTTCAATTTG
1 TTTCAATTTG
378607 TTTCAATTTG
1 TTTCAATTTG
378617 ATACTCTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.20, C:0.10, G:0.10, T:0.60
Consensus pattern (10 bp):
TTTCAATTTG
Found at i:378738 original size:18 final size:17
Alignment explanation
Indices: 378704--378737 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
378694 TTTATTTGAC
378704 ATTTTTTAATTTGTTTT
1 ATTTTTTAATTTGTTTT
* *
378721 ATTTTTTTATTTCTTTT
1 ATTTTTTAATTTGTTTT
378738 TCTTTGAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (17 bp):
ATTTTTTAATTTGTTTT
Found at i:382849 original size:240 final size:239
Alignment explanation
Indices: 382425--382891 Score: 790
Period size: 240 Copynumber: 1.9 Consensus size: 239
382415 AACTTTATCA
382425 AGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACGGCGAAGGGGC
1 AGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACGGCGAAGGGGC
* *
382490 TTCCAGTTTCATTCAGAGCCAATTTTAACTTCACGACGAAGGATATTAAACTCGAAACAATACAA
66 TTCCAGTTTCATTCAGAGCCAATTTCAACTTCACGACAAAGGATATTAAACTCGAAACAATACAA
* * * * * *
382555 GCTTGGATTTCAACTTCATGACGAAGGATATTCAAGTCAAGGCTCAACTTCACAACGAAGGGGTC
131 GCTTGGATTTCAACTTCACGACAAAGGATATTCAAGTAAAAGCTCAACTTCACAACGAAGGAGCC
*
382620 ATCCACGATTTCAACTTCACGACGAAGGATATCGTGATAACTCT
196 ATCCACGATTTCAACTTCACGAAGAAGGATATCGTGATAACTCT
382664 AGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACGGCGAAGGGGC
1 AGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACGGCGAAGGGGC
*
382729 TTCCCAGTTTCATTCAGAGCCAATTTCAACTTCACGACAAAGGATATTAGACTCGAAACAATACA
66 TT-CCAGTTTCATTCAGAGCCAATTTCAACTTCACGACAAAGGATATTAAACTCGAAACAATACA
* * * *
382794 AGCTTGGATTTCAACTTCACGACAAATGATATTCAAGTAAAATCTCAATTTCACAACGAATGAGC
130 AGCTTGGATTTCAACTTCACGACAAAGGATATTCAAGTAAAAGCTCAACTTCACAACGAAGGAGC
*
382859 CATCCACGATTTCAACTTCATGAAGAAGGATAT
195 CATCCACGATTTCAACTTCACGAAGAAGGATAT
382892 TGTGCCCAAT
Statistics
Matches: 212, Mismatches: 15, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
239 67 0.32
240 145 0.68
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (239 bp):
AGATTGGATTTCAACTTCACGACGAAGGATATCCAATTCAAAGCTCAACTTCACGGCGAAGGGGC
TTCCAGTTTCATTCAGAGCCAATTTCAACTTCACGACAAAGGATATTAAACTCGAAACAATACAA
GCTTGGATTTCAACTTCACGACAAAGGATATTCAAGTAAAAGCTCAACTTCACAACGAAGGAGCC
ATCCACGATTTCAACTTCACGAAGAAGGATATCGTGATAACTCT
Found at i:383127 original size:36 final size:36
Alignment explanation
Indices: 383084--383158 Score: 141
Period size: 36 Copynumber: 2.1 Consensus size: 36
383074 CAAAACTAAG
*
383084 TTGTCTCTCTTGAGACAGTTTCTCTTGAAACAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
383120 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
1 TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
383156 TTG
1 TTG
383159 ATAGTTTCCC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (36 bp):
TTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATT
Found at i:383328 original size:42 final size:37
Alignment explanation
Indices: 383201--383365 Score: 158
Period size: 36 Copynumber: 4.4 Consensus size: 37
383191 GTTTTACATT
* *
383201 AAAC-AAATTTCGTCTC-CTTTGAGACAGTTTCTTTTCG
1 AAACAAAATTTTGTCTCTC-TTGAGACAGTTTCTCTT-G
* *
383238 -AACTAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
**
383274 AAACATATTTTGTCTTTGTCTCTCTTGAGACAGTTTCTCTTG
1 AAACA-A---AAT-TTTGTCTCTCTTGAGACAGTTTCTCTTG
* *
383316 AAA-AAAAATTTGTCTCTCTTGAGACAGTTTCCCTTG
1 AAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
383352 AAACAAAATCTTTG
1 AAACAAAAT-TTTG
383366 AATATGTTTT
Statistics
Matches: 108, Mismatches: 10, Indels: 19
0.79 0.07 0.14
Matches are distributed among these distances:
36 34 0.31
37 33 0.31
38 6 0.06
40 1 0.01
41 3 0.03
42 31 0.29
ACGTcount: A:0.25, C:0.19, G:0.14, T:0.41
Consensus pattern (37 bp):
AAACAAAATTTTGTCTCTCTTGAGACAGTTTCTCTTG
Found at i:383477 original size:36 final size:36
Alignment explanation
Indices: 383373--383498 Score: 155
Period size: 36 Copynumber: 3.5 Consensus size: 36
383363 TTGAATATGT
* * *
383373 TTTC-CTTGAAACAAATTTCGTCTCCCTTGAGATAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* * **
383408 TTTCTTTTGGAACTACGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
*
383445 TTTCTCTTGAAACAAATTTTATCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
383481 TTTCCCTTGAAACAAATT
1 TTTCTCTTGAAACAAATT
383499 GAGACAGTTT
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
35 4 0.05
36 43 0.57
37 29 0.38
ACGTcount: A:0.25, C:0.21, G:0.13, T:0.41
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:383506 original size:25 final size:25
Alignment explanation
Indices: 383472--383521 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
383462 TTTATCTCTC
383472 TTGAGACAGTTTCCCTTGAAACAAA
1 TTGAGACAGTTTCCCTTGAAACAAA
383497 TTGAGACAGTTTCCCTTGAAACAAA
1 TTGAGACAGTTTCCCTTGAAACAAA
383522 ATCTTTGAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (25 bp):
TTGAGACAGTTTCCCTTGAAACAAA
Found at i:383581 original size:36 final size:37
Alignment explanation
Indices: 383526--383621 Score: 126
Period size: 37 Copynumber: 2.6 Consensus size: 37
383516 AACAAAATCT
*
383526 TTGA-ATATGTTTTCATTGAAACAAA-TTTTGTCTCTC
1 TTGAGATA-GTTTTCCTTGAAACAAAGTTTTGTCTCTC
* *
383562 TTGAGATAGTTTTCCTTGAAAAAAAGTTTTTTCTCTC
1 TTGAGATAGTTTTCCTTGAAACAAAGTTTTGTCTCTC
383599 TTGAGATAG-TTTCTCTTGAAACA
1 TTGAGATAGTTTTC-CTTGAAACA
383622 CAAAAAAATC
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
36 23 0.43
37 30 0.57
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.45
Consensus pattern (37 bp):
TTGAGATAGTTTTCCTTGAAACAAAGTTTTGTCTCTC
Found at i:383698 original size:37 final size:35
Alignment explanation
Indices: 383607--383729 Score: 160
Period size: 35 Copynumber: 3.5 Consensus size: 35
383597 TCTTGAGATA
* *
383607 GTTTCTCTTGAAACAC-AAAAAAATCTTCAAAATC
1 GTTTCTCTTGAAACACAAAAAAAACCTTTAAAATC
* *
383641 ATTTCTCTTGAAACACAAAAAAAACCTTTGAAATC
1 GTTTCTCTTGAAACACAAAAAAAACCTTTAAAATC
383676 GTTTCTCTTGAAACACAAAAAAAAAACCTTTAAAAAT-
1 GTTTCTCTTGAAACAC--AAAAAAAACCTTT-AAAATC
*
383713 GTTTCTTTTGAAACACA
1 GTTTCTCTTGAAACACA
383730 CAGACCCTCG
Statistics
Matches: 78, Mismatches: 7, Indels: 7
0.85 0.08 0.08
Matches are distributed among these distances:
34 15 0.19
35 31 0.40
37 28 0.36
38 4 0.05
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.30
Consensus pattern (35 bp):
GTTTCTCTTGAAACACAAAAAAAACCTTTAAAATC
Found at i:385260 original size:30 final size:30
Alignment explanation
Indices: 385224--385280 Score: 114
Period size: 30 Copynumber: 1.9 Consensus size: 30
385214 GTGCTGGCAC
385224 GCACATGGGTGTTGTTTTGTTCCAAATCAT
1 GCACATGGGTGTTGTTTTGTTCCAAATCAT
385254 GCACATGGGTGTTGTTTTGTTCCAAAT
1 GCACATGGGTGTTGTTTTGTTCCAAAT
385281 GGTGAGTTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.19, C:0.16, G:0.25, T:0.40
Consensus pattern (30 bp):
GCACATGGGTGTTGTTTTGTTCCAAATCAT
Found at i:390981 original size:6 final size:7
Alignment explanation
Indices: 390966--390990 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
390956 AGACCAGAAC
390966 TTTTCTT
1 TTTTCTT
390973 TTTTCTT
1 TTTTCTT
390980 TTTTCTT
1 TTTTCTT
390987 TTTT
1 TTTT
390991 TAATTTTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTCTT
Found at i:391019 original size:25 final size:26
Alignment explanation
Indices: 390985--391042 Score: 91
Period size: 25 Copynumber: 2.3 Consensus size: 26
390975 TTCTTTTTTC
*
390985 TTTTTTTAATTTTCAGAATT-TGTTT
1 TTTTTTTAATTTTCAGAATTCTCTTT
*
391010 TTTTTTTAATTTTCGGAATTCTCTTT
1 TTTTTTTAATTTTCAGAATTCTCTTT
391036 TTTTTTT
1 TTTTTTT
391043 CAAGATGAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 19 0.63
26 11 0.37
ACGTcount: A:0.16, C:0.07, G:0.07, T:0.71
Consensus pattern (26 bp):
TTTTTTTAATTTTCAGAATTCTCTTT
Found at i:393243 original size:25 final size:25
Alignment explanation
Indices: 393213--393269 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
393203 TTTCTTTGAC
*
393213 ATTTTTTAATTCGTTTTATTTA-TT
1 ATTTTTTAATTAGTTTTATTTATTT
* *
393237 ATGTTTTTATTTATTTTTATTTATTT
1 AT-TTTTTAATTAGTTTTATTTATTT
393263 ATTTTTT
1 ATTTTTT
393270 CTTGAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 2 0.07
25 22 0.79
26 4 0.14
ACGTcount: A:0.19, C:0.02, G:0.04, T:0.75
Consensus pattern (25 bp):
ATTTTTTAATTAGTTTTATTTATTT
Found at i:393268 original size:15 final size:14
Alignment explanation
Indices: 393226--393269 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
393216 TTTTAATTCG
*
393226 TTTTATTTATTATGT
1 TTTTATTTATT-TTT
393241 TTTTATTTATTTTT
1 TTTTATTTATTTTT
*
393255 ATTTATTTATTTTT
1 TTTTATTTATTTTT
393269 T
1 T
393270 CTTGAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.18, C:0.00, G:0.02, T:0.80
Consensus pattern (14 bp):
TTTTATTTATTTTT
Found at i:393302 original size:22 final size:23
Alignment explanation
Indices: 393257--393311 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
393247 TTATTTTTAT
*
393257 TTATT-TATTTTTTCTTGAATTA
1 TTATTCTATTTTTTCTTGAAATA
*
393279 TTATTCTATTTTTT-TTTAAATA
1 TTATTCTATTTTTTCTTGAAATA
393301 TT-TTCTTATTT
1 TTATTC-TATTT
393312 GATTTATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 3 0.10
22 18 0.62
23 8 0.28
ACGTcount: A:0.22, C:0.05, G:0.02, T:0.71
Consensus pattern (23 bp):
TTATTCTATTTTTTCTTGAAATA
Found at i:396823 original size:3 final size:3
Alignment explanation
Indices: 396774--396805 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
396764 ATTTAAAAAA
396774 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
396806 ATAATTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:397942 original size:19 final size:20
Alignment explanation
Indices: 397918--397966 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
397908 GTTTATTTTA
397918 TTTTTTTTATTCC-ATCTATT
1 TTTTTTTTATTCCAATC-ATT
397938 TTTTTCATTTATTCCAATCATT
1 TTTTT--TTTATTCCAATCATT
*
397960 TTATTTT
1 TTTTTTT
397967 ATTGTTTAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 7 0.28
22 15 0.60
23 3 0.12
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTTTTATTCCAATCATT
Found at i:399251 original size:16 final size:16
Alignment explanation
Indices: 399199--399251 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 16
399189 AGTATTATCC
*
399199 GACCTGTTTTCAACCT
1 GACCTGTTTTCAACAT
* * * *
399215 GACTTGTTATGAACTT
1 GACCTGTTTTCAACAT
*
399231 AACCTGTTTTCAACAT
1 GACCTGTTTTCAACAT
399247 GACCT
1 GACCT
399252 ATAAATAATC
Statistics
Matches: 27, Mismatches: 10, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.25, C:0.25, G:0.13, T:0.38
Consensus pattern (16 bp):
GACCTGTTTTCAACAT
Found at i:402134 original size:182 final size:182
Alignment explanation
Indices: 401716--402389 Score: 913
Period size: 182 Copynumber: 3.7 Consensus size: 182
401706 TGTCGGTTTA
* ** * * * *
401716 TGTCGATACTTTATAAAAATGTATTTATCCACATCAATATAACAGGAAAAAATATGACAAAACCG
1 TGTCGATTCTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCG
* * * * *
401781 GTCACGAAAAGATAAAACCGGTAAAGCGCTACCGGATATATTGCAAGTGTCGCTACTTTAATATA
66 GTCACGAAAAGACAAAACCGGTAAAGAGCTACCGAATATATTGAAAGTGTCGATACTTTAATATA
* *
401846 AGTATCGACACATAGTGAATTTAAAGGAGAA-CAGTTTTAGCACCTATAAAG
131 AGTATCGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
* * * *
401897 TGTCGATTCTTTATAAATATGTATCGATCCACAATGATATAATAGGTAAAAATATGATAAAATCG
1 TGTCGATTCTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCG
* * * *
401962 GTCAGGAAAAGACAAAACCGGTAAAGAGATACTGAATATATTGAAATTGTCGATACTTTAATATA
66 GTCACGAAAAGACAAAACCGGTAAAGAGCTACCGAATATATTGAAAGTGTCGATACTTTAATATA
* * *
402027 AGTATCAACACATTGTGAATTTACAGGAGAAGCAGTTTTAGCGCTTATAAAG
131 AGTATCGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
* * *
402079 TGTCGATTCTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGAAAAAACTG
1 TGTCGATTCTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCG
** * *
402144 GTCGGGAAAAGACAAAACCGGTAAAGCGCTACC-AGATATATTAAAAGTGTCGATACTTTAATAT
66 GTCACGAAAAGACAAAACCGGTAAAGAGCTACCGA-ATATATTGAAAGTGTCGATACTTTAATAT
*
402208 AAGTATCGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAAA
130 AAGTATCGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTAT-AAAG
* * * *
402262 TATCGATTCTTTATAAAGATGTATCGATCCATAACGATATAAAAGGTAAAAATATGATAAAACCG
1 TGTCGATTCTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCG
* * * ** *
402327 ATCTCTAACTGACAAAACCGGTAAAGCA-CTACCGGATATATTGAAAGTGTCGATACTTTAATA
66 GTCACGAAAAGACAAAACCGGTAAAG-AGCTACCGAATATATTGAAAGTGTCGATACTTTAATA
402390 AGTACGCGTA
Statistics
Matches: 432, Mismatches: 56, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
181 139 0.32
182 178 0.41
183 115 0.27
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
TGTCGATTCTTTATAAAAATGTATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCG
GTCACGAAAAGACAAAACCGGTAAAGAGCTACCGAATATATTGAAAGTGTCGATACTTTAATATA
AGTATCGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAG
Found at i:402393 original size:363 final size:363
Alignment explanation
Indices: 401716--402389 Score: 999
Period size: 363 Copynumber: 1.9 Consensus size: 363
401706 TGTCGGTTTA
** * *
401716 TGTCGATACTTTATAAAAATGTATTTATCCACATCAATATAACAGGAAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACAATATAACAGGAAAAAATATGAAAAAACCG
* * ** *
401781 GTCACGAAAAGATAAAACCGGTAAAGCGCTACCGGATATATTGCAAGTGTCGCTACTTTAATATA
66 GTCACGAAAAGACAAAACCGGTAAAGCGCTACCAGATATATTAAAAGTGTCGATACTTTAATATA
* *
401846 AGTATCGACACATAGTGAATTTAAAGGAGAACAGTTTTAGCACCTATAAAGTGTCGATTCTTTAT
131 AGTATCGACACATAGTGAATTTAAAGGAGAACAGTTTTAGCACCTATAAAATATCGATTCTTTAT
* * * * * *
401911 AAATATGTATCGATCCACAATGATATAATAGGTAAAAATATGATAAAATCGGTCAGGAAAAGACA
196 AAAGATGTATCGATCCACAACGATATAAAAGGTAAAAATATGATAAAACCGATCACGAAAAGACA
* *
401976 AAACCGGTAAAGAGATACTGAATATATTGAAATTGTCGATACTTTAATATAAGTATCAACACATT
261 AAACCGGTAAAGAGATACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCAACACATT
402041 GTGAATTTACAGGAGAAGCAGTTTTAGCGCTTATAAAG
326 GTGAATTTACAGGAGAAGCAGTTTTAGCGCTTATAAAG
* * * * *
402079 TGTCGATTCTTTATAAAAATGTATCGATCCATAACGATATAACAGGTAAAAATATGAAAAAACTG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACAATATAACAGGAAAAAATATGAAAAAACCG
**
402144 GTCGGGAAAAGACAAAACCGGTAAAGCGCTACCAGATATATTAAAAGTGTCGATACTTTAATATA
66 GTCACGAAAAGACAAAACCGGTAAAGCGCTACCAGATATATTAAAAGTGTCGATACTTTAATATA
* *
402209 AGTATCGACACATTGTGAATTTAAAGGAGAAGCAGTTTTAGCGCCTATAAAAATATCGATTCTTT
131 AGTATCGACACATAGTGAATTTAAAGGAGAA-CAGTTTTAGCACCTAT-AAAATATCGATTCTTT
* * * **
402274 ATAAAGATGTATCGATCCATAACGATATAAAAGGTAAAAATATGATAAAACCGATCTCTAACTGA
194 ATAAAGATGTATCGATCCACAACGATATAAAAGGTAAAAATATGATAAAACCGATCACGAAAAGA
* *
402339 CAAAACCGGTAAAGCA-CTACCGGATATATTGAAAGTGTCGATACTTTAATA
259 CAAAACCGGTAAAG-AGATACCGAATATATTGAAAGTGTCGATACTTTAATA
402390 AGTACGCGTA
Statistics
Matches: 273, Mismatches: 35, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
363 144 0.53
364 15 0.05
365 113 0.41
366 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (363 bp):
TGTCGATACTTTATAAAAATGTATCGATCCACAACAATATAACAGGAAAAAATATGAAAAAACCG
GTCACGAAAAGACAAAACCGGTAAAGCGCTACCAGATATATTAAAAGTGTCGATACTTTAATATA
AGTATCGACACATAGTGAATTTAAAGGAGAACAGTTTTAGCACCTATAAAATATCGATTCTTTAT
AAAGATGTATCGATCCACAACGATATAAAAGGTAAAAATATGATAAAACCGATCACGAAAAGACA
AAACCGGTAAAGAGATACCGAATATATTGAAAGTGTCGATACTTTAATATAAGTATCAACACATT
GTGAATTTACAGGAGAAGCAGTTTTAGCGCTTATAAAG
Found at i:404703 original size:15 final size:15
Alignment explanation
Indices: 404683--404715 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
404673 TGGTTGTATT
404683 GGGGGATGACGGTGA
1 GGGGGATGACGGTGA
*
404698 GGGGGATGATGGTGA
1 GGGGGATGACGGTGA
404713 GGG
1 GGG
404716 AAAACAGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.03, G:0.64, T:0.15
Consensus pattern (15 bp):
GGGGGATGACGGTGA
Found at i:404824 original size:21 final size:21
Alignment explanation
Indices: 404798--404841 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
404788 AAGACAATCA
404798 AGAGTC-AATAAGAAACTTGAG
1 AGAGTCGAA-AAGAAACTTGAG
* *
404819 AGAGTCGAAGAGACACTTGAG
1 AGAGTCGAAAAGAAACTTGAG
404840 AG
1 AG
404842 GCATAAGGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.43, C:0.11, G:0.30, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAAAGAAACTTGAG
Found at i:404911 original size:33 final size:33
Alignment explanation
Indices: 404874--405006 Score: 239
Period size: 33 Copynumber: 4.0 Consensus size: 33
404864 AAATAGATGG
*
404874 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTAAGGTGTTGAGGGGTGA
*
404907 AGTGGTGAAAGAAGTTGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTAAGGTGTTGAGGGGTGA
404940 AGTGGTGAAAGAAGTTAAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTAAGGTGTTGAGGGGTGA
*
404973 AGTGGTGAAATAAGTTAAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTAAGGTGTTGAGGGGTGA
405006 A
1 A
405007 CTTAAGATGG
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 98 1.00
ACGTcount: A:0.29, C:0.00, G:0.46, T:0.25
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTAAGGTGTTGAGGGGTGA
Found at i:405011 original size:21 final size:21
Alignment explanation
Indices: 404987--405027 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
404977 GTGAAATAAG
* *
404987 TTAAGGTGTTGAGGGGTGAAC
1 TTAAGATGGTGAGGGGTGAAC
405008 TTAAGATGGTGAGGGGTGAA
1 TTAAGATGGTGAGGGGTGAA
405028 AAAATTGATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.02, G:0.44, T:0.27
Consensus pattern (21 bp):
TTAAGATGGTGAGGGGTGAAC
Found at i:405244 original size:22 final size:18
Alignment explanation
Indices: 405190--405246 Score: 96
Period size: 18 Copynumber: 3.2 Consensus size: 18
405180 GAAAAAATAT
*
405190 GAAGAAAAAAAGAGGGAG
1 GAAGAAGAAAAGAGGGAG
405208 GAAGAAGAAAAGAGGGAG
1 GAAGAAGAAAAGAGGGAG
*
405226 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGAGGGAG
405244 GAA
1 GAA
405247 ATGAGGAGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.58, C:0.00, G:0.40, T:0.02
Consensus pattern (18 bp):
GAAGAAGAAAAGAGGGAG
Found at i:407408 original size:200 final size:199
Alignment explanation
Indices: 407055--408632 Score: 1599
Period size: 200 Copynumber: 7.8 Consensus size: 199
407045 TAAGCATATG
* * * *
407055 TGTCGATACGTTTATAAAAAGTGTCGATCCCAAAAATATTGAAACTCATAATTATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * * ** *
407120 GTAATTTTAT-AATATAACCTGTATAAATATACTAGTTTTATGTGAGAATAGGTCTACATAATGT
66 GTAATTTT-TCAATGTAACCGGTATAACTATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * * * * * * *
407184 ATTGACA-TTTTTTCATTATGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAACG
130 ATCGACACTTGTGTAATT-TGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACG
407248 CATAACA
194 CATAA-A
* ** * *
407255 CGTCGATACATTTATTGAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATAT
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * * *
407320 ATAATTTTTCAATGTAACTGGTATAACTAAACCGGTTTTATGAGAGAATATGTCTACATAATGTA
66 GTAATTTTTCAATGTAACCGGTATAACTATACCGGTTTTATGAGAGAATAGGTCTACATAATGTA
* * * *
407385 TCGACACTTCTGGAATTTGTGTCGATA-TTGTTTCTCCAGAAGGAATGCCTAAAAGGGTGCACGC
131 TCGACACTTGTGTAATTTGTGTCGATACTT-TTTGTCCAGAAGGAATGCCCAAAAGGGTGCACGC
*
407449 AAAAA
195 ATAAA
* * *
407454 GTGTCGATACATTTATAAACAAGTATCGATCCCAGAAATATCGAAACCCATAATTATAATGTAAT
1 -TGTCGATACATTTATAAA-AAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAAT
* * * *
407519 AGGTAATTTTTTAATGTAACCGGTAT-ACATATACCAGTTTTATGAGAGAATATGTGTACA-ATA
64 AGGTAATTTTTCAATGTAACCGGTATAAC-TATACCGGTTTTATGAGAGAATAGGTCTACATA-A
* * * * *
407582 TGTATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCTAGAATGAATGGCCAAAAAGGCTGC
127 TGTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAAT-GCCCAAAAGGGTGC
*
407647 AC-CACTAAG
191 ACGCA-TAAA
* * * * *
407656 TGTCAATACATTTATAAGAAGTGTCGATCCCAAAAATATTGAAAACCATAATTATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * *
407721 GTAATTTTTCAATTTAACCGGTAT-ACTTATACCGGTTTTATGAGAGAATATGTGTACA-ATATG
66 GTAATTTTTCAATGTAACCGGTATAAC-TATACCGGTTTTATGAGAGAATAGGTCTACATA-ATG
* * *
407784 TATGGACACTTGTGTAATTTGTGTCGATACTTTTCGTCCAAAAGGAATGCCCAAAAAGGGTGCA-
129 TATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCC-AAAAGGGTGCAC
* *
407848 TCACTAAG
193 GCA-TAAA
*
407856 TGTCGATACATTTATACAAAGTGTCGATACATTTATACAAAGTGTCGATCCCAGAAACATCGAAA
1 TGTCGATACATTTATAAAAAGTGTCGAT-C-------C-------C-A----A-AAACATCGAAA
** * *
407921 ATCATAATTATTATGTAATAGGTAATTTTTCAATGTAATCGGTAT-ACTTATACCGGTTTTATGA
45 CCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGGTATAAC-TATACCGGTTTTATGA
* * * *
407985 GAGAATAGGTGTACAAAATGTATCGACACTTGTGTAATTTGTATCGATACTTTTGGTCCAGAAGG
109 GAGAATAGGTCTACATAATGTATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAGG
* *
408050 AATGCCGAAAAAGGGTGCAC-CACTAAG
174 AATGCC-CAAAAGGGTGCACGCA-TAAA
* * * *
408077 TGTCGACACATTTATACAAAGTGTCGATCCTAAAAATATCGAAACCCATAATTATAATGTAATAG
1 TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
* * * *
408142 GTAATTTTGT-AATATAACCGGTATAAATATATCGGTTTTATGTGAGAATAGGTCTACATAATGT
66 GTAATTTT-TCAATGTAACCGGTATAACTATACCGGTTTTATGAGAGAATAGGTCTACATAATGT
* * * * * * * * *
408206 ATCGACACTTTTTTATTTTGTGTTGATACGTTTTGTCCAGAATGAATG-CCAAAATGATGAACGC
130 ATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACGC
408270 ATAAA
195 ATAAA
* * * * * *
408275 GTGTCGATATATTTATAAAATGTGTCGATACCAGAAACATTGAAACCCATAAATATAATGTAATA
1 -TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * *
408340 GGTAAATTTACAATGTAACCGGTATAATTATACCGGTTTTATGAGAGAATATGTCTACA-ACATG
65 GGTAATTTTTCAATGTAACCGGTATAACTATACCGGTTTTATGAGAGAATAGGTCTACATA-ATG
* * * *
408404 TATCGACACTTGTGGAATTGGTGTCGATACTTTTTGTCCAGAAGGAATG-CC-AAAGGGTTACAT
129 TATCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGG-TGCAC
408467 GCATAAA
193 GCATAAA
* * * * * *
408474 GTATCGATACGTTTTTAAAAAGTGTCGATCCCAAGAACATCGAAACCGATAATTATAATGTAATT
1 -TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * * * *
408539 GGTAAATTTCCAATATAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTC-ATCATAAAG
65 GGTAATTTTTCAATGTAACCGGTATAACTATACCGGTTTTATGAGAGAATAGGTCTA-CATAATG
*
408603 TATCGACAATTGT-TAAATTTGTGTCGATAC
129 TATCGACACTTGTGT-AATTTGTGTCGATAC
408633 CATTTTAAAT
Statistics
Matches: 1169, Mismatches: 163, Indels: 93
0.82 0.11 0.07
Matches are distributed among these distances:
198 18 0.02
199 302 0.26
200 482 0.41
201 163 0.14
202 18 0.02
205 1 0.00
208 1 0.00
213 1 0.00
215 1 0.00
216 1 0.00
220 2 0.00
221 178 0.15
222 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (199 bp):
TGTCGATACATTTATAAAAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATAG
GTAATTTTTCAATGTAACCGGTATAACTATACCGGTTTTATGAGAGAATAGGTCTACATAATGTA
TCGACACTTGTGTAATTTGTGTCGATACTTTTTGTCCAGAAGGAATGCCCAAAAGGGTGCACGCA
TAAA
Found at i:407831 original size:401 final size:397
Alignment explanation
Indices: 407054--408632 Score: 1681
Period size: 421 Copynumber: 3.9 Consensus size: 397
407044 GTAAGCATAT
* * * * *
407054 GTGTCGATACGTTTATAAAAAGTGTCGATCCCAAAAATATTGAAACTCATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * * *
407119 GGTAATTTTATAATATAACCTGTATAAATATACTAGTTTTATGTGAGAATAGGTCTAC-ATAATG
66 GGTAATTTTACAATGTAACCGGTATACATATACCAGTTTTATGAGAGAATAGGTCTACAAT-ATG
* * * * * * * * *
407183 TATTGACA-TTTTTTCATTATGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGATGAAC
130 TATCGACACTTGTGTAATT-TGTGTCGATACTTTTGGTCCAGAAGGAATGCCAAAAAGGATGCAC
** * * *
407247 GCATAACACGTCGATACATTTAT-TGAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATA
194 -CATAA-GTGTCGATACATTTATAAG-AAGTGTCGATCCCAAAAACATCGAAAACCATAATTATA
** * * * *
407311 ATGTAATATATAATTTTTCAATGTAACTGGTATAACTAAACCGGTTTTATGAGAGAATATGTCTA
256 ATGTAATAGGTAATTTTTCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTA
* *
407376 CATAATGTATCGACACTTCTGGAATTTGTGTCGATATTGTTTC-TCCAGAAGGAATGCCTAAAAG
321 CATAATGTATCGACACTTCTGTAATTTGTGTCGATACT-TTTCGTCCAGAAGGAATGCC-AAAAG
407440 GGTGCACGCAAAAA
384 GGTGCACGCAAAAA
* *
407454 GTGTCGATACATTTATAAACAAGTATCGATCCCAGAAATATCGAAACCCATAATTATAATGTAAT
1 GTGTCGATACATTTATAAA-AAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAAT
** * *
407519 AGGTAATTTTTTAATGTAACCGGTATACATATACCAGTTTTATGAGAGAATATGTGTACAATATG
65 AGGTAATTTTACAATGTAACCGGTATACATATACCAGTTTTATGAGAGAATAGGTCTACAATATG
* * *
407584 TATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCTAGAATGAATGGCCAAAAAGGCTGCAC
130 TATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAAT-GCCAAAAAGGATGCAC
* * *
407649 CACTAAGTGTCAATACATTTATAAGAAGTGTCGATCCCAAAAATATTGAAAACCATAATTATAAT
194 CA-TAAGTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAAT
* ** *
407714 GTAATAGGTAATTTTTCAATTTAACCGGTATACTTATACCGGTTTTATGAGAGAATATGTGTACA
258 GTAATAGGTAATTTTTCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTACA
* * *
407779 -ATATGTATGGACACTTGTGTAATTTGTGTCGATACTTTTCGTCCAAAAGGAATGCCCAAAAAGG
323 TA-ATGTATCGACACTTCTGTAATTTGTGTCGATACTTTTCGTCCAGAAGGAATG-CC-AAAAGG
407843 GTGCATCACTAAGTGTCGATACATTTATACAAA
385 GTG-----C--A----CG---C----A-A-AAA
* ** *
407876 GTGTCGATACATTTATACAAAGTGTCGATCCCAGAAACATCGAAAATCATAATTATTATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * * * *
407941 GGTAATTTTTCAATGTAATCGGTATACTTATACCGGTTTTATGAGAGAATAGGTGTACAAAATGT
66 GGTAATTTTACAATGTAACCGGTATACATATACCAGTTTTATGAGAGAATAGGTCTACAATATGT
* *
408006 ATCGACACTTGTGTAATTTGTATCGATACTTTTGGTCCAGAAGGAATGCCGAAAAAGGGTGCACC
131 ATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCC-AAAAAGGATGCACC
* * * *
408071 ACTAAGTGTCGACACATTTATACA-AAGTGTCGATCCTAAAAATATCGAAACCCATAATTATAAT
195 A-TAAGTGTCGATACATTTATA-AGAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAAT
* * *
408135 GTAATAGGTAATTTTGT-AATATAACCGGTATAAATATATCGGTTTTATGTGAGAATAGGTCTAC
258 GTAATAGGTAATTTT-TCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTAC
* * * * * * *
408199 ATAATGTATCGACACTTTTTTATTTTGTGTTGATACGTTTT-GTCCAGAATGAATGCCAAAATGA
322 ATAATGTATCGACACTTCTGTAATTTGTGTCGATAC-TTTTCGTCCAGAAGGAATGCCAAAAGGG
* *
408263 TGAACGCATAAA
386 TGCACGCAAAAA
* * * * *
408275 GTGTCGATATATTTATAAAATGTGTCGATACCAGAAACATTGAAACCCATAAATATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
* * * *
408340 GGTAAATTTACAATGTAACCGGTATA-ATTATACCGGTTTTATGAGAGAATATGTCTACAACATG
66 GGTAATTTTACAATGTAACCGGTATACA-TATACCAGTTTTATGAGAGAATAGGTCTACAATATG
* * * * * * *
408404 TATCGACACTTGTGGAATTGGTGTCGATACTTTTTGTCCAGAAGGAATGCC-AAAGGGTTACATG
130 TATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCAAAAAGGATGCA-C
* * * * *
408468 CATAAAGTATCGATACGTTTTTAAAAAGTGTCGATCCCAAGAACATCG-AAACCGATAATTATAA
194 CAT-AAGTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAAACC-ATAATTATAA
* * * * * *
408532 TGTAATTGGTAAATTTCCAATATAACCAGTATAAATATACCGGTTTTATGAGAAAATAGGTC-AT
257 TGTAATAGGTAATTTTTCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTA-
* * *
408596 CATAAAGTATCGACAATTGT-TAAATTTGTGTCGATAC
321 CATAATGTATCGACACTTCTGT-AATTTGTGTCGATAC
408633 CATTTTAAAT
Statistics
Matches: 1009, Mismatches: 128, Indels: 86
0.83 0.10 0.07
Matches are distributed among these distances:
397 16 0.02
398 131 0.13
399 162 0.16
400 23 0.02
401 280 0.28
402 36 0.04
405 1 0.00
407 1 0.00
408 2 0.00
409 1 0.00
412 1 0.00
413 2 0.00
416 1 0.00
419 7 0.01
420 6 0.01
421 311 0.31
422 28 0.03
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (397 bp):
GTGTCGATACATTTATAAAAAGTGTCGATCCCAGAAACATCGAAACCCATAATTATAATGTAATA
GGTAATTTTACAATGTAACCGGTATACATATACCAGTTTTATGAGAGAATAGGTCTACAATATGT
ATCGACACTTGTGTAATTTGTGTCGATACTTTTGGTCCAGAAGGAATGCCAAAAAGGATGCACCA
TAAGTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTA
ATAGGTAATTTTTCAATATAACCGGTATAAATATACCGGTTTTATGAGAGAATATGTCTACATAA
TGTATCGACACTTCTGTAATTTGTGTCGATACTTTTCGTCCAGAAGGAATGCCAAAAGGGTGCAC
GCAAAAA
Found at i:407879 original size:21 final size:21
Alignment explanation
Indices: 407853--407904 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
407843 GTGCATCACT
407853 AAGTGTCGATACATTTATACA
1 AAGTGTCGATACATTTATACA
407874 AAGTGTCGATACATTTATACA
1 AAGTGTCGATACATTTATACA
407895 AAGTGTCGAT
1 AAGTGTCGAT
407905 CCCAGAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (21 bp):
AAGTGTCGATACATTTATACA
Found at i:408036 original size:221 final size:221
Alignment explanation
Indices: 407653--408104 Score: 735
Period size: 221 Copynumber: 2.0 Consensus size: 221
407643 CTGCACCACT
* * *
407653 AAGTGTCAATACATTTATAAGAAGTGTCGATCCCAAAAATATTGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * *
407718 TAGGTAATTTTTCAATTTAACCGGTATACTTATACCGGTTTTATGAGAGAATATGTGTACAATAT
66 TAGGTAATTTTTCAATGTAACCGGTATACTTATACCGGTTTTATGAGAGAATAGGTGTACAAAAT
* *
407783 GTATGGACACTTGTGTAATTTGTGTCGATACTTTTCGTCCAAAAGGAATGCCCAAAAAGGGTGCA
131 GTATCGACACTTGTGTAATTTGTATCGATACTTTTCGTCCAAAAGGAATGCCCAAAAAGGGTGCA
* *
407848 TCACTAAGTGTCGATACATTTATACA
196 CCACTAAGTGTCGACACATTTATACA
* * *
407874 AAGTGTCGATACATTTATACA-AAGTGTCGATCCCAGAAACATCGAAAATCATAATTATTATGTA
1 AAGTGTCGATACATTTATA-AGAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTA
*
407938 ATAGGTAATTTTTCAATGTAATCGGTATACTTATACCGGTTTTATGAGAGAATAGGTGTACAAAA
65 ATAGGTAATTTTTCAATGTAACCGGTATACTTATACCGGTTTTATGAGAGAATAGGTGTACAAAA
* * *
408003 TGTATCGACACTTGTGTAATTTGTATCGATACTTTTGGTCCAGAAGGAATGCCGAAAAAGGGTGC
130 TGTATCGACACTTGTGTAATTTGTATCGATACTTTTCGTCCAAAAGGAATGCCCAAAAAGGGTGC
408068 ACCACTAAGTGTCGACACATTTATACA
195 ACCACTAAGTGTCGACACATTTATACA
408095 AAGTGTCGAT
1 AAGTGTCGAT
408105 CCTAAAAATA
Statistics
Matches: 213, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
221 212 1.00
222 1 0.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.32
Consensus pattern (221 bp):
AAGTGTCGATACATTTATAAGAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
TAGGTAATTTTTCAATGTAACCGGTATACTTATACCGGTTTTATGAGAGAATAGGTGTACAAAAT
GTATCGACACTTGTGTAATTTGTATCGATACTTTTCGTCCAAAAGGAATGCCCAAAAAGGGTGCA
CCACTAAGTGTCGACACATTTATACA
Found at i:411136 original size:11 final size:11
Alignment explanation
Indices: 411122--411173 Score: 59
Period size: 11 Copynumber: 4.5 Consensus size: 11
411112 CGTTATGGGT
411122 ACATTATTTGA
1 ACATTATTTGA
*
411133 ACATTTTTATGTA
1 ACATTATT-TG-A
*
411146 TAAATTATTTGA
1 -ACATTATTTGA
411158 ACATTATTTGA
1 ACATTATTTGA
411169 ACATT
1 ACATT
411174 GTTATGTATA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
11 22 0.65
12 3 0.09
13 3 0.09
14 6 0.18
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.48
Consensus pattern (11 bp):
ACATTATTTGA
Found at i:411861 original size:199 final size:198
Alignment explanation
Indices: 411469--412235 Score: 918
Period size: 199 Copynumber: 3.8 Consensus size: 198
411459 TAAAGTTTCC
* * *
411469 CATAAAGTGTTGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAATCC-ATAAATATAA
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAA-CCGATAATTATAA
* * *
411533 TGTAATAGGTAAATTTACAATGTAACCGGTAT-AACA-ACCAGTTTTATGAGAGAATATGTCTAC
65 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCTAC
* * * * * *
411596 ATAATTTATCGACAC-TTCTGGAATTTGTGTTGATACTGTTTGTCCAGAATGAATTCCCATAAAG
130 ATAATGTATCGACACTTTTTAG-ATTTGTGTCGATACTTTTTGTCCAGAATG-A-TGCCA-AAAG
*
411660 GGTGCACT
191 GGTGCACG
* * * *
411668 CATAAAGTGTCGAAACATTTTTAAAACGTATCGATCCCAAAAACATCGAGACCTATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
* ** * * * *
411733 GTAATAGGTAATTTTGTAATATAACTGGTATAAATATACCAGTTTTAT-ATGAGAATATGTCTAC
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGA-GAAAATAGGTCTAC
* * *
411797 ATAATATGTCGACACTTTTTA-ATGTTGTGTCGATACTTTTTGTACAGAATGATGCTCAAAAGGG
130 ATAATGTATCGACACTTTTTAGAT-TTGTGTCGATACTTTTTGTCCAGAATGATGC-CAAAAGGG
*
411861 TGAACG
193 TGCACG
* * *
411867 CATAAAGTATCGATACATTTATAAAGAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
1 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
** ** **
411932 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTATGTTAAAATAGGTGAACA
66 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCTACA
* * * * *
411997 TAATGTATCGACACATTTTAGATTTATGTCGATATTTTTTTGTCCAAAATAAATGCCAAAAGGGT
131 TAATGTATCGACACTTTTTAGATTTGTGTCGATA-CTTTTTGTCCAGAAT-GATGCCAAAAGGG-
412062 TGCACG
193 TGCACG
* * * *
412068 CATTAAGTGTCGATGCATGTTTTAAAAAGTATCGATCCAAAAAATATCGAAACCGATAATTATAA
1 CATAAAGTGTCGATACAT-TTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAA
* * *
412133 TATAATAGGTAAATTTACAATGTAACCGGTATAAATGTACCGGTTTTATGAGAAAATAGGT-TAA
65 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCT-A
*
412197 CATAATGTATCGACACGTTTTAGATTTGTGTCGATACTT
129 CATAATGTATCGACACTTTTTAGATTTGTGTCGATACTT
412236 ATAAATAACA
Statistics
Matches: 487, Mismatches: 67, Indels: 26
0.84 0.12 0.04
Matches are distributed among these distances:
198 2 0.00
199 230 0.47
200 31 0.06
201 88 0.18
202 136 0.28
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (198 bp):
CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAAT
GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCAGTTTTATGAGAAAATAGGTCTACA
TAATGTATCGACACTTTTTAGATTTGTGTCGATACTTTTTGTCCAGAATGATGCCAAAAGGGTGC
ACG
Found at i:412228 original size:401 final size:398
Alignment explanation
Indices: 411469--412235 Score: 972
Period size: 401 Copynumber: 1.9 Consensus size: 398
411459 TAAAGTTTCC
* * * *
411469 CATAAAGTGTTGATACATTTTTAAAAAGTATCGATCCCAGAAACATCGAAATCCATAAATATAAT
1 CATAAAGTATCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAATCCATAAATATAAT
* * *
411534 GTAATAGGTAAATTTACAATGTAACCGGTATAACAACCAGTTTTATGAGAGAATATGTCTACATA
66 GTAATAGGTAAATTTACAATGTAACCGGTATAACAACCAGTTTTATGAGAAAATAGGTCAACATA
* * * * * *
411599 ATTTATCGACACTTCTGGAATTTGTGTTGATACTGTTTGTCCAGAATGAATTCCCATAAAGGGTG
131 ATGTATCGACACTTCTAGAATTTATGTCGATACTGTTTGTCCAAAATGAAATCCCATAAAGGGTG
* * * * *
411664 CACTCATAAAGTGTCGAAACATTTTTAAAACGTATCGATCCCAAAAACATCGAGACCTATAATTA
196 CACGCATAAAGTGTCGAAACATTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTA
* * ** * * *
411729 TAATGTAATAGGTAATTTTGTAATATAACTGGTATAAATATACCAGTTTTATATGAGAATATGTC
261 TAATATAATAGGTAAATTTACAATATAACCGGTATAAATATACCAGTTTTATATGAAAATAGGTC
* *
411794 TACATAATATGTCGACACTTTTTAATGTTGTGTCGATACTTTTTGTACAGAATGATGCTCAAAAG
326 TACATAATATATCGACACGTTTTAATGTTGTGTCGATACTTTTTGTACAGAATGATGCTCAAAAG
411859 GGTGAACG
391 GGTGAACG
* *
411867 CATAAAGTATCGATACATTTATAAAGAGTATCGATCCCAAAAACATCGAAA-CCGATAATTATAA
1 CATAAAGTATCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAATCC-ATAAATATAA
* ** ** *
411931 TGTAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTATGTTAAAATAGGTGAAC
65 TGTAATAGGTAAATTTACAATGTAACCGGTAT-AACA-ACCAGTTTTATGAGAAAATAGGTCAAC
* * * *
411996 ATAATGTATCGACACATTTTAG-ATTTATGTCGATATTTTTTTGTCCAAAAT-AAATGCCA-AAA
128 ATAATGTATCGACAC-TTCTAGAATTTATGTCGATA-CTGTTTGTCCAAAATGAAATCCCATAAA
* ** *
412058 GGGTTGCACGCATTAAGTGTCGATGCATGTTTTAAAAAGTATCGATCCAAAAAATATCGAAACCG
191 GGG-TGCACGCATAAAGTGTCGAAACAT-TTTTAAAAAGTATCGATCCAAAAAACATCGAAACCG
* * *
412123 ATAATTATAATATAATAGGTAAATTTACAATGTAACCGGTATAAATGTACCGGTTTTATGA-GAA
254 ATAATTATAATATAATAGGTAAATTTACAATATAACCGGTATAAATATACCAGTTTTAT-ATGAA
*
412187 AATAGGT-TAACATAATGTATCGACACGTTTTAGAT-TTGTGTCGATACTT
318 AATAGGTCT-ACATAATATATCGACACGTTTTA-ATGTTGTGTCGATACTT
412236 ATAAATAACA
Statistics
Matches: 312, Mismatches: 47, Indels: 17
0.83 0.12 0.05
Matches are distributed among these distances:
397 2 0.01
398 87 0.28
399 9 0.03
400 71 0.23
401 140 0.45
402 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (398 bp):
CATAAAGTATCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAATCCATAAATATAAT
GTAATAGGTAAATTTACAATGTAACCGGTATAACAACCAGTTTTATGAGAAAATAGGTCAACATA
ATGTATCGACACTTCTAGAATTTATGTCGATACTGTTTGTCCAAAATGAAATCCCATAAAGGGTG
CACGCATAAAGTGTCGAAACATTTTTAAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTA
TAATATAATAGGTAAATTTACAATATAACCGGTATAAATATACCAGTTTTATATGAAAATAGGTC
TACATAATATATCGACACGTTTTAATGTTGTGTCGATACTTTTTGTACAGAATGATGCTCAAAAG
GGTGAACG
Found at i:416139 original size:199 final size:199
Alignment explanation
Indices: 415445--416344 Score: 1081
Period size: 200 Copynumber: 4.5 Consensus size: 199
415435 ACCTAAATAT
* *
415445 GTGTCGATACATTT-TCTGAAAGTATCGA-CCCAAAAACATCGAAACCAATAATTATAATGTAAT
1 GTGTCGATACATTTAT-TAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* *** * * *
415508 AGGTAAATTAACAATGTAACCGATATAAATATGTTGG-TTAATTAGAAAACAGGTCAACATAATG
65 AGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTCAACATAATG
415572 TATCGACACTTGTGT-AATTTGTGTCGATACTTATTGTCCAGAATGAATGCTCAAACGAGGTGCA
130 TATCGACACTT-T-TAAATTTGTGTCGATACTTATTGTCCAGAATGAATGC-CAAACGAGGTGCA
415636 CGCATAAA
192 CGCATAAA
* * *
415644 GTGTCAATACAATTATTAAAAGCATCGATCCCAATAAA-ATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAA-AAACATCGAAACCGATAATTATAATGTAAT
** ** * *
415708 AGGTAAATTTACAATGTAACCGATATAAATATACTAGTTTTATGTTAAAATAGGTGAACATAACG
65 AGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTCAACATAATG
* * * * * *
415773 TATCGACACGTTTTATATTTGTGTTGATACTTTTTGTCCAAAATGAATGCCAAAAG-GGTTGTAC
130 TATCGACAC-TTTTAAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCAAACGAGG-TGCAC
*
415837 GCATAAC
193 GCATAAA
*
415844 GTGTCGATACATGTT-TTAAAAAGTATCGAT-CCAAAAACATCGAAACCGATAATTATAATATAA
1 GTGTCGATACAT-TTATT-AAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAA
* * * * *
415907 TATGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGCCATCATAAA
64 TAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTCAACATAAT
* * *
415972 GTATCGACACTTATTAAATTTGTGTCGATACATT-TTGTCCATAATGAATGCCAAATG-GGTGAA
129 GTATCGACACTT-TTAAATTTGTGTCGATAC-TTATTGTCCAGAATGAATGCCAAACGAGGTGCA
416035 CGCATAAA
192 CGCATAAA
* * *
416043 GTGTCGATACATTTATTAAAACTATCGATCCCAAAAACATCGAAACCGATAATTACAATGTGATA
1 GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * *
416108 GGTAAATTTACAATGTACCCGATAGAAATATACCGTTTTTATGAAAAAATAGGTCTAA-ATAATG
66 GGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTC-AACATAATG
* * * * *
416172 TATCGACACTCTTTAAGTTTATGTCGATACTTGTT-TCCAGAATGAATGCCCAACGAGGTGCACA
130 TATCGACACT-TTTAAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCAAACGAGGTGCACG
416236 CATAAA
194 CATAAA
* * **
416242 GTGTCGATACATTTA--AAATTGTATCGATCCAAAAAACATCGAAATTGATAATTATAATGTAAT
1 GTGTCGATACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* * * * *
416305 AGGTAATTTTGCAATGTTATCGGTATAAATATACCGGTTT
65 AGGTAAATTTACAATGTAACCGATATAAATATACCGGTTT
416345 ACTTATAAAA
Statistics
Matches: 604, Mismatches: 78, Indels: 39
0.84 0.11 0.05
Matches are distributed among these distances:
197 3 0.00
198 101 0.17
199 193 0.32
200 226 0.37
201 79 0.13
202 2 0.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (199 bp):
GTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTCAACATAATGT
ATCGACACTTTTAAATTTGTGTCGATACTTATTGTCCAGAATGAATGCCAAACGAGGTGCACGCA
TAAA
Found at i:416203 original size:399 final size:399
Alignment explanation
Indices: 415445--416345 Score: 1148
Period size: 399 Copynumber: 2.3 Consensus size: 399
415435 ACCTAAATAT
* * *
415445 GTGTCGATACATTTTCT-GAAAGTATCGACCCAAAAACATCGAAACCAATAATTATAATGTAATA
1 GTGTCGATACATTTT-TAAAAAGTATCGATCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * *** * * *
415509 GGTAAATTAACAATGTAACCGATATAAATATGTTGG-TTAATTAGAAAACAGGTCAACATAATGT
65 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTAATGAGAAAACAGGCCAACATAAAGT
* *
415573 ATCGACACTTGTGTAATTTGTGTCGATACTTATTGTCCAGAATGAATGCTCAAACGAGGTGCACG
130 ATCGACACTTATGTAATTTGTGTCGATACTTATTGTCCAGAATGAATGCTCAAACGAGGTGAACG
*
415638 CATAAAGTGTCAATACAATTATTAAAAGCATCGATCCCAATAAAATCGAAACCGATAATTATAAT
195 CATAAAGTGTCAATACAATTATTAAAAGCATCGATCCCAATAAAATCGAAACCGATAATTACAAT
* **
415703 GTAATAGGTAAATTTACAATGTAACCGATATAAATATACTAGTTTTATGTTAAAATAGGTGAACA
260 GTAATAGGTAAATTTACAATGTAACCGATAGAAATATACTAGTTTTATGAAAAAATAGGTGAACA
* * *
415768 TAACGTATCGACACGTTTTATATTTGTGTTGATACTTTTTGTCCAAAATGAATGCCAAAAG-GGT
325 TAACGTATCGACACGTTTTATATTTATGTCGATACTTGTT-TCCAAAATGAATGCCAAAAGAGG-
* * *
415832 TGTACGCATAAC
388 TGCACACATAAA
*
415844 GTGTCGATACATGTTTTAAAAAGTATCGATCCAAAAACATCGAAACCGATAATTATAATATAATA
1 GTGTCGATACAT-TTTTAAAAAGTATCGATCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * * *
415909 TGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGCCATCATAAAGT
65 GGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTAATGAGAAAACAGGCCAACATAAAGT
* *
415974 ATCGACACTTAT-TAAATTTGTGTCGATACATT-TTGTCCATAATGAATGC-CAAATG-GGTGAA
130 ATCGACACTTATGT-AATTTGTGTCGATAC-TTATTGTCCAGAATGAATGCTCAAACGAGGTGAA
* *
416035 CGCATAAAGTGTCGATACATTTATTAAAA-CTATCGATCCCAA-AAACATCGAAACCGATAATTA
193 CGCATAAAGTGTCAATACAATTATTAAAAGC-ATCGATCCCAATAAA-ATCGAAACCGATAATTA
* * *
416098 CAATGTGATAGGTAAATTTACAATGTACCCGATAGAAATATAC-CGTTTTTATGAAAAAATAGGT
256 CAATGTAATAGGTAAATTTACAATGTAACCGATAGAAATATACTAG-TTTTATGAAAAAATAGGT
* * * *
416162 CTAA-ATAATGTATCGACAC-TCTTTA-AGTTTATGTCGATACTTGTTTCCAGAATGAATGCCCA
320 -GAACATAACGTATCGACACGT-TTTATA-TTTATGTCGATACTTGTTTCCAAAATGAATGCCAA
*
416224 ACGAGGTGCACACATAAA
382 AAGAGGTGCACACATAAA
* **
416242 GTGTCGATACA--TTTAAAATTGTATCGATCCAAAAAACATCGAAATTGATAATTATAATGTAAT
1 GTGTCGATACATTTTTAAAA-AGTATCGATCC-AAAAACATCGAAACCGATAATTATAATGTAAT
* * * *
416305 AGGTAATTTTGCAATGTTATCGGTATAAATATACCGGTTTA
64 AGGTAAATTTACAATGTAACCGGTATAAATATACCGGTTTA
416346 CTTATAAAAT
Statistics
Matches: 438, Mismatches: 50, Indels: 30
0.85 0.10 0.06
Matches are distributed among these distances:
395 7 0.02
396 10 0.02
397 64 0.15
398 44 0.10
399 163 0.37
400 84 0.19
401 64 0.15
402 2 0.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (399 bp):
GTGTCGATACATTTTTAAAAAGTATCGATCCAAAAACATCGAAACCGATAATTATAATGTAATAG
GTAAATTTACAATGTAACCGGTATAAATATACCGGTTTAATGAGAAAACAGGCCAACATAAAGTA
TCGACACTTATGTAATTTGTGTCGATACTTATTGTCCAGAATGAATGCTCAAACGAGGTGAACGC
ATAAAGTGTCAATACAATTATTAAAAGCATCGATCCCAATAAAATCGAAACCGATAATTACAATG
TAATAGGTAAATTTACAATGTAACCGATAGAAATATACTAGTTTTATGAAAAAATAGGTGAACAT
AACGTATCGACACGTTTTATATTTATGTCGATACTTGTTTCCAAAATGAATGCCAAAAGAGGTGC
ACACATAAA
Found at i:416463 original size:23 final size:23
Alignment explanation
Indices: 416437--416495 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
416427 TGGTTAAATG
*
416437 CCTATTTTATTATATAAGCGCTA
1 CCTATTATATTATATAAGCGCTA
416460 CCTATTATATTATATAAGCGCTA
1 CCTATTATATTATATAAGCGCTA
* *
416483 CCTAATATGTTAT
1 CCTATTATATTAT
416496 TGTACTTGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.42
Consensus pattern (23 bp):
CCTATTATATTATATAAGCGCTA
Found at i:416486 original size:87 final size:87
Alignment explanation
Indices: 416362--416610 Score: 437
Period size: 87 Copynumber: 2.9 Consensus size: 87
416352 AAATATGTCA
* *
416362 ATATAAGCGCTACCTATTACA-TATATAAGGGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
*
416426 CTGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
*
416448 ATATAAGCGCTACCTATTATATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
416513 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
* *
416535 ATATATGCGCTACCTATTACATTATATAAGCACTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
416600 CCGGTTAAATG
66 CCGGTTAAATG
416611 ATATAACATA
Statistics
Matches: 155, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
86 20 0.13
87 135 0.87
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:416582 original size:23 final size:23
Alignment explanation
Indices: 416532--416576 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
416522 TGCCTATTTT
* * *
416532 ATTATATATGCGCTACCTATTAC
1 ATTATATAAGCACTACCTAATAC
416555 ATTATATAAGCACTACCTAATA
1 ATTATATAAGCACTACCTAATA
416577 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCACTACCTAATAC
Found at i:417108 original size:2 final size:2
Alignment explanation
Indices: 417101--417166 Score: 114
Period size: 2 Copynumber: 33.0 Consensus size: 2
417091 CATTATACTT
417101 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
* *
417143 TA TA TA TA TA CA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
417167 CTTATACTTT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:417317 original size:25 final size:24
Alignment explanation
Indices: 417271--417316 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
417261 TGATGAGGGA
417271 TGAAATTGAATTAATTATAAAATG
1 TGAAATTGAATTAATTATAAAATG
417295 TGAAATTGATATTAA-TATAAAA
1 TGAAATTGA-ATTAATTATAAAA
417317 AATGAACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (24 bp):
TGAAATTGAATTAATTATAAAATG
Found at i:417322 original size:24 final size:24
Alignment explanation
Indices: 417270--417322 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
417260 TTGATGAGGG
*
417270 ATGAAATTGAATTAATTATAAAAT
1 ATGAAATTGAATTAATTATAAAAA
*
417294 GTGAAATTGATATTAA-TATAAAAA
1 ATGAAATTGA-ATTAATTATAAAAA
417318 ATGAA
1 ATGAA
417323 CTAAATTGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.55, C:0.00, G:0.11, T:0.34
Consensus pattern (24 bp):
ATGAAATTGAATTAATTATAAAAA
Found at i:417629 original size:2 final size:2
Alignment explanation
Indices: 417618--417648 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
417608 TTAAAACAAT
417618 TA TA -A 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
417649 ATGAATTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:417897 original size:2 final size:2
Alignment explanation
Indices: 417890--418220 Score: 58
Period size: 2 Copynumber: 164.0 Consensus size: 2
417880 GTATAAAGTG
* *
417890 TA TA TA TA TA TA TA TA TA TA -A AA TA TA -A GTG 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
* * * *
417931 -A AA TA TA -A GTA TA TA TA TA AA CTA TA AA GTA TA 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
* * *
417973 TA CTA AA CTT TA TA TA TA T- TA TA TA CTT TA TA T- TA TA TA CT-
1 TA -TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA -TA
* * * *
418014 TA TA TA TA TA AA GTA TA -A T- TA TA AA GA CTA AA GTA TA TA -A
1 TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA -TA TA TA TA
* * *
418054 GTA T- TA AA TA TA -A GTA TA TA -A GTA T- TA AA TA TA AA GTA TA
1 -TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA -TA TA
* * *
418094 TA -A GTA TA TG TA TG TA TA TA TA TA TA TA CTT TA TA T- 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
* * * *
418136 CT- TA TA TA CT- TA TA TA CTT TA TA TT TA TA TGC T- TA TA TA CTT
1 -TA TA TA TA -TA TA TA TA -TA TA TA TA TA TA T-A TA TA TA TA -TA
* *
418178 TA GTA TT TA TA -A T- TA TA CTT TA TA TA TA TA TA TA TA TA -A TA
1 TA -TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA
418219 TA
1 TA
418221 CTTATTCTTT
Statistics
Matches: 236, Mismatches: 46, Indels: 94
0.63 0.12 0.25
Matches are distributed among these distances:
1 22 0.09
2 189 0.80
3 25 0.11
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.45
Consensus pattern (2 bp):
TA
Found at i:417903 original size:31 final size:31
Alignment explanation
Indices: 417865--417930 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
417855 ATATAAAATC
* *
417865 TATATATACTTTAAAGTATAAAGTGTATATATA
1 TATATATA-TATAAAATAT-AAGTGTATATATA
417898 TATATATATATAAAATATAAGTGTATATATA
1 TATATATATATAAAATATAAGTGTATATATA
417929 TA
1 TA
417931 AAATATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 15 0.48
32 8 0.26
33 8 0.26
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.42
Consensus pattern (31 bp):
TATATATATATAAAATATAAGTGTATATATA
Found at i:417915 original size:19 final size:20
Alignment explanation
Indices: 417893--417967 Score: 93
Period size: 19 Copynumber: 3.8 Consensus size: 20
417883 TAAAGTGTAT
417893 ATATATA-TATATATATAAA
1 ATATATAGTATATATATAAA
417912 ATATA-AGTGTATATATATAAA
1 ATATATA--GTATATATATAAA
417933 ATATA-AGTATATATATAAA
1 ATATATAGTATATATATAAA
* *
417952 CTATAAAGTATATATA
1 ATATATAGTATATATA
417968 CTTTATACTA
Statistics
Matches: 51, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
18 1 0.02
19 22 0.43
20 10 0.20
21 18 0.35
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (20 bp):
ATATATAGTATATATATAAA
Found at i:417915 original size:21 final size:21
Alignment explanation
Indices: 417898--417967 Score: 99
Period size: 21 Copynumber: 3.4 Consensus size: 21
417888 TGTATATATA
417898 TATATATATATAAAATATAAG
1 TATATATATATAAAATATAAG
*
417919 TGTATATATATAAAATATAAG
1 TATATATATATAAAATATAAG
*
417940 --TATATATATAAACTATAAAG
1 TATATATATATAAAATAT-AAG
417960 TATATATA
1 TATATATA
417968 CTTTATACTA
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
19 15 0.34
20 3 0.07
21 20 0.45
22 6 0.14
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (21 bp):
TATATATATATAAAATATAAG
Found at i:417949 original size:25 final size:24
Alignment explanation
Indices: 417802--417967 Score: 78
Period size: 25 Copynumber: 6.9 Consensus size: 24
417792 TCAAATTTAC
*
417802 ATATATAAAAAAGTATAAGTATA-A-
1 ATATATATAAAA-TATAA-TATATAT
* * *
417826 ATATATATAAAGTGTAA-ACTATAA
1 ATATATATAAAATATAATA-TATAT
*
417850 AGTATATATAAAATCT-ATATATACT
1 A-TATATATAAAATATAATATATA-T
* * * *
417875 TTAAAGTATAAAGTGTATATATATAT
1 ATATA-TATAAAATATA-ATATATAT
* *
417901 ATATATATAAAATAT-A-A-GTGT
1 ATATATATAAAATATAATATATAT
417922 ATATATATAAAATATAAGTATATAT
1 ATATATATAAAATATAA-TATATAT
* *
417947 ATAAACTATAAAGTAT-ATATA
1 ATATA-TATAAAATATAATATA
417968 CTTTATACTA
Statistics
Matches: 108, Mismatches: 20, Indels: 28
0.69 0.13 0.18
Matches are distributed among these distances:
21 18 0.17
22 4 0.04
23 6 0.06
24 24 0.22
25 36 0.33
26 13 0.12
27 7 0.06
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (24 bp):
ATATATATAAAATATAATATATAT
Found at i:418030 original size:21 final size:21
Alignment explanation
Indices: 418014--418101 Score: 101
Period size: 21 Copynumber: 4.2 Consensus size: 21
418004 ATTATATACT
* *
418014 TATATATATAAAG--TATAAT
1 TATAAATATAAAGTATATAAG
*
418033 TATAAAGACTAAAGTATATAAG
1 TATAAATA-TAAAGTATATAAG
418055 TATTAAATAT-AAGTATATAAG
1 TA-TAAATATAAAGTATATAAG
418076 TATTAAATATAAAGTATATAAG
1 TA-TAAATATAAAGTATATAAG
418098 TATA
1 TATA
418102 TGTATGTATA
Statistics
Matches: 60, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
19 6 0.10
20 5 0.08
21 23 0.38
22 21 0.35
23 5 0.08
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.36
Consensus pattern (21 bp):
TATAAATATAAAGTATATAAG
Found at i:418158 original size:23 final size:23
Alignment explanation
Indices: 418110--418552 Score: 113
Period size: 22 Copynumber: 19.5 Consensus size: 23
418100 TATGTATGTA
*
418110 TATATATATATACTT-TATA-TT
1 TATATTTATATACTTATATACTT
*
418131 ATATACTTATATACTTATATACTT
1 -TATATTTATATACTTATATACTT
*
418155 TATATTTATATGCTTATATACTT
1 TATATTTATATACTTATATACTT
418178 TAGTATTTATA-A--T-TATACTT
1 TA-TATTTATATACTTATATACTT
418198 TATATATATATATA-TATAATATAC-T
1 TATAT-T-TATATACT-T-ATATACTT
* * *
418223 TATTCTTTTTATTA-TTATATATGCATA
1 TA-TATTTATA-TACTTATATA--C-TT
* * *
418250 TATACTT-TATAC-TA-AAACTA
1 TATATTTATATACTTATATACTT
* * * *
418270 TATATATATTTATTTATGTACTT
1 TATATTTATATACTTATATACTT
* *
418293 TATAGGTTATATA-TATATATAC-A
1 TATA-TTTATATACT-TATATACTT
* ** **
418316 CA-AACT-TATACTTTATATGTTT
1 TATATTTATATAC-TTATATACTT
*
418338 ATATACTTTATATACTTATATATTT
1 -TATA-TTTATATACTTATATACTT
418363 TATA-TTATATACTTATATACTT
1 TATATTTATATACTTATATACTT
* *
418385 TAGTCTTTATA-A--T-TATACTA
1 TA-TATTTATATACTTATATACTT
* **
418405 TATATATA-ATA-GAATTATACTT
1 TATATTTATATACTTA-TATACTT
418427 TATA-TTAT-TA-TTATTATTA-TT
1 TATATTTATATACTTA-TA-TACTT
* * *
418448 ATATATATATATAATT-TATAGTT
1 -TATATTTATATACTTATATACTT
*
418471 TATA--TATATACTTATATATTT
1 TATATTTATATACTTATATACTT
* *
418492 TATATTTA-A-ACTATATAAACTA
1 TATATTTATATACT-TATATACTT
* *
418514 TATAATTTATACATAGTATATATAATT
1 TAT-ATTTAT--ATACT-TATATACTT
*
418541 TATAGTTATATA
1 TATATTTATATA
418553 TAGTTTATAT
Statistics
Matches: 316, Mismatches: 54, Indels: 100
0.67 0.11 0.21
Matches are distributed among these distances:
18 1 0.00
19 8 0.03
20 37 0.12
21 39 0.12
22 69 0.22
23 60 0.19
24 45 0.14
25 22 0.07
26 21 0.07
27 14 0.04
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.52
Consensus pattern (23 bp):
TATATTTATATACTTATATACTT
Found at i:418321 original size:53 final size:54
Alignment explanation
Indices: 418247--418349 Score: 122
Period size: 53 Copynumber: 1.9 Consensus size: 54
418237 TTATATATGC
* * *
418247 ATATATACTTTATACTAAAACTATATA-TATATTTATTTATGTACTTTATAGGTT
1 ATATATACTATATACTAAAACT-TATACTATATATATTTATATACTTTATAGGTT
* *
418301 ATATATA-TATATAC-ACAAACTTATACTTTATATGTTTATATACTTTATA
1 ATATATACTATATACTA-AAACTTATACTATATATATTTATATACTTTATA
418350 TACTTATATA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
52 5 0.12
53 30 0.71
54 7 0.17
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.49
Consensus pattern (54 bp):
ATATATACTATATACTAAAACTTATACTATATATATTTATATACTTTATAGGTT
Found at i:418356 original size:8 final size:8
Alignment explanation
Indices: 418322--418384 Score: 67
Period size: 8 Copynumber: 7.9 Consensus size: 8
418312 TACACAAACT
418322 TATACTTTA
1 TATAC-TTA
**
418331 TATGTTTA
1 TATACTTA
418339 TATACTTTA
1 TATAC-TTA
418348 TATACTTA
1 TATACTTA
*
418356 TATA-TTT
1 TATACTTA
418363 TATA-TTA
1 TATACTTA
418370 TATACTTA
1 TATACTTA
418378 TATACTT
1 TATACTT
418385 TAGTCTTTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
7 12 0.26
8 23 0.50
9 11 0.24
ACGTcount: A:0.33, C:0.08, G:0.02, T:0.57
Consensus pattern (8 bp):
TATACTTA
Found at i:418483 original size:57 final size:57
Alignment explanation
Indices: 418420--418583 Score: 160
Period size: 57 Copynumber: 2.8 Consensus size: 57
418410 ATAATAGAAT
* **
418420 TATACTTTATATTATTATTA-TTATTATTATATATATATATAATTTATAGTTTA-TATA
1 TATACTTTATATTATTATTATTTA-TATTATATAAATATATAATTTATA-CATAGTATA
* *
418477 TATACTTATATATT-TTA-TATTTAAACTATATAAACTATATAATTTATACATAGTATA
1 TATACTT-TATATTATTATTATTTATATTATATAAA-TATATAATTTATACATAGTATA
*
418534 TATAATTTATAGTTA-TATATAGTTTATATTA-ATAAAATATATAATTTATA
1 TATACTTTATA-TTATTAT-TA-TTTATATTATAT-AAATATATAATTTATA
418584 ATTATACATA
Statistics
Matches: 89, Mismatches: 8, Indels: 18
0.77 0.07 0.16
Matches are distributed among these distances:
56 16 0.18
57 40 0.45
58 6 0.07
59 17 0.19
60 10 0.11
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (57 bp):
TATACTTTATATTATTATTATTTATATTATATAAATATATAATTTATACATAGTATA
Found at i:418600 original size:17 final size:17
Alignment explanation
Indices: 418565--418606 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
418555 GTTTATATTA
* *
418565 ATAAA-ATATATAATTT
1 ATAAATATACATAATAT
*
418581 ATAATTATACATAATAT
1 ATAAATATACATAATAT
418598 ATAAATATA
1 ATAAATATA
418607 TGCTGTATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAAATATACATAATAT
Found at i:418658 original size:20 final size:20
Alignment explanation
Indices: 418503--418691 Score: 88
Period size: 22 Copynumber: 9.3 Consensus size: 20
418493 ATATTTAAAC
418503 TATATAAACTATATAATTTA
1 TATATAAACTATATAATTTA
* *
418523 TACATAGTA-TATATAATTTA
1 TATATA-AACTATATAATTTA
*
418543 TAGT-T--A-TATATAGTTTA
1 TA-TATAAACTATATAATTTA
*
418560 TATTAATAAAATATATAATTTA
1 TA-T-ATAAACTATATAATTTA
* *
418582 TA-ATTATAC-ATA-ATATATA
1 TATA-TAAACTATATA-ATTTA
* ** *
418601 AATATATGCTGTATATATTTA
1 TATATAAACTATATA-ATTTA
* *
418622 AATATAATTCATATATAATTTA
1 TATATAA-AC-TATATAATTTA
* *
418644 CATATAAACTATATAAATTA
1 TATATAAACTATATAATTTA
*
418664 TATTAATAAACTATATAGTTTA
1 TA-T-ATAAACTATATAATTTA
418686 TATATA
1 TATATA
418692 GTTCAATAGT
Statistics
Matches: 131, Mismatches: 22, Indels: 32
0.71 0.12 0.17
Matches are distributed among these distances:
17 14 0.11
18 1 0.01
19 14 0.11
20 39 0.30
21 17 0.13
22 41 0.31
23 5 0.04
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (20 bp):
TATATAAACTATATAATTTA
Found at i:418835 original size:35 final size:35
Alignment explanation
Indices: 418766--418852 Score: 104
Period size: 35 Copynumber: 2.4 Consensus size: 35
418756 ATATATATTT
418766 TATATATAGTATATAATAATAATATAAATATAAACTA
1 TATATATAG-ATAT-ATAATAATATAAATATAAACTA
* *
418803 TATATATAGATATATAGAT-ATATATATATAAACTT
1 TATATATAGATATATA-ATAATATAAATATAAACTA
* *
418838 TATATGTATATATAT
1 TATATATAGATATAT
418853 TTTTTATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
35 30 0.67
36 6 0.13
37 9 0.20
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.43
Consensus pattern (35 bp):
TATATATAGATATATAATAATATAAATATAAACTA
Found at i:418862 original size:2 final size:2
Alignment explanation
Indices: 418755--418852 Score: 69
Period size: 2 Copynumber: 49.5 Consensus size: 2
418745 ATACATAATG
* *
418755 TA TA TA TA T- TT TA TA TA TA GTA TA TA -A TA -A TA -A TA TA AA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * * *
418794 TA TA AA CTA TA TA TA TA GA TA TA TA GA TA TA TA TA TA TA AA CTT
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
*
418838 TA TA TG TA TA TA TA T
1 TA TA TA TA TA TA TA T
418853 TTTTTATATA
Statistics
Matches: 74, Mismatches: 15, Indels: 14
0.72 0.15 0.14
Matches are distributed among these distances:
1 4 0.05
2 67 0.91
3 3 0.04
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:418883 original size:22 final size:22
Alignment explanation
Indices: 418856--419180 Score: 179
Period size: 22 Copynumber: 15.1 Consensus size: 22
418846 TATATATTTT
* *
418856 TTATATACTTAAATATTTTATA
1 TTATATACTTATATACTTTATA
418878 TTATATACTTATATACTTTAT-
1 TTATATACTTATATACTTTATA
* *
418899 TCTTTATA-AT-TATACTTTATA
1 T-TATATACTTATATACTTTATA
418920 TT-TAATACTTATATACTTTATA
1 TTAT-ATACTTATATACTTTATA
*
418942 TTAT-TATTATATATACTTTATA
1 TTATATACT-TATATACTTTATA
* *
418964 TT-TAATACTTATGTATTTTATA
1 TTAT-ATACTTATATACTTTATA
*
418986 TTATATAGTTATATACTTTATA
1 TTATATACTTATATACTTTATA
* * *
419008 TTATGTGCTTATATACTTTAGTC
1 TTATATACTTATATACTTTA-TA
*
419031 TT-TATA-AT-TATACTTTATA
1 TTATATACTTATATACTTTATA
* * **
419050 ATATATA-TATACATAC-ACATA
1 TTATATACT-TATATACTTTATA
* *
419071 CT-TATACTTTATATA-TATATA
1 TTATATAC-TTATATACTTTATA
*
419092 CTTTATATGC-T-TATACTTTATATGA
1 --TTATATACTTATATAC-TT-TAT-A
*
419117 TTATATATGTATATATAC-TT-TA
1 TTATATA-CT-TATATACTTTATA
*
419139 -TATATA--TATATAGTTTAT-
1 TTATATACTTATATACTTTATA
*
419157 GTATATACTTATATACTTTATA
1 TTATATACTTATATACTTTATA
419179 TT
1 TT
419181 TAAACTATAT
Statistics
Matches: 233, Mismatches: 36, Indels: 68
0.69 0.11 0.20
Matches are distributed among these distances:
17 6 0.03
18 2 0.01
19 10 0.04
20 31 0.13
21 44 0.19
22 107 0.46
23 17 0.07
24 8 0.03
25 2 0.01
26 1 0.00
27 5 0.02
ACGTcount: A:0.35, C:0.08, G:0.03, T:0.54
Consensus pattern (22 bp):
TTATATACTTATATACTTTATA
Done.