Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 121 of 190
Found at i:36456664 original size:49 final size:49
Alignment explanation
Indices: 36456548--36456666 Score: 132
Period size: 50 Copynumber: 2.4 Consensus size: 49
36456538 ATATTTAATT
36456548 AATTTTTAAAATTTTAAAAAACCAACAAAAATATAAAAAATTATTTTTAA
1 AATTTTT-AAATTTTAAAAAACCAACAAAAATATAAAAAATTATTTTTAA
* ** * ** *
36456598 AAATTAAAAATAATTAAAAAA-GTATAAAAATATAAAAAATATATTTTTAA
1 AATTTTTAAAT-TTTAAAAAACCAACAAAAATATAAAAAAT-TATTTTTAA
*
36456648 TATTTTTAAATTTTAAAAA
1 AATTTTTAAATTTTAAAAA
36456667 TTAATTAAAT
Statistics
Matches: 55, Mismatches: 12, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
49 27 0.49
50 28 0.51
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.37
Consensus pattern (49 bp):
AATTTTTAAATTTTAAAAAACCAACAAAAATATAAAAAATTATTTTTAA
Found at i:36458102 original size:15 final size:14
Alignment explanation
Indices: 36458073--36458143 Score: 54
Period size: 15 Copynumber: 4.6 Consensus size: 14
36458063 TAAAAATATT
*
36458073 AAATATT-ATATAA
1 AAATATTAAGATAA
36458086 AAATAATTAAGATAA
1 AAAT-ATTAAGATAA
*
36458101 AAATATTAAATATTATATA
1 AAATATT--A-A-GATA-A
36458120 AAATAATTAAGATAA
1 AAAT-ATTAAGATAA
36458135 AAATATTAA
1 AAATATTAA
36458144 AATTTAGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
13 4 0.09
14 11 0.23
15 14 0.30
16 4 0.09
17 2 0.04
18 4 0.09
19 5 0.11
20 3 0.06
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (14 bp):
AAATATTAAGATAA
Found at i:36458128 original size:34 final size:35
Alignment explanation
Indices: 36458043--36458144 Score: 179
Period size: 35 Copynumber: 2.9 Consensus size: 35
36458033 AATGTAATTA
*
36458043 TATAAAAATAATAATTAAGATAAAAATATTAAATAT
1 TATATAAA-AATAATTAAGATAAAAATATTAAATAT
36458079 TATATAAAAATAATTAAGATAAAAATATTAAATAT
1 TATATAAAAATAATTAAGATAAAAATATTAAATAT
36458114 TATAT-AAAATAATTAAGATAAAAATATTAAA
1 TATATAAAAATAATTAAGATAAAAATATTAAA
36458145 ATTTAGTTTT
Statistics
Matches: 65, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
34 26 0.40
35 32 0.49
36 7 0.11
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (35 bp):
TATATAAAAATAATTAAGATAAAAATATTAAATAT
Found at i:36461728 original size:31 final size:30
Alignment explanation
Indices: 36461693--36461750 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
36461683 ATAAAGATTT
*
36461693 AATAGCCTAGTGATTTAAATAAAAACTTTTG
1 AATAG-CTAGTGACTTAAATAAAAACTTTTG
* *
36461724 AATAGTTAGTGACTTAAATGAAAACTT
1 AATAGCTAGTGACTTAAATAAAAACTT
36461751 CCAAATAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (30 bp):
AATAGCTAGTGACTTAAATAAAAACTTTTG
Found at i:36467596 original size:44 final size:42
Alignment explanation
Indices: 36467454--36467618 Score: 152
Period size: 43 Copynumber: 3.9 Consensus size: 42
36467444 CTCGTACAAT
* * * * * ** *
36467454 GCCAACGTCCTAGACGTGGTCTTACATGTAATCAAATAACAAT
1 GCCAACGTCCCAGACATGGTCTTACACGAAATCATA-AATGAC
* * * *
36467497 GCC-ACTGTCCCAGACAGGGTCTTACATGAAATCATATATGAT
1 GCCAAC-GTCCCAGACATGGTCTTACACGAAATCATAAATGAC
* *
36467539 GCCAATGTCCCAGACATGGTCTTACACGTAAATCTTAAATCGAC
1 GCCAACGTCCCAGACATGGTCTTACACG-AAATCATAAAT-GAC
*
36467583 GCCAACGTCCCAGACGTGGTCTTACACGAAATCATA
1 GCCAACGTCCCAGACATGGTCTTACACGAAATCATA
36467619 TATCAGAATC
Statistics
Matches: 101, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
42 28 0.28
43 45 0.45
44 28 0.28
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
GCCAACGTCCCAGACATGGTCTTACACGAAATCATAAATGAC
Found at i:36470015 original size:17 final size:18
Alignment explanation
Indices: 36469981--36470022 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
36469971 TTATAAAATA
*
36469981 TGTATATATACATTTATG
1 TGTATATATACATGTATG
*
36469999 TGTAT-TATATATGTATG
1 TGTATATATACATGTATG
*
36470016 TATATAT
1 TGTATAT
36470023 GAATATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.52
Consensus pattern (18 bp):
TGTATATATACATGTATG
Found at i:36491544 original size:16 final size:16
Alignment explanation
Indices: 36491523--36491553 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36491513 TTGCAATTAT
36491523 ATGGTTGTTGCTGGTG
1 ATGGTTGTTGCTGGTG
*
36491539 ATGGTTGTTGTTGGT
1 ATGGTTGTTGCTGGT
36491554 AATCATCATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.03, G:0.42, T:0.48
Consensus pattern (16 bp):
ATGGTTGTTGCTGGTG
Found at i:36491942 original size:2 final size:2
Alignment explanation
Indices: 36491931--36491980 Score: 57
Period size: 2 Copynumber: 25.5 Consensus size: 2
36491921 GTAACAAATT
* * *
36491931 TA TA -A TA TA TA TA TA TA TA TA TA TA TA CA TA TA CA TA TA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
36491972 TA TA CA TA T
1 TA TA TA TA T
36491981 TGATACAAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (2 bp):
TA
Found at i:36491946 original size:6 final size:6
Alignment explanation
Indices: 36491931--36491980 Score: 66
Period size: 6 Copynumber: 8.5 Consensus size: 6
36491921 GTAACAAATT
* * *
36491931 TATA-A TATATA TATATA TATATA TATACA TATACA TATACA TATACA
1 TATACA TATACA TATACA TATACA TATACA TATACA TATACA TATACA
36491978 TAT
1 TAT
36491981 TGATACAAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
5 4 0.09
6 39 0.91
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (6 bp):
TATACA
Found at i:36492244 original size:2 final size:2
Alignment explanation
Indices: 36492237--36492267 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
36492227 TTCTATAACA
36492237 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36492268 AAATATAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36493243 original size:19 final size:19
Alignment explanation
Indices: 36493216--36493329 Score: 147
Period size: 19 Copynumber: 5.8 Consensus size: 19
36493206 AATTTTTGAG
*
36493216 GATAAGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
36493235 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
36493254 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
36493275 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
36493294 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
36493313 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
36493330 GATTTAATTT
Statistics
Matches: 85, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
19 55 0.65
20 12 0.14
21 18 0.21
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:36493265 original size:40 final size:40
Alignment explanation
Indices: 36493221--36493315 Score: 167
Period size: 40 Copynumber: 2.4 Consensus size: 40
36493211 TTGAGGATAA
36493221 GCAATCTTAGATATGATATGCAATCCTAGATATGATATAT
1 GCAATCTTAGATATGATATGCAATCCTAGATATGATATAT
*
36493261 GCAATCTTAGATATGATATGCAATCTTAGATATGATATAT
1 GCAATCTTAGATATGATATGCAATCCTAGATATGATATAT
36493301 --AATCTTAGATATGAT
1 GCAATCTTAGATATGAT
36493316 TTTGTAATCT
Statistics
Matches: 54, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
38 15 0.28
40 39 0.72
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.37
Consensus pattern (40 bp):
GCAATCTTAGATATGATATGCAATCCTAGATATGATATAT
Found at i:36493293 original size:59 final size:58
Alignment explanation
Indices: 36493216--36493329 Score: 165
Period size: 59 Copynumber: 1.9 Consensus size: 58
36493206 AATTTTTGAG
*
36493216 GATAAGCAATCTTAGATATGATATGCAATCCTAGATATGATATATGCAATCTTAGATAT
1 GATAAGCAATCTTAGATATGATATACAATCCTAGATATGAT-TATGCAATCTTAGATAT
* * * * *
36493275 GATATGCAATCTTAGATATGATATATAATCTTAGATATGATTTTGTAATCTTAGA
1 GATAAGCAATCTTAGATATGATATACAATCCTAGATATGATTATGCAATCTTAGA
36493330 GATTTAATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
58 12 0.24
59 37 0.76
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (58 bp):
GATAAGCAATCTTAGATATGATATACAATCCTAGATATGATTATGCAATCTTAGATAT
Found at i:36495199 original size:98 final size:98
Alignment explanation
Indices: 36495078--36495274 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
36495068 TTAAAAATAA
* *
36495078 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
36495143 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
36495176 TAAAGGAAATATTCTGAGTTTGGGATTCTAGAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
36495241 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
36495274 T
1 T
36495275 TTTATTGTAC
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.38
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:36497901 original size:26 final size:23
Alignment explanation
Indices: 36497871--36497940 Score: 79
Period size: 23 Copynumber: 2.9 Consensus size: 23
36497861 GACTCACCAT
36497871 AGCTCGTATGAGCTTACCGATATATC
1 AGCTCGTATGAGCTTACCG-T-T-TC
*
36497897 AGCTCTTATGAGCTTACCGTTTC
1 AGCTCGTATGAGCTTACCGTTTC
*
36497920 AGCTCG-AGAGAGCTTACCGTT
1 AGCTCGTA-TGAGCTTACCGTT
36497941 CATTAGCTCG
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
22 1 0.03
23 19 0.47
24 1 0.03
25 1 0.03
26 18 0.45
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.31
Consensus pattern (23 bp):
AGCTCGTATGAGCTTACCGTTTC
Found at i:36498162 original size:20 final size:20
Alignment explanation
Indices: 36498124--36498162 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36498114 TATAGATGAA
***
36498124 TTACTGTTGATATGTATAAG
1 TTACTGTTGATACAAATAAG
36498144 TTACTGTTGATACAAATAA
1 TTACTGTTGATACAAATAA
36498163 ATTTCTATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (20 bp):
TTACTGTTGATACAAATAAG
Found at i:36502177 original size:2 final size:2
Alignment explanation
Indices: 36502172--36502196 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36502162 ATTAAAACTA
36502172 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
36502197 AGAGCATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:36507996 original size:92 final size:90
Alignment explanation
Indices: 36507839--36508047 Score: 262
Period size: 92 Copynumber: 2.3 Consensus size: 90
36507829 TTGATTTTAG
* *
36507839 TAAATTCATATAAAAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAAAA-A-TTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
36507904 ATTTAAT-ATTAATTATTTTAAATTGTA
64 ATGTAATAATT-ATTATTTTAAATTATA
*
36507931 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAA-AAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
*
36507995 TATGTAATAATTATTATTTTAGATTATA
63 TATGTAATAATTATTATTTTAAATTATA
*
36508023 CAAATTCATA-AAATATAATTTATTA
1 TAAATTCATATAAA-A-AATTTATTA
36508048 GTTATAATTA
Statistics
Matches: 104, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
90 2 0.02
91 31 0.30
92 65 0.62
93 6 0.06
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (90 bp):
TAAATTCATATAAAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATAT
GTAATAATTATTATTTTAAATTATA
Found at i:36508176 original size:66 final size:63
Alignment explanation
Indices: 36508101--36508311 Score: 192
Period size: 66 Copynumber: 3.4 Consensus size: 63
36508091 AAATATATTT
36508101 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTCATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATTCATATAA
36508166 G
63 G
* * * * **
36508167 AATATTAATTATTAAGAATTTTA-TTAA--AT--TATA-TAT--TTTAATTAAAAT-ATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
*
36508221 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATTCATATA
36508285 AG
62 AG
*
36508287 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
36508312 AAATTATATA
Statistics
Matches: 113, Mismatches: 15, Indels: 35
0.69 0.09 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.12
55 5 0.04
56 12 0.11
57 1 0.01
58 3 0.03
59 6 0.05
61 6 0.05
62 3 0.03
63 1 0.01
64 12 0.11
65 9 0.08
66 32 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (63 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTCATATAAG
Found at i:36508209 original size:120 final size:120
Alignment explanation
Indices: 36508070--36508355 Score: 488
Period size: 120 Copynumber: 2.4 Consensus size: 120
36508060 TTAAATTATT
* * * *
36508070 TTAAATCATATATTATAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-TTTATAG
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTAT-ATTTTACAG
36508132 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
63 TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
36508190 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
36508255 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
66 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
36508310 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
1 TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT
36508356 TAAATATGAT
Statistics
Matches: 159, Mismatches: 4, Indels: 6
0.94 0.02 0.04
Matches are distributed among these distances:
119 6 0.04
120 151 0.95
121 2 0.01
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
TTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTTACAGTAT
CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTA
Found at i:36508212 original size:18 final size:17
Alignment explanation
Indices: 36508184--36508218 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36508174 ATTATTAAGA
*
36508184 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
36508201 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
36508219 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:36508332 original size:18 final size:17
Alignment explanation
Indices: 36508304--36508338 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36508294 ATTATTAAGA
*
36508304 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
36508321 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
36508339 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:36508477 original size:156 final size:157
Alignment explanation
Indices: 36508292--36508607 Score: 571
Period size: 156 Copynumber: 2.0 Consensus size: 157
36508282 ATAAGAATAT
36508292 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
36508357 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
36508422 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
36508449 TAATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
36508513 AATTATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
36508578 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
36508605 TAA
1 TAA
36508608 GGGTATTCTA
Statistics
Matches: 153, Mismatches: 6, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
156 147 0.96
157 6 0.04
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:36508488 original size:18 final size:17
Alignment explanation
Indices: 36508460--36508494 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
36508450 AATTATAAGA
*
36508460 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
36508477 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
36508495 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:36508494 original size:16 final size:16
Alignment explanation
Indices: 36508460--36508517 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 16
36508450 AATTATAAGA
36508460 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
36508477 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
36508493 A-TTTAA-TAATAAT-T
1 ATTTTAATTAA-AATAT
36508507 ATGTTTAATTA
1 AT-TTTAATTA
36508518 TGATTAAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 5 0.14
15 8 0.22
16 10 0.28
17 7 0.19
18 6 0.17
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:36508764 original size:16 final size:17
Alignment explanation
Indices: 36508730--36508766 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
36508720 GATTTGCTAT
*
36508730 TACACCTCTAGTCCCAA
1 TACACCTCTAATCCCAA
36508747 TACACCTCTAAT-CCAA
1 TACACCTCTAATCCCAA
36508763 TACA
1 TACA
36508767 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.35, C:0.38, G:0.03, T:0.24
Consensus pattern (17 bp):
TACACCTCTAATCCCAA
Found at i:36508984 original size:3 final size:3
Alignment explanation
Indices: 36508976--36509024 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
36508966 GATTAACGGT
36508976 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
36509024 T
1 T
36509025 ATGTAGGATG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:36509220 original size:24 final size:25
Alignment explanation
Indices: 36509193--36509240 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
36509183 ATTTTATTTT
*
36509193 ATAAATTTTACATAAAG-TATTAAG
1 ATAAATTATACATAAAGTTATTAAG
*
36509217 ATAAATTATACCTAAAGTTATTAA
1 ATAAATTATACATAAAGTTATTAA
36509241 ATTATTAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (25 bp):
ATAAATTATACATAAAGTTATTAAG
Found at i:36509848 original size:25 final size:26
Alignment explanation
Indices: 36509807--36509856 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 26
36509797 ACCAAAATTT
36509807 TATTTTAAAAATAAAAAATAAAAAAG
1 TATTTTAAAAATAAAAAATAAAAAAG
36509833 TATTTT-AAAATAAAAAATAAAAAA
1 TATTTTAAAAATAAAAAATAAAAAA
36509857 TAAATATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 18 0.75
26 6 0.25
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (26 bp):
TATTTTAAAAATAAAAAATAAAAAAG
Found at i:36509854 original size:6 final size:7
Alignment explanation
Indices: 36509813--36509860 Score: 51
Period size: 7 Copynumber: 6.3 Consensus size: 7
36509803 ATTTTATTTT
36509813 AAAAATA
1 AAAAATA
36509820 AAAAATA
1 AAAAATA
36509827 AAAAAGTA
1 AAAAA-TA
*
36509835 TTTTAAAATA
1 ---AAAAATA
36509845 AAAAATA
1 AAAAATA
36509852 AAAAATA
1 AAAAATA
36509859 AA
1 AA
36509861 TATTTATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
7 27 0.77
8 2 0.06
10 2 0.06
11 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (7 bp):
AAAAATA
Found at i:36511181 original size:60 final size:60
Alignment explanation
Indices: 36511110--36511344 Score: 194
Period size: 60 Copynumber: 3.9 Consensus size: 60
36511100 TTAAAAAGAG
* *
36511110 TTTCATTAAACCTTTCAAAATTTTGAAAAATTTTAATTAGACTCTTA-AATTTTTTAGAAT
1 TTTCATTAAACCTCTCAAAATTTT-AAAAATTTTAATTAAACTCTTACAATTTTTTAGAAT
* * * *
36511170 TTTAATTAAACCT-ACAAAAGTTTTAAAAATTTTAATTAAAGCTC-TATAA-GTTTTAGAAAT
1 TTTCATTAAACCTCTCAAAA-TTTTAAAAATTTTAATTAAA-CTCTTACAATTTTTTAG-AAT
** * * * * ** *
36511230 TTTCATTAATTCTCTCAAAATTCTTAAAAGTTTTAATTAAAC-CCTAAAAATTTAAAAAAT
1 TTTCATTAAACCTCTCAAAATT-TTAAAAATTTTAATTAAACTCTTACAATTTTTTAGAAT
* * * *
36511290 TCTCATTAAACCCCTCAAAAATTATAAAAATTTTAATTAGA-TGCTTACAATTTTT
1 TTTCATTAAACCTCTC-AAAATTTTAAAAATTTTAATTAAACT-CTTACAATTTTT
36511345 ATTAAGTTTT
Statistics
Matches: 139, Mismatches: 25, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
59 29 0.21
60 71 0.51
61 39 0.28
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (60 bp):
TTTCATTAAACCTCTCAAAATTTTAAAAATTTTAATTAAACTCTTACAATTTTTTAGAAT
Found at i:36511203 original size:30 final size:28
Alignment explanation
Indices: 36511096--36511328 Score: 151
Period size: 30 Copynumber: 7.8 Consensus size: 28
36511086 GGAGCCTTAC
* * *
36511096 AAATTTAAAAAGAGTTTCATTAAACCTTTCA
1 AAATTTTAAAA-ATTTTAATTAAACC--TCA
* *
36511127 AAATTTTGAAAAATTTTAATTAGACTCTTA
1 AAATTTT-AAAAATTTTAATTAAAC-CTCA
* * *
36511157 AATTTTTTAGAATTTTAATTAAACCTACA
1 AAATTTTAAAAATTTTAATTAAACCT-CA
*
36511186 AAAGTTTTAAAAATTTTAATTAAAGCTCTA
1 AAA-TTTTAAAAATTTTAATTAAACCTC-A
* * * *
36511216 TAAGTTTTAGAAATTTTCATTAATTCTCTCA
1 -AAATTTTAAAAATTTTAATTAA-AC-CTCA
* *
36511247 AAATTCTTAAAAGTTTTAATTAAACCCTAA
1 AAATT-TTAAAAATTTTAATTAAA-CCTCA
* * *
36511277 AAATTTAAAAAATTCTCATTAAACCCCTCAA
1 AAATTTTAAAAATTTTAATTAAA--CCTC-A
*
36511308 AAATTATAAAAATTTTAATTA
1 AAATTTTAAAAATTTTAATTA
36511329 GATGCTTACA
Statistics
Matches: 156, Mismatches: 34, Indels: 24
0.73 0.16 0.11
Matches are distributed among these distances:
28 2 0.01
29 32 0.21
30 62 0.40
31 52 0.33
32 8 0.05
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (28 bp):
AAATTTTAAAAATTTTAATTAAACCTCA
Found at i:36517166 original size:30 final size:31
Alignment explanation
Indices: 36517100--36517169 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 31
36517090 ATATCAAAAC
*
36517100 TATACATGAACTTTGATTCAATGTGCAATGT
1 TATACATGAACTTAGATTCAATGTGCAATGT
* ** *
36517131 AATACATGAACTTAGATT-TTTGTGCAATTT
1 TATACATGAACTTAGATTCAATGTGCAATGT
36517161 TATACATGA
1 TATACATGA
36517170 TTATCATTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
30 17 0.52
31 16 0.48
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (31 bp):
TATACATGAACTTAGATTCAATGTGCAATGT
Found at i:36520352 original size:26 final size:26
Alignment explanation
Indices: 36520316--36520368 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
36520306 TTTGGGGACT
36520316 AAGTTAGTTTATGAGTAAATCGAAGA
1 AAGTTAGTTTATGAGTAAATCGAAGA
36520342 AAGTTAGTTTATGAGTAAATCGAAGA
1 AAGTTAGTTTATGAGTAAATCGAAGA
36520368 A
1 A
36520369 GAAACAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.04, G:0.23, T:0.30
Consensus pattern (26 bp):
AAGTTAGTTTATGAGTAAATCGAAGA
Found at i:36527619 original size:19 final size:19
Alignment explanation
Indices: 36527595--36527634 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
36527585 AACGAATACC
36527595 TTTAAAATAAAT-TCATATG
1 TTTAAAATAAATCT-ATATG
36527614 TTTAAAATAAATCTATATG
1 TTTAAAATAAATCTATATG
36527633 TT
1 TT
36527635 ATTCCCACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (19 bp):
TTTAAAATAAATCTATATG
Found at i:36530600 original size:12 final size:13
Alignment explanation
Indices: 36530583--36530611 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
36530573 TTGCTCACTC
36530583 TTTTTTTTTG-GT
1 TTTTTTTTTGCGT
36530595 TTTTTTTTTGCGT
1 TTTTTTTTTGCGT
36530608 TTTT
1 TTTT
36530612 ACTTAGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.00, C:0.03, G:0.14, T:0.83
Consensus pattern (13 bp):
TTTTTTTTTGCGT
Found at i:36532678 original size:16 final size:17
Alignment explanation
Indices: 36532636--36532670 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
36532626 AAAAATAAGT
36532636 AATAAAT-AAATAAACA
1 AATAAATAAAATAAACA
36532652 AATAAATAAAATAAA-A
1 AATAAATAAAATAAACA
36532668 AAT
1 AAT
36532671 TTATAAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (17 bp):
AATAAATAAAATAAACA
Found at i:36534241 original size:89 final size:89
Alignment explanation
Indices: 36534134--36534609 Score: 314
Period size: 89 Copynumber: 5.3 Consensus size: 89
36534124 AGTTTGCTGC
* *
36534134 ACTGCAACTTCAGGGAGATAAGATTCACTATCTTCAATCTAATCCACTCAAACTTCAGGGAAATA
1 ACTGCAACTTCAGAGAGATAAGATTCACTATCTTCAATCTAATCCACTCAAACTTCAGGGAGATA
*
36534199 AGATTTGTAGCTTCAATCTACTCT
66 AGATTTGTAGCTTCAATCTGCTCT
* * * *
36534223 ACTGCAACTTCAGAGAGATAATATTCGCTATCTTCAATCT--GCCACATTGC-AACTTTAGGGAG
1 ACTGCAACTTCAGAGAGATAAGATTCACTATCTTCAATCTAATCCAC--T-CAAACTTCAGGGAG
* *
36534285 ATGAGGTTTGTAGCTTCAATCTGCT-T
63 ATAAGATTTGTAGCTTCAATCTGCTCT
* * * * * *
36534311 CATTGTAACTTCAGGGAGATAAGATTTGTGACTTGAT-TT-AATCCAACCCACT-ATAACTTCAG
1 -ACTGCAACTTCAGAGAGATAAGA--T-TCAC-T-ATCTTCAATCTAATCCACTCA-AACTTCAG
* * * * * * *
36534373 AGG-TATAGGA-TT-TAGTTTTAGTCTACTCC
59 -GGAGATAAGATTTGTAGCTTCAATCTGCTCT
* * * * **
36534402 ACTGCAACTTCAGGGAGATAAAACTT--GTAACTTCAATCTGTTCCACT-ACAACTTCAGGGAGA
1 ACTGCAACTTCAGAGAGATAAGA-TTCACTATCTTCAATCTAATCCACTCA-AACTTCAGGGAGA
* *
36534464 TAAGATTTGTTATGTAGCTTTAATATGCTCT
64 TAAGA----TT-TGTAGCTTCAATCTGCTCT
* *** ** *
36534495 ACTGCAACTTCAGAGAGATAAGATTCGCTATCTTCAATCCGCTATACTGC-AACTTCAGAGAGAT
1 ACTGCAACTTCAGAGAGATAAGATTCACTATCTTCAATCTAATCCACT-CAAACTTCAGGGAGAT
* *
36534559 AAGATTTGTTATCTTCAATCTGCTCC
65 AAGATTTG-TAGCTTCAATCTGCTCT
*
36534585 ACTGCAACTTCAGAAAGATAAGATT
1 ACTGCAACTTCAGAGAGATAAGATT
36534610 TGTGGTTTCA
Statistics
Matches: 298, Mismatches: 59, Indels: 59
0.72 0.14 0.14
Matches are distributed among these distances:
84 1 0.00
85 5 0.02
86 23 0.08
87 4 0.01
88 2 0.01
89 92 0.31
90 71 0.24
91 4 0.01
92 20 0.07
93 38 0.13
94 38 0.13
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (89 bp):
ACTGCAACTTCAGAGAGATAAGATTCACTATCTTCAATCTAATCCACTCAAACTTCAGGGAGATA
AGATTTGTAGCTTCAATCTGCTCT
Found at i:36534610 original size:45 final size:44
Alignment explanation
Indices: 36534128--36534612 Score: 345
Period size: 45 Copynumber: 10.8 Consensus size: 44
36534118 TGCTTCAGTT
* **
36534128 TGCTGCACTGCAACTTCAGGGAGATAAGATTCACTATCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATT-TGTATCTTCAATC
** * *
36534173 TAATCCACT-CAAACTTCAGGGAAATAAGATTTGTAGCTTCAATC
1 TGCTCCACTGC-AACTTCAGGGAGATAAGATTTGTATCTTCAATC
* * * * *
36534217 TACTCTACTGCAACTTCAGAGAGATAATATTCGCTATCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATC
* * * * *
36534262 TGC-CACATTGCAACTTTAGGGAGATGAGGTTTGTAGCTTCAATC
1 TGCTC-CACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATC
* * * * *
36534306 TGCTTCATTGTAACTTCAGGGAGATAAGATTTGTGACTTGATTTAATCC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGT-A--T-CTTCAAT-C
** ** * * *
36534355 AAC-CCACTATAACTTCAGAGG-TATAGGATTTAGT-T-TT-AGTC
1 TGCTCCACTGCAACTTCAG-GGAGATAAGATTT-GTATCTTCAATC
* * * *
36534396 TACTCCACTGCAACTTCAGGGAGATAAAACTTGTAACTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATC
* * * *
36534440 TGTTCCACTACAACTTCAGGGAGATAAGATTTGTTATGTAGCTTTAATA
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TA--T--CTTCAATC
* * *
36534489 TGCTCTACTGCAACTTCAGAGAGATAAGATTCGCTATCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATC
* ** *
36534534 CGCTATACTGCAACTTCAGAGAGATAAGATTTGTTATCTTCAATC
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TATCTTCAATC
**
36534579 TGCTCCACTGCAACTTCAGAAAGATAAGATTTGT
1 TGCTCCACTGCAACTTCAGGGAGATAAGATTTGT
36534613 GGTTTCACTA
Statistics
Matches: 345, Mismatches: 73, Indels: 45
0.75 0.16 0.10
Matches are distributed among these distances:
41 7 0.02
42 21 0.06
43 4 0.01
44 107 0.31
45 138 0.40
47 1 0.00
48 25 0.07
49 42 0.12
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (44 bp):
TGCTCCACTGCAACTTCAGGGAGATAAGATTTGTATCTTCAATC
Found at i:36541847 original size:110 final size:107
Alignment explanation
Indices: 36541655--36541850 Score: 284
Period size: 110 Copynumber: 1.8 Consensus size: 107
36541645 AAACTTGGCA
36541655 ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACACAA
1 ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACACAA
* *
36541720 AATATTGCCTTATTTTGAAATTTTTATGAAGGATATTAAGCC
66 AATATTGCCTCAATTTGAAATTTTTATGAAGGATATTAAGCC
* * * * **
36541762 ATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAATG
1 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCAAACA
*
36541827 CTAAATATTGCCTCAATTTGAAAT
63 CAAAATATTGCCTCAATTTGAAAT
36541851 ATTCTCTTTT
Statistics
Matches: 77, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
107 14 0.18
109 26 0.34
110 37 0.48
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (107 bp):
ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACACAA
AATATTGCCTCAATTTGAAATTTTTATGAAGGATATTAAGCC
Found at i:36544324 original size:44 final size:44
Alignment explanation
Indices: 36544254--36544732 Score: 262
Period size: 44 Copynumber: 11.0 Consensus size: 44
36544244 AGGATAGTGT
* * *
36544254 CTTCGATCTGCTCCGCTGCAATCTCAGGGAGATAAGATCTCTGG
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGG
* * * *
36544298 CTTCAATCTGTTCCACTGTAACCTCAGGGAGATAAGATCTGAAAT-C
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT---CTGG
* * **
36544344 CTTCGGTCTGCTCCATTGTAATATCAGGGAGATAAGA-C-CT-G
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGG
* * * * * ** * **
36544385 ATGCGATCTACTCTACTATAAATTCAGAGAGATAAGATC-CTTTA
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTC-TGG
* ** * * * * ** *
36544429 TTTTAATCCGCTCTACTGTAACTTCAGGGAGATAGGAT-AGTGT
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGG
** * *
36544472 CTTCGATCTGCTCCGTTGTAATCTCAGGGAGATAAGATCTTTGG
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGG
* * * *
36544516 CTTCAATCTGCTCCGCTGTAACCTCAGGGAGATAAGATCTGAAAT-T
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCT---CTGG
* * * *
36544562 CTTCGGTCTACTCCATTGTAACCTCAGGGAGATAAGA-CT-TGTAT
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTG--G
* * * * * * * *
36544606 ATTCAACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTGTGG
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGG
* * * *
36544650 CTCCGATCTGCTCCTCTGTAATCTCAGGGAGTTAAGA-CT-T-G
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGG
* * * *
36544691 ATGCGATCTGCTCCACCGTAATCTCAGGGAGATAAGATCTCT
1 CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCT
36544733 AATATTCACC
Statistics
Matches: 328, Mismatches: 89, Indels: 37
0.72 0.20 0.08
Matches are distributed among these distances:
41 62 0.19
42 5 0.02
43 32 0.10
44 158 0.48
45 4 0.01
46 65 0.20
47 2 0.01
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.30
Consensus pattern (44 bp):
CTTCGATCTGCTCCACTGTAACCTCAGGGAGATAAGATCTCTGG
Found at i:36544597 original size:90 final size:90
Alignment explanation
Indices: 36544471--36544641 Score: 227
Period size: 90 Copynumber: 1.9 Consensus size: 90
36544461 TAGGATAGTG
* * * * * * * *
36544471 TCTTCGATCTGCTCCGTTGTAATCTCAGGGAGATAAGATCTT-TGGCTTCAATCTGCTCCGCTGT
1 TCTTCGATCTACTCCATTGTAACCTCAGGGAGATAAGA-CTTGTAGATTCAACCTGCCCCACTGT
36544535 AACCTCAGGGAGATAAGATCTGAAAT
65 AACCTCAGGGAGATAAGATCTGAAAT
* *
36544561 TCTTCGGTCTACTCCATTGTAACCTCAGGGAGATAAGACTTGTATATTCAACCTGCCCCACTGTA
1 TCTTCGATCTACTCCATTGTAACCTCAGGGAGATAAGACTTGTAGATTCAACCTGCCCCACTGTA
*
36544626 ACTTCAGGGAGATAAG
66 ACCTCAGGGAGATAAG
36544642 GTTTGTGGCT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
89 3 0.04
90 66 0.96
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (90 bp):
TCTTCGATCTACTCCATTGTAACCTCAGGGAGATAAGACTTGTAGATTCAACCTGCCCCACTGTA
ACCTCAGGGAGATAAGATCTGAAAT
Found at i:36556769 original size:110 final size:107
Alignment explanation
Indices: 36556577--36556772 Score: 266
Period size: 110 Copynumber: 1.8 Consensus size: 107
36556567 AAACTTGGCA
* **
36556577 ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTTGAATTTCCAAACGCAA
1 ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAAGGCACGTTCCTCAAATTTCCAAACGCAA
* *
36556642 AATATTGCCTTATTTTGAAATTTTTATGAAGGATATTAAGCC
66 AATATTGCCTCAATTTGAAATTTTTATGAAGGATATTAAGCC
* * * * *
36556684 ATTTGGTTTAACGAGAAAAATCGACACCCAGCACCTTAAGGCATGTTTTCTCAAATTTCCAAATG
1 ATTTGGTTAAACGAG--AAATCGAAACCCAGCACCTTAAGGCACG-TTCCTCAAATTTCCAAACG
*
36556749 CTAAATATTGCCTCAATTTGAAAT
63 CAAAATATTGCCTCAATTTGAAAT
36556773 ATTCTCCTTT
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
107 14 0.19
109 25 0.33
110 36 0.48
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (107 bp):
ATTTGGTTAAACGAGAAATCGAAACCCAGCACCTTAAGGCACGTTCCTCAAATTTCCAAACGCAA
AATATTGCCTCAATTTGAAATTTTTATGAAGGATATTAAGCC
Found at i:36557076 original size:2 final size:2
Alignment explanation
Indices: 36557069--36557109 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
36557059 TTAATACGTA
36557069 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
36557110 AAGTATGTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:36557244 original size:2 final size:2
Alignment explanation
Indices: 36557239--36557336 Score: 126
Period size: 2 Copynumber: 49.5 Consensus size: 2
36557229 AAGTTACTAG
** * * * *
36557239 AT AT AT AT AT AT AT AT AT AT AT AT AT GC GT GT AT AC AT AT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
36557281 AT -T AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
36557322 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
36557337 GGAATCTAAA
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
1 1 0.01
2 84 0.99
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (2 bp):
AT
Found at i:36557380 original size:17 final size:17
Alignment explanation
Indices: 36557358--36557390 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36557348 GAGTTTATAC
36557358 ATATAATGAT-TTAAAAT
1 ATATAAT-ATATTAAAAT
36557375 ATATAATATATTAAAA
1 ATATAATATATTAAAA
36557391 GAATTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
ATATAATATATTAAAAT
Found at i:36557837 original size:22 final size:22
Alignment explanation
Indices: 36557807--36557965 Score: 86
Period size: 22 Copynumber: 7.3 Consensus size: 22
36557797 TTTTTATTTT
36557807 AAAA-ATTTTAAAAA-ATTAAA
1 AAAATATTTTAAAAATATTAAA
**
36557827 AAAAGTATTTTAAAAATATTTTA
1 AAAA-TATTTTAAAAATATTAAA
36557850 AAAATATTTTAAAAATATTTTAAAA
1 AAAATATTTTAAAAATA--TT-AAA
* ** **
36557875 TTAAAAAATTAAAAAAAGTATTTTA
1 --AAAATATTTTAAAAA-TATTAAA
*
36557900 AAATTATTTT-AAAAT-TTAAA
1 AAAATATTTTAAAAATATTAAA
*
36557920 AAAA-A-ATTAAAAAGTATGT-AA
1 AAAATATTTTAAAAA-TAT-TAAA
36557941 AAAATATTTT--AAA-ATTAAA
1 AAAATATTTTAAAAATATTAAA
36557960 AAAATA
1 AAAATA
36557966 AATATATTTA
Statistics
Matches: 105, Mismatches: 18, Indels: 33
0.67 0.12 0.21
Matches are distributed among these distances:
18 3 0.03
19 15 0.14
20 11 0.10
21 11 0.10
22 29 0.28
23 16 0.15
24 2 0.02
25 2 0.02
26 2 0.02
27 12 0.11
28 2 0.02
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (22 bp):
AAAATATTTTAAAAATATTAAA
Found at i:36557914 original size:11 final size:11
Alignment explanation
Indices: 36557827--36557915 Score: 71
Period size: 11 Copynumber: 8.5 Consensus size: 11
36557817 AAAAATTAAA
*
36557827 AAAAGTATTTT
1 AAAATTATTTT
*
36557838 AAAAATATTTT
1 AAAATTATTTT
*
36557849 AAAAATATTTT
1 AAAATTATTTT
*
36557860 AAAAATATTTT
1 AAAATTATTTT
*
36557871 AAAATTA---A
1 AAAATTATTTT
**
36557879 AAAATTA--AA
1 AAAATTATTTT
*
36557888 AAAAGTATTTT
1 AAAATTATTTT
36557899 AAAATTATTTT
1 AAAATTATTTT
36557910 AAAATT
1 AAAATT
36557916 TAAAAAAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
8 7 0.10
9 7 0.10
11 54 0.79
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (11 bp):
AAAATTATTTT
Found at i:36557943 original size:61 final size:60
Alignment explanation
Indices: 36557805--36557932 Score: 170
Period size: 61 Copynumber: 2.1 Consensus size: 60
36557795 CATTTTTATT
* * *
36557805 TTAAAAATTTTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAAATATTTTAAAAATAT
1 TTAAAAA--TTAAAAAATTAAAAAAAGTATTTTAAAAATATTTT-AAAATATTTAAAAAAAAA
* *
36557868 TTTAAAATTAAAAAATTAAAAAAAGTATTTTAAAATTATTTT-AAA-ATTTAAAAAAAAA
1 TTAAAAATTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATATTTAAAAAAAAA
36557926 TTAAAAA
1 TTAAAAA
36557933 GTATGTAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
58 16 0.27
59 3 0.05
61 34 0.58
63 6 0.10
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (60 bp):
TTAAAAATTAAAAAATTAAAAAAAGTATTTTAAAAATATTTTAAAATATTTAAAAAAAAA
Found at i:36557954 original size:11 final size:11
Alignment explanation
Indices: 36557801--36557874 Score: 100
Period size: 11 Copynumber: 6.9 Consensus size: 11
36557791 AGCCCATTTT
36557801 TATTTT-AAAA
1 TATTTTAAAAA
36557811 -ATTTTAAAAA
1 TATTTTAAAAA
**
36557821 -ATTAAAAAAA
1 TATTTTAAAAA
36557831 GTATTTTAAAAA
1 -TATTTTAAAAA
36557843 TATTTTAAAAA
1 TATTTTAAAAA
36557854 TATTTTAAAAA
1 TATTTTAAAAA
36557865 TATTTTAAAA
1 TATTTTAAAA
36557875 TTAAAAAATT
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
9 5 0.09
10 12 0.21
11 32 0.56
12 8 0.14
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (11 bp):
TATTTTAAAAA
Found at i:36563546 original size:26 final size:26
Alignment explanation
Indices: 36563497--36563546 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
36563487 ATTGTACTTC
*
36563497 GTGAGCTTCTCGATTAAAGGCTCTTT
1 GTGAGCTTCTCGATTAAAGACTCTTT
* * *
36563523 GTGAGTTTCTTGATTAATGACTCT
1 GTGAGCTTCTCGATTAAAGACTCT
36563547 CCTAAGCTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.42
Consensus pattern (26 bp):
GTGAGCTTCTCGATTAAAGACTCTTT
Found at i:36563639 original size:24 final size:24
Alignment explanation
Indices: 36563607--36563660 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
36563597 GGAGCTATCC
36563607 ATTATTGGCTCGCATGAGCTTCCCG
1 ATTA-TGGCTCGCATGAGCTTCCCG
** *
36563632 ATTATGGCTCTTATGAGCTTCTCG
1 ATTATGGCTCGCATGAGCTTCCCG
36563656 -TTATG
1 ATTATG
36563661 CAGCCTAGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 5 0.19
24 17 0.65
25 4 0.15
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (24 bp):
ATTATGGCTCGCATGAGCTTCCCG
Found at i:36571337 original size:26 final size:26
Alignment explanation
Indices: 36571299--36571537 Score: 83
Period size: 26 Copynumber: 9.6 Consensus size: 26
36571289 ATAGCTCTTA
* *
36571299 TGAGCGTCTCGATATATGGCTCTTCG
1 TGAGCTTCCCGATATATGGCTCTTCG
* *
36571325 TGAGCTTCCCGAT-TAAAGGCTCTTCA
1 TGAGCTTCCCGATAT-ATGGCTCTTCG
* * * *
36571351 TAAGCTTCCCGGT-TAAAGGCTCTTTG
1 TGAGCTTCCCGATAT-ATGGCTCTTCG
* *
36571377 TGAGCTTCCTGAT-TAATGGCTC-TCC
1 TGAGCTTCCCGATAT-ATGGCTCTTCG
* * * *
36571402 AGAGCTTCCCG--ATACGGCTC-GCT
1 TGAGCTTCCCGATATATGGCTCTTCG
* *** * *
36571425 TGAACTTTTTGATATATGGCTATCCG
1 TGAGCTTCCCGATATATGGCTCTTCG
* *
36571451 -GAGTTTCCCGTTA-ATGGCTCTTCG
1 TGAGCTTCCCGATATATGGCTCTTCG
* * * *
36571475 -GAGCTACCCGTTAT-TGGCTC-GCA
1 TGAGCTTCCCGATATATGGCTCTTCG
* * *
36571498 TAAGCTTCCCAAT-TATGGCTCTT-A
1 TGAGCTTCCCGATATATGGCTCTTCG
*
36571522 TGAGCTTCCCGTTATA
1 TGAGCTTCCCGATATA
36571538 CAACCCGGAT
Statistics
Matches: 155, Mismatches: 48, Indels: 21
0.69 0.21 0.09
Matches are distributed among these distances:
23 15 0.10
24 52 0.34
25 27 0.17
26 61 0.39
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.34
Consensus pattern (26 bp):
TGAGCTTCCCGATATATGGCTCTTCG
Found at i:36571467 original size:24 final size:24
Alignment explanation
Indices: 36571440--36571493 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
36571430 TTTTTGATAT
* *
36571440 ATGGCTATCCGGAGTTTCCCGTTA
1 ATGGCTATCCGGAGCTACCCGTTA
* *
36571464 ATGGCTCTTCGGAGCTACCCGTTA
1 ATGGCTATCCGGAGCTACCCGTTA
*
36571488 TTGGCT
1 ATGGCT
36571494 CGCATAAGCT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.15, C:0.26, G:0.26, T:0.33
Consensus pattern (24 bp):
ATGGCTATCCGGAGCTACCCGTTA
Found at i:36574632 original size:3 final size:3
Alignment explanation
Indices: 36574614--36574748 Score: 114
Period size: 3 Copynumber: 44.7 Consensus size: 3
36574604 TTTAGTCTCG
* *** * *
36574614 TTA TTG TTA TTTA TTA TTA TTA TTA AGC TAA TTA GTT- TTA CTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* *
36574660 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA CTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
36574708 -TA TTTA TTA TTA TTA CTTA -CA TTA TTA TTA TAA TAA TTA TT
1 TTA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TT
36574749 TACGGCCAAT
Statistics
Matches: 107, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
2 5 0.05
3 92 0.86
4 10 0.09
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:36575455 original size:124 final size:124
Alignment explanation
Indices: 36575117--36575509 Score: 669
Period size: 124 Copynumber: 3.2 Consensus size: 124
36575107 ATCCACATGT
* * *
36575117 ACGCACTTTTGCTACAGCAGGTCCTGAAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTA
1 ACGCACTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTA
* *
36575182 TAAAATCGCTTCTAGCAGGATGCTGTTTGATAAGAATTTGTGAAATCGCGCCCTCGTGG
66 TAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGG
* * *
36575241 ACGCGCTTTTGCTACAGTAGGTCCTGGAAGAAATAATTCCGACTTGATGTTTCTGAGCAAATAGT
1 ACGCACTTTTGCTACAGTAGGTCCTGGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAGT
*
36575306 ATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTATGAAATCGCGCCCTCGTGG
65 ATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGG
**
36575366 ACGCACTTTTGCTACAGTACATCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTA
1 ACGCACTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTA
36575431 TAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGG
66 TAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGG
*
36575490 ACACACTTTTGCTACAGTAG
1 ACGCACTTTTGCTACAGTAG
36575510 CATGTTTGGG
Statistics
Matches: 251, Mismatches: 17, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
124 136 0.54
125 115 0.46
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (124 bp):
ACGCACTTTTGCTACAGTAGGTCCTGGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTA
TAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGG
Found at i:36578647 original size:21 final size:21
Alignment explanation
Indices: 36578608--36579692 Score: 978
Period size: 21 Copynumber: 50.7 Consensus size: 21
36578598 AAAACCTTAA
36578608 GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAA-GGTTTAG
36578630 GGTTTTTAAGTTAAGGTTTTAG
1 GGTTTTTAAGTTAAGG-TTTAG
**
36578652 GG---TTAAG----GGTTAG-
1 GGTTTTTAAGTTAAGGTTTAG
* *
36578665 GGTTATTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
36578686 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
36578707 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
36578728 GGCTTTTAATTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
36578749 GGTTTTTAATTTAATGG-TTAG
1 GGTTTTTAAGTTAA-GGTTTAG
36578770 GGTTTTTAAGTTAAGAG-TTAG
1 GGTTTTTAAGTTAAG-GTTTAG
* *
36578791 GCTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
36578812 GGTTTTTAATTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
36578833 GGTTTTTAATTTAATGGTTAGGATTAG
1 GGTTTTTAAGTTAA-GG-T----TTAG
36578860 GGTTTTTAAGTTAAAGGTTTAG
1 GGTTTTTAAGTT-AAGGTTTAG
*
36578882 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
36578903 TGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAA-GGTTTAG
36578925 GGTTTTTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
36578946 GGTTATTAAGTTAAGGTTTAC
1 GGTTTTTAAGTTAAGGTTTAG
*
36578967 GGTTTTTAATTTAAAGG-TTAG
1 GGTTTTTAAGTT-AAGGTTTAG
*
36578988 GG-TTTTAA-TTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
36579007 AGTTTTTAAGTTAAGGATTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
36579028 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
36579049 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
36579070 GG---TTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
36579088 GGTTTTTAATTTAAGGGTTTAT
1 GGTTTTTAAGTTAA-GGTTTAG
*
36579110 GGTTTTTAAGTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
36579131 GGTTATTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* * *
36579152 GGATTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
36579173 GGTTTTTAAGTTAAAGG-TTAG
1 GGTTTTTAAGTT-AAGGTTTAG
*
36579194 GGTTTTTAATTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
36579215 TGTTTTTAA-TTCAATGG-TTAG
1 GGTTTTTAAGTT-AA-GGTTTAG
*
36579236 TGTTAGGAATTTAATGGTTAAGG-TTAGGG
1 GGTT-----TTTAA--GTTAAGGTTTA--G
*
36579265 TTAGGGTTTTTAAGTTAAAGGTTTAT
1 ----GGTTTTTAAGTT-AAGGTTTAG
36579291 GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAA-GGTTTAG
* * * *
36579313 AGTTTTAAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
36579334 GGTTTTGAAGTTAAGGGTTTAA
1 GGTTTTTAAGTTAA-GGTTTAG
* * *
36579356 GGTTTTAAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
36579377 GGTTTTTAAGTTAAGAG-TTAG
1 GGTTTTTAAGTTAAG-GTTTAG
*
36579398 GGTTATTAAGTTAAGGTTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
36579419 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
36579440 GGTTTTTAA-TTAAGGATTAG
1 GGTTTTTAAGTTAAGGTTTAG
* *
36579460 GGTTTTTAAGTTACGGGTTTAT
1 GGTTTTTAAGTTA-AGGTTTAG
* *
36579482 GGTTTTTAAATTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
*
36579503 GGTTTTTAATTTAATGGTTAGGGTTAG
1 GGTTTTTAAGTTAA-GG-T----TTAG
* *
36579530 GGTTTTGAAGTTGAAGGTTTAT
1 GGTTTTTAAGTT-AAGGTTTAG
36579552 GGTTTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAA-GGTTTAG
* * *
36579574 GGTTATTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* * *
36579595 GGTTATTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
36579616 GG-TTTTAAGTTAAGGGTTTAG
1 GGTTTTTAAGTTAA-GGTTTAG
* *
36579637 GGTTTTTAATTTAAGGGTTAG
1 GGTTTTTAAGTTAAGGTTTAG
* * *
36579658 TGTTTTT-TGTTAAGGGTTTAA
1 GGTTTTTAAGTTAA-GGTTTAG
36579679 GGTTTGTTAA-TTAA
1 GGTTT-TTAAGTTAA
36579693 ATTATATATC
Statistics
Matches: 895, Mismatches: 101, Indels: 134
0.79 0.09 0.12
Matches are distributed among these distances:
13 2 0.00
14 2 0.00
15 2 0.00
16 5 0.01
18 21 0.02
19 12 0.01
20 56 0.06
21 519 0.58
22 203 0.23
23 1 0.00
26 10 0.01
27 42 0.05
28 14 0.02
29 3 0.00
33 3 0.00
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (21 bp):
GGTTTTTAAGTTAAGGTTTAG
Found at i:36578690 original size:42 final size:42
Alignment explanation
Indices: 36578653--36579692 Score: 1092
Period size: 42 Copynumber: 24.1 Consensus size: 42
36578643 AGGTTTTAGG
*
36578653 GTTAAGGGTTAGGGTTATTAAGTTAAGGGTTAGGGTTTTTAA
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
* *
36578695 TTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGCTTTTAA
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
* * * *
36578737 TTTAAGGTTTAGGGTTTTTAATTTAATGGTTAGGGTTTTTAA
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
* *
36578779 GTTAAGAGTTAGGCTTTTTAAGTTAAGGGTTAGGGTTTTTAA
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
* * *
36578821 TTTAAGGTTTAGGGTTTTTAATTTAATGGTTAGGATTAGGGTTTTTAA
1 GTTAAGGGTTAGGGTTTTTAAGTTAA--G---GG-TTAGGGTTTTTAA
* *
36578869 GTTAAAGGTTTAGGGTTTTTAAGTTAAGGGTTAGTGTTTTTAA
1 GTT-AAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
* *
36578912 GTTAAGGGTTTAGGGTTTTTAAGTTAAGGTTTAGGGTTATTAA
1 GTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
* * * *
36578955 GTTAAGGTTTACGGTTTTTAATTTAAAGGTTAGGG-TTTTAA
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
* *
36578996 -TTAAGGGTTAGAGTTTTTAAGTTAAGGATTAGGGTTTTTAA
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
*
36579037 TTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGG---TTAA
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
* * *
36579076 GTTAAGGTTTAGGGTTTTTAATTTAAGGGTTTATGGTTTTTAA
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAA
* * *
36579119 GTTAAGGGTTAGGGTTATTAAGTTAAGGTTTAGGGATTTTAA
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
* *
36579161 TTTAAGGGTTAGGGTTTTTAAGTTAAAGGTTAGGGTTTTTAA
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
* * * * *
36579203 TTTAAGGTTTAGTGTTTTTAA-TTCAATGGTTAGTGTTAGGAATTTAA
1 GTTAAGGGTTAGGGTTTTTAAGTT-AAGGGTTAGGGTT-----TTTAA
* *
36579250 TGGTTAAGGTTAGGGTTAGGGTTTTTAAGTTAAAGGTTTATGGTTTTTAA
1 --GTT-A----AGGGTTAGGGTTTTTAAGTT-AAGGGTTAGGGTTTTTAA
* * * *
36579300 GTTAAGGGTTTAGAGTTTTAAATTTAAGGGTTAGGGTTTTGAA
1 GTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
* * *
36579343 GTTAAGGGTTTAAGGTTTTAAATTTAAGGGTTAGGGTTTTTAA
1 GTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
* * *
36579386 GTTAAGAGTTAGGGTTATTAAGTTAAGGTTTAGGGTTTTTAA
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
* *
36579428 TTTAAGGGTTAGGGTTTTTAA-TTAAGGATTAGGGTTTTTAA
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
* * *
36579469 GTTACGGGTTTATGGTTTTTAAATTAAGGGTTAGGGTTTTTAA
1 GTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
* * * *
36579512 TTTAATGGTTAGGGTTAGGGTTTTGAAGTTGAAGGTTTATGGTTTTTAA
1 GTT-A-----AGGGTTAGGGTTTTTAAGTT-AAGGGTTAGGGTTTTTAA
* * *
36579561 GTTAAGGGTTTAGGGTTATTAATTTAAGGGTTAGGGTTATTAA
1 GTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
*
36579604 TTTAAGGGTTAGGG-TTTTAAGTTAAGGGTTTAGGGTTTTTAA
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAA
* * * *
36579646 TTTAAGGGTTAGTGTTTTT-TGTTAAGGGTTTAAGGTTTGTTAA
1 GTTAAGGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTT-TTAA
36579689 -TTAA
1 GTTAA
36579693 ATTATATATC
Statistics
Matches: 846, Mismatches: 110, Indels: 84
0.81 0.11 0.08
Matches are distributed among these distances:
39 30 0.04
40 33 0.04
41 50 0.06
42 382 0.45
43 203 0.24
44 30 0.04
47 9 0.01
48 32 0.04
49 45 0.05
50 6 0.01
54 15 0.02
55 11 0.01
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.45
Consensus pattern (42 bp):
GTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAA
Found at i:36578882 original size:28 final size:27
Alignment explanation
Indices: 36578829--36578902 Score: 86
Period size: 22 Copynumber: 2.9 Consensus size: 27
36578819 AATTTAAGGT
* *
36578829 TTAGGGTTTTTAATTTAATGGTTAGGA
1 TTAGGGTTTTTAAGTTAAAGGTTAGGA
36578856 TTAGGGTTTTTAAGTTAAAGG-T----
1 TTAGGGTTTTTAAGTTAAAGGTTAGGA
*
36578878 TTAGGGTTTTTAAGTTAAGGGTTAG
1 TTAGGGTTTTTAAGTTAAAGGTTAG
36578903 TGTTTTTAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
22 20 0.49
23 1 0.02
26 1 0.02
27 19 0.46
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (27 bp):
TTAGGGTTTTTAAGTTAAAGGTTAGGA
Found at i:36579548 original size:27 final size:27
Alignment explanation
Indices: 36579495--36579548 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
36579485 TTTTAAATTA
* *
36579495 AGGGTTAGGGTTTTTAATTTAATGGTT
1 AGGGTTAGGGTTTTGAATTGAATGGTT
36579522 AGGGTTAGGGTTTTGAAGTTGAA-GGTT
1 AGGGTTAGGGTTTTGAA-TTGAATGGTT
36579549 TATGGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.22, C:0.00, G:0.35, T:0.43
Consensus pattern (27 bp):
AGGGTTAGGGTTTTGAATTGAATGGTT
Found at i:36580924 original size:7 final size:7
Alignment explanation
Indices: 36580914--36580939 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
36580904 TTATATACAT
36580914 AATACTA
1 AATACTA
36580921 AATACTA
1 AATACTA
36580928 AATACTA
1 AATACTA
36580935 AATAC
1 AATAC
36580940 CAATCGACTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:36581144 original size:20 final size:20
Alignment explanation
Indices: 36581107--36581144 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
36581097 TTTATTTTTA
*
36581107 AAAATCTACATAATAATTGT
1 AAAATCTACATAAAAATTGT
36581127 AAAATCTA-ATATAAAATT
1 AAAATCTACATA-AAAATT
36581145 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTACATAAAAATTGT
Found at i:36582573 original size:2 final size:2
Alignment explanation
Indices: 36582568--36582637 Score: 63
Period size: 2 Copynumber: 35.0 Consensus size: 2
36582558 ACAACTTATT
* * *
36582568 TA TA TA TA TA TA CA TA CA TA CTCA TA TA TA TA TA TA T- TA -A TT
1 TA TA TA TA TA TA TA TA TA TA -T-A TA TA TA TA TA TA TA TA TA TA
* *
36582610 TA TA TA CA TA TC TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36582638 CTATTTTTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
1 2 0.04
2 49 0.91
3 2 0.04
4 1 0.02
ACGTcount: A:0.46, C:0.09, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:36583249 original size:27 final size:27
Alignment explanation
Indices: 36583211--36583293 Score: 105
Period size: 27 Copynumber: 3.1 Consensus size: 27
36583201 CTAAATATCT
*
36583211 TTTAAATAAGTAAATTTTTGGCATCCA
1 TTTAAATAAGTAAATTTTTAGCATCCA
* ** *
36583238 TTTAAATAAGTAAATTTTAAATAT-CT
1 TTTAAATAAGTAAATTTTTAGCATCCA
*
36583264 TTTAAATAAGTAAATTTTTCGCATCCA
1 TTTAAATAAGTAAATTTTTAGCATCCA
36583291 TTT
1 TTT
36583294 CGCGCATCAG
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
26 21 0.47
27 24 0.53
ACGTcount: A:0.39, C:0.10, G:0.07, T:0.45
Consensus pattern (27 bp):
TTTAAATAAGTAAATTTTTAGCATCCA
Found at i:36583258 original size:15 final size:15
Alignment explanation
Indices: 36583238--36583281 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
36583228 TTGGCATCCA
36583238 TTTAAATAAGTAAAT
1 TTTAAATAAGTAAAT
*
36583253 TTTAAAT-A-T--CT
1 TTTAAATAAGTAAAT
36583264 TTTAAATAAGTAAAT
1 TTTAAATAAGTAAAT
36583279 TTT
1 TTT
36583282 TCGCATCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 8
0.70 0.06 0.24
Matches are distributed among these distances:
11 8 0.35
12 1 0.04
13 2 0.09
14 1 0.04
15 11 0.48
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (15 bp):
TTTAAATAAGTAAAT
Found at i:36583267 original size:26 final size:26
Alignment explanation
Indices: 36583202--36583281 Score: 106
Period size: 26 Copynumber: 3.0 Consensus size: 26
36583192 CTGAGATAGC
36583202 TAAATATCTTTTAAATAAGTAAATTT
1 TAAATATCTTTTAAATAAGTAAATTT
**** *
36583228 TTGGCATCCATTTAAATAAGTAAATTT
1 TAAATAT-CTTTTAAATAAGTAAATTT
36583255 TAAATATCTTTTAAATAAGTAAATTT
1 TAAATATCTTTTAAATAAGTAAATTT
36583281 T
1 T
36583282 TCGCATCCAT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 22 0.51
27 21 0.49
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (26 bp):
TAAATATCTTTTAAATAAGTAAATTT
Found at i:36592208 original size:14 final size:15
Alignment explanation
Indices: 36592191--36592225 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
36592181 TTAATTAATT
36592191 AATTTTAC-ATTTTC
1 AATTTTACAATTTTC
36592205 AATTTT-CAATTTTC
1 AATTTTACAATTTTC
36592219 AATTTTA
1 AATTTTA
36592226 ATAATCTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.05
14 18 0.95
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (15 bp):
AATTTTACAATTTTC
Found at i:36592209 original size:7 final size:7
Alignment explanation
Indices: 36592199--36592224 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
36592189 TTAATTTTAC
36592199 ATTTTCA
1 ATTTTCA
36592206 ATTTTCA
1 ATTTTCA
36592213 ATTTTCA
1 ATTTTCA
36592220 ATTTT
1 ATTTT
36592225 AATAATCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.12, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTTTCA
Found at i:36593051 original size:28 final size:29
Alignment explanation
Indices: 36593019--36593077 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
36593009 TAAATAGATA
* *
36593019 GACAAAATGAAAGTA-AGGTACCACTTTG
1 GACAAAATGAAAGTATAGATACCACATTG
* *
36593047 GACAAATTGAAATTATAGATACCACATTG
1 GACAAAATGAAAGTATAGATACCACATTG
36593076 GA
1 GA
36593078 AATTTTGCTG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.24
Consensus pattern (29 bp):
GACAAAATGAAAGTATAGATACCACATTG
Found at i:36595135 original size:24 final size:24
Alignment explanation
Indices: 36595090--36595136 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
36595080 ATATCCAAAA
* *
36595090 TTAAAAATAAAAAAGACTTAATTC
1 TTAAAAATAAAAAACACATAATTC
36595114 TTAAAAATAAAAATACA-ATAATT
1 TTAAAAATAAAAA-ACACATAATT
36595137 AAATTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (24 bp):
TTAAAAATAAAAAACACATAATTC
Found at i:36597285 original size:104 final size:104
Alignment explanation
Indices: 36597099--36597354 Score: 289
Period size: 104 Copynumber: 2.5 Consensus size: 104
36597089 TACGAAAAAC
* * * * * *
36597099 CGGAGGCTGCGATTTTAAATTAGCTAGCCTTAATAAAATCAGCTGTGAATGTATGTCAGCGAGCT
1 CGGAGGCTGCGATTTTAAATAAGCTAGCCTTAATAAAATCAGTTGTGAACGTAGGTCAACAAGCT
* *
36597164 ATAAAGAGTTGCGATCTTAAATCAGCTAACTCGA-ATAAT
66 ATAAAGAGTTGCAATCTTAAATCAACTAACTC-ACATAAT
* * * * *
36597203 CGGAGGTTGCGATCTTAAATCAGCTAGCCTTAGTAAAATCAGTTGTGAACGTAGGTCAATAAGCT
1 CGGAGGCTGCGATTTTAAATAAGCTAGCCTTAATAAAATCAGTTGTGAACGTAGGTCAACAAGCT
* * * * * *
36597268 GTTAGGAGTTGTAATCTTAAATTAACTAACTCACATGAT
66 ATAAAGAGTTGCAATCTTAAATCAACTAACTCACATAAT
* * * *
36597307 CAGAGACTGCGATTTTAAATAAGCTAACCTTAATAAAATCAATTGTGA
1 CGGAGGCTGCGATTTTAAATAAGCTAGCCTTAATAAAATCAGTTGTGA
36597355 GAATCAAACG
Statistics
Matches: 125, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
103 1 0.01
104 124 0.99
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (104 bp):
CGGAGGCTGCGATTTTAAATAAGCTAGCCTTAATAAAATCAGTTGTGAACGTAGGTCAACAAGCT
ATAAAGAGTTGCAATCTTAAATCAACTAACTCACATAAT
Found at i:36602967 original size:21 final size:20
Alignment explanation
Indices: 36602934--36602972 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
36602924 TATTTAAAGC
*
36602934 TTGGTGATAAATGATTTTTGT
1 TTGGTGACAAATG-TTTTTGT
*
36602955 TTGGTGACGAATGTTTTT
1 TTGGTGACAAATGTTTTT
36602973 CTATCTTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.21, C:0.03, G:0.26, T:0.51
Consensus pattern (20 bp):
TTGGTGACAAATGTTTTTGT
Found at i:36604098 original size:9 final size:9
Alignment explanation
Indices: 36604084--36604155 Score: 73
Period size: 9 Copynumber: 8.4 Consensus size: 9
36604074 ATGTTATTTT
36604084 TTTTTCTTC
1 TTTTTCTTC
36604093 TTTTTC--C
1 TTTTTCTTC
*
36604100 TTTTTCCT-
1 TTTTTCTTC
*
36604108 TTTTTCTTT
1 TTTTTCTTC
36604117 TTTTTCTTC
1 TTTTTCTTC
36604126 TTTTTCTT-
1 TTTTTCTTC
36604134 TTCTTTCTT-
1 TT-TTTCTTC
*
36604143 TTCTTCTTC
1 TTTTTCTTC
36604152 TTTT
1 TTTT
36604156 CAAACCCTAG
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
7 7 0.13
8 14 0.26
9 33 0.61
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTCTTC
Found at i:36604121 original size:33 final size:35
Alignment explanation
Indices: 36604081--36604155 Score: 109
Period size: 33 Copynumber: 2.2 Consensus size: 35
36604071 GTTATGTTAT
36604081 TTTTTTTTCTTCTTTTTCCTTT-TTCCTTTT-TTC
1 TTTTTTTTCTTCTTTTTCCTTTCTTCCTTTTCTTC
* *
36604114 TTTTTTTTCTTCTTTTTCTTTTCTTTCTTTTCTTC
1 TTTTTTTTCTTCTTTTTCCTTTCTTCCTTTTCTTC
*
36604149 TTCTTTT
1 TTTTTTT
36604156 CAAACCCTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
33 21 0.57
34 7 0.19
35 9 0.24
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (35 bp):
TTTTTTTTCTTCTTTTTCCTTTCTTCCTTTTCTTC
Found at i:36604128 original size:26 final size:26
Alignment explanation
Indices: 36604083--36604155 Score: 89
Period size: 26 Copynumber: 2.9 Consensus size: 26
36604073 TATGTTATTT
*
36604083 TTTTTTCTTCTTTTTC--CTTTTTCC
1 TTTTTTCTTTTTTTTCTTCTTTTTCC
*
36604107 TTTTTTCTTTTTTTTCTTCTTTTTCT
1 TTTTTTCTTTTTTTTCTTCTTTTTCC
*
36604133 TTTCTTTC-TTTTCTTCTTCTTTT
1 TTT-TTTCTTTTTTTTCTTCTTTT
36604156 CAAACCCTAG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
24 15 0.35
26 24 0.56
27 4 0.09
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (26 bp):
TTTTTTCTTTTTTTTCTTCTTTTTCC
Found at i:36604145 original size:23 final size:23
Alignment explanation
Indices: 36604080--36604150 Score: 76
Period size: 23 Copynumber: 3.1 Consensus size: 23
36604070 TGTTATGTTA
*
36604080 TTTTT-TTTTC-TTCTTTT-TCC
1 TTTTTCTTTTCTTTCTTTTCTTC
*
36604100 TTTTTCCTTTTTTCTTTTTTTTCTTC
1 TTTTT-C--TTTTCTTTCTTTTCTTC
36604126 TTTTTCTTTTCTTTCTTTTCTTC
1 TTTTTCTTTTCTTTCTTTTCTTC
36604149 TT
1 TT
36604151 CTTTTCAAAC
Statistics
Matches: 42, Mismatches: 3, Indels: 9
0.78 0.06 0.17
Matches are distributed among these distances:
20 5 0.12
23 18 0.43
24 5 0.12
25 7 0.17
26 7 0.17
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (23 bp):
TTTTTCTTTTCTTTCTTTTCTTC
Found at i:36604258 original size:28 final size:29
Alignment explanation
Indices: 36604227--36604304 Score: 101
Period size: 28 Copynumber: 2.8 Consensus size: 29
36604217 TCCTCCTCCG
36604227 TCTTCTTTCTCTCCTTT-TCTT-TTTTTTC
1 TCTTCTTTCTCT-CTTTCTCTTCTTTTTTC
*
36604255 TCTTCTTTCT-TCTTTCCCTTCTTTTTTC
1 TCTTCTTTCTCTCTTTCTCTTCTTTTTTC
*
36604283 T-TTCCTTCTCTCTTTCTCTTCT
1 TCTTCTTTCTCTCTTTCTCTTCT
36604305 ATTTCGACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
26 4 0.09
27 11 0.25
28 29 0.66
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (29 bp):
TCTTCTTTCTCTCTTTCTCTTCTTTTTTC
Found at i:36604275 original size:16 final size:16
Alignment explanation
Indices: 36604243--36604296 Score: 60
Period size: 16 Copynumber: 3.6 Consensus size: 16
36604233 TTCTCTCCTT
*
36604243 TTCTTT-TT-TTTCTC
1 TTCTTTCTTCTTTCCC
36604257 TTCTTTCTTCTTTCCC
1 TTCTTTCTTCTTTCCC
*
36604273 TTCTTTTTTCTTT-CC
1 TTCTTTCTTCTTTCCC
*
36604288 TTCTCTCTT
1 TTCTTTCTT
36604297 TCTCTTCTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
14 6 0.18
15 11 0.32
16 17 0.50
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TTCTTTCTTCTTTCCC
Found at i:36604297 original size:35 final size:35
Alignment explanation
Indices: 36604227--36604299 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 35
36604217 TCCTCCTCCG
* *
36604227 TCTTCTTTCTCTCCTTTTCTTTTTTTTCTCTTCTT
1 TCTTCTTTCCCTCCTTTTCTTTTTCTTCTCTTCTT
*
36604262 TCTTCTTTCCCTTCTTTT-TTCTTTCCTTCTC-TCTT
1 TCTTCTTTCCCTCCTTTTCTT-TTT-CTTCTCTTCTT
36604297 TCT
1 TCT
36604300 CTTCTATTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 2 0.06
35 26 0.79
36 5 0.15
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (35 bp):
TCTTCTTTCCCTCCTTTTCTTTTTCTTCTCTTCTT
Found at i:36604298 original size:16 final size:16
Alignment explanation
Indices: 36604230--36604299 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
36604220 TCCTCCGTCT
* *
36604230 TCTTTCTCTCCTTTTC
1 TCTTTCTTTCCTTCTC
* *
36604246 T-TTTTTTTCTCTTCTT
1 TCTTTCTTTC-CTTCTC
36604262 TC-TTCTTTCCCTTCT-
1 TCTTTCTTT-CCTTCTC
*
36604277 TTTTTCTTTCCTTCTC
1 TCTTTCTTTCCTTCTC
36604293 TCTTTCT
1 TCTTTCT
36604300 CTTCTATTTC
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
15 13 0.31
16 28 0.67
17 1 0.02
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (16 bp):
TCTTTCTTTCCTTCTC
Found at i:36604573 original size:12 final size:11
Alignment explanation
Indices: 36604556--36604595 Score: 53
Period size: 12 Copynumber: 3.4 Consensus size: 11
36604546 TGTTGTTCGG
36604556 TTTTTTGATTTT
1 TTTTTTG-TTTT
36604568 TTTTTTGCTTCTT
1 TTTTTTG-TT-TT
36604581 TTTTTTGTTTT
1 TTTTTTGTTTT
36604592 TTTT
1 TTTT
36604596 CGAATCCCCC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 6 0.23
12 11 0.42
13 9 0.35
ACGTcount: A:0.03, C:0.05, G:0.07, T:0.85
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:36604842 original size:29 final size:29
Alignment explanation
Indices: 36604810--36604901 Score: 111
Period size: 28 Copynumber: 3.2 Consensus size: 29
36604800 GCAAAATCAC
*
36604810 AATTTTAGAAAAA-TATAGGGCCAAAATGT
1 AATTTTAGAAAAATTA-AGGGTCAAAATGT
*
36604839 AATTTTA-AAAAATTGAA-GGTTAAAATGT
1 AATTTTAGAAAAATT-AAGGGTCAAAATGT
36604867 AATTTT-GAAAAATTCAAGGGTCAAAATGT
1 AATTTTAGAAAAATT-AAGGGTCAAAATGT
36604896 AATTTT
1 AATTTT
36604902 TATTTTTATT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
28 29 0.53
29 25 0.45
30 1 0.02
ACGTcount: A:0.47, C:0.04, G:0.15, T:0.34
Consensus pattern (29 bp):
AATTTTAGAAAAATTAAGGGTCAAAATGT
Found at i:36606281 original size:26 final size:25
Alignment explanation
Indices: 36606229--36606283 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
36606219 AATTTTAAAA
* ** *
36606229 TATTTTTAAAATACTTTTTTTTTTT
1 TATTTTTAAAATAATTTTTGGTGTT
36606254 TATTTTTAAAATAAATTTTTGGTGTT
1 TATTTTTAAAAT-AATTTTTGGTGTT
36606280 TATT
1 TATT
36606284 AAAAAAATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 12 0.48
26 13 0.52
ACGTcount: A:0.27, C:0.02, G:0.05, T:0.65
Consensus pattern (25 bp):
TATTTTTAAAATAATTTTTGGTGTT
Found at i:36606869 original size:27 final size:25
Alignment explanation
Indices: 36606839--36606899 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
36606829 TCGATATGAA
36606839 AAATCTCTATATAAATTATTTATATAT
1 AAATCTCTAT-T-AATTATTTATATAT
* *
36606866 AAATTCCCCTATTAATTATTTATATGT
1 AAA-T-CTCTATTAATTATTTATATAT
36606893 AAATCTC
1 AAATCTC
36606900 CCTAAATAGA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
25 2 0.07
26 1 0.03
27 19 0.66
28 2 0.07
29 5 0.17
ACGTcount: A:0.39, C:0.13, G:0.02, T:0.46
Consensus pattern (25 bp):
AAATCTCTATTAATTATTTATATAT
Found at i:36608581 original size:12 final size:12
Alignment explanation
Indices: 36608564--36608588 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
36608554 AACATGATAG
36608564 ATGAATAAATAA
1 ATGAATAAATAA
36608576 ATGAATAAATAA
1 ATGAATAAATAA
36608588 A
1 A
36608589 ATAAAAAAAG
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
ATGAATAAATAA
Found at i:36609130 original size:13 final size:12
Alignment explanation
Indices: 36609100--36609139 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 12
36609090 ATTGCACAAA
36609100 AAAAATAAAAGGGC
1 AAAAATAAAA--GC
36609114 AAAAATAAAAGC
1 AAAAATAAAAGC
36609126 AAAAATAATAAGC
1 AAAAATAA-AAGC
36609139 A
1 A
36609140 GTAGGACGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 10 0.40
13 5 0.20
14 10 0.40
ACGTcount: A:0.70, C:0.07, G:0.12, T:0.10
Consensus pattern (12 bp):
AAAAATAAAAGC
Found at i:36613793 original size:3 final size:3
Alignment explanation
Indices: 36613787--36613845 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
36613777 TTTTTTTGCC
36613787 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
36613835 TTA TTA TTA TT
1 TTA TTA TTA TT
36613846 TCATTATTTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:36626719 original size:18 final size:18
Alignment explanation
Indices: 36626661--36626876 Score: 110
Period size: 18 Copynumber: 12.2 Consensus size: 18
36626651 ACAATTATTT
*
36626661 TTTTTG-AAACGCGAAAA
1 TTTTTGAAAACACGAAAA
* * *
36626678 TTTGTG-AAACACTAGAA
1 TTTTTGAAAACACGAAAA
*
36626695 TTGTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
36626713 TGTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
* *
36626731 TTTTTG-AAACACGGAAG
1 TTTTTGAAAACACGAAAA
36626748 TTTTTAGAAAACACGAAAAA
1 TTTTT-GAAAACACG-AAAA
* * *
36626768 TATTTG--ATCATCG-GAA
1 TTTTTGAAAACA-CGAAAA
**
36626784 TTTTTGAGGACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
36626802 ATTTTG-AAACACGGAAG
1 TTTTTGAAAACACGAAAA
*
36626819 TTTTTAGAAAACACAAAAAA
1 TTTTT-GAAAACAC-GAAAA
* * *
36626839 ATTTTG--ATCATCG-GAA
1 TTTTTGAAAACA-CGAAAA
*
36626855 TTTTTTAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
36626873 TTTT
1 TTTT
36626877 CCTATTTTTT
Statistics
Matches: 143, Mismatches: 41, Indels: 29
0.67 0.19 0.14
Matches are distributed among these distances:
16 13 0.09
17 51 0.36
18 52 0.36
19 15 0.10
20 12 0.08
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.30
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:36626783 original size:37 final size:35
Alignment explanation
Indices: 36626715--36626872 Score: 146
Period size: 35 Copynumber: 4.5 Consensus size: 35
36626705 CACGAAAATG
* * *
36626715 TTTGAAAACATG-AAAATTTTTGAAACA-CGGAAGTT
1 TTTGAAAACACGAAAAATATTTG-ATCATCGGAA-TT
36626750 TTTAGAAAACACGAAAAATATTTGATCATCGGAATT
1 TTT-GAAAACACGAAAAATATTTGATCATCGGAATT
** *
36626786 TTTGAGGACACGAAAAAT-TTTGAAACA-CGGAAGTT
1 TTTGAAAACACGAAAAATATTTG-ATCATCGGAA-TT
*
36626821 TTTAGAAAACAC-AAAAAAATTTTGATCATCGGAATT
1 TTT-GAAAACACGAAAAATA-TTTGATCATCGGAATT
*
36626857 TTTTAAAACACGAAAA
1 TTTGAAAACACGAAAA
36626873 TTTTCCTATT
Statistics
Matches: 102, Mismatches: 11, Indels: 19
0.77 0.08 0.14
Matches are distributed among these distances:
34 9 0.09
35 36 0.35
36 34 0.33
37 23 0.23
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (35 bp):
TTTGAAAACACGAAAAATATTTGATCATCGGAATT
Found at i:36626801 original size:71 final size:71
Alignment explanation
Indices: 36626715--36626876 Score: 254
Period size: 71 Copynumber: 2.3 Consensus size: 71
36626705 CACGAAAATG
* *
36626715 TTTGAAAACATGAAAATTTTTGAAACACGGAAGTTTTTAGAAAACAC-GAAAAATATTTGATCAT
1 TTTGAAAACACGAAAATTTTTGAAACACGGAAGTTTTTAGAAAACACAAAAAAAT-TTTGATCAT
36626779 CGGAATT
65 CGGAATT
** *
36626786 TTTGAGGACACGAAAAATTTTGAAACACGGAAGTTTTTAGAAAACACAAAAAAATTTTGATCATC
1 TTTGAAAACACGAAAATTTTTGAAACACGGAAGTTTTTAGAAAACACAAAAAAATTTTGATCATC
36626851 GGAATT
66 GGAATT
*
36626857 TTTTAAAACACGAAAATTTT
1 TTTGAAAACACGAAAATTTT
36626877 CCTATTTTTT
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
71 75 0.93
72 6 0.07
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (71 bp):
TTTGAAAACACGAAAATTTTTGAAACACGGAAGTTTTTAGAAAACACAAAAAAATTTTGATCATC
GGAATT
Found at i:36626823 original size:35 final size:36
Alignment explanation
Indices: 36626718--36626876 Score: 161
Period size: 36 Copynumber: 4.5 Consensus size: 36
36626708 GAAAATGTTT
* *
36626718 GAAAACATGAAAATTTTTGAAACACGGAAGTTTTTA
1 GAAAACACGAAAAATTTTGAAACACGGAAGTTTTTA
*
36626754 GAAAACACGAAAAATATTTG-ATCATCGGAA-TTTTT-
1 GAAAACACGAAAAAT-TTTGAAACA-CGGAAGTTTTTA
**
36626789 GAGGACACGAAAAATTTTGAAACACGGAAGTTTTTA
1 GAAAACACGAAAAATTTTGAAACACGGAAGTTTTTA
* *
36626825 GAAAACACAAAAAAATTTTG-ATCATCGGAA-TTTTT-
1 GAAAACAC-GAAAAATTTTGAAACA-CGGAAGTTTTTA
*
36626860 TAAAACACG-AAAATTTT
1 GAAAACACGAAAAATTTT
36626877 CCTATTTTTT
Statistics
Matches: 104, Mismatches: 12, Indels: 17
0.78 0.09 0.13
Matches are distributed among these distances:
33 8 0.08
34 9 0.09
35 28 0.27
36 35 0.34
37 24 0.23
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.30
Consensus pattern (36 bp):
GAAAACACGAAAAATTTTGAAACACGGAAGTTTTTA
Found at i:36627028 original size:18 final size:18
Alignment explanation
Indices: 36626980--36627092 Score: 131
Period size: 18 Copynumber: 6.3 Consensus size: 18
36626970 TCGTTGCCTT
*
36626980 ATTTTTCAAAACACGAAA
1 ATTTTTGAAAACACGAAA
* *
36626998 ATTTGTG-AAACACGAGA
1 ATTTTTGAAAACACGAAA
*
36627015 ATTGTTGAAAACACGAAA
1 ATTTTTGAAAACACGAAA
* *
36627033 ATTTTTGACAACATGAAA
1 ATTTTTGAAAACACGAAA
*
36627051 ATTTTTG-AAACACGGAA
1 ATTTTTGAAAACACGAAA
*
36627068 GTTTTTAGAAAACACGAAA
1 ATTTTT-GAAAACACGAAA
36627087 ATTTTT
1 ATTTTT
36627093 TGATTTTTTA
Statistics
Matches: 77, Mismatches: 15, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
17 26 0.34
18 37 0.48
19 14 0.18
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (18 bp):
ATTTTTGAAAACACGAAA
Found at i:36627087 original size:36 final size:36
Alignment explanation
Indices: 36626980--36627092 Score: 131
Period size: 35 Copynumber: 3.2 Consensus size: 36
36626970 TCGTTGCCTT
* * *
36626980 ATTTTTCAAAACACGAAAATTTGTG-AAACACGAGA
1 ATTTTTGAAAACACGAAAATTTTTGAAAACACGAAA
* * *
36627015 ATTGTTGAAAACACGAAAATTTTTGACAACATGAAA
1 ATTTTTGAAAACACGAAAATTTTTGAAAACACGAAA
* *
36627051 ATTTTTG-AAACACGGAAGTTTTTAGAAAACACGAAA
1 ATTTTTGAAAACACGAAAATTTTT-GAAAACACGAAA
36627087 ATTTTT
1 ATTTTT
36627093 TGATTTTTTA
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
35 36 0.55
36 29 0.45
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.30
Consensus pattern (36 bp):
ATTTTTGAAAACACGAAAATTTTTGAAAACACGAAA
Found at i:36627613 original size:14 final size:14
Alignment explanation
Indices: 36627594--36627623 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
36627584 AAATAATTTT
36627594 TTTTTCTTTTTCTC
1 TTTTTCTTTTTCTC
*
36627608 TTTTTCTTTTTTTC
1 TTTTTCTTTTTCTC
36627622 TT
1 TT
36627624 CTCTTTTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTCTTTTTCTC
Found at i:36627617 original size:19 final size:18
Alignment explanation
Indices: 36627590--36627632 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
36627580 ACGCAAATAA
36627590 TTTTTTTTTCTTT-TTCTC
1 TTTTTTTTT-TTTCTTCTC
36627608 TTTTTCTTTTTTTCTTCTC
1 TTTTT-TTTTTTTCTTCTC
36627627 TTTTTT
1 TTTTTT
36627633 CTGGTCTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTTTTTTTTCTTCTC
Found at i:36628370 original size:30 final size:31
Alignment explanation
Indices: 36628336--36628411 Score: 81
Period size: 29 Copynumber: 2.6 Consensus size: 31
36628326 GGCCAAAACA
* *
36628336 TAATTTTGAGAAAATTTTA-GGCTCA-AAATG
1 TAATTTTGAGAAAAGTTTATGGAT-ATAAATG
*
36628366 TAA-TTT-AGTAAAGTTTATGGATATAAATG
1 TAATTTTGAGAAAAGTTTATGGATATAAATG
36628395 TAATTTTGAG-AAAGTTT
1 TAATTTTGAGAAAAGTTT
36628412 GGGGTCAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
28 10 0.26
29 14 0.36
30 13 0.33
31 2 0.05
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.41
Consensus pattern (31 bp):
TAATTTTGAGAAAAGTTTATGGATATAAATG
Found at i:36628947 original size:155 final size:153
Alignment explanation
Indices: 36628546--36629484 Score: 1000
Period size: 150 Copynumber: 6.1 Consensus size: 153
36628536 TTTCTTTTTA
* * * * * * *
36628546 TTTGAAAAGCAGAAATTCGAGAATAGCTCGGCGTGGGATCCGAGACTCAACTCACCTCTCGC-A-
1 TTTGAAAAACAGAAATT-GAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
* * * * * * *
36628609 AT-AGTTGATTTTTGAAAAATAGAATTTAAAAAAAAATACCTCAGCATGCGACTCGAGGCTCAAC
65 ATGAGTTGATTTTTGAAAAACAGAAATTGAAAATAAA-ACCTCGGCATGTGACCCGAGGCTCAAC
36628673 TCACCCCTCGCAATATGAGTTGATT
129 TCACCCCTCGCAATATGAGTTGATT
* * *
36628698 TTTGAAAAACAGAAACTTAAAAGAAATACCTCAACGTGTGACCCGAGGCTCAACTCACCTCTCAC
1 TTTGAAAAACAGAAA-TT--GA-AAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGC
* *
36628763 AATATGAGTTGATTTTT-AAAAATAGAAATTGAAAATAAACACCTCGGCTTGTGACCCGAGGCTC
62 AATATGAGTTGATTTTTGAAAAACAGAAATTGAAAATAAA-ACCTCGGCATGTGACCCGAGGCTC
36628827 AACTCACCCCTCGCAATATGAGTTGAGTTT
126 AACTCACCCCTCGCAATATGAGTTGA--TT
* * * *
36628857 TTTGAAAAACAGAAATTGAAAATCCCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCTCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
* * * *
36628922 TGAGTTGATTTTT-AAAAACAAAAATTGAAAATAAATACCTTGGCATGTAACCCAAGGCTCAACT
66 TGAGTTGATTTTTGAAAAACAGAAATTGAAAATAAA-ACCTCGGCATGTGACCCGAGGCTCAACT
* *
36628986 CATCCCTCGCAATATGAATTGATTTT
130 CACCCCTCGCAATATGAGTTGA--TT
* * *
36629012 TTTGAAAAACAGAAATTGAAAATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTAGCAATA
1 TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
* * * ** *
36629077 TGAGTTGATTTTTGAAAAACAAAAAATT-AAAAT---ACCTCAGCGT-TCGACTTGAGACTCAAC
66 TGAGTTGATTTTTGAAAAAC-AGAAATTGAAAATAAAACCTCGGCATGT-GACCCGAGGCTCAAC
* *
36629137 TTACCTCTCGCAATATGAGTTGATT
129 TCACCCCTCGCAATATGAGTTGATT
* ** *
36629162 TTTGAAAAACAGAAACTT-AAAATACCTTAGCGTACGACACGAGGCTCAACTCACCTCTCGCAAT
1 TTTGAAAAACAGAAA-TTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
** * *
36629226 ATGAGTTGATTTTTG-AAAACTAGAAATTGAAAAT---ACCTCTACATATGACCCGAGGCTTAAC
65 ATGAGTTGATTTTTGAAAAAC-AGAAATTGAAAATAAAACCTCGGCATGTGACCCGAGGCTCAAC
** * *
36629287 TCACTTCTAGCAATATGAGTTGAGT
129 TCACCCCTCGCAATATGAGTTGATT
* * * *
36629312 TTTGAAAAACAGAAACTT-AAAATACCTCAGCGTGCGACCTGAAGCTCAACTCACCTCTCGCATT
1 TTTGAAAAACAGAAA-TTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAAT
* * * *
36629376 ATGAGTTGATTTTTGAAAAACTGCAATTGAAAACT---ACCTTGGCGTGTG-CCCGAGGCTCAAC
65 ATGAGTTGATTTTTGAAAAACAGAAATTGAAAA-TAAAACCTCGGCATGTGACCCGAGGCTCAAC
* * *
36629437 TCGCCTCTCGCATTATGAGTTGATT
129 TCACCCCTCGCAATATGAGTTGATT
36629462 TTTGAAAAAACAGAAATTGAAAA
1 TTTG-AAAAACAGAAATTGAAAA
36629485 ATAATTCTTG
Statistics
Matches: 680, Mismatches: 89, Indels: 37
0.84 0.11 0.05
Matches are distributed among these distances:
149 11 0.02
150 236 0.35
151 33 0.05
152 50 0.07
153 2 0.00
154 1 0.00
155 230 0.34
156 13 0.02
157 74 0.11
158 13 0.02
159 17 0.03
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.27
Consensus pattern (153 bp):
TTTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTGAAAAACAGAAATTGAAAATAAAACCTCGGCATGTGACCCGAGGCTCAACTC
ACCCCTCGCAATATGAGTTGATT
Found at i:36629109 original size:75 final size:76
Alignment explanation
Indices: 36628567--36629487 Score: 836
Period size: 75 Copynumber: 12.1 Consensus size: 76
36628557 GAAATTCGAG
* * * * *
36628567 AATAGCTCGGCGTGGGATCCGAGACTCAACTCACCTCTCGC-A-AT-AGTTGATTTTTGAAAAAT
1 AATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
*
36628629 AGAATTTAAA-AAAA
66 A-AA---AAATTAAA
* * * * *
36628643 AATACCTCAGCATGCGACTCGAGGCTCAACTCACCCCTCGCAATATGAGTTGATTTTTGAAAAAC
1 AATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
* *
36628708 AGAAACTTAAAAGA
66 AAAAAATT--AA-A
** *
36628722 AATACCTCAACGTGTGACCCGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT-AAAAA-
1 AATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
* *
36628785 TAGAAATTGAAAATA
66 AAAAAATT---AA-A
* * *
36628800 AACACCTCGGCTTGTGACCCGAGGCTCAACTCACCCCTCGCAATATGAGTTGAGTTTTTTGAAAA
1 AATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAA
* *
36628865 AC-AGAAATTGAA
64 ACAAAAAATTAAA
* * *
36628877 AATCCCTCGGCATGTGACCCGAGGCTCAACTCACCTCTCTCAATATGAGTTGATTTTT-AAAAAC
1 AATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
36628941 -AAAAATTGAAAATA
66 AAAAAATT---AA-A
* * * * *
36628955 AATACCTTGGCATGTAACCCAAGGCTCAACTCATCC-CTCGCAATATGAATTGATTTTTTTGAAA
1 AATACCTCGGCGTGTGACCCGAGGCTCAACTCA-CCTCTCGCAATATGAGTTGA--TTTTTGAAA
* *
36629019 AAC-AGAAATTGAA
63 AACAAAAAATTAAA
* *
36629032 AATACCTCGGCATGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTGAAAAAC
1 AATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
36629097 AAAAAATT-AA
66 AAAAAATTAAA
* ** * *
36629107 AATACCTCAGCGT-TCGACTTGAGACTCAACTTACCTCTCGCAATATGAGTTGATTTTTGAAAAA
1 AATACCTCGGCGTGT-GACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAA
* *
36629171 CAGAAACTT-AA
65 CAAAAAATTAAA
** ** *
36629182 AATACCTTAGCGTACGACACGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAC
1 AATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
* * *
36629246 TAGAAATTGAA
66 AAAAAATTAAA
** * * * * * *
36629257 AATACCTCTACATATGACCCGAGGCTTAACTCACTTCTAGCAATATGAGTTGAGTTTTGAAAAAC
1 AATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
* *
36629322 AGAAACTT-AA
66 AAAAAATTAAA
* * * * *
36629332 AATACCTCAGCGTGCGACCTGAAGCTCAACTCACCTCTCGCATTATGAGTTGATTTTTGAAAAAC
1 AATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
***
36629397 -TGCAATTGAAA
66 AAAAAATT-AAA
* * * *
36629408 ACTACCTTGGCGTGTG-CCCGAGGCTCAACTCGCCTCTCGCATTATGAGTTGATTTTTGAAAAA-
1 AATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
*
36629471 ACAGAAATTGAAA
66 A-AAAAATT-AAA
36629484 AATA
1 AATA
36629488 ATTCTTGAAA
Statistics
Matches: 705, Mismatches: 110, Indels: 60
0.81 0.13 0.07
Matches are distributed among these distances:
74 25 0.04
75 287 0.41
76 76 0.11
77 101 0.14
78 109 0.15
79 73 0.10
80 10 0.01
81 24 0.03
ACGTcount: A:0.35, C:0.22, G:0.16, T:0.27
Consensus pattern (76 bp):
AATACCTCGGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC
AAAAAATTAAA
Found at i:36637379 original size:17 final size:17
Alignment explanation
Indices: 36637353--36637602 Score: 141
Period size: 17 Copynumber: 14.2 Consensus size: 17
36637343 AAATACGAAT
* *
36637353 TTTTTAAAACACGAAGA
1 TTTTTGAAACACGAAAA
*** **
36637370 TTTTTGAAACAATTATT
1 TTTTTGAAACACGAAAA
*
36637387 TTTTTTGAAACGCGAAAA
1 TT-TTTGAAACACGAAAA
* *
36637405 TTTGTGAAACACGAGAA
1 TTTTTGAAACACGAAAA
*
36637422 TTGTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
*
36637440 TTTTTGAAA-ACATAAAA
1 TTTTTGAAACAC-GAAAA
*
36637457 TTTTTGAAACACGAAAG
1 TTTTTGAAACACGAAAA
36637474 TTTTTAGAAAACACGAAAAAA
1 TTTTT-G-AAACACG--AAAA
** ** *
36637495 AATTT-ATCCTCG-AAA
1 TTTTTGAAACACGAAAA
*
36637510 TTTTTGAGGACACGAAAA
1 TTTTTGA-AACACGAAAA
* *
36637528 TTTTTGAAACACGGAAG
1 TTTTTGAAACACGAAAA
36637545 TTTTTAGAAAACACGAAAAA
1 TTTTT-G-AAACACG-AAAA
* *
36637565 TTTTT-TATCATCG-AAA
1 TTTTTGAAACA-CGAAAA
36637581 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
36637599 TTTT
1 TTTT
36637603 CCCATTTTTT
Statistics
Matches: 173, Mismatches: 42, Indels: 35
0.69 0.17 0.14
Matches are distributed among these distances:
15 6 0.03
16 11 0.06
17 73 0.42
18 56 0.32
19 14 0.08
20 7 0.04
21 6 0.03
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:36637434 original size:18 final size:18
Alignment explanation
Indices: 36637388--36637602 Score: 146
Period size: 17 Copynumber: 12.2 Consensus size: 18
36637378 ACAATTATTT
*
36637388 TTTTTG-AAACGCGAAAA
1 TTTTTGAAAACACGAAAA
* *
36637405 TTTGTG-AAACACGAGAA
1 TTTTTGAAAACACGAAAA
*
36637422 TTGTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
36637440 TTTTTGAAAACA-TAAAA
1 TTTTTGAAAACACGAAAA
*
36637457 TTTTTG-AAACACGAAAG
1 TTTTTGAAAACACGAAAA
36637474 TTTTTAGAAAACACGAAAAAA
1 TTTTT-GAAAACACG--AAAA
** ** *
36637495 AATTT--ATCCTCG-AAA
1 TTTTTGAAAACACGAAAA
**
36637510 TTTTTGAGGACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
36637528 TTTTTG-AAACACGGAAG
1 TTTTTGAAAACACGAAAA
36637545 TTTTTAGAAAACACGAAAAA
1 TTTTT-GAAAACACG-AAAA
* *
36637565 TTTTT--TATCATCG-AAA
1 TTTTTGAAAACA-CGAAAA
36637581 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
36637599 TTTT
1 TTTT
36637603 CCCATTTTTT
Statistics
Matches: 150, Mismatches: 32, Indels: 31
0.70 0.15 0.15
Matches are distributed among these distances:
15 6 0.04
16 13 0.09
17 56 0.37
18 48 0.32
19 14 0.09
20 7 0.05
21 6 0.04
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:36637464 original size:35 final size:34
Alignment explanation
Indices: 36637353--36637602 Score: 114
Period size: 35 Copynumber: 7.1 Consensus size: 34
36637343 AAATACGAAT
* * * ***
36637353 TTTTTAAAACACGAAGATTTTTGAAACAATTATTT
1 TTTTTGAAACACGAAAATTTTTGAAAC-ACTAAAA
* * * *
36637388 TTTTTGAAACGCGAAAATTTGTGAAACACGAGAA
1 TTTTTGAAACACGAAAATTTTTGAAACACTAAAA
*
36637422 TTGTTGAAAACACGAAAATTTTTGAAA-ACATAAAA
1 TTTTTG-AAACACGAAAATTTTTGAAACAC-TAAAA
* *
36637457 TTTTTGAAACACGAAAGTTTTTAGAAAACACGAAAAAA
1 TTTTTGAAACACGAAAATTTTT-G-AAACAC--TAAAA
** ** * * *
36637495 AATTT-ATCCTCG-AAATTTTTGAGGACACGAAAA
1 TTTTTGAAACACGAAAATTTTTGA-AACACTAAAA
* * *
36637528 TTTTTGAAACACGGAAGTTTTTAGAAAACACGAAAAA
1 TTTTTGAAACACGAAAATTTTT-G-AAACAC-TAAAA
* * *
36637565 TTTTT-TATCATCG-AAATTTTTGAAAACACGAAAA
1 TTTTTGAAACA-CGAAAATTTTTG-AAACACTAAAA
36637599 TTTT
1 TTTT
36637603 CCCATTTTTT
Statistics
Matches: 165, Mismatches: 37, Indels: 27
0.72 0.16 0.12
Matches are distributed among these distances:
33 7 0.04
34 37 0.22
35 70 0.42
36 25 0.15
37 18 0.11
38 8 0.05
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (34 bp):
TTTTTGAAACACGAAAATTTTTGAAACACTAAAA
Found at i:36637509 original size:71 final size:71
Alignment explanation
Indices: 36637437--36637602 Score: 253
Period size: 71 Copynumber: 2.4 Consensus size: 71
36637427 GAAAACACGA
*
36637437 AAATTTTTGAAAACA-TAAAATTTTTGAAACACGAAAGTTTTTAGAAAACACGAAAAAAAATTTA
1 AAATTTTTGAAAACACGAAAATTTTTGAAACACGAAAGTTTTTAGAAAACACGAAAAAAAATTTA
*
36637501 TCCTCG
66 TCATCG
** * ***
36637507 AAATTTTTGAGGACACGAAAATTTTTGAAACACGGAAGTTTTTAGAAAACACGAAAAATTTTTTA
1 AAATTTTTGAAAACACGAAAATTTTTGAAACACGAAAGTTTTTAGAAAACACGAAAAAAAATTTA
36637572 TCATCG
66 TCATCG
36637578 AAATTTTTGAAAACACGAAAATTTT
1 AAATTTTTGAAAACACGAAAATTTT
36637603 CCCATTTTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
70 13 0.15
71 72 0.85
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (71 bp):
AAATTTTTGAAAACACGAAAATTTTTGAAACACGAAAGTTTTTAGAAAACACGAAAAAAAATTTA
TCATCG
Found at i:36637758 original size:21 final size:20
Alignment explanation
Indices: 36637720--36637808 Score: 75
Period size: 20 Copynumber: 4.7 Consensus size: 20
36637710 TCGAAAATAC
36637720 GAATATTTTTTGAAACACGA
1 GAATATTTTTTGAAACACGA
36637740 GAATATTTTTTGAAGACACGA
1 GAATATTTTTTGAA-ACACGA
* *
36637761 -AA-A--TTTTGAAACAAGG
1 GAATATTTTTTGAAACACGA
* *
36637777 GAAT-TTATTCGAAAACACGA
1 GAATATTTTTTG-AAACACGA
36637797 -AAT-TTTTTTGAA
1 GAATATTTTTTGAA
36637809 TATTTTTTGA
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
16 4 0.07
17 9 0.16
18 2 0.04
19 12 0.22
20 22 0.40
21 6 0.11
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.34
Consensus pattern (20 bp):
GAATATTTTTTGAAACACGA
Found at i:36637849 original size:20 final size:19
Alignment explanation
Indices: 36637811--36637847 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
36637801 TTTTTGAATA
36637811 TTTTTTGAAAACACGAAAT
1 TTTTTTGAAAACACGAAAT
36637830 TTTTTTGAAAACACGAAA
1 TTTTTTGAAAACACGAAA
36637848 ATGGCGTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (19 bp):
TTTTTTGAAAACACGAAAT
Found at i:36638912 original size:28 final size:28
Alignment explanation
Indices: 36638874--36638958 Score: 100
Period size: 28 Copynumber: 3.0 Consensus size: 28
36638864 CATAATTTTG
*
36638874 AGAAAATTTTAGGGTTAAAATGTAATTT
1 AGAAAAGTTTAGGGTTAAAATGTAATTT
*
36638902 AGAAAAGTTTAGGGGTAGAAATGTAATTT
1 AGAAAAGTTTAGGGTTA-AAATGTAATTT
* * *
36638931 TGAGAAAGTTTGGGGTCAAAAT-TAATTT
1 AGA-AAAGTTTAGGGTTAAAATGTAATTT
36638959 TTTTTAAAAA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 21 0.43
29 17 0.35
30 11 0.22
ACGTcount: A:0.40, C:0.01, G:0.24, T:0.35
Consensus pattern (28 bp):
AGAAAAGTTTAGGGTTAAAATGTAATTT
Found at i:36638941 original size:30 final size:29
Alignment explanation
Indices: 36638866--36638959 Score: 113
Period size: 29 Copynumber: 3.2 Consensus size: 29
36638856 GGCCAAAACA
* *
36638866 TAATTTTGAGAAAATTTTAGGGTTAAAATG
1 TAATTTTGAG-AAAGTTTAGGGGTAAAATG
*
36638896 TAATTTAGA-AAAGTTTAGGGGTAGAAATG
1 TAATTTTGAGAAAGTTTAGGGGTA-AAATG
36638925 TAATTTTGAGAAAGTTT-GGGGTCAAAAT-
1 TAATTTTGAGAAAGTTTAGGGGT-AAAATG
36638953 TAATTTT
1 TAATTTT
36638960 TTTTAAAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
28 19 0.33
29 22 0.39
30 16 0.28
ACGTcount: A:0.38, C:0.01, G:0.22, T:0.38
Consensus pattern (29 bp):
TAATTTTGAGAAAGTTTAGGGGTAAAATG
Found at i:36638960 original size:29 final size:29
Alignment explanation
Indices: 36638846--36638959 Score: 108
Period size: 29 Copynumber: 3.9 Consensus size: 29
36638836 AAATACAATA
* **
36638846 AAAGTTTTGGGGCCAAAACATAATTTTGAG
1 AAAG-TTTGGGGTCAAAATGTAATTTTGAG
* * * *
36638876 AAAATTTTAGGGTTAAAATGTAATTTAGA-
1 -AAAGTTTGGGGTCAAAATGTAATTTTGAG
36638905 AAAGTTTAGGGGT-AGAAATGTAATTTTGAG
1 AAAGTTT-GGGGTCA-AAATGTAATTTTGAG
36638935 AAAGTTTGGGGTCAAAAT-TAATTTT
1 AAAGTTTGGGGTCAAAATGTAATTTT
36638960 TTTTAAAAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
28 14 0.20
29 26 0.38
30 26 0.38
31 3 0.04
ACGTcount: A:0.39, C:0.04, G:0.23, T:0.35
Consensus pattern (29 bp):
AAAGTTTGGGGTCAAAATGTAATTTTGAG
Found at i:36639431 original size:94 final size:94
Alignment explanation
Indices: 36639304--36639502 Score: 267
Period size: 94 Copynumber: 2.1 Consensus size: 94
36639294 AGTTGAAGTT
* * * * *
36639304 ACGAATCTTATCTCCTTGAAGTTGTAATGGAGC-AGATTGAAGCTACAATTT-CTATACCCCTAA
1 ACGAATCCTATCTCCATGAAGTTGCAATAGAGCAAGA-TGAAACTAC-ATTTCCTATACCCCTAA
*
36639367 AGTTGCAGTGGGTTAGAATGAAGCTACAACA
64 AGTTGCAGTGAGTTAGAATGAAGCTACAACA
* *
36639398 ACGAATCCTATCTCCATGAAGTTGCAGTAGAGCAAGATGAAACTACATTTCCTATACCCCTGAAG
1 ACGAATCCTATCTCCATGAAGTTGCAATAGAGCAAGATGAAACTACATTTCCTATACCCCTAAAG
* *
36639463 TTGCAGTGAGTTGGAATGAAGCTACAACT
66 TTGCAGTGAGTTAGAATGAAGCTACAACA
*
36639492 ACAAATCCTAT
1 ACGAATCCTAT
36639503 AACCTTGAAG
Statistics
Matches: 92, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
93 4 0.04
94 85 0.92
95 3 0.03
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.27
Consensus pattern (94 bp):
ACGAATCCTATCTCCATGAAGTTGCAATAGAGCAAGATGAAACTACATTTCCTATACCCCTAAAG
TTGCAGTGAGTTAGAATGAAGCTACAACA
Found at i:36639492 original size:50 final size:51
Alignment explanation
Indices: 36639346--36639537 Score: 145
Period size: 50 Copynumber: 4.0 Consensus size: 51
36639336 CAGATTGAAG
* * * *
36639346 CTACAAT-TTCTATACCCCTAAAGTTGCAGTGGGTTAGAATGAAGCTACAA
1 CTACAATATCCTATACCCCTGAAGTTGCAGTGAGTTGGAATGAAGCTACAA
* * * * * *
36639396 CAACGA-ATCCTAT-CTCCATGAAGTTGCAGT-AG-AGCAA-GATG--A-AA
1 CTACAATATCCTATAC-CCCTGAAGTTGCAGTGAGTTGGAATGAAGCTACAA
*
36639440 CTAC-ATTTCCTATACCCCTGAAGTTGCAGTGAGTTGGAATGAAGCTACAA
1 CTACAATATCCTATACCCCTGAAGTTGCAGTGAGTTGGAATGAAGCTACAA
* * * * * *
36639490 CTACAA-ATCCTATAACCTTGAAGTTGTAGTGGGTTGGATTGAATCTAC
1 CTACAATATCCTATACCCCTGAAGTTGCAGTGAGTTGGAATGAAGCTAC
36639538 CATAGCGAAC
Statistics
Matches: 108, Mismatches: 23, Indels: 22
0.71 0.15 0.14
Matches are distributed among these distances:
43 1 0.01
44 25 0.23
45 4 0.04
46 3 0.03
47 6 0.06
48 2 0.02
49 3 0.03
50 63 0.58
51 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (51 bp):
CTACAATATCCTATACCCCTGAAGTTGCAGTGAGTTGGAATGAAGCTACAA
Found at i:36639657 original size:44 final size:44
Alignment explanation
Indices: 36639216--36639700 Score: 225
Period size: 44 Copynumber: 10.6 Consensus size: 44
36639206 AGTCACCATA
* *
36639216 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
* * * * * *
36639260 ACGAACCTCATCTCCTTGAAATTGCAGTGGAGCA-AGTTGAAGTT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGCT
* * * *
36639304 ACGAATCTTATCTCCTTGAAGTTGTAATGGAGCAGATTGAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
* * * *
36639348 AC-AATTTCTATAC-CCCTAAAGTTGCAGTGG-GTTAGAATGAAGCT
1 ACAAATCT-TAT-CTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGCT
* * * *
36639392 ACAACAACGAATCCTATCTCCATGAAGTTGCAGTAGAGCAAGA-TGAAACT
1 ---AC-A--AATCTTATCTCCCTGAAGTTGCAGTGGAGC-AGATTGAAGCT
** * ** *
36639442 ACATTTCCTATAC-CCCTGAAGTTGCAGT-GAGTTGGAATGAAGCTACAACT
1 ACAAATCTTAT-CTCCCTGAAGTTGCAGTGGAG-CAGATTGAAG------CT
* ** * * ** *
36639492 ACAAATCCTATAACCTTGAAGTTGTAGTGG-GTTGGATTGAATCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAG-CAGATTGAAGCT
* * * * * *
36639536 ACCATAGCGAACCTTATCTCCCTGAAGCTGTAGTGAAGCAGATTAAAACT
1 A-C--A---AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
* * * *
36639586 ACGAATC-TATCTCTCTAAAGTTGCAGTGGAGCAGATCGAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
*
36639629 ACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAAGCT
1 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
* * *
36639673 ACAATTCCTATAC-CCCTAAAGTTGCAGT
1 ACAAATCTTAT-CTCCCTGAAGTTGCAGT
36639701 AGGTTAGAAT
Statistics
Matches: 335, Mismatches: 71, Indels: 70
0.70 0.15 0.15
Matches are distributed among these distances:
43 45 0.13
44 182 0.54
45 5 0.01
46 1 0.00
47 5 0.01
49 2 0.01
50 86 0.26
51 9 0.03
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCT
Found at i:36641521 original size:12 final size:12
Alignment explanation
Indices: 36641504--36641529 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
36641494 AGCATCACAA
36641504 TTTTTATTTTAT
1 TTTTTATTTTAT
36641516 TTTTTATTTTAT
1 TTTTTATTTTAT
36641528 TT
1 TT
36641530 ATTCATTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (12 bp):
TTTTTATTTTAT
Found at i:36642047 original size:30 final size:31
Alignment explanation
Indices: 36642013--36642071 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 31
36642003 GATTCATCCA
36642013 TGGAAAATAAAATAA-AGAAA-ATGATAAAAT
1 TGGAAAATAAAATAATA-AAAGATGATAAAAT
* *
36642043 TGGAAAGTGAAATAATAAAAGATGATAAA
1 TGGAAAATAAAATAATAAAAGATGATAAA
36642072 TAATAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.17, T:0.20
Consensus pattern (31 bp):
TGGAAAATAAAATAATAAAAGATGATAAAAT
Found at i:36643097 original size:63 final size:63
Alignment explanation
Indices: 36642998--36643150 Score: 234
Period size: 63 Copynumber: 2.4 Consensus size: 63
36642988 GCGAGCATCC
* * * * *
36642998 TGATCGGTAGTGATCTTGCATGTGTTGCGGACTACCGCAACTCTTTGTGAGCGTCCTGTTATA
1 TGATCGGTTGTGATCCTGCATATATTGCGGACTACCGCAACTCTTTGTGAGCGTCCGGTTATA
* *
36643061 TGATCGGTTGTGATCCTGCATATATTGCTGACTACCGCAGCTCTTTGTGAGCGTCCGGTTATA
1 TGATCGGTTGTGATCCTGCATATATTGCGGACTACCGCAACTCTTTGTGAGCGTCCGGTTATA
*
36643124 TGCTCGGTTGTGATCCTGCATATATTG
1 TGATCGGTTGTGATCCTGCATATATTG
36643151 TAAACACAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 82 1.00
ACGTcount: A:0.17, C:0.21, G:0.26, T:0.36
Consensus pattern (63 bp):
TGATCGGTTGTGATCCTGCATATATTGCGGACTACCGCAACTCTTTGTGAGCGTCCGGTTATA
Found at i:36643188 original size:63 final size:61
Alignment explanation
Indices: 36643001--36643193 Score: 201
Period size: 63 Copynumber: 3.0 Consensus size: 61
36642991 AGCATCCTGA
* * * * ** * *
36643001 TCGGTAGTGATCTTGCATGTGTTGCGGACTACCGCAACTCTTTGTGAGCGTCCTGTTATATGA
1 TCGGTTGTGATCCTGCATATATTGCTAACTACCGCAGCTCTTTGTGAGCGTCCTG--ATATGC
* *
36643064 TCGGTTGTGATCCTGCATATATTGCTGACTACCGCAGCTCTTTGTGAGCGTCCGGTTATATGC
1 TCGGTTGTGATCCTGCATATATTGCTAACTACCGCAGCTCTTTGTGAGCGTCC--TGATATGC
36643127 TCGGTTGTGATCCTGCATATATTG-TAAAC-ACAAACGCAGCTCTTTGTGAGCGTCCTGATATGA
1 TCGGTTGTGATCCTGCATATATTGCT-AACTAC---CGCAGCTCTTTGTGAGCGTCCTGATATG-
36643190 C
61 C
36643191 TCG
1 TCG
36643194 CTTGAACTTC
Statistics
Matches: 113, Mismatches: 10, Indels: 13
0.83 0.07 0.10
Matches are distributed among these distances:
62 3 0.03
63 84 0.74
64 4 0.04
65 22 0.19
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (61 bp):
TCGGTTGTGATCCTGCATATATTGCTAACTACCGCAGCTCTTTGTGAGCGTCCTGATATGC
Found at i:36643819 original size:16 final size:17
Alignment explanation
Indices: 36643782--36643829 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 17
36643772 GATATGATTT
36643782 GTATATGTTATAT-G-AA
1 GTATATG-TATATGGAAA
*
36643798 -TATATG-ATGTGGAAA
1 GTATATGTATATGGAAA
36643813 GTATATGTATATGGAAA
1 GTATATGTATATGGAAA
36643830 TCTAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
13 3 0.12
14 1 0.04
15 8 0.31
16 6 0.23
17 8 0.31
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.38
Consensus pattern (17 bp):
GTATATGTATATGGAAA
Found at i:36646456 original size:54 final size:55
Alignment explanation
Indices: 36646139--36646471 Score: 190
Period size: 54 Copynumber: 6.0 Consensus size: 55
36646129 AAAAAAAGGA
* * * *
36646139 AAAAAAAACTTTTTTTGGTGCTGGCCT-ATCAATGGCCAGCACCCCCTTTATACGA-
1 AAAAAAAA-TTATTTTGGTGGTGGCCTGA-CAATGGCCAGCACCCCCTTTCTACAAT
* *** * *
36646194 AAAAAAAATTA----GGTGTTAATCTGTCAATAGCCAGCACCCCCTTTCTACAAT
1 AAAAAAAATTATTTTGGTGGTGGCCTGACAATGGCCAGCACCCCCTTTCTACAAT
* *
36646245 AAAAAAAATTA-TTTGGGGGTGGTCTGACAATGGCCAGCACCCCCTTTCTACAAT
1 AAAAAAAATTATTTTGGTGGTGGCCTGACAATGGCCAGCACCCCCTTTCTACAAT
******* * * *
36646299 AGTTTTTTTTTTACTTTTGGTGTGTCAATGGCC-GACATTGACAGGCCAGCACCCCCTTTATACG
1 A--AAAAAAATTA-TTTTGGTG-G----TGGCCTGACA---A-TGGCCAGCACCCCCTTTCTACA
36646363 A-
54 AT
* ** * *
36646364 AAAAAAAATTCA----GGTGTTGATCTGTCAATAGCCAGCACCCCCTTTCTACAAT
1 AAAAAAAATT-ATTTTGGTGGTGGCCTGACAATGGCCAGCACCCCCTTTCTACAAT
36646416 AAAAAAAATTATTTTGG-GGTGGCCTGACAATGGCCAGCACCCCCTTTCTACAAT
1 AAAAAAAATTATTTTGGTGGTGGCCTGACAATGGCCAGCACCCCCTTTCTACAAT
36646470 AA
1 AA
36646472 TTTTTTTTTT
Statistics
Matches: 206, Mismatches: 47, Indels: 51
0.68 0.15 0.17
Matches are distributed among these distances:
50 30 0.15
51 31 0.15
52 11 0.05
54 74 0.36
55 13 0.06
56 3 0.01
58 6 0.03
59 5 0.02
62 4 0.02
63 6 0.03
64 1 0.00
65 2 0.01
66 20 0.10
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (55 bp):
AAAAAAAATTATTTTGGTGGTGGCCTGACAATGGCCAGCACCCCCTTTCTACAAT
Found at i:36646456 original size:171 final size:170
Alignment explanation
Indices: 36646172--36646506 Score: 609
Period size: 171 Copynumber: 2.0 Consensus size: 170
36646162 GCCTATCAAT
36646172 GGCCAGCACCCCCTTTATACGAAAAAAAAATTAGGTGTTAATCTGTCAATAGCCAGCACCCCCTT
1 GGCCAGCACCCCCTTTATACGAAAAAAAAATTAGGTGTTAATCTGTCAATAGCCAGCACCCCCTT
* *
36646237 TCTACAATAAAAAAAATTATTTGGGGGTGGTCTGACAATGGCCAGCACCCCCTTTCTACAATAGT
66 TCTACAATAAAAAAAATTATTTGGGGGTGGCCTGACAATGGCCAGCACCCCCTTTCTACAATAAT
36646302 TTTTTTTTTACTTTTGG-TGTGTCAATGGCCGACATTGACA
131 TTTTTTTTTAC-TTTGGATGTGTCAATGGCCGACATTGACA
*
36646342 GGCCAGCACCCCCTTTATACGAAAAAAAAATTCAGGTGTTGATCTGTCAATAGCCAGCACCCCCT
1 GGCCAGCACCCCCTTTATACGAAAAAAAAATT-AGGTGTTAATCTGTCAATAGCCAGCACCCCCT
*
36646407 TTCTACAATAAAAAAAATTATTTTGGGGTGGCCTGACAATGGCCAGCACCCCCTTTCTACAATAA
65 TTCTACAATAAAAAAAATTATTTGGGGGTGGCCTGACAATGGCCAGCACCCCCTTTCTACAATAA
36646472 TTTTTTTTTTACTTTGGATGTGTCAATGGCCGACA
130 TTTTTTTTTTACTTTGGATGTGTCAATGGCCGACA
36646507 CTAGTATACG
Statistics
Matches: 159, Mismatches: 4, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
170 37 0.23
171 122 0.77
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (170 bp):
GGCCAGCACCCCCTTTATACGAAAAAAAAATTAGGTGTTAATCTGTCAATAGCCAGCACCCCCTT
TCTACAATAAAAAAAATTATTTGGGGGTGGCCTGACAATGGCCAGCACCCCCTTTCTACAATAAT
TTTTTTTTTACTTTGGATGTGTCAATGGCCGACATTGACA
Found at i:36646543 original size:108 final size:105
Alignment explanation
Indices: 36646431--36646695 Score: 318
Period size: 105 Copynumber: 2.5 Consensus size: 105
36646421 AAATTATTTT
*
36646431 GGGGTGGCCTGACAATGGCCAGCACCCCCTTTCTACAATAATTTTTTTTTTACTTTGGATGTGTC
1 GGGGTGGCCTGACAATGGCCAGCACCCCCTTTATAC-A-AATTTTTTTTTTACTTTGGATGTGTC
36646496 AATGGCCGACACTAGTATACGAAAAAAGTAAAAAAAAATTTAG
64 AATGGCCGACACTAGTATAC-AAAAAAGTAAAAAAAAATTTAG
* ** * *
36646539 GGGGTGGCCTGGCAATGGCTGGCACCCCCTTTATACAAATTTTTTTTTTACTTTTGATTTGTCAA
1 GGGGTGGCCTGACAATGGCCAGCACCCCCTTTATACAAATTTTTTTTTTACTTTGGATGTGTCAA
* * * *
36646604 TGTCTGGCACTTGTATACAAAAAAGTAAAAAAAAAGATTT--
66 TGGCCGACACTAGTATACAAAAAAGT-AAAAAAAA-ATTTAG
* * * * * * *
36646644 TGGGTGGCTTGTCAATAGTCGGCACCCCCTTTATACAAATTTTTTTTCTACT
1 GGGGTGGCCTGACAATGGCCAGCACCCCCTTTATACAAATTTTTTTTTTACT
36646696 NNNNNNNNNN
Statistics
Matches: 138, Mismatches: 17, Indels: 7
0.85 0.10 0.04
Matches are distributed among these distances:
105 53 0.38
106 48 0.35
107 5 0.04
108 32 0.23
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (105 bp):
GGGGTGGCCTGACAATGGCCAGCACCCCCTTTATACAAATTTTTTTTTTACTTTGGATGTGTCAA
TGGCCGACACTAGTATACAAAAAAGTAAAAAAAAATTTAG
Found at i:36650604 original size:28 final size:24
Alignment explanation
Indices: 36650576--36650626 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
36650566 AACAAAAATG
*
36650576 AATGAATGTAAAAAAGGACAAACT
1 AATGAATATAAAAAAGGACAAACT
*
36650600 AATGAATATAAAAAAGGATAAACT
1 AATGAATATAAAAAAGGACAAACT
36650624 AAT
1 AAT
36650627 AGCATGCGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.61, C:0.06, G:0.14, T:0.20
Consensus pattern (24 bp):
AATGAATATAAAAAAGGACAAACT
Found at i:36650894 original size:2 final size:2
Alignment explanation
Indices: 36650887--36650961 Score: 100
Period size: 2 Copynumber: 38.0 Consensus size: 2
36650877 TCTATATGTG
* * *
36650887 TA TA TA TA T- TA TA AA AA TG TA CTA 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
36650929 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36650962 AAGCATACAT
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
1 2 0.03
2 62 0.94
3 2 0.03
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (2 bp):
TA
Done.