Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 51 of 190
Found at i:8447679 original size:22 final size:21
Alignment explanation
Indices: 8447649--8447690 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
8447639 TTTTGATTAT
8447649 TTCAAATTTAAATTATTCAAA
1 TTCAAATTTAAATTATTCAAA
* *
8447670 TTCAACATTTAGATTTTTCAA
1 TTCAA-ATTTAAATTATTCAA
8447691 GTTTGGATCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.40, C:0.12, G:0.02, T:0.45
Consensus pattern (21 bp):
TTCAAATTTAAATTATTCAAA
Found at i:8450043 original size:9 final size:9
Alignment explanation
Indices: 8450031--8450076 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
8450021 TCATTTAAAT
*
8450031 ATAACACGA
1 ATAACACAA
8450040 ATAACACAA
1 ATAACACAA
* *
8450049 ACAACACGA
1 ATAACACAA
8450058 ATAACACAA
1 ATAACACAA
*
8450067 ATAATACAA
1 ATAACACAA
8450076 A
1 A
8450077 CAATACTGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.63, C:0.22, G:0.04, T:0.11
Consensus pattern (9 bp):
ATAACACAA
Found at i:8450056 original size:18 final size:18
Alignment explanation
Indices: 8450033--8450067 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
8450023 ATTTAAATAT
8450033 AACACGAATAACACAAAC
1 AACACGAATAACACAAAC
8450051 AACACGAATAACACAAA
1 AACACGAATAACACAAA
8450068 TAATACAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.63, C:0.26, G:0.06, T:0.06
Consensus pattern (18 bp):
AACACGAATAACACAAAC
Found at i:8451533 original size:43 final size:43
Alignment explanation
Indices: 8451483--8451576 Score: 152
Period size: 43 Copynumber: 2.2 Consensus size: 43
8451473 ATTAAAAAAG
* *
8451483 TATTAAAACCATACATTAGAAATGTATGAGTAAAAAACATATA
1 TATTAAAAACATACATTAAAAATGTATGAGTAAAAAACATATA
* *
8451526 TATTAAAAACATATATTAAAAATGTATGAGTTAAAAACATATA
1 TATTAAAAACATACATTAAAAATGTATGAGTAAAAAACATATA
8451569 TATTAAAA
1 TATTAAAA
8451577 TAAATGCATA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.55, C:0.06, G:0.07, T:0.31
Consensus pattern (43 bp):
TATTAAAAACATACATTAAAAATGTATGAGTAAAAAACATATA
Found at i:8451535 original size:15 final size:15
Alignment explanation
Indices: 8451515--8451576 Score: 69
Period size: 15 Copynumber: 4.3 Consensus size: 15
8451505 TGTATGAGTA
8451515 AAAAACATATATATT
1 AAAAACATATATATT
8451530 AAAAAC--ATATATT
1 AAAAACATATATATT
*
8451543 -AAAA-ATGTATGAGTT
1 AAAAACATATAT-A-TT
8451558 AAAAACATATATATT
1 AAAAACATATATATT
8451573 AAAA
1 AAAA
8451577 TAAATGCATA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
12 4 0.10
13 10 0.26
14 1 0.03
15 14 0.36
16 5 0.13
17 5 0.13
ACGTcount: A:0.60, C:0.05, G:0.05, T:0.31
Consensus pattern (15 bp):
AAAAACATATATATT
Found at i:8451541 original size:13 final size:13
Alignment explanation
Indices: 8451523--8451569 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
8451513 TAAAAAACAT
8451523 ATATATTAAAAAC
1 ATATATTAAAAAC
*
8451536 ATATATTAAAAAT
1 ATATATTAAAAAC
*
8451549 GTATGAGTTAAAAAC
1 ATAT-A-TTAAAAAC
8451564 ATATAT
1 ATATAT
8451570 ATTAAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 16 0.57
14 2 0.07
15 10 0.36
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.34
Consensus pattern (13 bp):
ATATATTAAAAAC
Found at i:8451547 original size:28 final size:28
Alignment explanation
Indices: 8451516--8451578 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
8451506 GTATGAGTAA
8451516 AAAACATATAT-A-TTAAAAACATATATT
1 AAAA-ATATATGAGTTAAAAACATATATT
*
8451543 AAAAATGTATGAGTTAAAAACATATATAT
1 AAAAATATATGAGTTAAAAACATATAT-T
*
8451572 TAAAATA
1 AAAAATA
8451579 AATGCATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 5 0.17
27 5 0.17
28 14 0.47
29 6 0.20
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.32
Consensus pattern (28 bp):
AAAAATATATGAGTTAAAAACATATATT
Found at i:8452173 original size:21 final size:21
Alignment explanation
Indices: 8452149--8452200 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
8452139 CTAAAGATAA
8452149 TAAAAGTCAACCTTGAAAGTT
1 TAAAAGTCAACCTTGAAAGTT
* * *
8452170 TAAATGTTAGCCTTGAAAGTT
1 TAAAAGTCAACCTTGAAAGTT
*
8452191 TAAAAATCAA
1 TAAAAGTCAA
8452201 TTAGCCACTT
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (21 bp):
TAAAAGTCAACCTTGAAAGTT
Found at i:8452563 original size:24 final size:24
Alignment explanation
Indices: 8452527--8452583 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
8452517 TTAATGACTT
*
8452527 ATTAAAAT-TATTTAAAAAAT-TAA
1 ATTAATATATATTTAAAAAATCT-A
*
8452550 ATTAATATATATTTAAAAAGTCTA
1 ATTAATATATATTTAAAAAATCTA
8452574 ATTAATATAT
1 ATTAATATAT
8452584 TTATGTTACT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 7 0.23
24 22 0.73
25 1 0.03
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
ATTAATATATATTTAAAAAATCTA
Found at i:8453120 original size:14 final size:14
Alignment explanation
Indices: 8453069--8453126 Score: 55
Period size: 14 Copynumber: 4.2 Consensus size: 14
8453059 GTATTATTTT
*
8453069 TAATTTCAAATATA
1 TAATCTCAAATATA
** *
8453083 TAATCTCTTAT-TT
1 TAATCTCAAATATA
* *
8453096 TAATTTAAAATATA
1 TAATCTCAAATATA
8453110 TAATCTCAAATATA
1 TAATCTCAAATATA
8453124 TAA
1 TAA
8453127 CCTTTTATAA
Statistics
Matches: 32, Mismatches: 11, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
13 8 0.25
14 24 0.75
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.45
Consensus pattern (14 bp):
TAATCTCAAATATA
Found at i:8453256 original size:22 final size:22
Alignment explanation
Indices: 8453195--8453246 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
8453185 GTTTCATATT
8453195 ATTATAAATGTTATTTATTATC
1 ATTATAAATGTTATTTATTATC
8453217 ATTATAAATGTTATTTATTATC
1 ATTATAAATGTTATTTATTATC
*
8453239 TTTATAAA
1 ATTATAAA
8453247 ATAGTATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.54
Consensus pattern (22 bp):
ATTATAAATGTTATTTATTATC
Found at i:8453605 original size:25 final size:27
Alignment explanation
Indices: 8453563--8453628 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 27
8453553 CATTACTAAT
*
8453563 ATATATATATATATATATTTAAATTTA
1 ATATATATATATATATATATAAATTTA
* **
8453590 ATATATAT-TTTA-ATATATGCATTTA
1 ATATATATATATATATATATAAATTTA
* *
8453615 ATATAAATGTATAT
1 ATATATATATATAT
8453629 GTAACTATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
25 17 0.55
26 6 0.19
27 8 0.26
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (27 bp):
ATATATATATATATATATATAAATTTA
Found at i:8461655 original size:2 final size:2
Alignment explanation
Indices: 8461631--8461669 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
8461621 ATATAGGATC
* * *
8461631 TA TA TA AA TA TA AA TA TA AA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8461670 CACAAACGAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
TA
Found at i:8461667 original size:12 final size:12
Alignment explanation
Indices: 8461631--8461669 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
8461621 ATATAGGATC
8461631 TATATAAATATA
1 TATATAAATATA
*
8461643 AATATAAATATA
1 TATATAAATATA
*
8461655 TATATATATATA
1 TATATAAATATA
8461667 TAT
1 TAT
8461670 CACAAACGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATAAATATA
Found at i:8463923 original size:35 final size:37
Alignment explanation
Indices: 8463877--8463951 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 37
8463867 AATTGGGTGT
*
8463877 TTTTAATTA-TTTG-ATTTGTAGCCAAGTGATTCTTA
1 TTTTAAGTATTTTGTATTTGTAGCCAAGTGATTCTTA
*
8463912 TTTTAAGTATTTTGTTTATTTGTAGTCAAGTGATTCTTA
1 TTTTAAGTATTTTG--TATTTGTAGCCAAGTGATTCTTA
8463951 T
1 T
8463952 GTGGGTTCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 8 0.24
36 4 0.12
39 22 0.65
ACGTcount: A:0.24, C:0.07, G:0.15, T:0.55
Consensus pattern (37 bp):
TTTTAAGTATTTTGTATTTGTAGCCAAGTGATTCTTA
Found at i:8465072 original size:76 final size:74
Alignment explanation
Indices: 8464943--8465089 Score: 188
Period size: 76 Copynumber: 1.9 Consensus size: 74
8464933 CATTAGCCCG
* *
8464943 TATGATGGTGCATTAGGCTAGCAAATAGAATTATTAATGTCCTGCAAAAACTAAATTGAGTGGTT
1 TATGATGGTGCATTAGGCTAGCAAATAGAA-TATTAATGTACTGCAAAAACTAAATTGAGTGGAT
8465008 TCATCACCGT
65 TCATCACCGT
* * * * *
8465018 TATGATGGTGCATATTAGGCTAGTAACTAGAA-AGTTAATGTACTTCTAAGACTAAATTGAGTGG
1 TATGATGGTGC--ATTAGGCTAGCAAATAGAATA-TTAATGTACTGCAAAAACTAAATTGAGTGG
8465082 ATTCATCA
63 ATTCATCA
8465090 TTTGGTACAT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
75 12 0.19
76 33 0.53
77 17 0.27
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.33
Consensus pattern (74 bp):
TATGATGGTGCATTAGGCTAGCAAATAGAATATTAATGTACTGCAAAAACTAAATTGAGTGGATT
CATCACCGT
Found at i:8465570 original size:3 final size:3
Alignment explanation
Indices: 8465556--8465587 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
8465546 TTTATCAATA
*
8465556 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
8465588 ATTGCTGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:8467381 original size:2 final size:2
Alignment explanation
Indices: 8467365--8467402 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
8467355 GATCGTATTA
*
8467365 AT AT A- AT AC AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8467403 GTGAGGTACA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 30 0.94
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8467473 original size:15 final size:15
Alignment explanation
Indices: 8467462--8467503 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
8467452 TATTAAATAT
8467462 ATAAAAAATAAAAAA
1 ATAAAAAATAAAAAA
**
8467477 ATAAAAAAGT-TCAAA
1 ATAAAAAA-TAAAAAA
8467492 ATAAAAAATAAA
1 ATAAAAAATAAA
8467504 CACGCAGCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 4
0.72 0.14 0.14
Matches are distributed among these distances:
14 1 0.05
15 19 0.90
16 1 0.05
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (15 bp):
ATAAAAAATAAAAAA
Found at i:8469211 original size:21 final size:22
Alignment explanation
Indices: 8469185--8469239 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
8469175 GGTTTCGATG
*
8469185 AAAAAATATAAAAA-AATAA-A
1 AAAAAAAATAAAAAGAATAATA
8469205 AAAAAAAGA-AAAAAGAATAATA
1 AAAAAAA-ATAAAAAGAATAATA
8469227 AAAAAAAATAAAA
1 AAAAAAAATAAAA
8469240 GAGAGGAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
20 11 0.37
21 7 0.23
22 12 0.40
ACGTcount: A:0.85, C:0.00, G:0.04, T:0.11
Consensus pattern (22 bp):
AAAAAAAATAAAAAGAATAATA
Found at i:8469215 original size:28 final size:28
Alignment explanation
Indices: 8469184--8469241 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
8469174 AGGTTTCGAT
*
8469184 GAAAAAA-TATAAAAAAATAAAAAAAAAA
1 GAAAAAAGAATAAAAAAA-AAAAAAAAAA
* *
8469212 GAAAAAAGAATAATAAAAAAAAATAAAA
1 GAAAAAAGAATAAAAAAAAAAAAAAAAA
8469240 GA
1 GA
8469242 GAGGAAGTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.83, C:0.00, G:0.07, T:0.10
Consensus pattern (28 bp):
GAAAAAAGAATAAAAAAAAAAAAAAAAA
Found at i:8469240 original size:21 final size:20
Alignment explanation
Indices: 8469185--8469241 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
8469175 GGTTTCGATG
* *
8469185 AAAAAATATAAAAAAATAAA
1 AAAAAAAATAAAAGAATAAA
*
8469205 AAAAAAAGAAAAAAGAATAATA
1 AAAAAAA-ATAAAAGAATAA-A
8469227 AAAAAAAATAAAAGA
1 AAAAAAAATAAAAGA
8469242 GAGGAAGTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 6 0.19
21 17 0.55
22 8 0.26
ACGTcount: A:0.84, C:0.00, G:0.05, T:0.11
Consensus pattern (20 bp):
AAAAAAAATAAAAGAATAAA
Found at i:8469333 original size:19 final size:19
Alignment explanation
Indices: 8469274--8469335 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
8469264 CAATGAAGAG
*
8469274 AAAGAAAAAAAG-AGGAAAA
1 AAAGAAAAAAAGTAAG-AAA
*
8469293 AAAGAAAAAAACTAA-AACA
1 AAAGAAAAAAAGTAAGAA-A
8469312 AAAGAAAAAAAGTATGAGAAA
1 AAAGAAAAAAAGTA--AGAAA
8469333 AAA
1 AAA
8469336 AAACAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
18 2 0.06
19 25 0.71
20 1 0.03
21 5 0.14
22 2 0.06
ACGTcount: A:0.77, C:0.03, G:0.15, T:0.05
Consensus pattern (19 bp):
AAAGAAAAAAAGTAAGAAA
Found at i:8469426 original size:25 final size:26
Alignment explanation
Indices: 8469395--8469459 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 26
8469385 GGAAAAAAAG
*
8469395 AAAAAAAGAGAATAAG-AAT-AAGAA
1 AAAAAAAGAGAAGAAGAAATAAAGAA
*
8469419 AAAGAAAAAAGAAGAAGAAATGAAAGAA
1 AAA-AAAAGAGAAGAAGAAAT-AAAGAA
8469447 AAAAAAAGTAGAA
1 AAAAAAAG-AGAA
8469460 AAGTCAAAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 3 0.09
25 11 0.33
26 3 0.09
27 4 0.12
28 12 0.36
ACGTcount: A:0.75, C:0.00, G:0.18, T:0.06
Consensus pattern (26 bp):
AAAAAAAGAGAAGAAGAAATAAAGAA
Found at i:8469430 original size:19 final size:20
Alignment explanation
Indices: 8469367--8469438 Score: 71
Period size: 19 Copynumber: 3.8 Consensus size: 20
8469357 GGGTGTGGAA
* *
8469367 AAAAAGAA-AAGAAAGGAGGG
1 AAAAAGAAGAAGAAA-AAGAG
8469387 AAAAA-AAGAA-AAAAAGAG
1 AAAAAGAAGAAGAAAAAGAG
* *
8469405 AATAAGAATAAGAAAAAGA-
1 AAAAAGAAGAAGAAAAAGAG
8469424 AAAAAGAAGAAGAAA
1 AAAAAGAAGAAGAAA
8469439 TGAAAGAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
18 7 0.16
19 22 0.51
20 14 0.33
ACGTcount: A:0.75, C:0.00, G:0.22, T:0.03
Consensus pattern (20 bp):
AAAAAGAAGAAGAAAAAGAG
Found at i:8469444 original size:22 final size:22
Alignment explanation
Indices: 8469419--8469460 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8469409 AGAATAAGAA
*
8469419 AAAGAAAAAAGAAGAAGAAATG
1 AAAGAAAAAAAAAGAAGAAATG
*
8469441 AAAGAAAAAAAAAGTAGAAA
1 AAAGAAAAAAAAAGAAGAAA
8469461 AGTCAAAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.19, T:0.05
Consensus pattern (22 bp):
AAAGAAAAAAAAAGAAGAAATG
Found at i:8471422 original size:22 final size:24
Alignment explanation
Indices: 8471375--8471423 Score: 75
Period size: 25 Copynumber: 2.1 Consensus size: 24
8471365 TTTAATTTTG
8471375 ATTTTGATTATGTCATTTATTTTAT
1 ATTTTGATTATGT-ATTTATTTTAT
8471400 ATTTTGATTATGT-TTT-TTTTAT
1 ATTTTGATTATGTATTTATTTTAT
8471422 AT
1 AT
8471424 ATAATGTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
22 8 0.33
23 3 0.12
25 13 0.54
ACGTcount: A:0.22, C:0.02, G:0.08, T:0.67
Consensus pattern (24 bp):
ATTTTGATTATGTATTTATTTTAT
Found at i:8477396 original size:186 final size:186
Alignment explanation
Indices: 8477070--8477416 Score: 525
Period size: 186 Copynumber: 1.9 Consensus size: 186
8477060 AAGAAATTTC
* * * *
8477070 TACTCAAGGAAATAATCAACCTAAAGGACCTAGCTTAAAACCTTTAGGGGAGAAATCATTAAAAA
1 TACTCAAGGAAATAATCAACCTAAAGAACCCAGCTCAAAACCCTTAGGGGAGAAATCATTAAAAA
* * **
8477135 TGGCTTAGGATCCATATGCACAAAAAAGGTATAGCCTCTTAGAAGAAAAGATTTAAGTTATTGAA
66 TGGCATAGGATCCAGATGCACAAAAAAGGTATAGCCTCTTAGAAGAAAAGATTTAAACTATTGAA
* *
8477200 GGTGGGATAAATCTTATAATGCAAAGAAATTCTGGCTAGTTCTAGACATGGTCATT
131 GATAGGATAAATCTTATAATGCAAAGAAATTCTGGCTAGTTCTAGACATGGTCATT
* * *
8477256 TACTTAAGGAAATAATCAACCTAAAGAACCCAGCTCAAAGCCCTTATGGGAGAAATCATTAAAAA
1 TACTCAAGGAAATAATCAACCTAAAGAACCCAGCTCAAAACCCTTAGGGGAGAAATCATTAAAAA
* * *
8477321 TGGCATGGGATCCAGATGCATAAAGAAA-GTATAGCCTCTTAGAAGAAATGATTTAAACTATTGA
66 TGGCATAGGATCCAGATGCACAAA-AAAGGTATAGCCTCTTAGAAGAAAAGATTTAAACTATTGA
*
8477385 AGATAGGATAAATCTTATGATGCAAAGAAATT
130 AGATAGGATAAATCTTATAATGCAAAGAAATT
8477417 TGATTGGTTT
Statistics
Matches: 143, Mismatches: 17, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
186 140 0.98
187 3 0.02
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.26
Consensus pattern (186 bp):
TACTCAAGGAAATAATCAACCTAAAGAACCCAGCTCAAAACCCTTAGGGGAGAAATCATTAAAAA
TGGCATAGGATCCAGATGCACAAAAAAGGTATAGCCTCTTAGAAGAAAAGATTTAAACTATTGAA
GATAGGATAAATCTTATAATGCAAAGAAATTCTGGCTAGTTCTAGACATGGTCATT
Found at i:8479975 original size:30 final size:31
Alignment explanation
Indices: 8479917--8479987 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
8479907 ATGTGCAAAG
* *
8479917 AAAAAAAAAGCAAAGAAAAGAGAAAAAGGTA
1 AAAAAAAAAGCAAAGAAAACAGAAAAAGGAA
*
8479948 AAAAAAAAAGTC-AAGAAAACA-ATAAAGGAA
1 AAAAAAAAAG-CAAAGAAAACAGAAAAAGGAA
8479978 AAATAAAAAA
1 AAA-AAAAAA
8479988 ATTGATTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 10 0.29
31 24 0.69
32 1 0.03
ACGTcount: A:0.76, C:0.04, G:0.14, T:0.06
Consensus pattern (31 bp):
AAAAAAAAAGCAAAGAAAACAGAAAAAGGAA
Found at i:8482276 original size:31 final size:31
Alignment explanation
Indices: 8482231--8482397 Score: 101
Period size: 31 Copynumber: 5.4 Consensus size: 31
8482221 GAAATGAAAT
*
8482231 TTAAG-CCAAGTTTAGCTAACACTGACGAGAA
1 TTAAGCCCAA-TTTAGCTAACACTGATGAGAA
* * * * *
8482262 TTAAGCCCAATTTAGTTGACATTGATAAGAT
1 TTAAGCCCAATTTAGCTAACACTGATGAGAA
* * * * *
8482293 TTAAACTCAGTTTAGCTGGAAC-C-AATGGGAA
1 TTAAGCCCAATTTAGCT--AACACTGATGAGAA
* * * *
8482324 TTAAGCCTAATTCAGCTAACACTAAT-AAAA
1 TTAAGCCCAATTTAGCTAACACTGATGAGAA
* *
8482354 TTTAAGCCCAGTTTAGCTATCACT-AGTGAGAA
1 -TTAAGCCCAATTTAGCTAACACTGA-TGAGAA
8482386 TTAAGCCCAATT
1 TTAAGCCCAATT
8482398 CAATTGGTAT
Statistics
Matches: 99, Mismatches: 29, Indels: 16
0.69 0.20 0.11
Matches are distributed among these distances:
29 3 0.03
30 4 0.04
31 83 0.84
32 7 0.07
33 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (31 bp):
TTAAGCCCAATTTAGCTAACACTGATGAGAA
Found at i:8482309 original size:62 final size:61
Alignment explanation
Indices: 8482227--8482399 Score: 161
Period size: 62 Copynumber: 2.8 Consensus size: 61
8482217 GAAAGAAATG
* * * * * * *
8482227 AAATTTAAGCCAAGTTTAGCTAACACTGACGAGAATTAAGCCCAATTTAGTTGACATTGATA
1 AAATTTAAACCCAGTTTAGCTAACACTGA-GAGAATTAAGCCCAATTCAGCTAACACTAATA
* * * *
8482289 AGATTTAAACTCAGTTTAGCTGGAACCAATG-G-GAATTAAGCCTAATTCAGCTAACACTAATA
1 AAATTTAAACCCAGTTTAGCT--AA-CACTGAGAGAATTAAGCCCAATTCAGCTAACACTAATA
* * *
8482351 AAATTTAAGCCCAGTTTAGCTATCACTAGTGAGAATTAAGCCCAATTCA
1 AAATTTAAACCCAGTTTAGCTAACACT-GAGAGAATTAAGCCCAATTCA
8482400 ATTGGTATTA
Statistics
Matches: 88, Mismatches: 17, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
59 3 0.03
60 2 0.02
61 1 0.01
62 75 0.85
63 1 0.01
64 2 0.02
65 4 0.05
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (61 bp):
AAATTTAAACCCAGTTTAGCTAACACTGAGAGAATTAAGCCCAATTCAGCTAACACTAATA
Found at i:8482450 original size:124 final size:124
Alignment explanation
Indices: 8482227--8482454 Score: 289
Period size: 124 Copynumber: 1.8 Consensus size: 124
8482217 GAAAGAAATG
* *
8482227 AAATTTAAGCCAAGTTTAGCTAACACTGACGAGAATTAAGCCCAATTTAGTTGACATTGATAAGA
1 AAATTTAAGCCAAGTTTAGCTAACACTGACGAGAATTAAGCCCAATTCAATTGACATTGATAAGA
* **
8482292 TTTAAACTCAGTTTAGCTGGAACCAATGGGAATTAAGCCTAATTCAGCTAACACTAATA
66 TTTAAACCCAGTTTAGCTGGAACCAATGAAAATTAAGCCTAATTCAGCTAACACTAATA
* * * ** *
8482351 AAATTTAAGCCCAGTTTAGCTATCACT-AGTGAGAATTAAGCCCAATTCAATTGGTATT-ATGAG
1 AAATTTAAGCCAAGTTTAGCTAACACTGA-CGAGAATTAAGCCCAATTCAATTGACATTGATAAG
** * *
8482414 ATTTTAGGCCCAGTTTAGTTGGCACCAATGAAAATTAAGCC
65 A-TTTAAACCCAGTTTAGCTGGAACCAATGAAAATTAAGCC
8482455 CAGTTTTACT
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
123 6 0.07
124 81 0.93
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (124 bp):
AAATTTAAGCCAAGTTTAGCTAACACTGACGAGAATTAAGCCCAATTCAATTGACATTGATAAGA
TTTAAACCCAGTTTAGCTGGAACCAATGAAAATTAAGCCTAATTCAGCTAACACTAATA
Found at i:8482484 original size:124 final size:124
Alignment explanation
Indices: 8482223--8482493 Score: 287
Period size: 124 Copynumber: 2.2 Consensus size: 124
8482213 CTTTGAAAGA
* *
8482223 AATGAAATTTAAGCCAAGTTTAGCTAACACTGACGAGAATTAAGCCCAATTTAGTTGACATTGAT
1 AATGAAATTTAAGCCAAGTTTAGCTAACACTGACGAGAATTAAGCCCAATTCAATTGACATTGAT
* ** *
8482288 AAGATTTAAACTCAGTTTAGCTGGAACCAATGGGAATTAAGCCTAATTCAGCTAACACT
66 AAGATTTAAACCCAGTTTAGCTGGAACCAATGAAAATTAAGCCCAATTCAGCTAACACT
* * * * **
8482347 AATAAAATTTAAGCCCAGTTTAGCTATCACT-AGTGAGAATTAAGCCCAATTCAATTGGTATT-A
1 AATGAAATTTAAGCCAAGTTTAGCTAACACTGA-CGAGAATTAAGCCCAATTCAATTGACATTGA
* ** * * * * *
8482410 TGAGATTTTAGGCCCAGTTTAGTTGGCACCAATGAAAATTAAGCCCAGTTTTA-CTAGCACT
65 TAAGA-TTTAAACCCAGTTTAGCTGGAACCAATGAAAATTAAGCCCA-ATTCAGCTAACACT
* * *
8482471 AATGAGATGTAAGCCTAGTTTAG
1 AATGAAATTTAAGCCAAGTTTAG
8482494 TTGGTATTGA
Statistics
Matches: 120, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
123 6 0.05
124 111 0.93
125 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.30
Consensus pattern (124 bp):
AATGAAATTTAAGCCAAGTTTAGCTAACACTGACGAGAATTAAGCCCAATTCAATTGACATTGAT
AAGATTTAAACCCAGTTTAGCTGGAACCAATGAAAATTAAGCCCAATTCAGCTAACACT
Found at i:8482551 original size:31 final size:30
Alignment explanation
Indices: 8482516--8482583 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 30
8482506 AGATATAACT
* * *
8482516 AGTTTAGCTAGCATAAATGAGATTTAAGCTC
1 AGTTTAGCTAGCACAAATAAGATTT-AGCCC
**
8482547 AGTTTAATTAGCACAAATAAGATTTAGCCC
1 AGTTTAGCTAGCACAAATAAGATTTAGCCC
8482577 AGTTTAG
1 AGTTTAG
8482584 TTGGCTCTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
30 10 0.32
31 21 0.68
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (30 bp):
AGTTTAGCTAGCACAAATAAGATTTAGCCC
Found at i:8482582 original size:30 final size:31
Alignment explanation
Indices: 8482524--8482582 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
8482514 CTAGTTTAGC
* * *
8482524 TAGCATAAATGAGATTTAAGCTCAGTTTAAT
1 TAGCACAAATAAGATTTAAGCCCAGTTTAAT
8482555 TAGCACAAATAAGATTT-AGCCCAGTTTA
1 TAGCACAAATAAGATTTAAGCCCAGTTTA
8482583 GTTGGCTCTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (31 bp):
TAGCACAAATAAGATTTAAGCCCAGTTTAAT
Found at i:8482801 original size:31 final size:30
Alignment explanation
Indices: 8482746--8482964 Score: 147
Period size: 31 Copynumber: 7.2 Consensus size: 30
8482736 ACTAGCATCG
* *
8482746 ATGAGATTTTAAG-TCAGTTCAGCTGGCACAA
1 ATGAGA-TTTAAGCT-AGTTTAGTTGGCACAA
* * *
8482777 ATGAGATTTAAGCTTAATTTAGCTGACA-AGA
1 ATGAGATTTAAGC-TAGTTTAGTTGGCACA-A
* * **
8482808 ATGAGGTGTAAGCTAGTTTAGTTGGCATTA
1 ATGAGATTTAAGCTAGTTTAGTTGGCACAA
* * * **
8482838 ATGAGAATTAGGCCTAGTTTAATTGGCACTG
1 ATGAGATTTAAG-CTAGTTTAGTTGGCACAA
* * * *
8482869 ATAAGATTTAAGCTAGTTTAGTTGACATAT
1 ATGAGATTTAAGCTAGTTTAGTTGGCACAA
* * * * *
8482899 ATAAGATTTAAGACTAATTTAGCTAGCACTA
1 ATGAGATTTAAG-CTAGTTTAGTTGGCACAA
*
8482930 ATTAGATTTAAG-TAGTTTAGTTGGCACAA
1 ATGAGATTTAAGCTAGTTTAGTTGGCACAA
8482959 ATGAGA
1 ATGAGA
8482965 ATTAGGCCCA
Statistics
Matches: 145, Mismatches: 37, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
29 18 0.12
30 52 0.36
31 74 0.51
32 1 0.01
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (30 bp):
ATGAGATTTAAGCTAGTTTAGTTGGCACAA
Found at i:8482881 original size:61 final size:60
Alignment explanation
Indices: 8482816--8482972 Score: 172
Period size: 61 Copynumber: 2.6 Consensus size: 60
8482806 GAATGAGGTG
* * * *
8482816 TAAGCTAGTTTAGTTGGCATTAATGAGAATTAGGCCTAGTTTAATTGGCACTGATAAGATT
1 TAAGCTAGTTTAGTTGGCA-TAATGAGAATTAGGCCTAATTTAACTAGCACTAATAAGATT
* * * * * * *
8482877 TAAGCTAGTTTAGTTGACATATATAAGATTTAAGACTAATTTAGCTAGCACTAATTAGATT
1 TAAGCTAGTTTAGTTGGCATA-ATGAGAATTAGGCCTAATTTAACTAGCACTAATAAGATT
*
8482938 TAAG-TAGTTTAGTTGGCACAAATGAGAATTAGGCC
1 TAAGCTAGTTTAGTTGGCA-TAATGAGAATTAGGCC
8482973 CAATGAAGTT
Statistics
Matches: 77, Mismatches: 17, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
60 25 0.32
61 52 0.68
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.35
Consensus pattern (60 bp):
TAAGCTAGTTTAGTTGGCATAATGAGAATTAGGCCTAATTTAACTAGCACTAATAAGATT
Found at i:8483231 original size:28 final size:25
Alignment explanation
Indices: 8483189--8483255 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 25
8483179 TTCAAAAATT
8483189 CAAAAAAAATTAAAAACCCAAAACAAAA
1 CAAAAAAAA--AAAAACCCAAAA-AAAA
* *
8483217 GCAAAAACAAAAAAAATCCAAAAAGAA
1 -CAAAAA-AAAAAAAACCCAAAAAAAA
8483244 CAAAAAAAAAAA
1 CAAAAAAAAAAA
8483256 CCTGAAAATC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 6 0.17
26 6 0.17
27 3 0.09
28 11 0.31
29 6 0.17
30 3 0.09
ACGTcount: A:0.78, C:0.15, G:0.03, T:0.04
Consensus pattern (25 bp):
CAAAAAAAAAAAAACCCAAAAAAAA
Found at i:8484422 original size:17 final size:18
Alignment explanation
Indices: 8484389--8484433 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
8484379 ACAAATAATG
8484389 ATAAATAAAT-TTCTTTT
1 ATAAATAAATGTTCTTTT
*
8484406 ATCAATAAATGTT-TTTT
1 ATAAATAAATGTTCTTTT
*
8484423 TTAAATAAATG
1 ATAAATAAATG
8484434 ATAAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
17 22 0.92
18 2 0.08
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.49
Consensus pattern (18 bp):
ATAAATAAATGTTCTTTT
Found at i:8485668 original size:13 final size:13
Alignment explanation
Indices: 8485650--8485683 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8485640 AACTGTTTTC
*
8485650 AAAAAATGAAAAT
1 AAAAAATAAAAAT
*
8485663 AGAAAATAAAAAT
1 AAAAAATAAAAAT
8485676 AAAAAATA
1 AAAAAATA
8485684 TTTTCATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:8493020 original size:26 final size:26
Alignment explanation
Indices: 8492977--8493028 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
8492967 ATATCATTTT
* * *
8492977 CATAATTTTATGACTTAAACAAAAAA
1 CATAATTTTATAAATTAAAAAAAAAA
*
8493003 CATAATTTTTTAAATTAAAAAAAAAA
1 CATAATTTTATAAATTAAAAAAAAAA
8493029 AAAGGAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (26 bp):
CATAATTTTATAAATTAAAAAAAAAA
Found at i:8496630 original size:16 final size:16
Alignment explanation
Indices: 8496594--8496624 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8496584 TTTTCCTTAA
*
8496594 AAAAAAATATTTTTCC
1 AAAAAAATATTTTTAC
8496610 AAAAAAATATTTTTA
1 AAAAAAATATTTTTA
8496625 GGAAAAGTTG
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:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (16 bp):
AAAAAAATATTTTTAC
Found at i:8496743 original size:114 final size:114
Alignment explanation
Indices: 8496505--8497054 Score: 858
Period size: 114 Copynumber: 4.9 Consensus size: 114
8496495 NNNNNNNNNN
*
8496505 ATTTTTAGGAAAAAGTTGAAA--ATCAATTTTCCTTAGAAATAAATTTC--AAAATATTTTTGGG
1 ATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAATATTTTTGGG
8496566 AAAAGTTGAAAGTATCAATTTTCCTTAAAAAAA-AATATTTTTCCAAAAAAAT
66 AAAAGTTGAAAGTATCAATTTTCCTTAAAAAAATAA-A--TTT-CAAAAAAAT
8496618 ATTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAATATTTTTGGG
1 ATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAATATTTTTGGG
8496682 AAAAGTTGAAAGTATCAATTTTCCTTAAAAAAATAAATTTCAAAAAAAT
66 AAAAGTTGAAAGTATCAATTTTCCTTAAAAAAATAAATTTCAAAAAAAT
8496731 ATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAATATTTTTGAG
1 ATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAATATTTTTG-G
*
8496796 GAAAAGTTGAAAGTATCAATTTTCCTT--AGAAATAAATTTCAAAAAAAAT
65 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAATAAATTTC-AAAAAAAT
* *
8496845 ATTTTTGAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC-AAAAATATTTTTAG
1 ATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAATATTTTTGG
*
8496909 GAAAAGTTGAAAGTATCAATTTTCCTT--AGAAATAAATTTCAAAAAAAT
65 GAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAATAAATTTCAAAAAAAT
8496957 -TTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATAAATTTCAAAAAATATTTTTG
1 ATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAATAAATTTCAAAAAATATTTTTG
*
8497019 GGAAAAGTTGAAAGTATCAATTTTCCCTACAAAAAA
64 GGAAAAGTTGAAAGTATCAATTTTCCTTA-AAAAAA
8497055 AATCATTCTT
Statistics
Matches: 414, Mismatches: 8, Indels: 29
0.92 0.02 0.06
Matches are distributed among these distances:
109 1 0.00
110 39 0.09
111 44 0.11
112 20 0.05
113 76 0.18
114 114 0.28
115 70 0.17
116 48 0.12
117 2 0.00
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.35
Consensus pattern (114 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAATATTTTTGGG
AAAAGTTGAAAGTATCAATTTTCCTTAAAAAAATAAATTTCAAAAAAAT
Found at i:8496810 original size:56 final size:56
Alignment explanation
Indices: 8496505--8497044 Score: 802
Period size: 56 Copynumber: 9.6 Consensus size: 56
8496495 NNNNNNNNNN
8496505 ATTTTT-AGGAAAAAGTTGAAA--ATCAATTTTCCTTAGAAATAAATTTC--AAAAT
1 ATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAT
* *
8496557 ATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAAAATATTTTTCCAAAAAAAT
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAA-A--TTT-C-AAAAAAT
8496618 ATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAT
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAT
*
8496673 ATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAATAAATTTCAAAAAAAT
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT--AGAAATAAATTTC-AAAAAAT
8496731 ATTTTT-AGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAT
1 ATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAT
8496787 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAAAT
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC--AAAAAAT
*
8496845 ATTTTTGAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTC-AAAAAT
1 ATTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAT
8496901 ATTTTT-AGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAA-
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAT
8496955 ATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATAAATTTCAAAAAAT
1 A-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAATAAATTTCAAAAAAT
8497012 ATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCC
1 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
8497045 CTACAAAAAA
Statistics
Matches: 453, Mismatches: 8, Indels: 51
0.88 0.02 0.10
Matches are distributed among these distances:
51 11 0.02
52 8 0.02
53 13 0.03
54 47 0.10
55 80 0.18
56 119 0.26
57 32 0.07
58 29 0.06
59 69 0.15
60 6 0.01
61 39 0.09
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (56 bp):
ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAT
Found at i:8496940 original size:169 final size:165
Alignment explanation
Indices: 8496505--8497044 Score: 831
Period size: 169 Copynumber: 3.2 Consensus size: 165
8496495 NNNNNNNNNN
* * *
8496505 ATTTTTAGGAAAAAGTTGAAA--ATCAATTTTCCTTAGAAATAAATTTC-AAAATATTTTTGGGA
1 ATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAATATTTTTAGGA
* *
8496567 AAAGTTGAAAGTATCAATTTTCCTTAAAAAAAAATATTTTTCCAAAAAAATATTTTT-AGGAAAA
65 AAAGTTGAAAGTATCAATTTTCCTT-AGAAATAA-A--TTT-C-AAAAAATATTTTTGAGGAAAA
8496631 GTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAT
124 GTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAT
8496673 ATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAATAAATTTCAAAAAAATATTTTTA
1 ATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTT--AAAAATAAATTTC--AAAAATATTTTTA
8496738 GGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAATATTTTTGAGGAAAAGT
62 -GGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAATATTTTTGAGGAAAAGT
8496803 TGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAAAT
126 TGAAAGTATCAATTTTCCTTAGAAATAAATTTC--AAAAAAT
8496845 ATTTTTGAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAATATTTTTAGG
1 ATTTTT--GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAATATTTTTAGG
8496910 AAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAA-ATTTTTTGAGGAAAAGTTG
64 AAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAATA-TTTTTGAGGAAAAGTTG
8496974 AAAGTATCAATTTTCCTT-GAAAATAAATTTCAAAAAAT
128 AAAGTATCAATTTTCCTTAG-AAATAAATTTCAAAAAAT
8497012 ATTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
1 ATTTTTGGGAAAAGTTGAAAGTATCAATTTTCC
8497045 CTACAAAAAA
Statistics
Matches: 352, Mismatches: 5, Indels: 33
0.90 0.01 0.08
Matches are distributed among these distances:
165 27 0.08
167 26 0.07
168 8 0.02
169 119 0.34
170 56 0.16
171 15 0.04
172 26 0.07
173 1 0.00
174 46 0.13
175 28 0.08
ACGTcount: A:0.45, C:0.07, G:0.12, T:0.36
Consensus pattern (165 bp):
ATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCAAAAATATTTTTAGGAA
AAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAATATTTTTGAGGAAAAGTTGAAA
GTATCAATTTTCCTTAGAAATAAATTTCAAAAAAT
Found at i:8496985 original size:28 final size:28
Alignment explanation
Indices: 8496954--8497042 Score: 71
Period size: 28 Copynumber: 3.2 Consensus size: 28
8496944 ATTTCAAAAA
8496954 AATTTTTTGAGGAAAAGTTGAAAGTATC
1 AATTTTTTGAGGAAAAGTTGAAAGTATC
** * *
8496982 AATTTTCCTTGAAAATAAATTTCAAA--A--
1 AATTTT--TTGAGGA-AAAGTTGAAAGTATC
8497009 AATATTTTTG-GGAAAAGTTGAAAGTATC
1 AAT-TTTTTGAGGAAAAGTTGAAAGTATC
8497037 AATTTT
1 AATTTT
8497043 CCCTACAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 17
0.64 0.11 0.24
Matches are distributed among these distances:
24 8 0.18
25 1 0.02
26 4 0.09
27 6 0.13
28 12 0.27
29 1 0.02
30 5 0.11
31 8 0.18
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.38
Consensus pattern (28 bp):
AATTTTTTGAGGAAAAGTTGAAAGTATC
Found at i:8500939 original size:15 final size:15
Alignment explanation
Indices: 8500921--8500955 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
8500911 AGAAGATGAT
8500921 GAAAAAAAAAAAAGA
1 GAAAAAAAAAAAAGA
*
8500936 GAAAAAAAAAGAAGA
1 GAAAAAAAAAAAAGA
8500951 -AAAAA
1 GAAAAA
8500956 TGAAAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAAAAAGA
Found at i:8500942 original size:10 final size:9
Alignment explanation
Indices: 8500922--8500972 Score: 50
Period size: 10 Copynumber: 5.4 Consensus size: 9
8500912 GAAGATGATG
8500922 AAAAAA-AA
1 AAAAAAGAA
*
8500930 AAAAGAGAAA
1 AAAAAAG-AA
8500940 AAAAAAGAA
1 AAAAAAGAA
8500949 GAAAAAATGAA
1 -AAAAAA-GAA
*
8500960 AAAAATGAA
1 AAAAAAGAA
8500969 AAAA
1 AAAA
8500973 GAGATTCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
8 5 0.14
9 9 0.25
10 19 0.53
11 3 0.08
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.04
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:8500942 original size:12 final size:13
Alignment explanation
Indices: 8500925--8500955 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
8500915 GATGATGAAA
8500925 AAAAAAAAAG-AG
1 AAAAAAAAAGAAG
8500937 AAAAAAAAAGAAG
1 AAAAAAAAAGAAG
8500950 AAAAAA
1 AAAAAA
8500956 TGAAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 10 0.56
13 8 0.44
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAGAAG
Found at i:8500942 original size:13 final size:14
Alignment explanation
Indices: 8500921--8500955 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
8500911 AGAAGATGAT
8500921 GAAAAAAAAAA-AA
1 GAAAAAAAAAAGAA
8500934 GAGAAAAAAAAAGAA
1 GA-AAAAAAAAAGAA
8500949 GAAAAAA
1 GAAAAAA
8500956 TGAAAAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 2 0.10
14 14 0.70
15 4 0.20
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (14 bp):
GAAAAAAAAAAGAA
Found at i:8502249 original size:41 final size:40
Alignment explanation
Indices: 8502204--8503269 Score: 1266
Period size: 41 Copynumber: 25.9 Consensus size: 40
8502194 GTCTAGGAGT
8502204 ATTTACTTCTTCAAAGTTCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTT-TTCAAAG-TCGTGTGCCTCTGTTTAGAGGAGCA
8502245 ATTTACTTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT--CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
8502288 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
8502329 ATTTACTTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
8502372 ATTTACTTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT--CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
8502415 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
8502456 ATTTACTTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTAC-TTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
8502499 ATTTACTTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTT--CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
8502542 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
* *
8502583 ATTTATTTTTCAAAGTTCCGT-TGCCTCTATTTAGAGGAGCA
1 ATTTACTTTTCAAAG-T-CGTGTGCCTCTGTTTAGAGGAGCA
*
8502624 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
8502665 ATTTACTTTTCAAAGTCGTTGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCG-TGTGCCTCTGTTTAGAGGAGCA
*
8502706 ATTTATTTTTCAAAGTTCCGT-TGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAG-T-CGTGTGCCTCTGTTTAGAGGAGCA
* * *
8502747 ATTTATTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
8502789 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
* * *
8502830 ATTTATTTTTTCAAAGTCGTGATACCTCTGTTGAGAGGAGCA
1 ATTTA-CTTTTCAAAGTCGTG-TGCCTCTGTTTAGAGGAGCA
* * *
8502872 ATTTATTTTTTCAAAGTCGTGATACCTCTGTTGAGAGGAGCA
1 ATTTA-CTTTTCAAAGTCGTG-TGCCTCTGTTTAGAGGAGCA
* *
8502914 ATTTACTTTTTCAAAGTCGTGATACCTCTGTTGAGAGGAGCA
1 ATTTAC-TTTTCAAAGTCGTG-TGCCTCTGTTTAGAGGAGCA
* *
8502956 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
8502998 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*** **
8503039 ATTTACTTTTTCAAAGTCGTG-GGAGCAATTT-----A-C-
1 ATTTAC-TTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
** * * *
8503072 --TT--TTTCAAAGTCGT-G-GTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAA--AGTCGTGTGCCTCTGTTTAGAGGAGCA
* *
8503108 ATTTACTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
8503149 ATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
8503190 ATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCA
1 ATTTACTTTTCAAAGTCGT-GTGCCTCTGTTTAGAGGAGCA
*
8503231 ATTTATTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGA
1 ATTTACTTTT-CAAAGTCGT-GTGCCTCTGTTTAGAGGA
8503270 ACTTCGGCAA
Statistics
Matches: 930, Mismatches: 51, Indels: 87
0.87 0.05 0.08
Matches are distributed among these distances:
28 6 0.01
29 4 0.00
30 2 0.00
31 2 0.00
34 2 0.00
35 2 0.00
38 4 0.00
39 4 0.00
40 16 0.02
41 448 0.48
42 249 0.27
43 191 0.21
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTCGTGTGCCTCTGTTTAGAGGAGCA
Found at i:8502315 original size:84 final size:83
Alignment explanation
Indices: 8502204--8503060 Score: 1266
Period size: 84 Copynumber: 10.3 Consensus size: 83
8502194 GTCTAGGAGT
*
8502204 ATTTACTTCTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTTACTTTTCCCAAAGTCGTG
1 ATTTACTT-TCCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CCAAAGTCGTG
8502267 GTGCCTCTGTTTAGAGGAGCA
63 GTGCCTCTGTTTAGAGGAGCA
8502288 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCCAAAGTCGTGGT
1 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTTCCAAAGTCGTGGT
8502353 GCCTCTGTTTAGAGGAGCA
65 GCCTCTGTTTAGAGGAGCA
8502372 ATTTACTTTTCCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAGTCGTGG
1 ATTTAC-TTT-CCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGG
8502436 TGCCTCTGTTTAGAGGAGCA
64 TGCCTCTGTTTAGAGGAGCA
8502456 ATTTACTTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCCAAAGTCGTG
1 ATTTAC--TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CCAAAGTCGTG
8502521 GTGCCTCTGTTTAGAGGAGCA
63 GTGCCTCTGTTTAGAGGAGCA
*
8502542 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-TTTTTCAAAGTTCCGT--
1 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG-T-CGTGG
*
8502604 TGCCTCTATTTAGAGGAGCA
64 TGCCTCTGTTTAGAGGAGCA
*
8502624 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAGTCGTTGTG
1 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTG
8502688 CCTCTGTTTAGAGGAGCA
66 CCTCTGTTTAGAGGAGCA
* * *
8502706 ATTTATTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCAATTTATTTTTCCAAAGTCGTGG
1 ATTTACTTTCCAAAG-T-CGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGG
* *
8502769 TACCTCTGTTGAGAGGAGCA
64 TGCCTCTGTTTAGAGGAGCA
* * * *
8502789 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTTTCAAAGTCGTGATA
1 ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTG
*
8502854 CCTCTGTTGAGAGGAGCA
66 CCTCTGTTTAGAGGAGCA
* * * * * * *
8502872 ATTTATTTTTTCAAAGTCGTGATACCTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGTCGTGAT
1 ATTTA-CTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGT
* *
8502937 ACCTCTGTTGAGAGGAGCA
65 GCCTCTGTTTAGAGGAGCA
* *
8502956 ATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTAC-TTTCCAAAGTCGTGGT
1 ATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGT
8503020 GCCTCTGTTTAGAGGAGCA
65 GCCTCTGTTTAGAGGAGCA
*
8503039 ATTTACTTTTTCAAAGTCGTGG
1 ATTTAC-TTTCCAAAGTCGTGG
8503061 GAGCAATTTA
Statistics
Matches: 725, Mismatches: 28, Indels: 41
0.91 0.04 0.05
Matches are distributed among these distances:
80 3 0.00
81 4 0.01
82 141 0.19
83 174 0.24
84 313 0.43
85 14 0.02
86 76 0.10
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (83 bp):
ATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTG
CCTCTGTTTAGAGGAGCA
Found at i:8503071 original size:27 final size:27
Alignment explanation
Indices: 8503033--8503087 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
8503023 TCTGTTTAGA
8503033 GGAGCAATTTACTTTTTCAAAGTCGTG
1 GGAGCAATTTACTTTTTCAAAGTCGTG
8503060 GGAGCAATTTACTTTTTCAAAGTCGTG
1 GGAGCAATTTACTTTTTCAAAGTCGTG
8503087 G
1 G
8503088 TACCTCTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (27 bp):
GGAGCAATTTACTTTTTCAAAGTCGTG
Found at i:8503121 original size:68 final size:68
Alignment explanation
Indices: 8502992--8503128 Score: 231
Period size: 69 Copynumber: 2.0 Consensus size: 68
8502982 TCTGTTGAGA
* *
8502992 GGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTC
1 GGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGTC
8503057 GTG
66 GTG
*
8503060 GGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTAC-TTTTCAAAGT
1 GGAGCAATTTAC-TTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGT
8503124 CGTG
65 CGTG
8503128 G
1 G
8503129 TACCTCTGTT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
68 27 0.42
69 38 0.58
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (68 bp):
GGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGTC
GTG
Found at i:8503144 original size:110 final size:109
Alignment explanation
Indices: 8502950--8503169 Score: 395
Period size: 110 Copynumber: 2.0 Consensus size: 109
8502940 TCTGTTGAGA
8502950 GGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTC
1 GGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTC
* *
8503015 GTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCAAAGTCGTG
66 GTGGTACCTCTGTTGAGAGGAGCAATTTAC-TTTTCAAAGTCGTG
* *
8503060 GGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTC
1 GGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTC
8503125 GTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTG
66 GTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTG
8503169 G
1 G
8503170 TACCTCTGTT
Statistics
Matches: 106, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
109 15 0.14
110 91 0.86
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (109 bp):
GGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTC
GTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTG
Found at i:8503183 original size:151 final size:151
Alignment explanation
Indices: 8502908--8503210 Score: 563
Period size: 151 Copynumber: 2.0 Consensus size: 151
8502898 TCTGTTGAGA
8502908 GGAGCAATTTACTTTTTCAAAGTCGTGATACCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGT
1 GGAGCAATTTACTTTTTCAAAGTCGTGATACCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGT
*
8502973 CGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
66 CGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGC
8503038 AATTTACTTTTTCAAAGTCGTG
131 AATTTAC-TTTTCAAAGTCGTG
*
8503060 GGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTT-CAAAGT
1 GGAGCAATTTACTTTTTCAAAGTCGTGATACCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGT
*
8503124 CGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTTCAAAGTCGTGGTACCTCTGTTTAGAGGAGC
66 CGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGC
8503189 AATTTACTTTTCAAAGTCGTG
131 AATTTACTTTTCAAAGTCGTG
8503210 G
1 G
8503211 TGCCTCTGTT
Statistics
Matches: 148, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
150 15 0.10
151 76 0.51
152 57 0.39
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.35
Consensus pattern (151 bp):
GGAGCAATTTACTTTTTCAAAGTCGTGATACCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGT
CGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGC
AATTTACTTTTCAAAGTCGTG
Found at i:8503216 original size:192 final size:194
Alignment explanation
Indices: 8502866--8503252 Score: 690
Period size: 192 Copynumber: 2.0 Consensus size: 194
8502856 TCTGTTGAGA
*
8502866 GGAGCAATTTATTTTTTCAAAGTCGTGATACCTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGT
1 GGAGCAATTTACTTTTTCAAAGTCGTGATACCTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGT
8502931 CGTGATACCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAG
66 CGTGATACCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAG
*
8502996 CAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTT-CAAAGTCGTG
131 CAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTA-TTTTTCCAAAGTCGTG
*
8503060 GGAGCAATTTACTTTTTCAAAGTCGTGGTACCTCTGTTGAGAGGAGCAATTTAC-TTTTCAAAGT
1 GGAGCAATTTACTTTTTCAAAGTCGTGATACCTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGT
* *
8503124 CGTGGTACCTCTGTTGAGAGGAGCAATTTACTTTT-CAAAGTCGTGGTACCTCTGTTTAGAGGAG
66 CGTGATACCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAG
*
8503188 CAATTTACTTTTCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTG
131 CAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTG
8503252 G
1 G
8503253 TGCCTCTGTT
Statistics
Matches: 186, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
191 5 0.03
192 85 0.46
193 44 0.24
194 52 0.28
ACGTcount: A:0.24, C:0.17, G:0.24, T:0.35
Consensus pattern (194 bp):
GGAGCAATTTACTTTTTCAAAGTCGTGATACCTCTGTTGAGAGGAGCAATTTACTTTTTCAAAGT
CGTGATACCTCTGTTGAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTGAGAGGAG
CAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTGAGAGGAGCAATTTATTTTTCCAAAGTCGTG
Found at i:8503297 original size:10 final size:10
Alignment explanation
Indices: 8503278--8503351 Score: 114
Period size: 10 Copynumber: 7.3 Consensus size: 10
8503268 GAACTTCGGC
8503278 AAAAAA-AAA
1 AAAAAACAAA
8503287 AAAAAACAAA
1 AAAAAACAAA
8503297 AAAAAACAAA
1 AAAAAACAAA
8503307 AAAAAACAAA
1 AAAAAACAAA
8503317 AAAAAACAAA
1 AAAAAACAAA
*
8503327 AAAACAAAAAA
1 AAAA-AACAAA
8503338 CAAAAAACAAA
1 -AAAAAACAAA
8503349 AAA
1 AAA
8503352 CAAAAATTTT
Statistics
Matches: 60, Mismatches: 2, Indels: 5
0.90 0.03 0.07
Matches are distributed among these distances:
9 6 0.10
10 40 0.67
11 10 0.17
12 4 0.07
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAACAAA
Found at i:8503299 original size:14 final size:14
Alignment explanation
Indices: 8503280--8503357 Score: 111
Period size: 15 Copynumber: 5.4 Consensus size: 14
8503270 ACTTCGGCAA
8503280 AAAAAAAAAAAAAC
1 AAAAAAAAAAAAAC
*
8503294 AAAAAAAAACAAAAA
1 AAAAAAAAA-AAAAC
8503309 AAAACAAAAAAAAAC
1 AAAA-AAAAAAAAAC
8503324 AAAAAAACAAAAAAC
1 AAAAAAA-AAAAAAC
*
8503339 AAAAAACAAAAAAC
1 AAAAAAAAAAAAAC
8503353 AAAAA
1 AAAAA
8503358 TTTTTAAAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
14 24 0.41
15 29 0.50
16 5 0.09
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:8503373 original size:1 final size:1
Alignment explanation
Indices: 8503278--8503357 Score: 88
Period size: 1 Copynumber: 80.0 Consensus size: 1
8503268 GAACTTCGGC
* * * * * *
8503278 AAAAAAAAAAAAAAACAAAAAAAAACAAAAAAAAACAAAAAAAAACAAAAAAACAAAAAACAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
8503343 AACAAAAAACAAAAA
1 AAAAAAAAAAAAAAA
8503358 TTTTTAAAAA
Statistics
Matches: 63, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:8503676 original size:3 final size:3
Alignment explanation
Indices: 8503664--8503695 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
8503654 TATATAGTTA
8503664 TAT T-T TAT TAT TAT TAT TA- TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8503696 TCTTGAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 4 0.15
3 23 0.85
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:8503686 original size:14 final size:14
Alignment explanation
Indices: 8503664--8503695 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
8503654 TATATAGTTA
*
8503664 TATTTTATTATTAT
1 TATTATATTATTAT
8503678 TATTATATTATTAT
1 TATTATATTATTAT
8503692 TATT
1 TATT
8503696 TCTTGAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TATTATATTATTAT
Found at i:8504223 original size:31 final size:31
Alignment explanation
Indices: 8504165--8504232 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
8504155 ATTTCCAGAA
* *
8504165 TCCGGCGAA-AATTCTGGCGAAATTTGAATTT
1 TCCGGC-AACAATTCCGGCGAAATTTGAAGTT
*
8504196 TTCGGCAACAATTCCGGCGAACA-TTGAAGTT
1 TCCGGCAACAATTCCGGCGAA-ATTTGAAGTT
8504227 TCCGGC
1 TCCGGC
8504233 GACCAGTCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
30 2 0.06
31 28 0.90
32 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (31 bp):
TCCGGCAACAATTCCGGCGAAATTTGAAGTT
Found at i:8504231 original size:19 final size:19
Alignment explanation
Indices: 8504207--8504254 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
8504197 TCGGCAACAA
* *
8504207 TTCCGGCGAACATTGAAGT
1 TTCCGGCGAACAGTCAAGT
* *
8504226 TTCCGGCGACCAGTCCAGT
1 TTCCGGCGAACAGTCAAGT
8504245 TTCCGGCGAA
1 TTCCGGCGAA
8504255 GAATCCCAGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.21, C:0.29, G:0.27, T:0.23
Consensus pattern (19 bp):
TTCCGGCGAACAGTCAAGT
Found at i:8504311 original size:19 final size:20
Alignment explanation
Indices: 8504287--8504332 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
8504277 TTCGGCCAAC
8504287 TTCCGACG-AAATTTCCAGA
1 TTCCGACGAAAATTTCCAGA
8504306 TTCCGACGAAAATTTCCAGA
1 TTCCGACGAAAATTTCCAGA
*
8504326 ATCCGAC
1 TTCCGAC
8504333 ACCGGTGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.33, C:0.28, G:0.15, T:0.24
Consensus pattern (20 bp):
TTCCGACGAAAATTTCCAGA
Found at i:8504846 original size:59 final size:58
Alignment explanation
Indices: 8504783--8504982 Score: 269
Period size: 57 Copynumber: 3.3 Consensus size: 58
8504773 AAAAATTCTA
* *
8504783 AAAAAATATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCTTTAGAAATAAATTTCC
1 AAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* *
8504842 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAGATTTCC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC
8504904 AAAATAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 -AAA-AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
*
8504964 -AAAAAATATTTTTGGGGAA
1 AAAAAAATATTTTTAGGGAA
8504983 TATTTTTGGG
Statistics
Matches: 126, Mismatches: 7, Indels: 18
0.83 0.05 0.12
Matches are distributed among these distances:
57 51 0.40
58 7 0.06
60 13 0.10
62 13 0.10
64 2 0.02
65 40 0.32
ACGTcount: A:0.46, C:0.07, G:0.13, T:0.34
Consensus pattern (58 bp):
AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:8504984 original size:13 final size:13
Alignment explanation
Indices: 8504968--8504995 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
8504958 ATTTCCAAAA
8504968 AATATTTTTGGGG
1 AATATTTTTGGGG
8504981 AATATTTTTGGGG
1 AATATTTTTGGGG
8504994 AA
1 AA
8504996 AAGTTGAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (13 bp):
AATATTTTTGGGG
Found at i:8505011 original size:70 final size:73
Alignment explanation
Indices: 8504911--8505057 Score: 228
Period size: 70 Copynumber: 2.0 Consensus size: 73
8504901 TCCAAAATAA
*
8504911 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTCC-AAA-AAATAT
1 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAAAAAATTTCCAAAATAAATAT
*
8504973 TTTTGGGG
66 TTTTAGGG
*
8504981 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAAAATTTCCAAAATAAAT
1 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT--AAGAAAAAAATTTCCAAAATAAAT
8505046 ATTTTTAGGG
64 ATTTTTAGGG
8505056 AA
1 AA
8505058 AAGTTGAAAG
Statistics
Matches: 69, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
70 38 0.55
73 13 0.19
74 3 0.04
75 15 0.22
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (73 bp):
AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAAAAAATTTCCAAAATAAATAT
TTTTAGGG
Found at i:8505189 original size:59 final size:57
Alignment explanation
Indices: 8504981--8505435 Score: 537
Period size: 57 Copynumber: 7.6 Consensus size: 57
8504971 ATTTTTGGGG
* *
8504981 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAAAATTTCCAAAATA
1 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AGAAATAAATTT-CAAAA-A
*
8505043 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC-CAAA
1 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAA
* *
8505099 AATATTTTTGGGGAAAAGGTTGAAAGTATCAA-TTTCCTCAGAAATAAATTTTCAAAAAAA
1 AATATTTTTAGGGAAAA-GTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTC--AAAAA
* *
8505159 AATATTTTTAAGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTCCAAAA
1 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCAAAAA
8505216 AATATTTTTAGGGAAAAGTTGAAAGAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAA
1 AATATTTTTA--G----G--GAAA-AGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT-C-AA
8505281 AAA
55 AAA
8505284 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAA
1 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTCAAAAA
** *
8505342 AAGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTT-CTT-GAAAATCGAAATTTCCAAAA
1 AATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCAAAAA
8505400 AATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCC
1 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
8505436 CTAAAAAAAA
Statistics
Matches: 351, Mismatches: 17, Indels: 54
0.83 0.04 0.13
Matches are distributed among these distances:
56 33 0.09
57 66 0.19
58 54 0.15
59 66 0.19
60 38 0.11
62 39 0.11
63 1 0.00
65 4 0.01
66 34 0.10
67 2 0.01
68 14 0.04
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (57 bp):
AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAA
Found at i:8505433 original size:57 final size:56
Alignment explanation
Indices: 8505236--8505435 Score: 280
Period size: 59 Copynumber: 3.4 Consensus size: 56
8505226 GGGAAAAGTT
8505236 GAAAGAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAAAATATTTTTAGG
1 GAAA-AGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC--AAAAAATATTTTT-GG
*
8505296 GAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAA-AGGTTTTTGAG
1 GAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAATA--TTTTTG-G
8505354 GAAAAGTTGAAAGTATCAATTTT-CTT-GAAAATCGAAATTTCCAAAAAATATTTTTGG
1 GAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCCAAAAAATATTTTTGG
8505411 GAAAAGTTGAAAGTATCAATTTTCC
1 GAAAAGTTGAAAGTATCAATTTTCC
8505436 CTAAAAAAAA
Statistics
Matches: 130, Mismatches: 2, Indels: 18
0.87 0.01 0.12
Matches are distributed among these distances:
56 2 0.02
57 38 0.29
58 36 0.28
59 49 0.38
60 5 0.04
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (56 bp):
GAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAATATTTTTGG
Found at i:8508331 original size:31 final size:31
Alignment explanation
Indices: 8508182--8508608 Score: 170
Period size: 31 Copynumber: 13.9 Consensus size: 31
8508172 CTTTGAAAAA
* * *
8508182 AATGAAATTTAAGCCAAGTTTAGCTAACACT
1 AATGAGATTTAAGCCCAGTTTAGCTAGCACT
* * * * * *
8508213 GACGAGAATTAAGCCCAATTTAG-TTGACATT
1 AATGAGATTTAAGCCCAGTTTAGCTAG-CACT
* * * * * * *
8508244 GATAAGATTTAAACTCAGTTTAGCTGGAACC
1 AATGAGATTTAAGCCCAGTTTAGCTAGCACT
* * * * *
8508275 AATGAGAATTAAGCCTAATTCAGCTAGCACC
1 AATGAGATTTAAGCCCAGTTTAGCTAGCACT
* * *
8508306 GATAAGATTTAAGCCCAGTTTAGCTATCACT
1 AATGAGATTTAAGCCCAGTTTAGCTAGCACT
* * * ** * *
8508337 AGTGAGAATTAAGCCCAGTTCAATTGGTA-T
1 AATGAGATTTAAGCCCAGTTTAGCTAGCACT
* * * * * *
8508367 TATGAGATTTTAGGCCTAGTTTAGTTGGCACC
1 AATGAGA-TTTAAGCCCAGTTTAGCTAGCACT
*
8508399 AATGAGAATTAAGCCCAGGTTTA-CTAGCACT
1 AATGAGATTTAAGCCCA-GTTTAGCTAGCACT
* * * * * *
8508430 AATGAGATGTAAGCCTAGTTTAGTTGGTATT
1 AATGAGATTTAAGCCCAGTTTAGCTAGCACT
* * * * *
8508461 GATAAGATATAA--CTAGTTTAGCTAGCACA
1 AATGAGATTTAAGCCCAGTTTAGCTAGCACT
* ** *
8508490 AATGAGATTTAAGCTCAGTTTAATTAGCACA
1 AATGAGATTTAAGCCCAGTTTAGCTAGCACT
* * * * *
8508521 AATAAGATTT-AGCCCAGTTTAGTTGGCTCC
1 AATGAGATTTAAGCCCAGTTTAGCTAGCACT
* * * * * *
8508551 CAT-A-TTTTAAGCCCAGTTCAACTGGC-CAA
1 AATGAGATTTAAGCCCAGTTTAGCTAGCAC-T
*
8508580 AATGAGATTTAAGCCCAATTTAGCTAGCA
1 AATGAGATTTAAGCCCAGTTTAGCTAGCA
8508609 TTGATAAGAA
Statistics
Matches: 280, Mismatches: 103, Indels: 25
0.69 0.25 0.06
Matches are distributed among these distances:
28 4 0.01
29 38 0.14
30 30 0.11
31 195 0.70
32 13 0.05
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (31 bp):
AATGAGATTTAAGCCCAGTTTAGCTAGCACT
Found at i:8508384 original size:93 final size:93
Alignment explanation
Indices: 8508287--8508460 Score: 208
Period size: 93 Copynumber: 1.9 Consensus size: 93
8508277 TGAGAATTAA
* * * *
8508287 GCCTAATTCAGCTAGCACCGATAAGATTTAAGCCCA-GTTTAGCTATCACTAGTGAGAAT-TAAG
1 GCCTAATTCAGCTAGCACCAATAAGAATTAAGCCCAGGTTTA-CTAGCACTAATGAG-ATGTAAG
8508350 CCCAGTTCAATTGGTATTATGAGATTTTAG
64 CCCAGTTCAATTGGTATTATGAGATTTTAG
* * * * *
8508380 GCCTAGTTTAGTTGGCACCAATGAGAATTAAGCCCAGGTTTACTAGCACTAATGAGATGTAAGCC
1 GCCTAATTCAGCTAGCACCAATAAGAATTAAGCCCAGGTTTACTAGCACTAATGAGATGTAAGCC
* * *
8508445 TAGTTTAGTTGGTATT
66 CAGTTCAATTGGTATT
8508461 GATAAGATAT
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
92 2 0.03
93 60 0.90
94 5 0.07
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (93 bp):
GCCTAATTCAGCTAGCACCAATAAGAATTAAGCCCAGGTTTACTAGCACTAATGAGATGTAAGCC
CAGTTCAATTGGTATTATGAGATTTTAG
Found at i:8508518 original size:91 final size:90
Alignment explanation
Indices: 8508382--8508546 Score: 215
Period size: 91 Copynumber: 1.8 Consensus size: 90
8508372 GATTTTAGGC
* * * * * *
8508382 CTAGTTTAGTTGGCACCAATGAGAATTAAGCCCAGGTTTACTAGCACTAATGAGATGTAAGCCTA
1 CTAGTTTAGCTAGCACAAATGAGAATTAAGCCCAGGTTTACTAGCACAAATAAGAT-TAAGCCCA
8508447 GTTTAGTTGGTATTGATAAGATATAA
65 GTTTAGTTGGTATTGATAAGATATAA
* * * *
8508473 CTAGTTTAGCTAGCACAAATGAGATTTAAGCTCA-GTTTAATTAGCACAAATAAGATTTAGCCCA
1 CTAGTTTAGCTAGCACAAATGAGAATTAAGCCCAGGTTT-ACTAGCACAAATAAGATTAAGCCCA
8508537 GTTTAGTTGG
65 GTTTAGTTGG
8508547 CTCCCATATT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
90 20 0.32
91 43 0.68
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (90 bp):
CTAGTTTAGCTAGCACAAATGAGAATTAAGCCCAGGTTTACTAGCACAAATAAGATTAAGCCCAG
TTTAGTTGGTATTGATAAGATATAA
Found at i:8508646 original size:62 final size:62
Alignment explanation
Indices: 8508580--8508717 Score: 165
Period size: 62 Copynumber: 2.2 Consensus size: 62
8508570 AACTGGCCAA
* *
8508580 AATGAGA-TTTAAGCCCAATTTAGCTAGCATTGATAAGAAATAAACAC-AATTCAACTGACACT
1 AATGAGATTTTAAGCCCAATTT-GCTAGCATCGAAAAGAAATAAAC-CTAATTCAACTGACACT
* * * *
8508642 AATGAGATTTTAAGCCTAGTTTGCTAGCATCGAAAAGAATTAAACCTAATTCAACT-AGCACC
1 AATGAGATTTTAAGCCCAATTTGCTAGCATCGAAAAGAAATAAACCTAATTCAACTGA-CACT
*
8508704 GATGAGATTTTAAG
1 AATGAGATTTTAAG
8508718 TCAGTTCAGC
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
61 2 0.03
62 52 0.79
63 12 0.18
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.28
Consensus pattern (62 bp):
AATGAGATTTTAAGCCCAATTTGCTAGCATCGAAAAGAAATAAACCTAATTCAACTGACACT
Found at i:8508801 original size:31 final size:30
Alignment explanation
Indices: 8508728--8508923 Score: 105
Period size: 31 Copynumber: 6.5 Consensus size: 30
8508718 TCAGTTCAGC
* * **
8508728 TGGCACAAATGAGATTTAAGCTTAGTTTACC
1 TGGCACTAATGAGA-TTAAGCCTAGTTTAGT
* ** *
8508759 TGACAAGAATGAGGTGTAAGCCTAGTTTAGT
1 TGGCACTAATGAGAT-TAAGCCTAGTTTAGT
* * *
8508790 TGGCATTAATGAGAATTAGGCCTAGTTTAAT
1 TGGCACTAATGAG-ATTAAGCCTAGTTTAGT
* *
8508821 TGGCACTGATAAGATTTAAG-CTAGTTTAGT
1 TGGCACTAATGAGA-TTAAGCCTAGTTTAGT
* * * * *
8508851 TGACA-TATATAAGATTTAAGACTAATTTAGC
1 TGGCACTA-ATGAGA-TTAAGCCTAGTTTAGT
* *
8508882 T-ACACTAATTAGATTTAAG--TAGTTTAGT
1 TGGCACTAATGAGA-TTAAGCCTAGTTTAGT
*
8508910 TGGCACAAATGAGA
1 TGGCACTAATGAGA
8508924 ATTAGGCCCA
Statistics
Matches: 130, Mismatches: 28, Indels: 16
0.75 0.16 0.09
Matches are distributed among these distances:
28 8 0.06
29 10 0.08
30 41 0.32
31 70 0.54
32 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.34
Consensus pattern (30 bp):
TGGCACTAATGAGATTAAGCCTAGTTTAGT
Found at i:8508847 original size:30 final size:31
Alignment explanation
Indices: 8508775--8508915 Score: 130
Period size: 30 Copynumber: 4.7 Consensus size: 31
8508765 GAATGAGGTG
* * *
8508775 TAAGCCTAGTTTAGTTGGCATTAATGAGAAT
1 TAAGCCTAGTTTAGTTGGCACTAATAAGATT
* * *
8508806 TAGGCCTAGTTTAATTGGCACTGATAAGATT
1 TAAGCCTAGTTTAGTTGGCACTAATAAGATT
*
8508837 TAAG-CTAGTTTAGTTGACA-TATATAAGATT
1 TAAGCCTAGTTTAGTTGGCACTA-ATAAGATT
* * * * *
8508867 TAAGACTAATTTAGCT-ACACTAATTAGATT
1 TAAGCCTAGTTTAGTTGGCACTAATAAGATT
8508897 TAAG--TAGTTTAGTTGGCAC
1 TAAGCCTAGTTTAGTTGGCAC
8508916 AAATGAGAAT
Statistics
Matches: 90, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
28 8 0.09
29 4 0.04
30 39 0.43
31 39 0.43
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (31 bp):
TAAGCCTAGTTTAGTTGGCACTAATAAGATT
Found at i:8509173 original size:19 final size:19
Alignment explanation
Indices: 8509149--8509233 Score: 62
Period size: 19 Copynumber: 4.3 Consensus size: 19
8509139 TCAAAAATTC
8509149 AAAAAAATTAAAAACCCAA
1 AAAAAAATTAAAAACCCAA
** **
8509168 AAAAAAAGCAAAAACAAAA
1 AAAAAAATTAAAAACCCAA
* *
8509187 AAAAAAATCCAAAAAGAACCAA
1 AAAAAAAT--TAAAA-ACCCAA
** *
8509209 AAAAAACCTAAAAATCCAA
1 AAAAAAATTAAAAACCCAA
8509228 AAAAAA
1 AAAAAA
8509234 TTCAAAACTC
Statistics
Matches: 50, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
19 33 0.66
20 4 0.08
21 4 0.08
22 9 0.18
ACGTcount: A:0.76, C:0.15, G:0.02, T:0.06
Consensus pattern (19 bp):
AAAAAAATTAAAAACCCAA
Found at i:8509180 original size:10 final size:10
Alignment explanation
Indices: 8509167--8509233 Score: 59
Period size: 10 Copynumber: 6.8 Consensus size: 10
8509157 TAAAAACCCA
*
8509167 AAAAAAAAGC
1 AAAAAAAACC
8509177 AAAAACAAA--
1 AAAAA-AAACC
8509186 AAAAAAAATCC
1 AAAAAAAA-CC
*
8509197 AAAAAGAACC
1 AAAAAAAACC
8509207 AAAAAAAACC
1 AAAAAAAACC
* *
8509217 -TAAAAATCC
1 AAAAAAAACC
8509226 AAAAAAAA
1 AAAAAAAA
8509234 TTCAAAACTC
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
8 3 0.07
9 12 0.26
10 21 0.46
11 10 0.22
ACGTcount: A:0.78, C:0.15, G:0.03, T:0.04
Consensus pattern (10 bp):
AAAAAAAACC
Found at i:8509181 original size:20 final size:19
Alignment explanation
Indices: 8509158--8509233 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 19
8509148 CAAAAAAATT
*
8509158 AAAAACCCAAAAAAAAAGC
1 AAAAACCCAAAAAAAAACC
**
8509177 AAAAACAAAAAAAAAAATCC
1 AAAAACCCAAAAAAAAA-CC
*
8509197 AAAAAGAACC-AAAAAAAACC
1 -AAAA-ACCCAAAAAAAAACC
*
8509217 TAAAAATCCAAAAAAAA
1 -AAAAACCCAAAAAAAA
8509234 TTCAAAACTC
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
19 18 0.40
20 14 0.31
21 12 0.27
22 1 0.02
ACGTcount: A:0.76, C:0.17, G:0.03, T:0.04
Consensus pattern (19 bp):
AAAAACCCAAAAAAAAACC
Found at i:8509232 original size:11 final size:11
Alignment explanation
Indices: 8509186--8509240 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
8509176 CAAAAACAAA
8509186 AAAAAAAATCC
1 AAAAAAAATCC
*
8509197 AAAAAGAA-CC
1 AAAAAAAATCC
8509207 AAAAAAAA-CC
1 AAAAAAAATCC
*
8509217 --TAAAAATCC
1 AAAAAAAATCC
*
8509226 AAAAAAAATTC
1 AAAAAAAATCC
8509237 AAAA
1 AAAA
8509241 CTCAATAAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
8 5 0.14
9 2 0.06
10 11 0.31
11 18 0.50
ACGTcount: A:0.73, C:0.16, G:0.02, T:0.09
Consensus pattern (11 bp):
AAAAAAAATCC
Found at i:8509240 original size:19 final size:19
Alignment explanation
Indices: 8509138--8509240 Score: 61
Period size: 19 Copynumber: 5.4 Consensus size: 19
8509128 TTAGGAGTTT
*
8509138 TTCAAAAATTC-AAAAAAA
1 TTCAAAAATCCAAAAAAAA
*
8509156 TT-AAAAACCCAAAAAAAA
1 TTCAAAAATCCAAAAAAAA
** *
8509174 AGCAAAAA-CAAAAAAAAAAA
1 TTCAAAAATC--CAAAAAAAA
* *
8509194 TCCAAAAAGAACCAAAAAAAA
1 TTC-AAAA-ATCCAAAAAAAA
*
8509215 -CCTAAAAATCCAAAAAAAA
1 TTC-AAAAATCCAAAAAAAA
8509234 TTCAAAA
1 TTCAAAA
8509241 CTCAATAAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 15
0.72 0.12 0.16
Matches are distributed among these distances:
17 6 0.09
18 10 0.15
19 20 0.30
20 16 0.24
21 12 0.18
22 1 0.02
23 1 0.02
ACGTcount: A:0.72, C:0.16, G:0.02, T:0.11
Consensus pattern (19 bp):
TTCAAAAATCCAAAAAAAA
Found at i:8511633 original size:13 final size:13
Alignment explanation
Indices: 8511615--8511648 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8511605 AACTGTTTTC
*
8511615 AAAAAATGAAAAT
1 AAAAAATAAAAAT
*
8511628 AGAAAATAAAAAT
1 AAAAAATAAAAAT
8511641 AAAAAATA
1 AAAAAATA
8511649 TTTTCATTAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:8512852 original size:15 final size:15
Alignment explanation
Indices: 8512841--8512879 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
8512831 TATATATAGG
8512841 ATATAAAAATATAAA
1 ATATAAAAATATAAA
*
8512856 ATATAAAAA-GTAAA
1 ATATAAAAATATAAA
8512870 ATGATAAAAA
1 AT-ATAAAAA
8512880 AAATCTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (15 bp):
ATATAAAAATATAAA
Found at i:8516430 original size:20 final size:18
Alignment explanation
Indices: 8516405--8516441 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
8516395 GTTATTTAAT
8516405 TAAAATAATATATTTTAAAG
1 TAAAATAA-A-ATTTTAAAG
8516425 TAAAATAAAATTTTAAA
1 TAAAATAAAATTTTAAA
8516442 ATCTAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 1 0.06
20 8 0.47
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TAAAATAAAATTTTAAAG
Found at i:8516672 original size:22 final size:21
Alignment explanation
Indices: 8516647--8516689 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
8516637 AAATATCATC
8516647 ATTTTATAGACATTTAT-TTTTA
1 ATTTTATA-A-ATTTATATTTTA
*
8516669 ATTTTTTAAATTTATATTTTA
1 ATTTTATAAATTTATATTTTA
8516690 CATGAACTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 6 0.32
22 7 0.37
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTTTATAAATTTATATTTTA
Found at i:8517766 original size:2 final size:2
Alignment explanation
Indices: 8517759--8517791 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
8517749 AGTAATATCA
8517759 AT AT AT AT AT AT AT AT AT AT AT A- AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8517792 AAAAGCACTA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:8517792 original size:10 final size:11
Alignment explanation
Indices: 8517753--8517792 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
8517743 TTCCAGAGTA
8517753 ATATCAATATAT
1 ATAT-AATATAT
8517765 ATATATATATAT
1 ATATA-ATATAT
8517777 ATATAATATA-
1 ATATAATATAT
8517787 ATATAA
1 ATATAA
8517793 AAAGCACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 6 0.22
11 6 0.22
12 15 0.56
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (11 bp):
ATATAATATAT
Found at i:8519014 original size:26 final size:26
Alignment explanation
Indices: 8518971--8519022 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
8518961 ATATCATTTT
* * *
8518971 CATAATTTTATGACTTAAACAAAAAA
1 CATAATTTTATAAATTAAAAAAAAAA
*
8518997 CATAATTTTTTAAATTAAAAAAAAAA
1 CATAATTTTATAAATTAAAAAAAAAA
8519023 AAAGGAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (26 bp):
CATAATTTTATAAATTAAAAAAAAAA
Found at i:8533722 original size:14 final size:15
Alignment explanation
Indices: 8533691--8533721 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8533681 TACTTATTTT
*
8533691 AATTTTTGAATTCAA
1 AATTTTTAAATTCAA
8533706 AATTTTTAAATTCAA
1 AATTTTTAAATTCAA
8533721 A
1 A
8533722 TCTCAAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (15 bp):
AATTTTTAAATTCAA
Found at i:8535868 original size:3 final size:3
Alignment explanation
Indices: 8535862--8535887 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8535852 GTTGTTGTTG
8535862 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
8535888 GCTTTACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:8537023 original size:18 final size:17
Alignment explanation
Indices: 8536986--8537026 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
8536976 TTGATAATGT
*
8536986 TTATTTTTATTAAGTAA
1 TTATTATTATTAAGTAA
*
8537003 TTATTATTATTAAATTAA
1 TTATTATTATT-AAGTAA
8537021 TTATTA
1 TTATTA
8537027 AATTAGTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (17 bp):
TTATTATTATTAAGTAA
Found at i:8538384 original size:30 final size:30
Alignment explanation
Indices: 8538348--8538415 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
8538338 ACAATAATTC
*
8538348 ATATTATGTAATT-TTATTTTTTATT-TTAGT
1 ATATTAT-TAATTATTATATTTTATTGTTA-T
* *
8538378 ATATTATTAGTTATTATATTTTGTTGTTAT
1 ATATTATTAATTATTATATTTTATTGTTAT
8538408 ATATTATT
1 ATATTATT
8538416 TGTTAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 4 0.12
30 26 0.79
31 3 0.09
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (30 bp):
ATATTATTAATTATTATATTTTATTGTTAT
Found at i:8538949 original size:61 final size:62
Alignment explanation
Indices: 8538841--8538961 Score: 145
Period size: 61 Copynumber: 2.0 Consensus size: 62
8538831 TGAATTTTAG
* * *
8538841 TTTACTAAGTTTTATATATTTCATAATTCCATCATCTATTGTGAGAATTTGTGAG-TTTTGA
1 TTTACTAAGTTTTATATATTTCATAATTCCATCATCTATGGTAAGAATTTATGAGATTTTGA
* * * ** * *
8538902 TTTACTATGTTTTATGTATTTTATAATTTTATTATTTATGGTAAGAATTTATGAGATTTT
1 TTTACTAAGTTTTATATATTTCATAATTCCATCATCTATGGTAAGAATTTATGAGATTTT
8538962 TATTAAATAA
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
61 45 0.92
62 4 0.08
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.54
Consensus pattern (62 bp):
TTTACTAAGTTTTATATATTTCATAATTCCATCATCTATGGTAAGAATTTATGAGATTTTGA
Found at i:8539838 original size:14 final size:15
Alignment explanation
Indices: 8539807--8539840 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8539797 AGACAATAAC
**
8539807 AAAATTAATATTTAA
1 AAAATTAATAAGTAA
8539822 AAAATTAATAAGTAA
1 AAAATTAATAAGTAA
8539837 AAAA
1 AAAA
8539841 AAAAAACATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (15 bp):
AAAATTAATAAGTAA
Found at i:8544538 original size:29 final size:30
Alignment explanation
Indices: 8544490--8544554 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 30
8544480 TAACAGATTC
8544490 ATAATTCAAATATCACATTAAAAATTTT-TT
1 ATAATTCAAATATCACATT-AAAATTTTATT
* *
8544520 A-AATTCAAATATTATATTAAAATTTTATT
1 ATAATTCAAATATCACATTAAAATTTTATT
8544549 ATAATT
1 ATAATT
8544555 TAGGAGACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 8 0.26
29 18 0.58
30 5 0.16
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (30 bp):
ATAATTCAAATATCACATTAAAATTTTATT
Found at i:8546692 original size:17 final size:17
Alignment explanation
Indices: 8546672--8546705 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8546662 ATTCATCACG
*
8546672 TATAAATATAAAATTTA
1 TATAAAAATAAAATTTA
*
8546689 TATAAAAATAAATTTTA
1 TATAAAAATAAAATTTA
8546706 ATTAATTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TATAAAAATAAAATTTA
Found at i:8546781 original size:2 final size:2
Alignment explanation
Indices: 8546770--8546801 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
8546760 CCTCATCGCC
8546770 AT AT -T 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 A
8546802 ATTAAAAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8547087 original size:18 final size:18
Alignment explanation
Indices: 8547066--8547101 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
8547056 TTACTTTCTA
* *
8547066 TAATTATTTTATTATAAT
1 TAATTAATTAATTATAAT
8547084 TAATTAATTAATTATAAT
1 TAATTAATTAATTATAAT
8547102 ATAAAATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TAATTAATTAATTATAAT
Found at i:8547119 original size:23 final size:23
Alignment explanation
Indices: 8547093--8547136 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
8547083 TTAATTAATT
8547093 AATTATAATATAAAA-TTATATAA
1 AATT-TAATATAAAATTTATATAA
*
8547116 AATTTTATATAAAATTTATAT
1 AATTTAATATAAAATTTATAT
8547137 TTATAAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AATTTAATATAAAATTTATATAA
Found at i:8547125 original size:12 final size:11
Alignment explanation
Indices: 8547100--8547136 Score: 58
Period size: 12 Copynumber: 3.4 Consensus size: 11
8547090 ATTAATTATA
8547100 ATATAAAA-TT
1 ATATAAAATTT
8547110 ATATAAAATTTT
1 ATATAAAA-TTT
8547122 ATATAAAATTT
1 ATATAAAATTT
8547133 ATAT
1 ATAT
8547137 TTATAAGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 8 0.32
11 7 0.28
12 10 0.40
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
ATATAAAATTT
Found at i:8547197 original size:22 final size:22
Alignment explanation
Indices: 8547169--8547212 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
8547159 GATTTTTTTT
* *
8547169 ATTATAATTAAATAATTATAAA
1 ATTATAATAAAAAAATTATAAA
8547191 ATTATAATAAAAAAATTATAAA
1 ATTATAATAAAAAAATTATAAA
8547213 TGAAATGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (22 bp):
ATTATAATAAAAAAATTATAAA
Found at i:8547573 original size:56 final size:55
Alignment explanation
Indices: 8547509--8547614 Score: 158
Period size: 56 Copynumber: 1.9 Consensus size: 55
8547499 GATTAAAGTC
* *
8547509 AAAATAAAATTATTTTTTTATATTGAAAATATAACATTTAATTATCTTATAATTT
1 AAAATAAAAATATCTTTTTATATTGAAAATATAACATTTAATTATCTTATAATTT
* * *
8547564 AAAAGTAAAAATATCTTTTTATATTTAAAATATAATATTTAATTATTTTAT
1 AAAA-TAAAAATATCTTTTTATATTGAAAATATAACATTTAATTATCTTAT
8547615 GATTAATTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
55 4 0.09
56 41 0.91
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (55 bp):
AAAATAAAAATATCTTTTTATATTGAAAATATAACATTTAATTATCTTATAATTT
Found at i:8547670 original size:19 final size:18
Alignment explanation
Indices: 8547619--8547670 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 18
8547609 TTTTATGATT
8547619 AATTTTATTTTTTATTTAA
1 AATTTT-TTTTTTATTTAA
*
8547638 AATTATTGTTTTTATTTAA
1 AATT-TTTTTTTTATTTAA
8547657 AATTTTTTTATTTA
1 AATTTTTTT-TTTA
8547671 AATTCATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 4 0.14
19 23 0.79
20 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
AATTTTTTTTTTATTTAA
Found at i:8547674 original size:14 final size:15
Alignment explanation
Indices: 8547626--8547672 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
8547616 ATTAATTTTA
8547626 TTTTTTATTTAAAATTAT
1 TTTTTTATTT-AAA--AT
8547644 TGTTTTTATTTAAAAT
1 T-TTTTTATTTAAAAT
8547660 TTTTTTATTTAAA
1 TTTTTTATTTAAA
8547673 TTCATAATCT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 12 0.43
16 3 0.11
18 4 0.14
19 9 0.32
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (15 bp):
TTTTTTATTTAAAAT
Found at i:8549108 original size:11 final size:11
Alignment explanation
Indices: 8549089--8549128 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
8549079 AATCCTATAA
8549089 GAGATTTGTTT
1 GAGATTTGTTT
* *
8549100 GAAATTTGTTA
1 GAGATTTGTTT
8549111 GAGATTTGTTT
1 GAGATTTGTTT
8549122 GAGATTT
1 GAGATTT
8549129 ATTAGATATT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:8549113 original size:22 final size:22
Alignment explanation
Indices: 8549088--8549134 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
8549078 AAATCCTATA
*
8549088 AGAGATTTGTTTGAAATTTGTT
1 AGAGATTTGTTTGAAATTTATT
*
8549110 AGAGATTTGTTTGAGATTTATT
1 AGAGATTTGTTTGAAATTTATT
8549132 AGA
1 AGA
8549135 TATTGCTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (22 bp):
AGAGATTTGTTTGAAATTTATT
Found at i:8549242 original size:52 final size:52
Alignment explanation
Indices: 8549155--8549311 Score: 235
Period size: 52 Copynumber: 3.0 Consensus size: 52
8549145 TGTACAAGAA
* * * *
8549155 GACTTGCAAAAGAAGAATTCTAAGACAAAAAAGATTTTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAAGAGATTCTTAATAGGTAAGTTT
*
8549207 GACTTGCAAGAGAAGAATTCTAATAGAAAAGAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAAGAGATTCTTAATAGGTAAGTTT
* *
8549259 GACTTAC-AGAAGAAGAATTCTAAGAGAAAAGAGATTCTTAATAGGCAAGTTT
1 GACTTGCAAG-AGAAGAATTCTAAGAGAAAAGAGATTCTTAATAGGTAAGTTT
8549311 G
1 G
8549312 TATGGTTATA
Statistics
Matches: 96, Mismatches: 8, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
51 2 0.02
52 94 0.98
ACGTcount: A:0.44, C:0.08, G:0.20, T:0.27
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAGAGAAAAGAGATTCTTAATAGGTAAGTTT
Found at i:8549942 original size:25 final size:25
Alignment explanation
Indices: 8549856--8549942 Score: 66
Period size: 25 Copynumber: 3.5 Consensus size: 25
8549846 ATCAAAGTTG
* * * *
8549856 AAGGTTCGAAACGTGGAAAGAGTCA
1 AAGGTTCGAGATGTGGGAAGAGCCA
* * * * *
8549881 AAGATTCAAGATGTGAGAATAGCTA
1 AAGGTTCGAGATGTGGGAAGAGCCA
* **
8549906 AAAGTTTTAGATGTGGGAAGAGCCA
1 AAGGTTCGAGATGTGGGAAGAGCCA
8549931 AAGGTTCGAGAT
1 AAGGTTCGAGAT
8549943 ATAAGAAGAG
Statistics
Matches: 43, Mismatches: 19, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (25 bp):
AAGGTTCGAGATGTGGGAAGAGCCA
Found at i:8550209 original size:11 final size:11
Alignment explanation
Indices: 8550193--8550228 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
8550183 AAATCCCATA
*
8550193 AGAGATTTGTT
1 AGAGATTTATT
8550204 AGAGATTTATT
1 AGAGATTTATT
*
8550215 TGAGATTTATT
1 AGAGATTTATT
8550226 AGA
1 AGA
8550229 TATTGCTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (11 bp):
AGAGATTTATT
Found at i:8550336 original size:52 final size:52
Alignment explanation
Indices: 8550259--8550405 Score: 224
Period size: 52 Copynumber: 2.8 Consensus size: 52
8550249 GACTTGTAAA
*
8550259 AGAAGAATTCTAAGA-AGAAAGAGATTCTTAATAGATAAGTTTGACTTACAGG
1 AGAAGAATTCTAAGAGA-AAAGAGATTCTTAATAGGTAAGTTTGACTTACAGG
* * *
8550311 AGAAGAATTCTAAGAGAAAATAGATTTTTAATAGGTAAATTTGACTTACAGG
1 AGAAGAATTCTAAGAGAAAAGAGATTCTTAATAGGTAAGTTTGACTTACAGG
* *
8550363 AGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGCAAGTTTG
1 AGAAGAATTCTAAGAGAAAAGAGATTCTTAATAGGTAAGTTTG
8550406 TATGGTTATA
Statistics
Matches: 85, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 84 0.99
53 1 0.01
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.28
Consensus pattern (52 bp):
AGAAGAATTCTAAGAGAAAAGAGATTCTTAATAGGTAAGTTTGACTTACAGG
Found at i:8551306 original size:11 final size:11
Alignment explanation
Indices: 8551288--8551327 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
8551278 AATCTCATAA
8551288 GAGATTTGTTT
1 GAGATTTGTTT
*
8551299 GGGATTTGTTT
1 GAGATTTGTTT
8551310 GAGATTTGTTT
1 GAGATTTGTTT
8551321 GAGATTT
1 GAGATTT
8551328 ATTAGATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:8551338 original size:22 final size:22
Alignment explanation
Indices: 8551287--8551338 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
8551277 AAATCTCATA
* *
8551287 AGAGATTTGTTTGGGATTTGTT
1 AGAGATTTGTTTGAGATTTATT
*
8551309 TGAGATTTGTTTGAGATTTATT
1 AGAGATTTGTTTGAGATTTATT
*
8551331 AGATATTT
1 AGAGATTT
8551339 CTTGATGTAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.52
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTATT
Found at i:8551421 original size:52 final size:52
Alignment explanation
Indices: 8551354--8551510 Score: 224
Period size: 52 Copynumber: 3.0 Consensus size: 52
8551344 TGTACAAGAA
* * ** *
8551354 GACTTGCAAAAGAAGAATTCTAAGATAAAAGGGATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGTAAGTTT
* *
8551406 GACTTACAAGAGAAGAATTCTAAGAGGAAAGTGATTCTTAATATGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGTAAGTTT
* * *
8551458 GACTTATAAGAGAAAAATTCTAAGAGGAAAGAGATTCTTAATGGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGTAAGTTT
8551510 G
1 G
8551511 TATGGTTATA
Statistics
Matches: 94, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 94 1.00
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.29
Consensus pattern (52 bp):
GACTTACAAGAGAAGAATTCTAAGAGGAAAGAGATTCTTAATAGGTAAGTTT
Found at i:8553295 original size:11 final size:11
Alignment explanation
Indices: 8553262--8553312 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
8553252 TCCGATATTA
8553262 TTATTATTTTT
1 TTATTATTTTT
* *
8553273 TTCTT-TCCTTT
1 TTATTAT-TTTT
8553284 TTATTATTTTT
1 TTATTATTTTT
*
8553295 TTATTCTTTTT
1 TTATTATTTTT
*
8553306 TTTTTAT
1 TTATTAT
8553313 CTGTTTGATA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
10 1 0.03
11 29 0.94
12 1 0.03
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.80
Consensus pattern (11 bp):
TTATTATTTTT
Found at i:8553296 original size:25 final size:25
Alignment explanation
Indices: 8553259--8553312 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
8553249 TTATCCGATA
*
8553259 TTATTATTATTTTTTTCTTTCCTTT
1 TTATTATTATTTTATTCTTTCCTTT
* **
8553284 TTATTATTTTTTTATTCTTTTTTTT
1 TTATTATTATTTTATTCTTTCCTTT
8553309 TTAT
1 TTAT
8553313 CTGTTTGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (25 bp):
TTATTATTATTTTATTCTTTCCTTT
Found at i:8554273 original size:30 final size:31
Alignment explanation
Indices: 8554238--8554300 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 31
8554228 CACGTAATTT
* *
8554238 TTTTAAATTTT-TTATATATTATTTTTGC-TA
1 TTTTAAATTTTATTAT-TAATATTTATGCATA
8554268 TTTTAAATTTTATTATTAATATTTATGCATA
1 TTTTAAATTTTATTATTAATATTTATGCATA
8554299 TT
1 TT
8554301 AAAATGTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 21 0.72
31 8 0.28
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (31 bp):
TTTTAAATTTTATTATTAATATTTATGCATA
Found at i:8554620 original size:3 final size:3
Alignment explanation
Indices: 8554612--8554651 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
8554602 CTGATTTGTA
8554612 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
8554652 GAAATAAGGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:8565582 original size:50 final size:50
Alignment explanation
Indices: 8565518--8565653 Score: 152
Period size: 50 Copynumber: 2.8 Consensus size: 50
8565508 TATTTCAAAA
* *
8565518 AAGAAAAAATTTTTAAAGTTGTTGAGTTTCTACTTAGAA-AAGCCTTTTCC
1 AAGATAAAATTTTTAAAGTTGTTGAGCTTCTACTTAGAATAAG-CTTTTCC
* * * * *
8565568 AAGATAAAATTTTTAAAGTTATTGAGCCTCTGCTTA-AATGAGCTTTTCT
1 AAGATAAAATTTTTAAAGTTGTTGAGCTTCTACTTAGAATAAGCTTTTCC
* * *
8565617 AAGAT-GAATTTTTAAAATCGTTGAGCTTCTACTTAGA
1 AAGATAAAATTTTTAAAGTTGTTGAGCTTCTACTTAGA
8565654 TGAACCTTTT
Statistics
Matches: 71, Mismatches: 13, Indels: 5
0.80 0.15 0.06
Matches are distributed among these distances:
48 24 0.34
49 14 0.20
50 33 0.46
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.39
Consensus pattern (50 bp):
AAGATAAAATTTTTAAAGTTGTTGAGCTTCTACTTAGAATAAGCTTTTCC
Found at i:8565641 original size:48 final size:49
Alignment explanation
Indices: 8565561--8565656 Score: 113
Period size: 48 Copynumber: 2.0 Consensus size: 49
8565551 TTAGAAAAGC
* * *
8565561 CTTTTCCAAGATAAAATTTTTAAAGTTATTGAGCCTCTGCTTAAATGAG
1 CTTTTCCAAGATAAAATTTTTAAAATCATTGAGCCTCTACTTAAATGAG
* * * * *
8565610 CTTTTCTAAGAT-GAATTTTTAAAATCGTTGAGCTTCTACTTAGATGA
1 CTTTTCCAAGATAAAATTTTTAAAATCATTGAGCCTCTACTTAAATGA
8565657 ACCTTTTTAA
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
48 28 0.72
49 11 0.28
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.41
Consensus pattern (49 bp):
CTTTTCCAAGATAAAATTTTTAAAATCATTGAGCCTCTACTTAAATGAG
Found at i:8565917 original size:15 final size:14
Alignment explanation
Indices: 8565897--8565929 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
8565887 TTATTATATA
8565897 TTTTTTTTCTTTTAT
1 TTTTTTTTCTTTT-T
8565912 TTTTTTTTCTTTTT
1 TTTTTTTTCTTTTT
8565926 TTTT
1 TTTT
8565930 CTGATATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.03, C:0.06, G:0.00, T:0.91
Consensus pattern (14 bp):
TTTTTTTTCTTTTT
Done.