Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, 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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 104 of 133
Found at i:20336398 original size:68 final size:67
Alignment explanation
Indices: 20336263--20336399 Score: 161
Period size: 68 Copynumber: 2.0 Consensus size: 67
20336253 TGTTCTTATG
* * ** * *
20336263 TCTTTCTTTATTTCTTTATTTTTGTTTATATATCTATTTTTTATATTTATTTTTTGTTTCATTTA
1 TCTTTCATTATTTCATTATTTTTGTTTATATATCTATTTAATATATTTATTTATTATTTCA-TTA
20336328 TTT
65 TTT
*
20336331 TCTTTCATTATTTCATTATTTTTTGTTTTTATATATCTATTTAATGT-TTTATTTATTATTTCA-
1 TCTTTCATTATTTCATTA-TTTTTG--TTTATATATCTATTTAATATATTTATTTATTATTTCAT
20336394 TATTT
63 TATTT
20336399 T
1 T
20336400 TATTTATTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
68 22 0.37
69 6 0.10
70 14 0.24
71 17 0.29
ACGTcount: A:0.19, C:0.07, G:0.03, T:0.71
Consensus pattern (67 bp):
TCTTTCATTATTTCATTATTTTTGTTTATATATCTATTTAATATATTTATTTATTATTTCATTAT
TT
Found at i:20336400 original size:20 final size:18
Alignment explanation
Indices: 20336356--20336412 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 18
20336346 TTATTTTTTG
*
20336356 TTTTTATATATCTATTTAA
1 TTTTTATTTAT-TATTTAA
20336375 TGTTTTATTTATTATTTCATA
1 T-TTTTATTTATTATTT-A-A
20336396 TTTTTATTTATTTATTT
1 TTTTTATTTA-TTATTT
20336413 GTATCATTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 6 0.18
20 19 0.58
21 8 0.24
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTTATTTATTATTTAA
Found at i:20336412 original size:69 final size:69
Alignment explanation
Indices: 20336265--20336412 Score: 162
Period size: 69 Copynumber: 2.2 Consensus size: 69
20336255 TTCTTATGTC
* ** * * *
20336265 TTTC-TTTATTTCTTTATTTTTGTTTATATATCTATTTTTTATATTTATTTTTTGTTTCATTTAT
1 TTTCATTTATTTCATTATTTTTGTTTATATATCTATTTAATATATTTATTTATTATTTCATATAT
*
20336329 TTTC
66 TTTA
*
20336333 TTTCA-TTATTTCATTATTTTTTGTTTTTATATATCTATTTAATGT-TTTATTTATTATTTCATA
1 TTTCATTTATTTCATTA-TTTTTG--TTTATATATCTATTTAATATATTTATTTATTATTTCATA
20336396 T-TTTTA
63 TATTTTA
20336402 TTT-ATTTATTT
1 TTTCATTTATTT
20336413 GTATCATTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
68 15 0.22
69 19 0.28
70 16 0.24
71 17 0.25
ACGTcount: A:0.20, C:0.06, G:0.03, T:0.72
Consensus pattern (69 bp):
TTTCATTTATTTCATTATTTTTGTTTATATATCTATTTAATATATTTATTTATTATTTCATATAT
TTTA
Found at i:20337440 original size:32 final size:31
Alignment explanation
Indices: 20337400--20337511 Score: 109
Period size: 32 Copynumber: 3.5 Consensus size: 31
20337390 AAAAAATCCC
20337400 ATATCATTTTAAAAATTAATTAAAATTTTCT
1 ATATCATTTTAAAAATTAATTAAAATTTTCT
* * **
20337431 ATATCCATTTAAAAAATTAAATAAAAACTTCT
1 ATAT-CATTTTAAAAATTAATTAAAATTTTCT
* * *
20337463 ATACCATTTCAAAATATTAAGTAAAAATTTT-T
1 ATATCATTTTAAAA-ATTAA-TTAAAATTTTCT
* *
20337495 ACATCATTTTAGAAATT
1 ATATCATTTTAAAAATT
20337512 GATTTTTTAC
Statistics
Matches: 64, Mismatches: 14, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
31 16 0.25
32 42 0.66
33 6 0.09
ACGTcount: A:0.47, C:0.10, G:0.02, T:0.41
Consensus pattern (31 bp):
ATATCATTTTAAAAATTAATTAAAATTTTCT
Found at i:20338042 original size:31 final size:31
Alignment explanation
Indices: 20337979--20338052 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
20337969 TAATAAATCT
*
20337979 ATTTTTAAAATAATATGAAAATTTTTACTTA
1 ATTTTTAAAAGAATATGAAAATTTTTACTTA
** *
20338010 ATATTTTAAAAGAATATG-GTATTTTTATTTA
1 AT-TTTTAAAAGAATATGAAAATTTTTACTTA
*
20338041 ATTTTTACAAGA
1 ATTTTTAAAAGA
20338053 TACAGAATTT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 9 0.24
31 14 0.38
32 14 0.38
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (31 bp):
ATTTTTAAAAGAATATGAAAATTTTTACTTA
Found at i:20338062 original size:29 final size:31
Alignment explanation
Indices: 20337998--20338073 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 31
20337988 ATAATATGAA
**
20337998 AATTTTTACTTAATATTTTAAAAGAATATGG
1 AATTTTTACTTAATATTTTAAAAGAATACAG
* * *
20338029 TATTTTTATTTAAT-TTTTACAAG-ATACAG
1 AATTTTTACTTAATATTTTAAAAGAATACAG
20338058 AATTTTTTAACTTAAT
1 AA-TTTTT-ACTTAAT
20338074 TTTAATTTTT
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
29 5 0.14
30 13 0.36
31 18 0.50
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (31 bp):
AATTTTTACTTAATATTTTAAAAGAATACAG
Found at i:20338423 original size:20 final size:20
Alignment explanation
Indices: 20338386--20338427 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
20338376 TAGAAAATTG
*
20338386 TTTTTAAAATAATATGAAAT
1 TTTTTAAAAGAATATGAAAT
* *
20338406 TTTTTAAAAGGATTTGAAAT
1 TTTTTAAAAGAATATGAAAT
20338426 TT
1 TT
20338428 GTAGCTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.10, T:0.48
Consensus pattern (20 bp):
TTTTTAAAAGAATATGAAAT
Found at i:20338754 original size:27 final size:28
Alignment explanation
Indices: 20338723--20338786 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
20338713 TTTTTTTTGT
* *
20338723 AATTATAGATCGAACTAAAATT-TTTAA
1 AATTATAGATCAAAATAAAATTATTTAA
* *
20338750 AATTAGAGATTAAAATAAAATTAATTTAA
1 AATTATAGATCAAAATAAAATT-ATTTAA
20338779 AATT-TAGA
1 AATTATAGA
20338787 AAACACGAGT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 18 0.60
28 3 0.10
29 9 0.30
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (28 bp):
AATTATAGATCAAAATAAAATTATTTAA
Found at i:20348724 original size:24 final size:24
Alignment explanation
Indices: 20348697--20348742 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
20348687 TTTTTACTAA
*
20348697 ATTAAGATATTAA-ATAATAAATTT
1 ATTAAGATAATAACAT-ATAAATTT
*
20348721 ATTAATATAATAACATATAAAT
1 ATTAAGATAATAACATATAAAT
20348743 ATAAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
ATTAAGATAATAACATATAAATTT
Found at i:20349504 original size:23 final size:23
Alignment explanation
Indices: 20349473--20349540 Score: 73
Period size: 25 Copynumber: 2.9 Consensus size: 23
20349463 GTTCGTGAAC
*
20349473 ATATTTTCATGAACATTAAATGA
1 ATATGTTCATGAACATTAAATGA
*
20349496 ATATGTTCACGAACATATATAATGA
1 ATATGTTCATGAACAT-TA-AATGA
* * *
20349521 ACATGTTCATAAACAATAAA
1 ATATGTTCATGAACATTAAA
20349541 CAAATCATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
23 16 0.43
24 4 0.11
25 17 0.46
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (23 bp):
ATATGTTCATGAACATTAAATGA
Found at i:20349519 original size:25 final size:23
Alignment explanation
Indices: 20349473--20349529 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
20349463 GTTCGTGAAC
* *
20349473 ATATTTTCATGAACATTAAATGA
1 ATATGTTCACGAACATTAAATGA
20349496 ATATGTTCACGAACATATATAATGA
1 ATATGTTCACGAACAT-TA-AATGA
*
20349521 ACATGTTCA
1 ATATGTTCA
20349530 TAAACAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 14 0.48
24 2 0.07
25 13 0.45
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (23 bp):
ATATGTTCACGAACATTAAATGA
Found at i:20349580 original size:20 final size:20
Alignment explanation
Indices: 20349557--20349596 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
20349547 ATTACCAAAC
20349557 AAATCAAAAAAAACAAACCT
1 AAATCAAAAAAAACAAACCT
* * *
20349577 AAATGAACATAAACAAACCT
1 AAATCAAAAAAAACAAACCT
20349597 TAAAATAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.65, C:0.20, G:0.03, T:0.12
Consensus pattern (20 bp):
AAATCAAAAAAAACAAACCT
Found at i:20350074 original size:12 final size:13
Alignment explanation
Indices: 20350051--20350075 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20350041 AAAAAGTCCT
20350051 AATTTAAAAAAAA
1 AATTTAAAAAAAA
20350064 AATTTAAAAAAA
1 AATTTAAAAAAA
20350076 GAAAAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AATTTAAAAAAAA
Found at i:20350353 original size:12 final size:13
Alignment explanation
Indices: 20350321--20350371 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
20350311 TTAAATATAA
*
20350321 AAAATAAAAAAGT
1 AAAAGAAAAAAGT
20350334 AAATAGAAAAAAG-
1 AAA-AGAAAAAAGT
20350347 AAAAGAAAAAAATGT
1 AAAAG-AAAAAA-GT
20350362 AAAA-AAAAAA
1 AAAAGAAAAAA
20350372 AATCAAATGG
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 2 0.06
13 18 0.55
14 9 0.27
15 4 0.12
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (13 bp):
AAAAGAAAAAAGT
Found at i:20350357 original size:13 final size:14
Alignment explanation
Indices: 20350326--20350372 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
20350316 TATAAAAAAT
20350326 AAAAAAGTAAATAG-
1 AAAAAAGTAAA-AGA
20350340 AAAAAAG-AAAAGA
1 AAAAAAGTAAAAGA
20350353 AAAAAATGTAAAA-A
1 AAAAAA-GTAAAAGA
20350367 AAAAAA
1 AAAAAA
20350373 ATCAAATGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 2 0.07
13 9 0.30
14 15 0.50
15 4 0.13
ACGTcount: A:0.81, C:0.00, G:0.11, T:0.09
Consensus pattern (14 bp):
AAAAAAGTAAAAGA
Found at i:20353829 original size:481 final size:482
Alignment explanation
Indices: 20352909--20353875 Score: 1776
Period size: 481 Copynumber: 2.0 Consensus size: 482
20352899 AAAAGTTAGT
* * *
20352909 AAGCTGATTACTTAAATTTTTTATGAAGAGTCGATTGAATAATTAATACGTGTATTTAATTAATT
1 AAGCTGATTACTTAAATTTTTTATGAAAAGGCGATAGAATAATTAATACGTGTATTTAATTAATT
* *
20352974 TAATATAGTTGGCTACAGTAGGTTGATGAACATTTGTTTGTGGTGGATGTGTTTTCTTTTTATAT
66 TAAGATAGTTGGCTACAGTAAGTTGATGAACATTTGTTTGTGGTGGATGTGTTTTCTTTTTATAT
*
20353039 TGATATAGTAAACCTACCGGATGGGTATACAGCATGCTTAAAAGGGTTGGTAAGTTGGCAGTTTG
131 TGATATAATAAACCTACCGGATGGGTATACAGCATGCTTAAAAGGGTTGGTAAGTTGGCAGTTTG
20353104 GTGTTTTAATCAACATCAGGGGTTTAGTGGCACTATGCTGAGGGCTATTCATGTCTAGTAGAATA
196 GTGTTTTAATCAACATCAGGGGTTTAGTGGCACTATGCTGAGGGCTATTCATGTCTAGTAGAATA
20353169 GATAGATCATACACAATGAAATAATGAAAAAAAGATTCAACATATAAATAGTATATAAGATTAAA
261 GATAGATCATACACAATGAAATAATGAAAAAAAGATTCAACATATAAATAGTATATAAGATTAAA
20353234 CATTAAGCTATGACTATTTAAAGTTTACTACAAAAGATGAACAAATGGTAGCCAATACAGAAGTC
326 CATTAAGCTATGACTATTTAAAGTTTACTACAAAAGATGAACAAATGGTAGCCAATACAGAAGTC
* *
20353299 ATAAGTCATTGCAAAACTTTTCATGGCTATTTAAAGTTCATAACAAAAAGAAACCAAAAGGCAGC
391 ATAAGTCATTGCAAAACTTTTCATGGCAATTTAAAGTTCACAACAAAAAGAAACCAAAAGGCAGC
20353364 CAAAAGATAAATTATAACCCATTGTAG
456 CAAAAGATAAATTATAACCCATTGTAG
20353391 AAGCTGATTACTTAAATTTTTTATGAAAAGGCGATAGAATAATTAATACGTGTATTTAATTAATT
1 AAGCTGATTACTTAAATTTTTTATGAAAAGGCGATAGAATAATTAATACGTGTATTTAATTAATT
20353456 TAAGATAGTTGGGCTACAGTAAGTTGATGAACATTTGTTTGTGGTGGATGTGTTTTCTTTTTATA
66 TAAGATAGTT-GGCTACAGTAAGTTGATGAACATTTGTTTGTGGTGGATGTGTTTTCTTTTTATA
** *
20353521 TTGATATAATAAACCTATTGGATGGGTATGCAGCATGCTTAAAAGGGTTGGTAAGTTGGCAGTTT
130 TTGATATAATAAACCTACCGGATGGGTATACAGCATGCTTAAAAGGGTTGGTAAGTTGGCAGTTT
20353586 GGTGTTTTAATCAA-ATCAGGGGTTTAGTGGCACTATGCTGAGGGCTATTCATGTCTAGTAGAAT
195 GGTGTTTTAATCAACATCAGGGGTTTAGTGGCACTATGCTGAGGGCTATTCATGTCTAGTAGAAT
*
20353650 AGTTAGATCATACACAATGAAATAATG-AAAAAAGATTCAACATATAAATAGTATATAAGATTAA
260 AGATAGATCATACACAATGAAATAATGAAAAAAAGATTCAACATATAAATAGTATATAAGATTAA
* *
20353714 ACATTAAGCTATGACTGTTTAAAGTTTACTACAAAAGATGAACAAATGGTAGCCAATATAGAAGT
325 ACATTAAGCTATGACTATTTAAAGTTTACTACAAAAGATGAACAAATGGTAGCCAATACAGAAGT
20353779 CATAAGTCATTGCAAAACTTTTCATGGCAATTTAAAGTTCACAACAAAAAGAAACCAAAAGGCAG
390 CATAAGTCATTGCAAAACTTTTCATGGCAATTTAAAGTTCACAACAAAAAGAAACCAAAAGGCAG
*
20353844 CTAAAAGATAAATTATAACCCATTGTAG
455 CCAAAAGATAAATTATAACCCATTGTAG
20353872 AAGC
1 AAGC
20353876 ATAAGAGCTT
Statistics
Matches: 469, Mismatches: 15, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
481 194 0.41
482 147 0.31
483 128 0.27
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (482 bp):
AAGCTGATTACTTAAATTTTTTATGAAAAGGCGATAGAATAATTAATACGTGTATTTAATTAATT
TAAGATAGTTGGCTACAGTAAGTTGATGAACATTTGTTTGTGGTGGATGTGTTTTCTTTTTATAT
TGATATAATAAACCTACCGGATGGGTATACAGCATGCTTAAAAGGGTTGGTAAGTTGGCAGTTTG
GTGTTTTAATCAACATCAGGGGTTTAGTGGCACTATGCTGAGGGCTATTCATGTCTAGTAGAATA
GATAGATCATACACAATGAAATAATGAAAAAAAGATTCAACATATAAATAGTATATAAGATTAAA
CATTAAGCTATGACTATTTAAAGTTTACTACAAAAGATGAACAAATGGTAGCCAATACAGAAGTC
ATAAGTCATTGCAAAACTTTTCATGGCAATTTAAAGTTCACAACAAAAAGAAACCAAAAGGCAGC
CAAAAGATAAATTATAACCCATTGTAG
Found at i:20357045 original size:3 final size:3
Alignment explanation
Indices: 20357037--20357070 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
20357027 ATCAATCATC
* *
20357037 TAT TAT TAT TAT TAT TAG TAT TAT TGT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
20357071 GTGAATTACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:20370047 original size:16 final size:17
Alignment explanation
Indices: 20370013--20370047 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
20370003 AAAAATTTTA
*
20370013 AAAAACTATAATTTCTT
1 AAAAACTATAATTTATT
20370030 AAAAACTATAA-TTATT
1 AAAAACTATAATTTATT
20370046 AA
1 AA
20370048 TAAATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (17 bp):
AAAAACTATAATTTATT
Found at i:20377064 original size:44 final size:39
Alignment explanation
Indices: 20376980--20377055 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
20376970 TAAGACAGAG
20376980 TTCACTATTATTTTATTTTTATGTTACTATCTTGAATAA
1 TTCACTATTATTTTATTTTTATGTTACTATCTTGAATAA
*
20377019 TTCACTATTATTTTATTTTTGTGTTACTATCTTGAAT
1 TTCACTATTATTTTATTTTTATGTTACTATCTTGAAT
20377056 TATTTAATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.25, C:0.11, G:0.07, T:0.58
Consensus pattern (39 bp):
TTCACTATTATTTTATTTTTATGTTACTATCTTGAATAA
Found at i:20380172 original size:15 final size:15
Alignment explanation
Indices: 20380152--20380181 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20380142 TCTTGTCATG
20380152 ATGTTTGTTTTATCA
1 ATGTTTGTTTTATCA
20380167 ATGTTTGTTTTATCA
1 ATGTTTGTTTTATCA
20380182 GACTTGATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.07, G:0.13, T:0.60
Consensus pattern (15 bp):
ATGTTTGTTTTATCA
Found at i:20380344 original size:24 final size:24
Alignment explanation
Indices: 20380304--20380350 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
20380294 AAAACATATC
* *
20380304 ATATTATGATTGTAAATA-AATTA
1 ATATTATAATTGAAAATATAATTA
20380327 ATATTAATAATTGAAAATATAATT
1 ATATT-ATAATTGAAAATATAATT
20380351 TTTAAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 11 0.55
25 4 0.20
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (24 bp):
ATATTATAATTGAAAATATAATTA
Found at i:20380707 original size:56 final size:55
Alignment explanation
Indices: 20380629--20380755 Score: 191
Period size: 56 Copynumber: 2.3 Consensus size: 55
20380619 GAAAAATTGC
* *
20380629 AAGTCTATATTGACAGACGCTAACTGTCGGTATAAGTAAGAAAAATTAAAACATAT
1 AAGTCTATACTGACAGACGCTAACTGTCGATATAAGTAAG-AAAATTAAAACATAT
* * *
20380685 AAGTCTATACTGACGGATGCTAACTGTCGATATAGGTAAGAAAATTAAAACATAT
1 AAGTCTATACTGACAGACGCTAACTGTCGATATAAGTAAGAAAATTAAAACATAT
*
20380740 AAATCTATACTGACAG
1 AAGTCTATACTGACAG
20380756 GTTTTAAATG
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
55 29 0.45
56 35 0.55
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (55 bp):
AAGTCTATACTGACAGACGCTAACTGTCGATATAAGTAAGAAAATTAAAACATAT
Found at i:20380722 original size:105 final size:105
Alignment explanation
Indices: 20380453--20380728 Score: 256
Period size: 105 Copynumber: 2.6 Consensus size: 105
20380443 AAAATATAAT
* * * * *
20380453 AAAAAATTAAAACATATAAGTTTATATTGAC-AATCTCTAATTGTC-AGTATAGGTAAGAAAATT
1 AAAAAATTAAAACATATAAGTCTATACTGACGGAT-GCTAACTGTCGA-TATAGGTAAG---A--
* * * *
20380516 AAAATATTCAAGTCTATACTGACAGTCTCAACTGTTGGTACAAGTAA
59 AAAATATGCAAGTCTATACTGACAGACGCAACTGTCGGTACAAGTAA
* * * * * * *
20380563 AAAAAATTAAGAA-ATACAAGTCTATACTAACGGATGTTAAGC-ATAGGTACAGGTAAGAAAAAT
1 AAAAAATTAA-AACATATAAGTCTATACTGACGGATGCTAA-CTGTCGATATAGGTAAGAAAAAT
* *
20380626 -TGCAAGTCTATATTGACAGACGCTAACTGTCGGTATAAGTAA
64 ATGCAAGTCTATACTGACAGACGC-AACTGTCGGTACAAGTAA
*
20380668 GAAAAATTAAAACATATAAGTCTATACTGACGGATGCTAACTGTCGATATAGGTAAGAAAA
1 AAAAAATTAAAACATATAAGTCTATACTGACGGATGCTAACTGTCGATATAGGTAAGAAAA
20380729 TTAAAACATA
Statistics
Matches: 133, Mismatches: 26, Indels: 19
0.75 0.15 0.11
Matches are distributed among these distances:
104 22 0.17
105 69 0.52
107 1 0.01
110 37 0.28
111 4 0.03
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (105 bp):
AAAAAATTAAAACATATAAGTCTATACTGACGGATGCTAACTGTCGATATAGGTAAGAAAAATAT
GCAAGTCTATACTGACAGACGCAACTGTCGGTACAAGTAA
Found at i:20380749 original size:160 final size:160
Alignment explanation
Indices: 20380461--20380860 Score: 361
Period size: 160 Copynumber: 2.5 Consensus size: 160
20380451 ATAAAAAATT
* * * * * *
20380461 AAAACATATAAGTTTATATTGACA-ATCTCTAATTGTCAGTATAGGTAAG-AAAATTAAAATAT-
1 AAAAC-TACAAGTTTATATTGACAGA-CACTAACTGTCGGTATAAGTAAGAAAAATTAAAACATA
* * *
20380523 TCAAGTCTATACTGACAGTCTCAACTGTTGGTACAAGTAAAAAAAATTAAGAAATACAAGTCTAT
64 T-AAGTCTATACTGACAGTCTCAACTGTCGATACAAGTAAAAAAAATTAAGAAATACAAATCTAT
*
20380588 ACTAAC-GGATGTT-AA-G-CATAGGTACAGGTAAGA
128 ACTAACAGG-TGTTAAATGTCA-A--TACAGGTAAAA
* * * *
20380621 AAAATTGCAAGTCTATATTGACAGACGCTAACTGTCGGTATAAGTAAGAAAAATTAAAACATATA
1 AAAACTACAAGTTTATATTGACAGACACTAACTGTCGGTATAAGTAAGAAAAATTAAAACATATA
* * * * *
20380686 AGTCTATACTGACGGATGCT-AACTGTCGATATAGGT-AAGAAAATTAA-AACATATAAATCTAT
66 AGTCTATACTGACAG-T-CTCAACTGTCGATACAAGTAAAAAAAATTAAGAA-ATACAAATCTAT
* * *
20380748 ACTGACAGGTTTTAAATGTCAATATAGGTAAAA
128 ACTAACAGGTGTTAAATGTCAATACAGGTAAAA
** * * * * * *
20380781 AAAACTACAAGTTTATACCGACAGGCATTAACTATCGGTATAAGCAAAAAAAATTAAAACATACA
1 AAAACTACAAGTTTATATTGACAGACACTAACTGTCGGTATAAGTAAGAAAAATTAAAACATATA
*
20380846 AGTCTATACTAACAG
66 AGTCTATACTGACAG
20380861 GTGTTAATCA
Statistics
Matches: 195, Mismatches: 35, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
159 36 0.18
160 135 0.69
161 18 0.09
162 4 0.02
163 2 0.01
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (160 bp):
AAAACTACAAGTTTATATTGACAGACACTAACTGTCGGTATAAGTAAGAAAAATTAAAACATATA
AGTCTATACTGACAGTCTCAACTGTCGATACAAGTAAAAAAAATTAAGAAATACAAATCTATACT
AACAGGTGTTAAATGTCAATACAGGTAAAA
Found at i:20380773 original size:55 final size:55
Alignment explanation
Indices: 20380632--20380783 Score: 162
Period size: 55 Copynumber: 2.7 Consensus size: 55
20380622 AAATTGCAAG
* * * * ** * *
20380632 TCTATATTGACAGACGCTAACTGTCGGTATAAGTAAGAAAAATTAAAACATATAAG
1 TCTATACTGACGGATGCTAAATGTCAATATAGGTAAG-AAAATTAAAACATATAAA
* *
20380688 TCTATACTGACGGATGCTAACTGTCGATATAGGTAAGAAAATTAAAACATATAAA
1 TCTATACTGACGGATGCTAAATGTCAATATAGGTAAGAAAATTAAAACATATAAA
** *
20380743 TCTATACTGACAGG-TTTTAAATGTCAATATAGGTAAAAAAA
1 TCTATACTGAC-GGATGCTAAATGTCAATATAGGTAAGAAAA
20380784 ACTACAAGTT
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
55 50 0.60
56 34 0.40
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.28
Consensus pattern (55 bp):
TCTATACTGACGGATGCTAAATGTCAATATAGGTAAGAAAATTAAAACATATAAA
Found at i:20394071 original size:29 final size:30
Alignment explanation
Indices: 20394029--20394088 Score: 86
Period size: 29 Copynumber: 2.0 Consensus size: 30
20394019 AGAGACAAAT
* * *
20394029 AGTAGATTTTTGTAGCAAGAAAA-AGTGAG
1 AGTAAATTTCTGTAGCAAAAAAAGAGTGAG
20394058 AGTAAATTTCTGTAGCAAAAAAAGAGTGAG
1 AGTAAATTTCTGTAGCAAAAAAAGAGTGAG
20394088 A
1 A
20394089 ACAAAATTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 20 0.74
30 7 0.26
ACGTcount: A:0.45, C:0.05, G:0.25, T:0.25
Consensus pattern (30 bp):
AGTAAATTTCTGTAGCAAAAAAAGAGTGAG
Found at i:20399849 original size:14 final size:14
Alignment explanation
Indices: 20399832--20399880 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 14
20399822 TAAGCCTTTT
20399832 TTTTTAATTTTTAA
1 TTTTTAATTTTTAA
*
20399846 TTTTTAATTTTTTACT
1 TTTTTAA-TTTTTA-A
*
20399862 TTTTATAATTTTTTA
1 TTTT-TAATTTTTAA
20399877 TTTT
1 TTTT
20399881 AGATTTTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.24
15 10 0.34
16 9 0.31
17 3 0.10
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTAATTTTTAA
Found at i:20399850 original size:8 final size:8
Alignment explanation
Indices: 20399831--20399880 Score: 61
Period size: 7 Copynumber: 6.5 Consensus size: 8
20399821 GTAAGCCTTT
20399831 TTTTTTAA
1 TTTTTTAA
20399839 -TTTTTAA
1 TTTTTTAA
20399846 -TTTTTAA
1 TTTTTTAA
*
20399853 TTTTTTAC
1 TTTTTTAA
20399861 TTTTTATAA
1 TTTTT-TAA
20399870 TTTTTT-A
1 TTTTTTAA
20399877 TTTT
1 TTTT
20399881 AGATTTTTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
7 19 0.50
8 12 0.32
9 7 0.18
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTTAA
Found at i:20399871 original size:31 final size:31
Alignment explanation
Indices: 20399830--20399889 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
20399820 TGTAAGCCTT
*
20399830 TTTTTTTAATTTTTAATTTTTA-ATTTTTTAC
1 TTTTTATAATTTTTAA-TTTTAGATTTTTTAC
*
20399861 TTTTTATAATTTTTTATTTTAGATTTTTT
1 TTTTTATAATTTTTAATTTTAGATTTTTT
20399890 TTAATTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (31 bp):
TTTTTATAATTTTTAATTTTAGATTTTTTAC
Found at i:20399872 original size:17 final size:15
Alignment explanation
Indices: 20399831--20399880 Score: 66
Period size: 17 Copynumber: 3.3 Consensus size: 15
20399821 GTAAGCCTTT
20399831 TTTTTTAA-TTTTTA
1 TTTTTTAATTTTTTA
*
20399845 ATTTTTAATTTTTTA
1 TTTTTTAATTTTTTA
20399860 CTTTTTATAATTTTTTA
1 -TTTTT-TAATTTTTTA
20399877 TTTT
1 TTTT
20399881 AGATTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 7 0.23
15 6 0.19
16 8 0.26
17 10 0.32
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTTAATTTTTTA
Found at i:20399888 original size:14 final size:14
Alignment explanation
Indices: 20399828--20399889 Score: 65
Period size: 14 Copynumber: 4.3 Consensus size: 14
20399818 TTTGTAAGCC
20399828 TTTT-TTTTTAATT
1 TTTTATTTTTAATT
*
20399841 TTTAATTTTTAATT
1 TTTTATTTTTAATT
20399855 TTTTACTTTTTATAATT
1 TTTTA--TTTT-TAATT
20399872 TTTTA-TTTTAGATT
1 TTTTATTTTTA-ATT
20399886 TTTT
1 TTTT
20399890 TTAATTATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
13 5 0.12
14 23 0.55
16 4 0.10
17 10 0.24
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (14 bp):
TTTTATTTTTAATT
Found at i:20399888 original size:24 final size:23
Alignment explanation
Indices: 20399839--20399895 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 23
20399829 TTTTTTTTAA
**
20399839 TTTTTAATTTTTAATTTTTTACT
1 TTTTTAATTTTTAATTTTAGACT
* *
20399862 TTTTATAATTTTTTATTTTAGATTT
1 TTTT-TAATTTTTAATTTTAGA-CT
20399887 TTTTTAATT
1 TTTTTAATT
20399896 ATATATATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 4 0.14
24 19 0.68
25 5 0.18
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTTAATTTTTAATTTTAGACT
Found at i:20399906 original size:17 final size:16
Alignment explanation
Indices: 20399839--20399906 Score: 57
Period size: 17 Copynumber: 4.2 Consensus size: 16
20399829 TTTTTTTTAA
*
20399839 TTTTTAATTTTTA-AT
1 TTTTTAATTTATATAT
* *
20399854 TTTTTACTTTTTATAAT
1 TTTTTAATTTATAT-AT
* * *
20399871 TTTTTATTTTAGATTT
1 TTTTTAATTTATATAT
20399887 TTTTTAATTATATATAT
1 TTTTTAATT-TATATAT
20399904 TTT
1 TTT
20399907 GTGATAATAA
Statistics
Matches: 42, Mismatches: 8, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
15 12 0.29
16 9 0.21
17 21 0.50
ACGTcount: A:0.25, C:0.01, G:0.01, T:0.72
Consensus pattern (16 bp):
TTTTTAATTTATATAT
Found at i:20400378 original size:20 final size:21
Alignment explanation
Indices: 20400351--20400397 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
20400341 TTAATTTTCC
*
20400351 TATTTTAAATATT-TAATAATA
1 TATTTTAAA-ATTATAAAAATA
20400372 T-TTTTAAAATTATAAAAATA
1 TATTTTAAAATTATAAAAATA
20400392 TATTTT
1 TATTTT
20400398 TAATGATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 3 0.13
20 15 0.65
21 5 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TATTTTAAAATTATAAAAATA
Found at i:20401426 original size:6 final size:6
Alignment explanation
Indices: 20401399--20401481 Score: 57
Period size: 6 Copynumber: 13.7 Consensus size: 6
20401389 ATTTGCTTCA
* *
20401399 TTTTTC TTATT- TTTTTC TTTTTTC TTTTATC -TATTC ATTATTTC --TTTC
1 TTTTTC TTTTTC TTTTTC -TTTTTC TTTT-TC TTTTTC -TT-TTTC TTTTTC
* *
20401447 TTTTTC TTTTTC TTTTTCC TTTTCC TTTTTA TTTT
1 TTTTTC TTTTTC TTTTT-C TTTTTC TTTTTC TTTT
20401482 ATTTTATGCT
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
4 4 0.07
5 6 0.10
6 34 0.56
7 14 0.23
8 3 0.05
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:20405035 original size:20 final size:20
Alignment explanation
Indices: 20404976--20405035 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
20404966 AACTGCAGTG
*
20404976 AAATGTACAAATTGGTACCA
1 AAATGTACAAATTGGTACCT
* *
20404996 AAAT-TAAAAAAT-GT---T
1 AAATGTACAAATTGGTACCT
20405011 AAATGTACAAATTGGTACCT
1 AAATGTACAAATTGGTACCT
20405031 AAATG
1 AAATG
20405036 ATATTGTTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 10
0.67 0.11 0.22
Matches are distributed among these distances:
15 4 0.13
16 6 0.20
17 2 0.07
18 2 0.07
19 6 0.20
20 10 0.33
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.28
Consensus pattern (20 bp):
AAATGTACAAATTGGTACCT
Found at i:20405295 original size:10 final size:10
Alignment explanation
Indices: 20405280--20405311 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
20405270 GGTGTAGTTT
20405280 TTTTTTTTTC
1 TTTTTTTTTC
20405290 TTTTTTTTTC
1 TTTTTTTTTC
20405300 TTTTTTTTTC
1 TTTTTTTTTC
20405310 TT
1 TT
20405312 GGGATTCGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:20415281 original size:16 final size:18
Alignment explanation
Indices: 20415247--20415283 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
20415237 ATATGAATAA
*
20415247 TAATTTTTTGTTATATTT
1 TAATTTTATGTTATATTT
20415265 TAATTTTAT-TTAT-TTT
1 TAATTTTATGTTATATTT
20415281 TAA
1 TAA
20415284 ATAAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 4 0.22
18 8 0.44
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (18 bp):
TAATTTTATGTTATATTT
Found at i:20424792 original size:17 final size:15
Alignment explanation
Indices: 20424751--20424795 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
20424741 TTTAAAGTTG
20424751 AATAATAAAAAATTAA
1 AATAATAAAAAATT-A
*
20424767 AAAAATAAAATAATTA
1 AATAATAAAA-AATTA
20424783 AATAACTAAAAAA
1 AATAA-TAAAAAA
20424796 CCAAATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (15 bp):
AATAATAAAAAATTA
Found at i:20447681 original size:30 final size:30
Alignment explanation
Indices: 20447595--20447690 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
20447585 TACTAAGATC
* *
20447595 TTATTTAAGTATAAATTAAAGGTTAATG-AT
1 TTATTTAAATATAAATTAAAAGTTAA-GAAT
* ** * * *
20447625 TGATTTGGATACAAAATAAAAATTAAGAAT
1 TTATTTAAATATAAATTAAAAGTTAAGAAT
20447655 TTATTTAAATATAAATTAAAAGTTAAGAAT
1 TTATTTAAATATAAATTAAAAGTTAAGAAT
20447685 TTATTT
1 TTATTT
20447691 CTGTAAGTTC
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.48, C:0.01, G:0.10, T:0.41
Consensus pattern (30 bp):
TTATTTAAATATAAATTAAAAGTTAAGAAT
Found at i:20450557 original size:8 final size:8
Alignment explanation
Indices: 20450544--20450580 Score: 56
Period size: 8 Copynumber: 4.4 Consensus size: 8
20450534 CGAAAAAATT
20450544 ATAATTTA
1 ATAATTTA
20450552 ATAATTTA
1 ATAATTTA
20450560 ATAATTTA
1 ATAATTTA
20450568 ATATATTTTA
1 ATA-A-TTTA
20450578 ATA
1 ATA
20450581 TAAAATAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 19 0.70
9 1 0.04
10 7 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
ATAATTTA
Found at i:20453612 original size:2 final size:2
Alignment explanation
Indices: 20453605--20453635 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
20453595 ACATGATTAT
20453605 TA TA TA TA TA TA 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 T
20453636 TGCTTTTTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20454910 original size:12 final size:12
Alignment explanation
Indices: 20454893--20454919 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
20454883 ATTACTTATG
20454893 TTATTTAAGTAA
1 TTATTTAAGTAA
20454905 TTATTTAAGTAA
1 TTATTTAAGTAA
20454917 TTA
1 TTA
20454920 AATTAAGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TTATTTAAGTAA
Found at i:20455483 original size:3 final size:3
Alignment explanation
Indices: 20455445--20455531 Score: 58
Period size: 3 Copynumber: 30.7 Consensus size: 3
20455435 GAAGCAATTT
* * * * * *
20455445 TTA TTA TTG TCA TTA TTT TTG TTA CTA TTA TT- TTA TTA -TA TTA TTG
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
20455491 TTA ATA -TA GTA -TA TTA -TA CTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
20455532 TTCTTCATTC
Statistics
Matches: 66, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
2 10 0.15
3 56 0.85
ACGTcount: A:0.30, C:0.03, G:0.05, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:20456404 original size:22 final size:22
Alignment explanation
Indices: 20456370--20456444 Score: 73
Period size: 22 Copynumber: 3.4 Consensus size: 22
20456360 CAGGTTTTTT
* *
20456370 TTTATTTTCTTTTTATTTTATGA
1 TTTATTTTATTTTTATTTT-TAA
20456393 TTT-TTTTATTTTTTATTTTTAA
1 TTTATTTTA-TTTTTATTTTTAA
* *
20456415 TTTAATTTATTTTTATTAATT-A
1 TTTATTTTATTTTTATT-TTTAA
20456437 TTTATTTT
1 TTTATTTT
20456445 TATTGAATAT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
22 25 0.57
23 19 0.43
ACGTcount: A:0.21, C:0.01, G:0.01, T:0.76
Consensus pattern (22 bp):
TTTATTTTATTTTTATTTTTAA
Found at i:20456409 original size:23 final size:23
Alignment explanation
Indices: 20456379--20456428 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
20456369 TTTTATTTTC
* *
20456379 TTTTTATTTTATGATTT-TTTTAT
1 TTTTTATTTT-TAATTTAATTTAT
20456402 TTTTTATTTTTAATTTAATTTAT
1 TTTTTATTTTTAATTTAATTTAT
20456425 TTTT
1 TTTT
20456429 ATTAATTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 5 0.21
23 19 0.79
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (23 bp):
TTTTTATTTTTAATTTAATTTAT
Found at i:20456412 original size:16 final size:15
Alignment explanation
Indices: 20456364--20456412 Score: 53
Period size: 17 Copynumber: 3.0 Consensus size: 15
20456354 GAAGCGCAGG
20456364 TTTTTTTTTATTTTCT
1 TTTTTTTTTATTTT-T
20456380 TTTTATTTTATGATTTTT
1 TTTT-TTTT-T-ATTTTT
*
20456398 TTATTTTTTATTTTT
1 TTTTTTTTTATTTTT
20456413 AATTTAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
15 6 0.21
16 5 0.17
17 8 0.28
18 5 0.17
19 5 0.17
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.84
Consensus pattern (15 bp):
TTTTTTTTTATTTTT
Found at i:20462228 original size:120 final size:120
Alignment explanation
Indices: 20462089--20462305 Score: 303
Period size: 120 Copynumber: 1.8 Consensus size: 120
20462079 TGGTCATTTC
* * * * *
20462089 ATCTTTTAGACTTATGATTTCGT-TCT-GGTTATCTAATCTCGACTCAATCTAGATCATTTTTTT
1 ATCTTTTAGACTCACGATTT--TATCTCGGTCATCCAATCTCGACTCAATCTAGATCATTTTTCT
**
20462152 GACTCGTAATTTTATCCTGGTGATTCATCTTTGACCTCAACTCGGTTTTGATTGCTT
64 GACTCGTAATTTTATCCCAGTGATTCATCTTTGACCTCAACTCGGTTTTGATTGCTT
* *
20462209 ATCTTTTAGACTCACGATTTTATCTCGGTCATCCGATCTCGGCTCAATCTAGATCATTTTTCTGA
1 ATCTTTTAGACTCACGATTTTATCTCGGTCATCCAATCTCGACTCAATCTAGATCATTTTTCTGA
* *
20462274 CTCGTGATTTTATCCCAGTGATTTATCTTTGA
66 CTCGTAATTTTATCCCAGTGATTCATCTTTGA
20462306 TATCGACTCA
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
118 1 0.01
119 3 0.04
120 80 0.95
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (120 bp):
ATCTTTTAGACTCACGATTTTATCTCGGTCATCCAATCTCGACTCAATCTAGATCATTTTTCTGA
CTCGTAATTTTATCCCAGTGATTCATCTTTGACCTCAACTCGGTTTTGATTGCTT
Found at i:20463760 original size:23 final size:23
Alignment explanation
Indices: 20463729--20463791 Score: 85
Period size: 23 Copynumber: 2.7 Consensus size: 23
20463719 TCCATTTTCT
20463729 TTTTAATTTTTGATTTTA-TTTA
1 TTTTAATTTTTGATTTTATTTTA
*
20463751 TTTTATATTTTT-AATTTATTTTA
1 TTTTA-ATTTTTGATTTTATTTTA
20463774 TTTTAATTTTTTGATTTT
1 TTTTAA-TTTTTGATTTT
20463792 TATTAATTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 11 0.31
23 20 0.57
24 4 0.11
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (23 bp):
TTTTAATTTTTGATTTTATTTTA
Found at i:20463806 original size:33 final size:33
Alignment explanation
Indices: 20463734--20463808 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
20463724 TTTCTTTTTA
*
20463734 ATTTTTGATTTTATTTATTTTATATTTTTAATTT
1 ATTTTT-ATTTTATTTATTTGATATTTTTAATTT
*
20463768 A-TTTTATTTTAATTT-TTTGATTTTTATTAA-TT
1 ATTTTTATTTT-ATTTATTTGATATTT-TTAATTT
20463800 ATTTTTATT
1 ATTTTTATT
20463809 GAATATTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
32 16 0.44
33 19 0.53
34 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (33 bp):
ATTTTTATTTTATTTATTTGATATTTTTAATTT
Found at i:20463877 original size:13 final size:13
Alignment explanation
Indices: 20463867--20463896 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
20463857 TCAAATAAGT
20463867 TAAAAAAATAAAA
1 TAAAAAAATAAAA
20463880 TAAAAAAATAAAA
1 TAAAAAAATAAAA
20463893 -AAAA
1 TAAAA
20463897 TCTTTTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (13 bp):
TAAAAAAATAAAA
Found at i:20467278 original size:18 final size:18
Alignment explanation
Indices: 20467252--20467289 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
20467242 GACAAGTTTA
20467252 ATATCATATATTTAAGCT
1 ATATCATATATTTAAGCT
*
20467270 ATATTATATATTTAAGCT
1 ATATCATATATTTAAGCT
20467288 AT
1 AT
20467290 CTAAATTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.08, G:0.05, T:0.47
Consensus pattern (18 bp):
ATATCATATATTTAAGCT
Found at i:20467416 original size:179 final size:179
Alignment explanation
Indices: 20467099--20467450 Score: 426
Period size: 179 Copynumber: 2.0 Consensus size: 179
20467089 TAATATAATG
* ** * * *
20467099 TATTTAAGTTATCTAAACTGTTAAAACATAAATATAATTGCAAATTTTCATTTTGACCTTTTAAC
1 TATTTAAGCTATCTAAACTGTTAAAACATAAATATAACCGAAAATTTACATTTTGACCTTTTAAA
* * * * *
20467164 GACATAAAAAGTGCTAAACATATAAAAACAGTAACTTTTTCACACATTTCAATCATGAAAACCAA
66 GACATAAAAAGTCCTAAACAAACAAAAACAATAACTTTTTCACACATATCAATCATGAAAACCAA
*
20467229 ATTCAATCATTTGGACAAGTTTAATATCATATATTTAAGCTATATTATA
131 ATTCAATCATTTGGACAAGTTTAATATCATATATTGAAGCTATATTATA
* * *
20467278 TATTTAAGCTATCTAAATTGTTAAAA-ATGAAATATAACCGAAAATTTACATTTTTATCTTTTAA
1 TATTTAAGCTATCTAAACTGTTAAAACAT-AAATATAACCGAAAATTTACATTTTGACCTTTTAA
* * **
20467342 TAG-CATAAAATA-TCCTAACCAAACATAAACAATAACTTTTTCACACATATCAATTGTGGAAAA
65 -AGACATAAAA-AGTCCTAAACAAACAAAAACAATAACTTTTTCACACATATCAATCAT-GAAAA
* * *
20467405 -GAACA-TCAATCATTTGGTCAAGTTTAATATCATGTATTGAAGCTAT
127 CCAA-ATTCAATCATTTGGACAAGTTTAATATCATATATTGAAGCTAT
20467451 CCAACCAATT
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
178 2 0.01
179 136 0.93
180 8 0.05
ACGTcount: A:0.42, C:0.14, G:0.08, T:0.36
Consensus pattern (179 bp):
TATTTAAGCTATCTAAACTGTTAAAACATAAATATAACCGAAAATTTACATTTTGACCTTTTAAA
GACATAAAAAGTCCTAAACAAACAAAAACAATAACTTTTTCACACATATCAATCATGAAAACCAA
ATTCAATCATTTGGACAAGTTTAATATCATATATTGAAGCTATATTATA
Found at i:20467646 original size:162 final size:162
Alignment explanation
Indices: 20467278--20469104 Score: 1417
Period size: 161 Copynumber: 11.4 Consensus size: 162
20467268 CTATATTATA
* * * * *
20467278 TATTTAAGCTATCTAAATTGTTAAAA-ATGAA-ATATAACCGAAAATTTACATTTTTATCTTTTA
1 TATTGAAGCTATCTAAACTGTTAAAATA-GAACA-ATAACTGCAAATTTACATTTTTACCTTTTA
* * * **
20467341 ATAGCATAAAATA-TCCTAACCAAACATAAACAATAACTTTTTCACACATATCAATTGTGGAAAA
64 ACAGCATAAAA-AGTCCTAAACAAACATAAACAGTAACTTTTTCACACATATCAACCGTGGAAAA
* ** ** *
20467405 -GAACATCAATCATTTGGTCAAGTTTAATATCATG
128 CCAAGTTCAATCATTCAGACAAGTTTAATATCATG
* * ** * * * *
20467439 TATTGAAGCTATCCAACCAATTAAGATGGAACAATAATTGCAAATTTGCATTTTTACCTTTTAAC
1 TATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTGCAAATTTACATTTTTACCTTTTAAC
* * * * *
20467504 AGCATAAAAAGTCCTAAATAGATATAAATAGTAACTTTTTCACACATATCAACCGTGGAAAATCA
66 AGCATAAAAAGTCCTAAACAAACATAAACAGTAACTTTTTCACACATATCAACCGTGGAAAACCA
*
20467569 AGTTCAATCATTCAGATAAGTTTAATATCATG
131 AGTTCAATCATTCAGACAAGTTTAATATCATG
* * * * *
20467601 TATTGAAACTATCCAAACTGTTAAAATAAAACAATAACAGCAAATTTACATTTTTGCCTTTTAAC
1 TATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTGCAAATTTACATTTTTACCTTTTAAC
* * * * * *
20467666 AACATAAAAGGTCTTAAATAAACATAAAC-GATAACTTTTTCACAC--ATCAATCATGG-AAACC
66 AGCATAAAAAGTCCTAAACAAACATAAACAG-TAACTTTTTCACACATATCAACCGTGGAAAACC
* * *
20467727 AAGTTCAATCATTC-GAACAATTTTAGTATAATG
130 AAGTTCAATCATTCAG-ACAAGTTTAATATCATG
* * * * *** * * *
20467760 TATTTAAGCTATATAAATTGTTAAAACT-GAA-ATATAACT-AAAACAAAACCTTTTTGCCCTTT
1 TATTGAAGCTATCTAAACTGTTAAAA-TAGAACA-ATAACTGCAAA-TTTACATTTTTACCTTTT
* * * * ***
20467822 AA-TGACA-CAAAAGTCATAAACAAACATAAA-TGATAACTTTTTTCACACATATCAATTATGGA
63 AACAG-CATAAAAAGTCCTAAACAAACATAAACAG-TAAC-TTTTTCACACATATCAACCGTGGA
* * *
20467884 AATA--AAGTTCAATCATTCAAACAAGTTTAGTATAATG
125 AA-ACCAAGTTCAATCATTCAGACAAGTTTAATATCATG
** * * * * **
20467921 TATTGCGGTTATCTAAATTGTTAAAATAGAACAATAACTGTAAACTTACATTTGTTATGTTTTAA
1 TATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTGCAAATTTACATTT-TTACCTTTTAA
* * ** *
20467986 CAGCATAAAAAAATCCTAAACAAATATAAACCA-TAACTTTTTCATGCATATCAACTGT-GAAAA
65 CAGCAT-AAAAAGTCCTAAACAAACATAAA-CAGTAACTTTTTCACACATATCAACCGTGGAAAA
* ** *
20468049 CCAAGTTCAATTATTTGGACAAGATTAATATCATG
128 CCAAGTTCAATCATTCAGACAAGTTTAATATCATG
* * * * * * *
20468084 TATTGAAGCTATTTAAACTATTAAAATAGTACAATAATTGTAAATTTATATTTTTATCTTTTAAC
1 TATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTGCAAATTTACATTTTTACCTTTTAAC
* * * ** * *
20468149 AGCATAAAAAAT-C---ATAGACATAAATTGTAACTTTTTCACACATATCAACTGT-GAAAACAA
66 AGCATAAAAAGTCCTAAACAAACATAAACAGTAACTTTTTCACACATATCAACCGTGGAAAACCA
* * *
20468209 AGTTCAATTATTTATACAAGTTTAATATCATG
131 AGTTCAATCATTCAGACAAGTTTAATATCATG
* * * * * * * *
20468241 TATTTAAGCTATCTATACTATTAAAATAGAACAATAACTGCAAACTTATATTTTTGCTTTTTAAT
1 TATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTGCAAATTTACATTTTTACCTTTTAAC
* ** * * * * *
20468306 TG--TACAAAAGTTTTAAACAGATATAAACCGTAACTTTTTCACACATATTAACCAT-GAAAACC
66 AGCATA-AAAAGTCCTAAACAAACATAAACAGTAACTTTTTCACACATATCAACCGTGGAAAACC
*
20468368 AAGTTCAATCATAT-AGACAAATTTAATATCATG
130 AAGTTCAATCAT-TCAGACAAGTTTAATATCATG
* * * * * * *
20468401 TGTTGAAGCTATCTAAATTGTTAAAATAGTATAATAACTACAAATTTACAATTTTGCCTTTTAAC
1 TATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTGCAAATTTACATTTTTACCTTTTAAC
* * * ** * * * *
20468466 AACACAAAAAGTCCTAAACATACATAAACCCTAACTTTTT-ATCATATATTAACCATGG-AAACA
66 AGCATAAAAAGTCCTAAACAAACATAAACAGTAACTTTTTCA-CACATATCAACCGTGGAAAACC
*
20468529 AAGTTCAATCATTCAAACAAGTTTAATATCATG
130 AAGTTCAATCATTCAGACAAGTTTAATATCATG
* * * * * **
20468562 TATTTAAGCTATCTAAACTGTTAAAACAGAACAATGATTGCAAATTTGCATTTTT-GTTATTTAA
1 TATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTGCAAATTTACATTTTTACCT-TTTAA
* * * * * ** * *
20468626 CAGCATAAAAAATCTTAAATAGATATAAATTGTAACTTTTTCACACATATCAATCGTGGAAAA-A
65 CAGCATAAAAAGTCCTAAACAAACATAAACAGTAACTTTTTCACACATATCAACCGTGGAAAACC
* * *
20468690 AAGTTAAATTATTCAAACAAGTTTAATATCATG
130 AAGTTCAATCATTCAGACAAGTTTAATATCATG
* * * * * * * * *
20468723 CATTGAAGCTATCTAAATTGTTAAAATAGAACAACAACTACAAACTTGCATTTTTTCTTTTTAAT
1 TATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTGCAAATTTACATTTTTACCTTTTAAC
* * * * * *
20468788 GGCACAAAAAGTCCTATATAGATACA-AACCA-TAAACTTTTTCACACATATCAATCGTGG-AAA
66 AGCATAAAAAGTCCTA-A-ACAAACATAAACAGT-AACTTTTTCACACATATCAACCGTGGAAAA
* ** * *
20468850 CCAAGTTTAATCATTTGGATAAATTTAATATCATG
128 CCAAGTTCAATCATTCAGACAAGTTTAATATCATG
* ** * * * * *
20468885 TATTGAAACTATCTAAACTACTAAAACAGAATAATAACTACAAATTTGCATTTTTACTTTTTAAC
1 TATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTGCAAATTTACATTTTTACCTTTTAAC
* * * * * *
20468950 GGCACAAAAAGTCTTAAACAAAAATAAACCGTAAC-TTTTCACACATATCAACTGTGG-AAACCA
66 AGCATAAAAAGTCCTAAACAAACATAAACAGTAACTTTTTCACACATATCAACCGTGGAAAACCA
* *
20469013 AGTTCAATCA-TCAGGACAAATTTAATATCATA
131 AGTTCAATCATTCA-GACAAGTTTAATATCATG
* * * * * * * * *
20469045 TATTAAAGCTATATAAATTGTTGAAACATAACAATAACTGCAATTTTGCATTTTTTCCTT
1 TATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTGCAAATTTACATTTTTACCTT
20469105 AAAATTTCAA
Statistics
Matches: 1342, Mismatches: 273, Indels: 103
0.78 0.16 0.06
Matches are distributed among these distances:
155 2 0.00
156 5 0.00
157 122 0.09
158 30 0.02
159 87 0.06
160 236 0.18
161 458 0.34
162 287 0.21
163 92 0.07
164 23 0.02
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (162 bp):
TATTGAAGCTATCTAAACTGTTAAAATAGAACAATAACTGCAAATTTACATTTTTACCTTTTAAC
AGCATAAAAAGTCCTAAACAAACATAAACAGTAACTTTTTCACACATATCAACCGTGGAAAACCA
AGTTCAATCATTCAGACAAGTTTAATATCATG
Found at i:20476013 original size:34 final size:34
Alignment explanation
Indices: 20475949--20476013 Score: 96
Period size: 34 Copynumber: 1.9 Consensus size: 34
20475939 TTCATGTGGG
**
20475949 AGTAAAACCTAACTTTCCAGGAACTTCTCATGGC
1 AGTAAAACCTAACTTTCCAGGAACCCCTCATGGC
20475983 AGTAAAATCC-AACTTTCCAGGAACCCCTCAT
1 AGTAAAA-CCTAACTTTCCAGGAACCCCTCAT
20476014 TTAAAAATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.25
Consensus pattern (34 bp):
AGTAAAACCTAACTTTCCAGGAACCCCTCATGGC
Found at i:20478091 original size:27 final size:29
Alignment explanation
Indices: 20478027--20478092 Score: 73
Period size: 32 Copynumber: 2.2 Consensus size: 29
20478017 TTCTTTATGG
*
20478027 CATGCTAGATTAGGACATACTAGAAAAATAAA
1 CATGCTAGATTAGGACATAC-ACAAAAAT--A
*
20478059 CATGCTAGATTAGGACATAC-CAAAACT-
1 CATGCTAGATTAGGACATACACAAAAATA
20478086 CATGCTA
1 CATGCTA
20478093 CATTTAAGCA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
27 7 0.22
30 5 0.16
32 20 0.62
ACGTcount: A:0.44, C:0.18, G:0.15, T:0.23
Consensus pattern (29 bp):
CATGCTAGATTAGGACATACACAAAAATA
Found at i:20482254 original size:19 final size:18
Alignment explanation
Indices: 20482232--20482267 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
20482222 ATTTTATATT
*
20482232 AATAATTATATTACATAAA
1 AATAATTA-ATTAAATAAA
20482251 AATAATTAATTAAATAA
1 AATAATTAATTAAATAA
20482268 TATATATGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
AATAATTAATTAAATAAA
Found at i:20483314 original size:18 final size:16
Alignment explanation
Indices: 20483281--20483314 Score: 50
Period size: 18 Copynumber: 2.0 Consensus size: 16
20483271 ATCATTTTAA
20483281 AATTTTTCAATAAAAT
1 AATTTTTCAATAAAAT
20483297 AATTTGTTCAAGTAAAAT
1 AATTT-TTCAA-TAAAAT
20483315 CTAAAACTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 5 0.31
18 6 0.38
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (16 bp):
AATTTTTCAATAAAAT
Found at i:20485124 original size:50 final size:50
Alignment explanation
Indices: 20485038--20485135 Score: 144
Period size: 50 Copynumber: 1.9 Consensus size: 50
20485028 TAACACTTTG
* *
20485038 AAAATATAAAAGGCTTCTCTCAACAGAGGCTCAACAACTTTTAAAAATATAA
1 AAAATATAAAA-GCTTCTCTCAACAGAAGCTCAACAA-TTTGAAAAATATAA
*
20485090 AAAATATAAAA-CTTCTCTCAACAGAAGCTTAACAATTTGAAAAATA
1 AAAATATAAAAGCTTCTCTCAACAGAAGCTCAACAATTTGAAAAATA
20485136 AAGGCTCTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 10 0.23
50 22 0.51
52 11 0.26
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (50 bp):
AAAATATAAAAGCTTCTCTCAACAGAAGCTCAACAATTTGAAAAATATAA
Found at i:20485171 original size:38 final size:38
Alignment explanation
Indices: 20485121--20485367 Score: 245
Period size: 38 Copynumber: 6.4 Consensus size: 38
20485111 CAGAAGCTTA
* * *
20485121 ACAA-TTTGAAAAATAAAGGCTCTTCCGAACATAGGCAC
1 ACAACTTT-AAAAATAAAGGCTCCTCCTAACAGAGGCAC
*
20485159 ACAACTTTAAAAA-AAAGGGCTCCTCCTAACAGAAGCAC
1 ACAACTTTAAAAATAAA-GGCTCCTCCTAACAGAGGCAC
* *
20485197 ACAACTTTAAAAAT-AAGAGCTCCTCTATAACAAAGGCAC
1 ACAACTTTAAAAATAAAG-GCTCCTC-CTAACAGAGGCAC
** * * *
20485236 ATGACTTTTAAAAAT-AAGG-TCCCTCATGATAGAGGCAC
1 ACAAC-TTTAAAAATAAAGGCT-CCTCCTAACAGAGGCAC
*
20485274 ACAACTTTAAAAAT-AAGAGCTCCTCTTAACAGAGGCAC
1 ACAACTTTAAAAATAAAG-GCTCCTCCTAACAGAGGCAC
* *
20485312 ACAACTTTTAAAAATAAAGGTTCCTCCTAATAGAGGCAC
1 ACAAC-TTTAAAAATAAAGGCTCCTCCTAACAGAGGCAC
*
20485351 ATAACTTTAAAAATAAA
1 ACAACTTTAAAAATAAA
20485368 TAAACACTTA
Statistics
Matches: 177, Mismatches: 21, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
37 16 0.09
38 94 0.53
39 52 0.29
40 15 0.08
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.22
Consensus pattern (38 bp):
ACAACTTTAAAAATAAAGGCTCCTCCTAACAGAGGCAC
Found at i:20485234 original size:77 final size:77
Alignment explanation
Indices: 20485148--20485366 Score: 291
Period size: 77 Copynumber: 2.9 Consensus size: 77
20485138 GGCTCTTCCG
* * *
20485148 AACATAGGCACACAAC-TTTAAAAAAAAGGGCTCCTCCTAACAGAAGCACACAACTTTAAAAATA
1 AACAAAGGCACACAACTTTTAAAAAAAAGGGCTCCTCCTAATAGAGGCACACAACTTTAAAAATA
20485212 AGAGCTCCTCTAT
66 AGAGCTCCTCT-T
** * * * *
20485225 AACAAAGGCACATGACTTTTAAAAATAAGGTC-CCTCATGATAGAGGCACACAACTTTAAAAATA
1 AACAAAGGCACACAACTTTTAAAAAAAAGGGCTCCTCCTAATAGAGGCACACAACTTTAAAAATA
20485289 AGAGCTCCTCTT
66 AGAGCTCCTCTT
* * *
20485301 AACAGAGGCACACAACTTTTAAAAATAAA-GGTTCCTCCTAATAGAGGCACATAACTTTAAAAAT
1 AACAAAGGCACACAACTTTTAAAAA-AAAGGGCTCCTCCTAATAGAGGCACACAACTTTAAAAAT
20485365 AA
65 AA
20485367 ATAAACACTT
Statistics
Matches: 121, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
76 24 0.20
77 84 0.69
78 13 0.11
ACGTcount: A:0.44, C:0.21, G:0.13, T:0.22
Consensus pattern (77 bp):
AACAAAGGCACACAACTTTTAAAAAAAAGGGCTCCTCCTAATAGAGGCACACAACTTTAAAAATA
AGAGCTCCTCTT
Found at i:20485296 original size:115 final size:114
Alignment explanation
Indices: 20485153--20485366 Score: 306
Period size: 115 Copynumber: 1.9 Consensus size: 114
20485143 TTCCGAACAT
*
20485153 AGGCACACAACTTTAAAAAAAAGGGCTCCTCCTAACAGAAGCACACAAC-TTTAAAAAT-AAGAG
1 AGGCACACAACTTTAAAAAAAAGAGCTCCTCCTAACAGAAGCACACAACTTTTAAAAATAAAG-G
*
20485216 CTCCTCTATAACAAAGGCACATGACTTTTAAAAATAAGGTCCCTCATGATAG
65 CTCCTC-ATAACAAAGGCACATAAC-TTTAAAAATAAGGTCCCTCATGATAG
* * * *
20485268 AGGCACACAACTTTAAAAATAAGAGCTCCTCTTAACAGAGGCACACAACTTTTAAAAATAAAGGT
1 AGGCACACAACTTTAAAAAAAAGAGCTCCTCCTAACAGAAGCACACAACTTTTAAAAATAAAGGC
* * *
20485333 TCCTCCTAATAGAGGCACATAACTTTAAAAATAA
66 TCCTCATAACAAAGGCACATAACTTTAAAAATAA
20485367 ATAAACACTT
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
114 11 0.12
115 59 0.67
116 15 0.17
117 3 0.03
ACGTcount: A:0.43, C:0.21, G:0.13, T:0.22
Consensus pattern (114 bp):
AGGCACACAACTTTAAAAAAAAGAGCTCCTCCTAACAGAAGCACACAACTTTTAAAAATAAAGGC
TCCTCATAACAAAGGCACATAACTTTAAAAATAAGGTCCCTCATGATAG
Found at i:20499206 original size:27 final size:26
Alignment explanation
Indices: 20499145--20499206 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
20499135 TAGTTTATTT
20499145 TTATTATTAAAATATTAAAAAGTATA
1 TTATTATTAAAATATTAAAAAGTATA
*
20499171 -TATAATTAAAATTAATTAAAAA-TATA
1 TTATTATTAAAA-T-ATTAAAAAGTATA
*
20499197 TTATTTTTAA
1 TTATTATTAA
20499207 GTCTAGTCGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 10 0.33
26 5 0.17
27 15 0.50
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
TTATTATTAAAATATTAAAAAGTATA
Found at i:20499819 original size:19 final size:19
Alignment explanation
Indices: 20499795--20499832 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
20499785 CCAAACTAAC
*
20499795 ATGAAATGTATAGTACATG
1 ATGAAATATATAGTACATG
20499814 ATGAAATATATAGTACATG
1 ATGAAATATATAGTACATG
20499833 GTACATTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.18, T:0.32
Consensus pattern (19 bp):
ATGAAATATATAGTACATG
Found at i:20504440 original size:13 final size:13
Alignment explanation
Indices: 20504422--20504458 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
20504412 AAATGAACAT
20504422 AAAAACAAAAAAC
1 AAAAACAAAAAAC
20504435 AAAAAC-AAAAAC
1 AAAAACAAAAAAC
20504447 ATAAAA-AAAAAA
1 A-AAAACAAAAAA
20504459 AGGAGAAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.86, C:0.11, G:0.00, T:0.03
Consensus pattern (13 bp):
AAAAACAAAAAAC
Found at i:20504451 original size:27 final size:27
Alignment explanation
Indices: 20504407--20504459 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 27
20504397 TGTAGAAATC
20504407 AAAACAAATGAACATAAAAACAAAAAACA
1 AAAACAAA-GAACATAAAAA-AAAAAACA
20504436 AAAACAAA-AACATAAAAAAAAAAA
1 AAAACAAAGAACATAAAAAAAAAAA
20504460 GGAGAAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 6 0.25
27 10 0.42
29 8 0.33
ACGTcount: A:0.81, C:0.11, G:0.02, T:0.06
Consensus pattern (27 bp):
AAAACAAAGAACATAAAAAAAAAAACA
Found at i:20510603 original size:115 final size:113
Alignment explanation
Indices: 20510364--20510696 Score: 281
Period size: 115 Copynumber: 3.0 Consensus size: 113
20510354 AAAAAATGTG
* * * * * *
20510364 ATTTTTGTT-AAAAGTATGAAAAAAAA-A---TTCAAAATTCAACATAAACAACGTTTTTAAGAT
1 ATTTTTGTTGAAAA-TATGAAAAAAAATACTTTTCAAAATTAAAAAAAAAGAACATTTCTAAGAT
* * * * * *
20510424 AAAAATGCAATCTTTGTTGAAAAAAGCCACATTTT-TAAGACAAAAGCA-T
65 AAAAAAGCAATATTTGTTGAAAAAA-CAAC-TTTTCTAAGATAAAAACACA
* * * * *
20510473 AGTCTTGTTGTAAATAT-AAAATAAAATATTTTTCAGAATTAAAAACAAAAGAA-ATTTCTAAGA
1 ATTTTTGTTGAAAATATGAAAA-AAAATACTTTTCAAAATTAAAAA-AAAAGAACATTTCTAAGA
*
20510536 TAAAAAAGCATAGTATTTGTTGAAAAAACAACGTTTT-TATGATAAAAACACA
64 TAAAAAAGCA-A-TATTTGTTGAAAAAACAAC-TTTTCTAAGATAAAAACACA
* * * * *
20510588 ATTTTTGTTGAAAATATGAAAAAATATACTTTTCAAAATTCAAGAAAAATAACGTTTCTAAGATA
1 ATTTTTGTTGAAAATATGAAAAAAAATACTTTTCAAAATTAAAAAAAAAGAACATTTCTAAGATA
* * * *
20510653 AAAATGCAATCTTTGTTGAAAATATAACTTTTCTAAGATAAAAA
66 AAAAAGCAATATTTGTTGAAAAAACAACTTTTCTAAGATAAAAA
20510697 ATATAGTTTT
Statistics
Matches: 178, Mismatches: 33, Indels: 22
0.76 0.14 0.09
Matches are distributed among these distances:
108 4 0.02
109 14 0.08
110 4 0.02
112 4 0.02
113 54 0.30
114 30 0.17
115 64 0.36
116 4 0.02
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.32
Consensus pattern (113 bp):
ATTTTTGTTGAAAATATGAAAAAAAATACTTTTCAAAATTAAAAAAAAAGAACATTTCTAAGATA
AAAAAGCAATATTTGTTGAAAAAACAACTTTTCTAAGATAAAAACACA
Found at i:20510749 original size:113 final size:111
Alignment explanation
Indices: 20510391--20510758 Score: 350
Period size: 113 Copynumber: 3.2 Consensus size: 111
20510381 GAAAAAAAAA
* * * *
20510391 TTCAAAATTCAACATAAACAACGTTTTTAAGATAAAAATGCAATCTTTGTTGAAAAAAGCCACAT
1 TTCAAAATTCAACAAAAATAACGTTTCTAAGATAAAAATGCAATCTTTGTTGAAAAAA-CAACAT
* * * * **
20510456 TTTTAAGA-CAAAAGCATAGTCTTGTTGTAAATATAAAATAAAATATTT
65 TTTTAAGATAAAAAACATAGT-TTTTTGAAAATATTGAA-AAAATATTT
* * * * * * *
20510504 TTCAGAATTAAAAACAAAAGAA-ATTTCTAAGATAAAAAAGCATAGTATTTGTTGAAAAAACAAC
1 TTCAAAATTCAACA-AAAATAACGTTTCTAAGATAAAAATGCA-A-TCTTTGTTGAAAAAACAAC
* * *
20510568 GTTTTTATGATAAAAACACA-ATTTTTGTTGAAAATA-TGAAAAAATATACTT
63 ATTTTTAAGATAAAAA-ACATAGTTTT-TTGAAAATATTGAAAAAATAT--TT
* * *
20510619 TTCAAAATTCAAGAAAAATAACGTTTCTAAGATAAAAATGCAATCTTTGTTGAAAATATAAC-TT
1 TTCAAAATTCAACAAAAATAACGTTTCTAAGATAAAAATGCAATCTTTGTTGAAAAAACAACATT
*
20510683 TTCTAAGATAAAAAATATAGTTTTTAATGAAAATATTGAAAAAATATTT
66 TT-TAAGATAAAAAACATAGTTTTT--TGAAAATATTGAAAAAATATTT
* *
20510732 TTTAAAATTCAACAAAAATAATGTTTC
1 TTCAAAATTCAACAAAAATAACGTTTC
20510759 CACAATAAAA
Statistics
Matches: 207, Mismatches: 34, Indels: 28
0.77 0.13 0.10
Matches are distributed among these distances:
112 7 0.03
113 92 0.44
114 36 0.17
115 70 0.34
116 2 0.01
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (111 bp):
TTCAAAATTCAACAAAAATAACGTTTCTAAGATAAAAATGCAATCTTTGTTGAAAAAACAACATT
TTTAAGATAAAAAACATAGTTTTTTGAAAATATTGAAAAAATATTT
Found at i:20519030 original size:33 final size:34
Alignment explanation
Indices: 20518918--20519059 Score: 106
Period size: 34 Copynumber: 4.2 Consensus size: 34
20518908 TTTTTTTTAT
* * * *
20518918 AAAATGCCACTATTTTAGTAGCATTTGTATATGA
1 AAAATGCCACTATTTTAGCAACATTTGTATCTAA
** * * *
20518952 AAAATGTTACTATTTTAACGACGTTTGTATCTAA
1 AAAATGCCACTATTTTAGCAACATTTGTATCTAA
** * *
20518986 AAAATATCACTATTTTAGCAATATTTATATCT-A
1 AAAATGCCACTATTTTAGCAACATTTGTATCTAA
* *** * *
20519019 AAAATGCCACTAATTTAGTGGCTTTTGTATCAAA
1 AAAATGCCACTATTTTAGCAACATTTGTATCTAA
20519053 AAAATGC
1 AAAATGC
20519060 TACTGATATG
Statistics
Matches: 81, Mismatches: 26, Indels: 2
0.74 0.24 0.02
Matches are distributed among these distances:
33 23 0.28
34 58 0.72
ACGTcount: A:0.38, C:0.13, G:0.11, T:0.38
Consensus pattern (34 bp):
AAAATGCCACTATTTTAGCAACATTTGTATCTAA
Found at i:20520593 original size:19 final size:19
Alignment explanation
Indices: 20520569--20520619 Score: 93
Period size: 19 Copynumber: 2.7 Consensus size: 19
20520559 AGCATGGATT
20520569 AAAGCCATCCAAACTGCTA
1 AAAGCCATCCAAACTGCTA
20520588 AAAGCCATCCAAACTGCTA
1 AAAGCCATCCAAACTGCTA
*
20520607 AAAACCATCCAAA
1 AAAGCCATCCAAA
20520620 AGTTTTAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.47, C:0.31, G:0.08, T:0.14
Consensus pattern (19 bp):
AAAGCCATCCAAACTGCTA
Found at i:20527406 original size:3 final size:3
Alignment explanation
Indices: 20527398--20527455 Score: 57
Period size: 3 Copynumber: 20.0 Consensus size: 3
20527388 TAAATGCATA
* * * *
20527398 AAT AAT AAT AAT AAT AAT AAT AAT AAT TAG AAT AAC AAA AAT AAT -AT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
20527445 AA- AAA AAT AAT
1 AAT AAT AAT AAT
20527456 TCAAAAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
2 4 0.09
3 41 0.91
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:20528434 original size:15 final size:15
Alignment explanation
Indices: 20528409--20528457 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
20528399 AAGGAAAAAG
*
20528409 AAAAAGGAAAAAG-A
1 AAAAAGAAAAAAGAA
20528423 AAAAAGAAAAAAGAA
1 AAAAAGAAAAAAGAA
* *
20528438 AGAAAGAAGAAAGAA
1 AAAAAGAAAAAAGAA
20528453 AAAAA
1 AAAAA
20528458 ATAGAAAACA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 12 0.40
15 18 0.60
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAAAGAA
Found at i:20528441 original size:4 final size:4
Alignment explanation
Indices: 20528418--20528453 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
20528408 GAAAAAGGAA
20528418 AAAG AAA- AAAG AAA- AAAG AAAG AAAG -AAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
20528454 AAAAATAGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
3 9 0.31
4 20 0.69
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:20528441 original size:11 final size:11
Alignment explanation
Indices: 20528405--20528465 Score: 65
Period size: 11 Copynumber: 5.7 Consensus size: 11
20528395 GGATAAGGAA
*
20528405 AAAGAAAAAGG
1 AAAGAAAAAAG
*
20528416 AAA-AAGAAA-
1 AAAGAAAAAAG
20528425 AAAGAAAAAAG
1 AAAGAAAAAAG
*
20528436 AAAGAAAGAAG
1 AAAGAAAAAAG
20528447 AAAGAAAAAA-
1 AAAGAAAAAAG
20528457 AATAGAAAA
1 AA-AGAAAA
20528466 CAAAAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
9 3 0.07
10 11 0.26
11 28 0.67
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (11 bp):
AAAGAAAAAAG
Found at i:20528443 original size:22 final size:21
Alignment explanation
Indices: 20528404--20528476 Score: 66
Period size: 22 Copynumber: 3.5 Consensus size: 21
20528394 CGGATAAGGA
*
20528404 AAAAG-AAAAAGGAA-AAAGAA
1 AAAAGAAAAAAGAAAGAAAG-A
20528424 AAAAGAAAAAAGAAAGAAAGA
1 AAAAGAAAAAAGAAAGAAAGA
20528445 AGAAAGAAAAAA-AATAGAAA-A
1 A-AAAGAAAAAAGAA-AGAAAGA
20528466 CAAAA-AAAAAA
1 -AAAAGAAAAAA
20528477 TATATTAAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
20 11 0.23
21 16 0.34
22 20 0.43
ACGTcount: A:0.82, C:0.01, G:0.15, T:0.01
Consensus pattern (21 bp):
AAAAGAAAAAAGAAAGAAAGA
Found at i:20528463 original size:15 final size:14
Alignment explanation
Indices: 20528405--20528474 Score: 56
Period size: 15 Copynumber: 4.9 Consensus size: 14
20528395 GGATAAGGAA
**
20528405 AAAGAAAAAGGAA-
1 AAAGAAAAAAAAAG
20528418 AAAGAAAAAAGAAA-
1 AAAGAAAAAA-AAAG
*
20528432 AAAGAAAGAAAGAAG
1 AAAGAAA-AAAAAAG
20528447 AAAGAAAAAAAATAG
1 AAAGAAAAAAAA-AG
20528462 AAA-ACAAAAAAAA
1 AAAGA-AAAAAAAA
20528475 AATATATTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
13 9 0.19
14 17 0.35
15 22 0.46
ACGTcount: A:0.81, C:0.01, G:0.16, T:0.01
Consensus pattern (14 bp):
AAAGAAAAAAAAAG
Found at i:20528472 original size:7 final size:7
Alignment explanation
Indices: 20528403--20528456 Score: 74
Period size: 7 Copynumber: 7.7 Consensus size: 7
20528393 CCGGATAAGG
20528403 AAAAAG-
1 AAAAAGA
*
20528409 AAAAAGG
1 AAAAAGA
20528416 AAAAAGA
1 AAAAAGA
20528423 AAAAAGA
1 AAAAAGA
20528430 AAAAAGA
1 AAAAAGA
20528437 AAGAAAGA
1 AA-AAAGA
*
20528445 AGAAAGA
1 AAAAAGA
20528452 AAAAA
1 AAAAA
20528457 AATAGAAAAC
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
6 6 0.14
7 31 0.72
8 6 0.14
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:20528862 original size:49 final size:49
Alignment explanation
Indices: 20528683--20529015 Score: 350
Period size: 49 Copynumber: 6.8 Consensus size: 49
20528673 TTGAAAATTT
* * *
20528683 AAAAGGCTCCTCTTAGCAGAGACTCAACAACTTTAAAAATT-TCA-TATGA
1 AAAA-GCTCCTCTTAGCAGAGGCTCAACAACTTT-AAAATTCTCATTTTGG
* * ** * * *
20528732 AAAAGCTCATTTTAATAGAGGCTCAACAACTTTAAGAATCTTTTATCTTGG
1 AAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTAA-AAT-TCTCATTTTGG
* * * * * *
20528783 AAAAGCTCCTCTCAGCAAAAGCTCAGCAACTTTAAAATTCTCGTTTTAG
1 AAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTCTCATTTTGG
* *
20528832 AAAAGCTCCTCTTAGCAGAGGCTCCACAACTTTAAAATTCTCATCTTGG
1 AAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTCTCATTTTGG
* * *
20528881 AAAAGCTCCTCTCAGCAGAAGCTCAACAACTTTAAAATT-TCA-TATGG
1 AAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTCTCATTTTGG
* * *
20528928 AAAAGCTCCTCTTAGCAAAGGCTCGACAACTTTAAAATTCTCATCTTGG
1 AAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTCTCATTTTGG
* * * *
20528977 AAAAGCTCATCTCAACAGAGGCTCAATAACTTTAAAATT
1 AAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATT
20529016 TTTTCATCTA
Statistics
Matches: 231, Mismatches: 47, Indels: 12
0.80 0.16 0.04
Matches are distributed among these distances:
47 40 0.17
48 33 0.14
49 124 0.54
50 5 0.02
51 29 0.13
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (49 bp):
AAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTCTCATTTTGG
Found at i:20528960 original size:145 final size:146
Alignment explanation
Indices: 20528683--20529016 Score: 397
Period size: 145 Copynumber: 2.3 Consensus size: 146
20528673 TTGAAAATTT
* * * *
20528683 AAAAGGCTCCTCTTAGCAGAGACTCAACAACTTTAAAAATTTCATATGAAAAAGCTCATTTTAAT
1 AAAA-GCTCCTCTTAGCAGAGGCTCAACAACTTT-AAAATTTCATATGAAAAAGCTCATCTCAAC
* * *
20528748 AGAGGCTCAACAACTTTAAGAATCTTTTATCTTGGAAAAGCTCCTCTCAGCAAAAGCTCAGCAAC
64 AGAAGCTCAACAACTTTAAGAA-CTTTCATCATGGAAAAGCTCCTCTCAGCAAAAGCTCAGCAAC
* *
20528813 TTTAAAATTCTCGTTTTAG
128 TTTAAAATTCTCATCTTAG
* * * * *
20528832 AAAAGCTCCTCTTAGCAGAGGCTCCACAACTTTAAAATTCTCATCTTGGAAAAGCTCCTCTCAGC
1 AAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATT-TCAT-ATGAAAAAGCTCATCTCAAC
* *
20528897 AGAAGCTCAACAACTTTAA-AA-TTTCAT-ATGGAAAAGCTCCTCTTAGCAAAGGCTC-GACAAC
64 AGAAGCTCAACAACTTTAAGAACTTTCATCATGGAAAAGCTCCTCTCAGCAAAAGCTCAG-CAAC
*
20528958 TTTAAAATTCTCATCTTGG
128 TTTAAAATTCTCATCTTAG
* * * *
20528977 AAAAGCTCATCTCAACAGAGGCTCAATAACTTTAAAATTT
1 AAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTT
20529017 TTTCATCTAT
Statistics
Matches: 160, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
144 2 0.01
145 79 0.49
146 5 0.03
147 6 0.04
148 33 0.21
149 35 0.22
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (146 bp):
AAAAGCTCCTCTTAGCAGAGGCTCAACAACTTTAAAATTTCATATGAAAAAGCTCATCTCAACAG
AAGCTCAACAACTTTAAGAACTTTCATCATGGAAAAGCTCCTCTCAGCAAAAGCTCAGCAACTTT
AAAATTCTCATCTTAG
Found at i:20528972 original size:96 final size:96
Alignment explanation
Indices: 20528683--20529016 Score: 418
Period size: 96 Copynumber: 3.4 Consensus size: 96
20528673 TTGAAAATTT
* * * * *
20528683 AAAAGGCTCCTCTTAGCAG-AGACTCAACAACTTTAAAAATTTCATATGAAAAAGCTCATTTTAA
1 AAAA-GCTCCTCTCAGCAGAAG-CTCAACAACTTT-AAAATTTCATATGGAAAAGCTCCTCTTAG
* * *
20528747 TAGAGGCTCAACAACTTTAAGAATCTTTTATCTTGG
63 CAGAGGCTCAACAACTTTAA-AAT-TCTCATCTTGG
* * * * *
20528783 AAAAGCTCCTCTCAGCAAAAGCTCAGCAACTTTAAAATTCTCGTTTTAGAAAAGCTCCTCTTAGC
1 AAAAGCTCCTCTCAGCAGAAGCTCAACAACTTTAAAATT-TC-ATATGGAAAAGCTCCTCTTAGC
*
20528848 AGAGGCTCCACAACTTTAAAATTCTCATCTTGG
64 AGAGGCTCAACAACTTTAAAATTCTCATCTTGG
*
20528881 AAAAGCTCCTCTCAGCAGAAGCTCAACAACTTTAAAATTTCATATGGAAAAGCTCCTCTTAGCAA
1 AAAAGCTCCTCTCAGCAGAAGCTCAACAACTTTAAAATTTCATATGGAAAAGCTCCTCTTAGCAG
*
20528946 AGGCTCGACAACTTTAAAATTCTCATCTTGG
66 AGGCTCAACAACTTTAAAATTCTCATCTTGG
* * * *
20528977 AAAAGCTCATCTCAACAGAGGCTCAATAACTTTAAAATTT
1 AAAAGCTCCTCTCAGCAGAAGCTCAACAACTTTAAAATTT
20529017 TTTCATCTAT
Statistics
Matches: 206, Mismatches: 25, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
96 86 0.42
97 2 0.01
98 52 0.25
99 28 0.14
100 38 0.18
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (96 bp):
AAAAGCTCCTCTCAGCAGAAGCTCAACAACTTTAAAATTTCATATGGAAAAGCTCCTCTTAGCAG
AGGCTCAACAACTTTAAAATTCTCATCTTGG
Found at i:20532395 original size:15 final size:15
Alignment explanation
Indices: 20532346--20532395 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
20532336 AATATAAAAC
20532346 AAAATAAAAGTAAAAGT
1 AAAAT-AAAG-AAAAGT
*
20532363 -AAATAAAGAAGAA-A
1 AAAATAAAGAA-AAGT
20532377 AAAATAAAGAAAAGT
1 AAAATAAAGAAAAGT
20532392 AAAA
1 AAAA
20532396 CAAAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
14 4 0.14
15 20 0.71
16 4 0.14
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (15 bp):
AAAATAAAGAAAAGT
Found at i:20532406 original size:29 final size:31
Alignment explanation
Indices: 20532346--20532407 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 31
20532336 AATATAAAAC
*
20532346 AAAATAAAAGTAAAAGTAAATAAAGAAGAAA
1 AAAATAAAAGTAAAAGTAAATAAAAAAGAAA
*
20532377 AAAAT-AAAG-AAAAGTAAA-ACAAAAATAAA
1 AAAATAAAAGTAAAAGTAAATA-AAAAAGAAA
20532406 AA
1 AA
20532408 TAAGGTAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 1 0.04
29 18 0.64
30 4 0.14
31 5 0.18
ACGTcount: A:0.77, C:0.02, G:0.10, T:0.11
Consensus pattern (31 bp):
AAAATAAAAGTAAAAGTAAATAAAAAAGAAA
Found at i:20532462 original size:8 final size:8
Alignment explanation
Indices: 20532449--20532508 Score: 50
Period size: 8 Copynumber: 7.2 Consensus size: 8
20532439 CTAATCTAAT
20532449 AAATAAAA
1 AAATAAAA
20532457 AAATAAAA
1 AAATAAAA
* *
20532465 AAACAAAT
1 AAATAAAA
* *
20532473 AAACAAAT
1 AAATAAAA
20532481 AAATGAAAA
1 AAAT-AAAA
20532490 AAATTCAAAA
1 AAA-T-AAAA
20532500 AAA-AAAA
1 AAATAAAA
20532507 AA
1 AA
20532509 CCTGGAGCGG
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
7 6 0.13
8 25 0.56
9 6 0.13
10 8 0.18
ACGTcount: A:0.82, C:0.05, G:0.02, T:0.12
Consensus pattern (8 bp):
AAATAAAA
Found at i:20532463 original size:12 final size:12
Alignment explanation
Indices: 20532446--20532493 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
20532436 AATCTAATCT
20532446 AATAAATAAAA-A
1 AATAAA-AAAATA
*
20532458 AATAAAAAAACA
1 AATAAAAAAATA
*
20532470 AATAAACAAATA
1 AATAAAAAAATA
20532482 AATGAAAAAAAT
1 AAT-AAAAAAAT
20532494 TCAAAAAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
11 4 0.13
12 20 0.65
13 7 0.23
ACGTcount: A:0.79, C:0.04, G:0.02, T:0.15
Consensus pattern (12 bp):
AATAAAAAAATA
Found at i:20533429 original size:32 final size:31
Alignment explanation
Indices: 20533388--20533452 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 31
20533378 GATAAAATCG
*
20533388 AAAAAAACAGATATATTA-TAGGATAAATAAA
1 AAAAAAACAGATATATAATTA-GATAAATAAA
*
20533419 AAAAATAACAGATATGTAATTAGATAAATAAA
1 AAAAA-AACAGATATATAATTAGATAAATAAA
20533451 AA
1 AA
20533453 TACAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
31 5 0.17
32 23 0.77
33 2 0.07
ACGTcount: A:0.65, C:0.03, G:0.09, T:0.23
Consensus pattern (31 bp):
AAAAAAACAGATATATAATTAGATAAATAAA
Found at i:20533463 original size:12 final size:13
Alignment explanation
Indices: 20533448--20533495 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
20533438 TTAGATAAAT
*
20533448 AAAAATACAA-AA
1 AAAAATAAAATAA
20533460 AAAAATAAAATAA
1 AAAAATAAAATAA
*
20533473 AAAAATAATAATAT
1 AAAAATAA-AATAA
*
20533487 AATAATAAA
1 AAAAATAAA
20533496 TATATAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
12 9 0.29
13 11 0.35
14 11 0.35
ACGTcount: A:0.79, C:0.02, G:0.00, T:0.19
Consensus pattern (13 bp):
AAAAATAAAATAA
Found at i:20533477 original size:16 final size:16
Alignment explanation
Indices: 20533444--20533488 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
20533434 GTAATTAGAT
20533444 AAATAAAAATACAAAAAA
1 AAAT-AAAATA-AAAAAA
20533462 AAATAAAATAAAAAAA
1 AAATAAAATAAAAAAA
* *
20533478 TAATAATATAA
1 AAATAAAATAA
20533489 TAATAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 15 0.60
17 6 0.24
18 4 0.16
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.18
Consensus pattern (16 bp):
AAATAAAATAAAAAAA
Found at i:20533523 original size:23 final size:22
Alignment explanation
Indices: 20533483--20533525 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
20533473 AAAAATAATA
*
20533483 ATATAATAATAAATATATAACT
1 ATATAATAATAAACATATAACT
*
20533505 ATATAAATAATATACATATAA
1 ATAT-AATAATAAACATATAA
20533526 ATCTATTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (22 bp):
ATATAATAATAAACATATAACT
Found at i:20533525 original size:15 final size:15
Alignment explanation
Indices: 20533479--20533527 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 15
20533469 ATAAAAAAAT
20533479 AATAATATA-ATAATA
1 AATAATATACAT-ATA
20533494 AAT-ATATAACTATATA
1 AATAATAT-AC-ATATA
20533510 AATAATATACATATA
1 AATAATATACATATA
20533525 AAT
1 AAT
20533528 CTATTCTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
14 4 0.13
15 12 0.40
16 8 0.27
17 6 0.20
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATATACATATA
Found at i:20533579 original size:12 final size:12
Alignment explanation
Indices: 20533562--20533610 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
20533552 AAATACAGAT
*
20533562 ATACATATATTA
1 ATACATATAATA
20533574 ATACATAATAATA
1 ATACAT-ATAATA
* *
20533587 ATAAATATAAAA
1 ATACATATAATA
*
20533599 ATACATAAAATA
1 ATACATATAATA
20533611 CAAAAGAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
12 20 0.67
13 10 0.33
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (12 bp):
ATACATATAATA
Found at i:20533816 original size:25 final size:24
Alignment explanation
Indices: 20533788--20533860 Score: 94
Period size: 24 Copynumber: 3.0 Consensus size: 24
20533778 CAACATTGTC
*
20533788 ATTTTTTTACTTTTTTTTTGTTTTT
1 ATTTTTTT-GTTTTTTTTTGTTTTT
20533813 ATTTTTTTGTTTTTTTGTT-TTTTT
1 ATTTTTTTGTTTTTTT-TTGTTTTT
* *
20533837 TTTTTTTTGTTTTTTTTGGTTTTT
1 ATTTTTTTGTTTTTTTTTGTTTTT
20533861 GACCAAAGCT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
23 1 0.02
24 32 0.74
25 10 0.23
ACGTcount: A:0.04, C:0.01, G:0.08, T:0.86
Consensus pattern (24 bp):
ATTTTTTTGTTTTTTTTTGTTTTT
Found at i:20533817 original size:16 final size:16
Alignment explanation
Indices: 20533791--20533860 Score: 79
Period size: 16 Copynumber: 4.3 Consensus size: 16
20533781 CATTGTCATT
20533791 TTTTTACTTTTTTTTTG
1 TTTTTA-TTTTTTTTTG
20533808 TTTTTATTTTTTTGTT-
1 TTTTTATTTTTTT-TTG
* *
20533824 TTTTTGTTTTTTTTTT
1 TTTTTATTTTTTTTTG
* *
20533840 TTTTTGTTTTTTTTGG
1 TTTTTATTTTTTTTTG
20533856 TTTTT
1 TTTTT
20533861 GACCAAAGCT
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
15 2 0.04
16 38 0.79
17 8 0.17
ACGTcount: A:0.03, C:0.01, G:0.09, T:0.87
Consensus pattern (16 bp):
TTTTTATTTTTTTTTG
Found at i:20533853 original size:9 final size:9
Alignment explanation
Indices: 20533814--20533860 Score: 64
Period size: 8 Copynumber: 5.4 Consensus size: 9
20533804 TTTGTTTTTA
20533814 TTTTTTTG-
1 TTTTTTTGT
20533822 TTTTTTTG-
1 TTTTTTTGT
20533830 TTTTTTT-T
1 TTTTTTTGT
20533838 TTTTTTTGT
1 TTTTTTTGT
20533847 TTTTTTTGGT
1 TTTTTTT-GT
20533857 TTTT
1 TTTT
20533861 GACCAAAGCT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
8 22 0.61
9 8 0.22
10 6 0.17
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (9 bp):
TTTTTTTGT
Found at i:20533860 original size:1 final size:1
Alignment explanation
Indices: 20533798--20533853 Score: 67
Period size: 1 Copynumber: 56.0 Consensus size: 1
20533788 ATTTTTTTAC
* * * * *
20533798 TTTTTTTTTGTTTTTATTTTTTTGTTTTTTTGTTTTTTTTTTTTTTTGTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
20533854 GGTTTTTGAC
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:20533860 original size:8 final size:8
Alignment explanation
Indices: 20533798--20533852 Score: 76
Period size: 8 Copynumber: 6.9 Consensus size: 8
20533788 ATTTTTTTAC
20533798 TTTTTTT-
1 TTTTTTTG
*
20533805 TTGTTTTTA
1 TT-TTTTTG
20533814 TTTTTTTG
1 TTTTTTTG
20533822 TTTTTTTG
1 TTTTTTTG
*
20533830 TTTTTTTT
1 TTTTTTTG
20533838 TTTTTTTG
1 TTTTTTTG
20533846 TTTTTTT
1 TTTTTTT
20533853 TGGTTTTTGA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
7 2 0.05
8 39 0.91
9 2 0.05
ACGTcount: A:0.02, C:0.00, G:0.07, T:0.91
Consensus pattern (8 bp):
TTTTTTTG
Found at i:20534030 original size:83 final size:83
Alignment explanation
Indices: 20533868--20534288 Score: 604
Period size: 83 Copynumber: 5.1 Consensus size: 83
20533858 TTTGACCAAA
* * * * * *
20533868 GCTCCTCTAAAAATAGGCTCAACGACTTTGAGAAACA-TAAATTTCTCCTCTAAATAGAGGCACC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-AGTAAATTGCTCCTCTAAACAGAGGCACC
20533932 ACGACTTT-AAAAGTAAATT
64 ACGACTTTGAAAAGTAAATT
* *
20533951 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTTCTCTAAACAAAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
*
20534016 GACTTTGGAAAGTAAATT
66 GACTTTGAAAAGTAAATT
*
20534034 GCTCCTCTAAATAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
20534099 GACTTTGAAAAAGTAAATT
66 GACTTTG-AAAAGTAAATT
* *
20534118 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAAGTAAATTGCTCATCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
20534182 GACTTTGGAAAA-TAAATT
66 GACTTT-GAAAAGTAAATT
*
20534200 GCTCCTCTAAACAGAGGCA--ACGAAACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCACC
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACC
*
20534262 ACGACTTTGAAAAATTAAATT
64 ACGACTTTG-AAAAGTAAATT
20534283 GCTCCT
1 GCTCCT
20534289 TGACAATCAT
Statistics
Matches: 311, Mismatches: 18, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
80 3 0.01
81 2 0.01
82 103 0.33
83 163 0.52
84 40 0.13
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.24
Consensus pattern (83 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCAC
GACTTTGAAAAGTAAATT
Found at i:20534042 original size:41 final size:42
Alignment explanation
Indices: 20533868--20534288 Score: 608
Period size: 41 Copynumber: 10.1 Consensus size: 42
20533858 TTTGACCAAA
* * * *
20533868 GCTCCTCTAAAAATAGGCTCAACGACTTTGAGAAACA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGA-AAA-AGTAAATT
* *
20533911 TCTCCTCTAAATAGAGGCACCACGACTTT--AAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
20533951 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
* * *
20533993 GCTTCTCTAAACAAAGGCACCACGACTTTG-GAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
20534034 GCTCCTCTAAATAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
20534076 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
20534118 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
* *
20534159 GCTCATCTAAACAGAGGCACCACGACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
20534200 GCTCCTCTAAACAGAGGCA--ACGAAACTTTGGAAAA-TAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGAAAAAGTAAATT
*
20534241 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
20534283 GCTCCT
1 GCTCCT
20534289 TGACAATCAT
Statistics
Matches: 348, Mismatches: 20, Indels: 21
0.89 0.05 0.05
Matches are distributed among these distances:
39 4 0.01
40 36 0.10
41 146 0.42
42 135 0.39
43 27 0.08
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.24
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
Found at i:20534094 original size:125 final size:125
Alignment explanation
Indices: 20533868--20534288 Score: 624
Period size: 125 Copynumber: 3.4 Consensus size: 125
20533858 TTTGACCAAA
* * * *
20533868 GCTCCTCTAAA-AATAGGCTCAACGACTTTGAGAAACATAAATTTCTCCTCTAAATAGAGGCACC
1 GCTCCTCTAAACAA-AGGCACCACGACTTTGAGAAA-GTAAATTGCTCCTCTAAATAGAGGCACC
20533932 ACGACTTT-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
64 ACGACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
*
20533993 GCTTCTCTAAACAAAGGCACCACGACTTTG-GAAAGTAAATTGCTCCTCTAAATAGAGGCACCAC
1 GCTCCTCTAAACAAAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAATAGAGGCACCAC
20534057 GACTTTGAAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
66 GACTTTG-AAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
* * *
20534118 GCTCCTCTAAACAGAGGCACCACGACTTTG-GAAAGTAAATTGCTCATCTAAACAGAGGCACCAC
1 GCTCCTCTAAACAAAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAATAGAGGCACCAC
*
20534182 GACTTTGGAAAA-TAAATTGCTCCTCTAAACAGAGGCA--ACGAAACTTTGGAAAA-TAAATT
66 GACTTT-GAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACG--ACTTTGAAAAAGTAAATT
* * *
20534241 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATTAAATTGCTCCT
1 GCTCCTCTAAACAAAGGCACCACGACTTTGAGAAAGTAAATTGCTCCT
20534289 TGACAATCAT
Statistics
Matches: 276, Mismatches: 13, Indels: 15
0.91 0.04 0.05
Matches are distributed among these distances:
122 3 0.01
123 70 0.25
124 53 0.19
125 147 0.53
126 3 0.01
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.24
Consensus pattern (125 bp):
GCTCCTCTAAACAAAGGCACCACGACTTTGAGAAAGTAAATTGCTCCTCTAAATAGAGGCACCAC
GACTTTGAAAAGTAAATTGCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
Found at i:20535552 original size:19 final size:19
Alignment explanation
Indices: 20535530--20535576 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
20535520 TTTGAATCTC
20535530 TTTTTTCATTTTTTCTTCT
1 TTTTTTCATTTTTTCTTCT
* *
20535549 TTTTTTCTTTTTTTCTTTT
1 TTTTTTCATTTTTTCTTCT
20535568 TTTTTTCAT
1 TTTTTTCAT
20535577 CATTTTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (19 bp):
TTTTTTCATTTTTTCTTCT
Found at i:20535568 original size:8 final size:8
Alignment explanation
Indices: 20535539--20535570 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
20535529 CTTTTTTCAT
20535539 TTTTTCTTC
1 TTTTT-TTC
20535548 TTTTTTTC
1 TTTTTTTC
20535556 TTTTTTTC
1 TTTTTTTC
20535564 TTTTTTT
1 TTTTTTT
20535571 TTTCATCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 18 0.78
9 5 0.22
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTC
Found at i:20535582 original size:13 final size:13
Alignment explanation
Indices: 20535566--20535596 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
20535556 TTTTTTTCTT
20535566 TTTTTTTTCATCA
1 TTTTTTTTCATCA
*
20535579 TTTTTTTTCCTCA
1 TTTTTTTTCATCA
20535592 TTTTT
1 TTTTT
20535597 CATCTATTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.10, C:0.16, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTTTTCATCA
Found at i:20535586 original size:19 final size:17
Alignment explanation
Indices: 20535530--20535586 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 17
20535520 TTTGAATCTC
20535530 TTTTTTCATTTTTTCTTCT
1 TTTTTTCATTTTTT-TT-T
*
20535549 TTTTTTCTTTTTTTCTTTT
1 TTTTTTC-ATTTTT-TTTT
*
20535568 TTTTTTCATCATTTTTTT
1 TTTTTTCAT-TTTTTTTT
20535586 T
1 T
20535587 CCTCATTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 6 0.19
19 18 0.56
20 7 0.22
21 1 0.03
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTCATTTTTTTTT
Found at i:20539720 original size:180 final size:175
Alignment explanation
Indices: 20539406--20539792 Score: 613
Period size: 180 Copynumber: 2.2 Consensus size: 175
20539396 TCTTGTGTAG
* **
20539406 GGAAAATTGATACTTTCAACTTTTCC-C-CAAA-A-ATATTTTTTGGAAATTTATTTTTAAAGAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATATATTTTTTGGAAATTTATTTCCAAAGAA
20539467 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTTTAAGGAAAATTGATA
66 AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTTTAAGGAAAATTGATA
*
20539532 CTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
131 CTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAA
* *
20539577 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATATATTTTTTTTGAAACTTTGATTTCCAAG
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATATA-TTTTTTGGAAA-TTT-ATTTCCAAA
*
20539642 GAAAATTGATACTTTCAACTTTT-CCTCAAAAATCTCTTTTTTGAAAATTTATTTTTAAGGAAAA
63 GAAAATTGATACTTTCAACTTTTCCCT-AAAAATAT-TTTTTTG-AAATTTATTTTTAAGGAAAA
20539706 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAA
125 TTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAA
*
20539757 GGAAAATTGATACTTTCAACTTTTCATCAAAAATAT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATAT
20539793 TTTTTTGATT
Statistics
Matches: 198, Mismatches: 8, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
171 26 0.13
172 1 0.01
173 3 0.02
174 1 0.01
175 3 0.02
176 10 0.05
177 6 0.03
178 36 0.18
179 7 0.04
180 105 0.53
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.43
Consensus pattern (175 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATATATTTTTTGGAAATTTATTTCCAAAGAA
AATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTTTAAGGAAAATTGATA
CTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTCTAA
Found at i:20539807 original size:57 final size:57
Alignment explanation
Indices: 20539406--20539809 Score: 576
Period size: 57 Copynumber: 6.9 Consensus size: 57
20539396 TCTTGTGTAG
* *
20539406 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAA
* * *
20539463 AGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAA
*
20539520 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAA
* *
20539577 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATATATTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTTCC-C-CAAA-A-ATA-TTTTTTTGAAA-TTT-ATTTCTAA
* * *
20539641 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATCTCTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATAT-TTTTTTG-AAATTTATTTCTAA
20539700 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTG-AAATTTATTTCTAA
** **
20539757 GGAAAATTGATACTTTCAACTTTTCATCAAAAATATTTTTTTGATTTTTATTT
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTT
20539810 AAAGAATATA
Statistics
Matches: 315, Mismatches: 22, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
57 195 0.62
58 8 0.03
59 43 0.14
60 13 0.04
61 7 0.02
62 13 0.04
63 3 0.01
64 33 0.10
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAATTTATTTCTAA
Found at i:20539839 original size:26 final size:24
Alignment explanation
Indices: 20539809--20539889 Score: 67
Period size: 26 Copynumber: 3.1 Consensus size: 24
20539799 GATTTTTATT
*
20539809 TAAAGAATATAAAACAAAATAAAAG
1 TAAAGAA-ATAAAACAAAATAAAAA
20539834 TAAAAGTAAATAAAGA-AGAAA-AAAAA
1 T-AAAG-AAATAAA-ACA-AAATAAAAA
20539860 TAAAGAAAAGTAAAACAAAAATAAAAA
1 TAAAG-AAA-TAAAAC-AAAATAAAAA
20539887 TAA
1 TAA
20539890 GGTAAAGATA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
25 9 0.20
26 22 0.48
27 15 0.33
ACGTcount: A:0.75, C:0.02, G:0.09, T:0.14
Consensus pattern (24 bp):
TAAAGAAATAAAACAAAATAAAAA
Found at i:20539948 original size:10 final size:9
Alignment explanation
Indices: 20539928--20539982 Score: 51
Period size: 9 Copynumber: 6.2 Consensus size: 9
20539918 CTAATCTAAT
20539928 AAATAAAAA
1 AAATAAAAA
*
20539937 AAATAGAAA
1 AAATAAAAA
*
20539946 AAA-AAAAT
1 AAATAAAAA
* *
20539954 AAA-CAAAT
1 AAATAAAAA
20539962 AAATGAAAAA
1 AAAT-AAAAA
20539972 AAATAAAAA
1 AAATAAAAA
20539981 AA
1 AA
20539983 CTGGAGCGGC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
8 13 0.34
9 18 0.47
10 7 0.18
ACGTcount: A:0.84, C:0.02, G:0.04, T:0.11
Consensus pattern (9 bp):
AAATAAAAA
Found at i:20539948 original size:13 final size:13
Alignment explanation
Indices: 20539932--20539974 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 13
20539922 TCTAATAAAT
20539932 AAAAAAAATAGAA
1 AAAAAAAATAGAA
20539945 AAAAAAAATA-AA
1 AAAAAAAATAGAA
* *
20539957 CAAATAAAT-GAA
1 AAAAAAAATAGAA
20539969 AAAAAA
1 AAAAAA
20539975 TAAAAAAACT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.84, C:0.02, G:0.05, T:0.09
Consensus pattern (13 bp):
AAAAAAAATAGAA
Found at i:20539953 original size:22 final size:22
Alignment explanation
Indices: 20539928--20539982 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
20539918 CTAATCTAAT
20539928 AAATAAAAAAAATAGAA-AAAAA
1 AAATAAAAAAAATA-AAGAAAAA
*
20539950 AAAT-AAACAAATAAATGAAAAA
1 AAATAAAAAAAATAAA-GAAAAA
20539972 AAATAAAAAAA
1 AAATAAAAAAA
20539983 CTGGAGCGGC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 2 0.07
21 8 0.29
22 13 0.46
23 5 0.18
ACGTcount: A:0.84, C:0.02, G:0.04, T:0.11
Consensus pattern (22 bp):
AAATAAAAAAAATAAAGAAAAA
Found at i:20540916 original size:33 final size:32
Alignment explanation
Indices: 20540858--20540919 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
20540848 GATAAAATCG
* *
20540858 AAAAAAATAGATATATTATAGGATAAATAAAA
1 AAAAAAACAGATATATAATAGGATAAATAAAA
20540890 AAAAATAACAGATATATAATTA-GATAAATA
1 AAAAA-AACAGATATATAA-TAGGATAAATA
20540920 CAAATACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 5 0.19
33 19 0.73
34 2 0.08
ACGTcount: A:0.65, C:0.02, G:0.08, T:0.26
Consensus pattern (32 bp):
AAAAAAACAGATATATAATAGGATAAATAAAA
Found at i:20540948 original size:16 final size:16
Alignment explanation
Indices: 20540913--20540973 Score: 61
Period size: 16 Copynumber: 3.6 Consensus size: 16
20540903 ATATAATTAG
20540913 ATAAATACAAATACAAAA
1 ATAAATA-AAATA-AAAA
20540931 ATAAATAAAATAAAAA
1 ATAAATAAAATAAAAA
*
20540947 AT-AATAATAATAATAAT
1 ATAAATAA-AATAA-AAA
20540964 ATATAATAAA
1 ATA-AATAAA
20540974 TATATAACTA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
15 5 0.13
16 11 0.29
17 9 0.24
18 8 0.21
19 5 0.13
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (16 bp):
ATAAATAAAATAAAAA
Found at i:20540985 original size:8 final size:8
Alignment explanation
Indices: 20540955--20541095 Score: 52
Period size: 8 Copynumber: 18.2 Consensus size: 8
20540945 AAATAATAAT
20540955 AATA-ATA
1 AATATATA
20540962 ATATATAATA
1 A-ATAT-ATA
20540972 AATATATA
1 AATATATA
*
20540980 ACTATATA
1 AATATATA
20540988 AATAATATA
1 AAT-ATATA
*
20540997 CATATA-A
1 AATATATA
* *
20541004 ATCTATTCTA
1 A-ATA-TATA
20541014 AATA-A-A
1 AATATATA
*
20541020 AA-AAATA
1 AATATATA
*
20541027 AATAAATA
1 AATATATA
20541035 CAA-ATATA
1 -AATATATA
* *
20541043 CATATATT
1 AATATATA
*
20541051 AATACAT-
1 AATATATA
20541058 AATA-AT-
1 AATATATA
20541064 AATA-ATA
1 AATATATA
*
20541071 AATATAAA
1 AATATATA
*
20541079 AATACATA
1 AATATATA
20541087 AA-ATATA
1 AATATATA
20541094 AA
1 AA
20541096 AGAAAAAAAA
Statistics
Matches: 103, Mismatches: 17, Indels: 28
0.70 0.11 0.19
Matches are distributed among these distances:
5 1 0.01
6 12 0.12
7 20 0.19
8 48 0.47
9 16 0.16
10 6 0.06
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (8 bp):
AATATATA
Found at i:20540985 original size:19 final size:16
Alignment explanation
Indices: 20540930--20540994 Score: 57
Period size: 19 Copynumber: 4.1 Consensus size: 16
20540920 CAAATACAAA
*
20540930 AATAA-ATAAAATAA-
1 AATAATATATAATAAT
20540944 AA-AATA-ATAATAAT
1 AATAATATATAATAAT
20540958 AATAATATATAATAAAT
1 AATAATATATAAT-AAT
20540975 ATATAACTATATAAATAAT
1 A-ATAA-TATAT-AATAAT
20540994 A
1 A
20540995 TACATATAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
13 8 0.19
14 5 0.12
15 4 0.10
16 5 0.12
17 4 0.10
18 4 0.10
19 9 0.21
20 3 0.07
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.31
Consensus pattern (16 bp):
AATAATATATAATAAT
Found at i:20540995 original size:19 final size:17
Alignment explanation
Indices: 20540946--20540996 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 17
20540936 TAAAATAAAA
20540946 AATA-ATAATAATA-AT
1 AATATATAATAATATAT
20540961 AATATATAATAAATATAT
1 AATATATAAT-AATATAT
20540979 AACTATATAAATAATATA
1 AA-TATAT-AATAATATA
20540997 CATATAAATC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
15 4 0.13
16 5 0.16
17 4 0.13
18 4 0.13
19 11 0.35
20 3 0.10
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
AATATATAATAATATAT
Found at i:20541002 original size:17 final size:16
Alignment explanation
Indices: 20540929--20541002 Score: 56
Period size: 13 Copynumber: 4.9 Consensus size: 16
20540919 ACAAATACAA
20540929 AAATAA-ATAA-A-AT
1 AAATAATATAATATAT
*
20540942 AAAAAATAATAATA-AT
1 AAATAAT-ATAATATAT
20540958 -AATAATAT-ATA-AT
1 AAATAATATAATATAT
20540971 AAAT-ATATAACTATAT
1 AAATAATATAA-TATAT
20540987 AAATAATATACATATA
1 AAATAATATA-ATATA
20541003 AATCTATTCT
Statistics
Matches: 50, Mismatches: 2, Indels: 14
0.76 0.03 0.21
Matches are distributed among these distances:
13 14 0.28
14 6 0.12
15 11 0.22
16 9 0.18
17 9 0.18
18 1 0.02
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (16 bp):
AAATAATATAATATAT
Found at i:20541019 original size:30 final size:30
Alignment explanation
Indices: 20540929--20541034 Score: 84
Period size: 30 Copynumber: 3.8 Consensus size: 30
20540919 ACAAATACAA
*
20540929 AAATAAATAAAATA-AA-AAATA-ATAA-T
1 AAATAAATAATATACAATAAATATATAACT
*
20540955 -AAT-AATAATATATAATAAATATATAACT
1 AAATAAATAATATACAATAAATATATAACT
* * *
20540983 ATATAAATAATATACATATAAATCTAT-TCT
1 AAATAAATAATATACA-ATAAATATATAACT
* *
20541013 AAATAAAAAAAATA-AATAAATA
1 AAATAAATAATATACAATAAATA
20541035 CAAATATACA
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
24 8 0.12
25 5 0.08
26 5 0.08
27 4 0.06
28 7 0.11
29 3 0.05
30 23 0.36
31 9 0.14
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (30 bp):
AAATAAATAATATACAATAAATATATAACT
Found at i:20549009 original size:314 final size:311
Alignment explanation
Indices: 20548407--20549295 Score: 992
Period size: 314 Copynumber: 2.8 Consensus size: 311
20548397 ATTATAGGCT
* ** * * * *
20548407 CCTTTAATAATCTTGTAGTAAAATTTTAATGGGATTATTGAAGGCGTTTA-TGCTAGAAAATGCC
1 CCTTTAATATTCTACTAATAAAATTTTAAT-GGATTATTGAAGGCGTTTATTCCAAAAAAATGCC
* * * * * * *** **
20548471 TTCACTAATTCCCTTTAATTTTTTTAAGGTATTTATTAAATAAATTTTTTACATAATATGTCTTC
65 TTCACTAATTCACTCTAATTTTTTGAA-GAAATTATTGAACGTA-TTTTTACATAATA-CCCTTC
* * * * * *
20548536 AATAATTTCCTCCATTTTTATTA-GTGAATATCAATGAAGGTGATTTTCTACTAAAAATACATTT
127 AATAATTTCTTTCATTTTTATCAGGTGAATATCAGTGAAGGTGATTTTCTACTAAAAATACCTTC
* *
20548600 AATAATTCACT-TCAATTTTTAAGAATAATTTATTGAAGGCATTTTTTACATTATATGCCTTCAA
192 AATAATTCACTCT-AATTTTTAAGAAGAATTTATTAAAGGCATTTTTTACATTATATGCCTTCAA
* * ** *
20548664 TAATTTTCTTTTAAAAATTGTTTAGGATTATTAAAGGTGTCTTTTAGTAGAAAACG
256 TAATTTTCCTTTAAAAATTGTTTAGGATTATTAAAAGCATCTTTTAGTAGAAAACA
* *
20548720 CCTTTAATATTCTACTAATAAAATTTTAAGTGCATTATTGAAGGCGTTTATTCCAAAAAAATGCA
1 CCTTTAATATTCTACTAATAAAATTTTAA-TGGATTATTGAAGGCGTTTATTCCAAAAAAATGCC
* *
20548785 TTCACTAATTCGCTCTAATTTTTTGAAGAAATCTATTGAAGGTATTTTCTACATAATACACCTTC
65 TTCACTAATTCACTCTAATTTTTTGAAGAAAT-TATTGAACGTATTTT-TACATAATAC-CCTTC
* *
20548850 AATAATTTCTTTCATTTTTATCAGGTGAATATCAGTGAAGGCGATTTTCTACTAAAAATGCCTTC
127 AATAATTTCTTTCATTTTTATCAGGTGAATATCAGTGAAGGTGATTTTCTACTAAAAATACCTTC
** *
20548915 AATAATTCACTCTAATTTTTAAGAAGAATTTATTAAAGGTGTTTTTT-GATTCATATGCCTTCAA
192 AATAATTCACTCTAATTTTTAAGAAGAATTTATTAAAGGCATTTTTTACATT-ATATGCCTTCAA
* *
20548979 TAA-TTTCCTTTAAAAATTGTTT-GAGATTATTAAAAGCATCTTTTAGTATAAAATA
256 TAATTTTCCTTTAAAAATTGTTTAG-GATTATTAAAAGCATCTTTTAGTAGAAAACA
* * * * *
20549034 CCTTTAATATTCTACTACT-AAATTTTAAAAGGGTTATTGAAGGCGTTTATTCCATAAAAACGCC
1 CCTTTAATATTCTACTAATAAAATTTT-AATGGATTATTGAAGGCGTTTATTCCAAAAAAATGCC
* * * *
20549098 TTCACTAATTCATTCTAA-TTTTTGAAAAAAATT-TTGAAAACGT-TTTTTGCATAATACCCTTT
65 TTCACTAATTCACTCTAATTTTTTG-AAGAAATTATTG--AACGTATTTTTACATAATACCCTTC
* *
20549160 AATAA-TTCTCTTCATTTTTATCAGGTGAATATCAGTGAAGATGATTTTCTACTAAAAACACCTT
127 AATAATTTCT-TTCATTTTTATCAGGTGAATATCAGTGAAGGTGATTTTCTACTAAAAATACCTT
* * * * * ** *
20549224 CAATAATTCACTCTAATTTTTAA-AAGAAAATTATTGAAGGCATCTTTTGCATCATACACCTTTA
191 CAATAATTCACTCTAATTTTTAAGAAG-AATTTATTAAAGGCATTTTTTACATTATATGCCTTCA
20549288 ATAATTTT
255 ATAATTTT
20549296 TGTATAGAAT
Statistics
Matches: 492, Mismatches: 67, Indels: 36
0.83 0.11 0.06
Matches are distributed among these distances:
309 7 0.01
310 110 0.22
311 17 0.03
312 11 0.02
313 113 0.23
314 141 0.29
315 92 0.19
316 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (311 bp):
CCTTTAATATTCTACTAATAAAATTTTAATGGATTATTGAAGGCGTTTATTCCAAAAAAATGCCT
TCACTAATTCACTCTAATTTTTTGAAGAAATTATTGAACGTATTTTTACATAATACCCTTCAATA
ATTTCTTTCATTTTTATCAGGTGAATATCAGTGAAGGTGATTTTCTACTAAAAATACCTTCAATA
ATTCACTCTAATTTTTAAGAAGAATTTATTAAAGGCATTTTTTACATTATATGCCTTCAATAATT
TTCCTTTAAAAATTGTTTAGGATTATTAAAAGCATCTTTTAGTAGAAAACA
Found at i:20550510 original size:28 final size:28
Alignment explanation
Indices: 20550472--20550543 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 28
20550462 AATATTGTGA
*
20550472 TTTGCTGAATGGTATTGTATGATAATAT
1 TTTGCTGAATGGTATTGTATGATAATAG
* * * *
20550500 TTTGCTGAATGATAATGTATGATATTGG
1 TTTGCTGAATGGTATTGTATGATAATAG
*
20550528 TTTGCTAAATGGTATT
1 TTTGCTGAATGGTATT
20550544 TCTATACGTA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.28, C:0.04, G:0.22, T:0.46
Consensus pattern (28 bp):
TTTGCTGAATGGTATTGTATGATAATAG
Found at i:20553989 original size:61 final size:61
Alignment explanation
Indices: 20553800--20553997 Score: 159
Period size: 61 Copynumber: 3.2 Consensus size: 61
20553790 TAAAAAAATG
* * ** * * *
20553800 TTATTGAAGGCATTTTTGACCAAAATTGTCTTCAATAATTTCACCTAAAAATTTATTGTGTGGA
1 TTATTGAAGGCA-TTTTGACCAAAACTGTCTTTAAT-ATCCCTCATAAAAA-TTATTGTATGGA
* * ** * * * * * *
20553864 TTATTAAAGGCATTTTAGGCCAAAAAC-ACCTTTAAGAATCCGT-TTCAATATTTTTGTATGGA
1 TTATTGAAGGCATTTT-GACC-AAAACTGTCTTTAA-TATCCCTCATAAAAATTATTGTATGGA
20553926 TTATTGAAGGCATTTTGACCAAAACTGTCTTTAATATCCCTCATAAAAATTATTG-ATTGGA
1 TTATTGAAGGCATTTTGACCAAAACTGTCTTTAATATCCCTCATAAAAATTATTGTA-TGGA
20553987 TTATTGAAGGC
1 TTATTGAAGGC
20553998 GCTTTCGGCC
Statistics
Matches: 102, Mismatches: 26, Indels: 15
0.71 0.18 0.10
Matches are distributed among these distances:
60 11 0.11
61 33 0.32
62 25 0.25
63 8 0.08
64 21 0.21
65 4 0.04
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (61 bp):
TTATTGAAGGCATTTTGACCAAAACTGTCTTTAATATCCCTCATAAAAATTATTGTATGGA
Found at i:20554027 original size:123 final size:124
Alignment explanation
Indices: 20553800--20554064 Score: 313
Period size: 123 Copynumber: 2.1 Consensus size: 124
20553790 TAAAAAAATG
* ** *
20553800 TTATTGAAGGCATTTTTGACCAAAATTGTCTTCAATAATTTCACCTAAAAATTTATTGTGTGGAT
1 TTATTGAAGGCA-TTTTGACCAAAACTGTCTTCAATAATCCCACATAAAAATTTATTGTGTGGAT
* *
20553865 TATTAAAGGCATTTTAGGCCAAAAACACCTTTAAGAATCCGTTTCAATATTTTTGTATG-GA
65 TATTAAAGGCACTTTAGGCCAAAAACACCTTTAAAAATCCG-TTCAATATTTTT-TATGAGA
* *
20553926 TTATTGAAGGCATTTTGACCAAAACTGTCTTTAAT-ATCCCTCATAAAAA-TTATTGAT-TGGAT
1 TTATTGAAGGCATTTTGACCAAAACTGTCTTCAATAATCCCACATAAAAATTTATTG-TGTGGAT
* * * ** * *
20553988 TATTGAAGGCGCTTTCGGCCAAAAATGCCTTTAAAAATCCGTTCCATATTTTTTCTGTAGA
65 TATTAAAGGCACTTTAGGCCAAAAACACCTTTAAAAATCCGTTCAATATTTTTTATG-AGA
*
20554049 TTATTAAAGGCATTTT
1 TTATTGAAGGCATTTT
20554065 TTTGCCGAAA
Statistics
Matches: 120, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
121 3 0.03
122 11 0.09
123 62 0.52
124 11 0.09
125 21 0.17
126 12 0.10
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.39
Consensus pattern (124 bp):
TTATTGAAGGCATTTTGACCAAAACTGTCTTCAATAATCCCACATAAAAATTTATTGTGTGGATT
ATTAAAGGCACTTTAGGCCAAAAACACCTTTAAAAATCCGTTCAATATTTTTTATGAGA
Found at i:20559377 original size:23 final size:22
Alignment explanation
Indices: 20559344--20559418 Score: 78
Period size: 25 Copynumber: 3.1 Consensus size: 22
20559334 TATCTATTAA
20559344 TATATATTTAATAAAAAATATT
1 TATATATTTAATAAAAAATATT
*
20559366 TATTATAATTAATTTAAAATAATAATT
1 TA-TATATTTAA--TAAAA-AAT-ATT
20559393 TATATTATTTAATAAAAAATTATT
1 TATA-TATTTAATAAAAAA-TATT
20559417 TA
1 TA
20559419 CTAATTATAT
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
22 2 0.05
23 8 0.18
24 7 0.16
25 11 0.25
26 5 0.11
27 11 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TATATATTTAATAAAAAATATT
Done.