Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167982.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_24, 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: 18142777
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 63000 characters in sequence are not A, C, G, or T
File 48 of 84
Found at i:11041096 original size:25 final size:25
Alignment explanation
Indices: 11041033--11041096 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
11041023 TTTTAAAAAG
*
11041033 AAAAAAAGAAAAAAAAATAAGT-AA
1 AAAAAAAGAAAAAAAAATAACTAAA
* * * *
11041057 AAAAAAGGGATAAAATATAAACTAAA
1 AAAAAAAGAAAAAAAAAT-AACTAAA
11041083 AAAAAAAGAAAAAA
1 AAAAAAAGAAAAAA
11041097 GGAAAAAGAA
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
24 14 0.47
25 3 0.10
26 13 0.43
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.09
Consensus pattern (25 bp):
AAAAAAAGAAAAAAAAATAACTAAA
Found at i:11047038 original size:26 final size:25
Alignment explanation
Indices: 11046977--11047038 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
11046967 CTGTAGGCAC
11046977 CCATTTTGGTTCGGGCCTAATTGGG
1 CCATTTTGGTTCGGGCCTAATTGGG
* * *
11047002 CCTATTTTGGTTTGGGCGTGATTGGG
1 CC-ATTTTGGTTCGGGCCTAATTGGG
*
11047028 TCCATTCTGGT
1 -CCATTTTGGT
11047039 CCCACCCCCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
25 2 0.06
26 27 0.87
27 2 0.06
ACGTcount: A:0.10, C:0.18, G:0.32, T:0.40
Consensus pattern (25 bp):
CCATTTTGGTTCGGGCCTAATTGGG
Found at i:11047206 original size:3 final size:3
Alignment explanation
Indices: 11047198--11047274 Score: 127
Period size: 3 Copynumber: 25.7 Consensus size: 3
11047188 GAAATGTGTT
11047198 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* **
11047246 TTA TTA TCA CCA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11047275 TTCATTTTTT
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:11047297 original size:13 final size:14
Alignment explanation
Indices: 11047273--11047303 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
11047263 ATTATTATTA
11047273 TTTTCATTTTTTTC
1 TTTTCATTTTTTTC
11047287 TTTTC-TTTTTTTC
1 TTTTCATTTTTTTC
11047300 TTTT
1 TTTT
11047304 TTCTTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (14 bp):
TTTTCATTTTTTTC
Found at i:11047305 original size:15 final size:15
Alignment explanation
Indices: 11047273--11047316 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
11047263 ATTATTATTA
11047273 TTTTCATTTTTTTC--
1 TTTTC-TTTTTTTCTT
11047287 TTTTCTTTTTTTCTT
1 TTTTCTTTTTTTCTT
*
11047302 TTTTCTTTCTTTCTT
1 TTTTCTTTTTTTCTT
11047317 CCGTTGTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 8 0.30
14 5 0.19
15 14 0.52
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTCTTTTTTTCTT
Found at i:11047586 original size:35 final size:35
Alignment explanation
Indices: 11047547--11047613 Score: 107
Period size: 35 Copynumber: 1.9 Consensus size: 35
11047537 GGAATGTGAT
* * *
11047547 TGGACTTTGGGCTATTATTTGAAAATGTTGTAAGC
1 TGGACTCTGGGCTATTATTTAAAAATGCTGTAAGC
11047582 TGGACTCTGGGCTATTATTTAAAAATGCTGTA
1 TGGACTCTGGGCTATTATTTAAAAATGCTGTA
11047614 CTTAATAGAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.27, C:0.10, G:0.24, T:0.39
Consensus pattern (35 bp):
TGGACTCTGGGCTATTATTTAAAAATGCTGTAAGC
Found at i:11057265 original size:18 final size:18
Alignment explanation
Indices: 11057242--11057288 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
11057232 ACTTTTTCAG
*
11057242 AGCTTAAGAGCTCAGAAT
1 AGCTTAAGAGCTCAAAAT
11057260 AGCTTAAGAGCTCAAAAT
1 AGCTTAAGAGCTCAAAAT
* *
11057278 GGCTGAAGAGC
1 AGCTTAAGAGC
11057289 ATGCTTCTCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.38, C:0.17, G:0.26, T:0.19
Consensus pattern (18 bp):
AGCTTAAGAGCTCAAAAT
Found at i:11057703 original size:23 final size:23
Alignment explanation
Indices: 11057677--11057723 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
11057667 TTTTTATAGG
11057677 CACCTATTCATTCCCAAACCACA
1 CACCTATTCATTCCCAAACCACA
11057700 CACCTATTCATTCCCAAACCACA
1 CACCTATTCATTCCCAAACCACA
11057723 C
1 C
11057724 TAATGTGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.34, C:0.45, G:0.00, T:0.21
Consensus pattern (23 bp):
CACCTATTCATTCCCAAACCACA
Found at i:11065827 original size:17 final size:17
Alignment explanation
Indices: 11065805--11065838 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11065795 CAGTTGTGGG
11065805 GAAAACCATTATGACCT
1 GAAAACCATTATGACCT
11065822 GAAAACCATTATGACCT
1 GAAAACCATTATGACCT
11065839 TACCTAGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.12, T:0.24
Consensus pattern (17 bp):
GAAAACCATTATGACCT
Found at i:11066374 original size:25 final size:25
Alignment explanation
Indices: 11066324--11066374 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
11066314 TTAGTAAAAT
**
11066324 TACTTCTAAGATATACCATTTTTAAA
1 TACTTCTAAGATATA-CATTAATAAA
11066350 TACTTCTAAGATACT-CATTAATAAA
1 TACTTCTAAGATA-TACATTAATAAA
11066375 ATTTTTTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 8 0.36
26 13 0.59
27 1 0.05
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.39
Consensus pattern (25 bp):
TACTTCTAAGATATACATTAATAAA
Found at i:11067212 original size:35 final size:35
Alignment explanation
Indices: 11067166--11067232 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
11067156 ATTGGACTAC
* *
11067166 AAGCCTGACTTTGGGCTGTTATTTAAAAATGTAGT
1 AAGCCTGACTTTGCGCTATTATTTAAAAATGTAGT
11067201 AAGCCTGACTTTGCGCTATTATTTAAAAATGT
1 AAGCCTGACTTTGCGCTATTATTTAAAAATGT
11067233 TGTCCTTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.37
Consensus pattern (35 bp):
AAGCCTGACTTTGCGCTATTATTTAAAAATGTAGT
Found at i:11068882 original size:23 final size:21
Alignment explanation
Indices: 11068851--11068919 Score: 57
Period size: 21 Copynumber: 3.1 Consensus size: 21
11068841 TAGGTTTTCG
* *
11068851 TTTTCTATTTTGATTTGATTTGA
1 TTTTTTATTTTGA-TT-ATTTAA
*
11068874 TTTTTTATTTTTATTATTTAA
1 TTTTTTATTTTGATTATTTAA
* *
11068895 TTTTTTGTTTTTATTAATTTTAA
1 TTTTTTATTTTGATT-A-TTTAA
11068918 TT
1 TT
11068920 ATGATTGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
21 19 0.47
22 3 0.08
23 18 0.45
ACGTcount: A:0.20, C:0.01, G:0.06, T:0.72
Consensus pattern (21 bp):
TTTTTTATTTTGATTATTTAA
Found at i:11068897 original size:21 final size:22
Alignment explanation
Indices: 11068868--11068919 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
11068858 TTTTGATTTG
*
11068868 ATTTGATTTTTTATTTTTATT-
1 ATTTAATTTTTTATTTTTATTA
*
11068889 ATTTAATTTTTTGTTTTTATTA
1 ATTTAATTTTTTATTTTTATTA
11068911 ATTTTAATT
1 A-TTTAATT
11068920 ATGATTGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 19 0.70
22 1 0.04
23 7 0.26
ACGTcount: A:0.23, C:0.00, G:0.04, T:0.73
Consensus pattern (22 bp):
ATTTAATTTTTTATTTTTATTA
Found at i:11069127 original size:25 final size:25
Alignment explanation
Indices: 11069060--11069127 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
11069050 TACATGAATT
*
11069060 TAATTTATTTGCATGATTTATTACA
1 TAATTTATTTGCATAATTTATTACA
* * *
11069085 TAATAT-TTTGTATGAATTTCTTACA
1 TAATTTATTTGCAT-AATTTATTACA
*
11069110 TGATTTATTTGCATAATT
1 TAATTTATTTGCATAATT
11069128 CATTTGCAAG
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
24 6 0.18
25 22 0.65
26 6 0.18
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.53
Consensus pattern (25 bp):
TAATTTATTTGCATAATTTATTACA
Found at i:11075032 original size:27 final size:26
Alignment explanation
Indices: 11075002--11075057 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 26
11074992 TATTATAGTA
* **
11075002 ATTTTGATCAATTATAGTATTAAGGGT
1 ATTTTCAT-AATTATAGTAAGAAGGGT
11075029 ATTTTTCATAATTATAGTAAGAAGGGT
1 A-TTTTCATAATTATAGTAAGAAGGGT
11075056 AT
1 AT
11075058 CATAGTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 1 0.04
27 18 0.72
28 6 0.24
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.43
Consensus pattern (26 bp):
ATTTTCATAATTATAGTAAGAAGGGT
Found at i:11075051 original size:62 final size:61
Alignment explanation
Indices: 11074962--11075082 Score: 167
Period size: 62 Copynumber: 2.0 Consensus size: 61
11074952 AAGCAATTAA
*
11074962 AAGGGTATTTTTTCAATTATGATAAGAA-AGTATTATAGTAATTTTGATCAATTATAGTATT
1 AAGGGTATTTTTTCAATTATGATAAGAAGAGTATCATAGTAATTTTGA-CAATTATAGTATT
*
11075023 AAGGGTA-TTTTTCATAATTAT-AGTAAGAAGGGTATCATAGTAATTTTGACAATTATAGTA
1 AAGGGTATTTTTTC--AATTATGA-TAAGAAGAGTATCATAGTAATTTTGACAATTATAGTA
11075083 GGAGGGATAT
Statistics
Matches: 54, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
60 6 0.11
61 8 0.15
62 23 0.43
63 17 0.31
ACGTcount: A:0.38, C:0.04, G:0.17, T:0.41
Consensus pattern (61 bp):
AAGGGTATTTTTTCAATTATGATAAGAAGAGTATCATAGTAATTTTGACAATTATAGTATT
Found at i:11075131 original size:61 final size:62
Alignment explanation
Indices: 11074962--11075104 Score: 156
Period size: 61 Copynumber: 2.3 Consensus size: 62
11074952 AAGCAATTAA
* *
11074962 AAGGGTATTTTT--TCAATTAT-GATAAGAA-AGTATTATAGTAATTTTGATCAATTATAGTATT
1 AAGGGTATTTTTCAT-AATTATAG-TAAGAAGGGTA-TATAGTAATTTTGATCAATTATAGTATG
11075023 AAGGGTATTTTTCATAATTATAGTAAGAAGGGTATCATAGTAATTTTGA-CAATTATAGTA-G
1 AAGGGTATTTTTCATAATTATAGTAAGAAGGGTAT-ATAGTAATTTTGATCAATTATAGTATG
* *
11075084 GAGGG-ATATTTTCGTAATTAT
1 AAGGGTAT-TTTTCATAATTAT
11075105 GACATGGATG
Statistics
Matches: 72, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
60 2 0.03
61 28 0.39
62 24 0.33
63 18 0.25
ACGTcount: A:0.36, C:0.04, G:0.18, T:0.41
Consensus pattern (62 bp):
AAGGGTATTTTTCATAATTATAGTAAGAAGGGTATATAGTAATTTTGATCAATTATAGTATG
Found at i:11082833 original size:35 final size:35
Alignment explanation
Indices: 11082787--11082856 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
11082777 ATTGGACAAC
11082787 AAGCCTGACTTTGGGCTATTATTTAAAAATGTTGT
1 AAGCCTGACTTTGGGCTATTATTTAAAAATGTTGT
11082822 AAGCCTGACTTTGGGCTATTATTTAAAAATGTTGT
1 AAGCCTGACTTTGGGCTATTATTTAAAAATGTTGT
11082857 CCTTAATAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (35 bp):
AAGCCTGACTTTGGGCTATTATTTAAAAATGTTGT
Found at i:11083541 original size:25 final size:27
Alignment explanation
Indices: 11083496--11083545 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
11083486 GAGGAACATT
*
11083496 ATAATAATTTTGATCAATTATGATAGA
1 ATAATAATTTTAATCAATTATGATAGA
11083523 ATAAT-ATTTTAAT-AATTATGATA
1 ATAATAATTTTAATCAATTATGATA
11083546 TGAGGAACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 7 0.32
27 5 0.23
ACGTcount: A:0.46, C:0.02, G:0.08, T:0.44
Consensus pattern (27 bp):
ATAATAATTTTAATCAATTATGATAGA
Found at i:11085560 original size:41 final size:41
Alignment explanation
Indices: 11085512--11085590 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
11085502 ATGATTAATG
*
11085512 CATCAATTAAGGCATTTTCTTCA-TCAAACGCCTTAATTTAT
1 CATCAATTAAGG-ATTTTCTTCATTCAAACACCTTAATTTAT
* *
11085553 CATCAATTAAGGTTTTTCTTCATTGAAACACCTTAATT
1 CATCAATTAAGGATTTTCTTCATTCAAACACCTTAATT
11085591 GATAATTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 9 0.26
41 25 0.74
ACGTcount: A:0.32, C:0.20, G:0.08, T:0.41
Consensus pattern (41 bp):
CATCAATTAAGGATTTTCTTCATTCAAACACCTTAATTTAT
Found at i:11086949 original size:9 final size:9
Alignment explanation
Indices: 11086935--11086959 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
11086925 AGTCAATGTA
11086935 GACACAGTT
1 GACACAGTT
11086944 GACACAGTT
1 GACACAGTT
11086953 GACACAG
1 GACACAG
11086960 ATGTAGATAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.36, C:0.24, G:0.24, T:0.16
Consensus pattern (9 bp):
GACACAGTT
Found at i:11090151 original size:57 final size:56
Alignment explanation
Indices: 11090090--11090258 Score: 141
Period size: 57 Copynumber: 3.0 Consensus size: 56
11090080 AGTAACTCAT
*
11090090 CATTTATATAAAAGGTATTTTAGTCATTTAAAACATAAAGGCATTATAGTCATTTGA
1 CATTTATA-AAAAGGTATTTTAGTCATTTAAAACATAAAGGCATTATAGTCATTTAA
* *
11090147 CATTTATAAGAGAGGTATTTT-GT-ATTTTAAGA-ATGAAAGGGCATTATAGT-AGTTTAA
1 CATTTATAA-AAAGGTATTTTAGTCA-TTTAAAACAT-AAA-GGCATTATAGTCA-TTTAA
* * ** * * *
11090204 CATTAAAAAAAAATTATTTTTA-TCATTTAATACAAAAGAGGCATTGTAGTCATTT
1 CATTTATAAAAAGGTA-TTTTAGTCATTTAAAACATAA-AGGCATTATAGTCATTT
11090259 TGAGCAAATG
Statistics
Matches: 90, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
55 3 0.03
56 17 0.19
57 66 0.73
58 4 0.04
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (56 bp):
CATTTATAAAAAGGTATTTTAGTCATTTAAAACATAAAGGCATTATAGTCATTTAA
Found at i:11091248 original size:23 final size:23
Alignment explanation
Indices: 11091218--11091262 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
11091208 AGTGACATGA
11091218 ATGTATGCATGTGCCTTAAATGG
1 ATGTATGCATGTGCCTTAAATGG
11091241 ATGTATGCATGTGCCTTAAATG
1 ATGTATGCATGTGCCTTAAATG
11091263 ATGACATGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (23 bp):
ATGTATGCATGTGCCTTAAATGG
Found at i:11091564 original size:20 final size:20
Alignment explanation
Indices: 11091539--11091605 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
11091529 TTAGGATTTC
11091539 AAGGTTTTAGGGTTTCAATT
1 AAGGTTTTAGGGTTTCAATT
***
11091559 AAGGTTTT-GGGATTTTGGTT
1 AAGGTTTTAGGG-TTTCAATT
* *
11091579 ATGG-TTTAGGGTTTCATTT
1 AAGGTTTTAGGGTTTCAATT
11091598 AAGGTTTT
1 AAGGTTTT
11091606 GGTTTCTGGT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
19 14 0.39
20 22 0.61
ACGTcount: A:0.19, C:0.03, G:0.28, T:0.49
Consensus pattern (20 bp):
AAGGTTTTAGGGTTTCAATT
Found at i:11091705 original size:19 final size:19
Alignment explanation
Indices: 11091681--11091726 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
11091671 GTTCCACTAG
11091681 GGTTTAGGGTCTT-ACCTAA
1 GGTTTAGGGT-TTCACCTAA
*
11091700 GGTTTAAGGTTTCACCTAA
1 GGTTTAGGGTTTCACCTAA
*
11091719 AGTTTAGG
1 GGTTTAGG
11091727 ACTTCATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 2 0.09
19 21 0.91
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (19 bp):
GGTTTAGGGTTTCACCTAA
Found at i:11091763 original size:12 final size:12
Alignment explanation
Indices: 11091746--11091785 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
11091736 AGAGTTTCCT
11091746 TTTAAGGTTTCA
1 TTTAAGGTTTCA
*
11091758 TTTAAGGTCTCA
1 TTTAAGGTTTCA
*
11091770 TATTAGGGTTTCA
1 T-TTAAGGTTTCA
11091783 TTT
1 TTT
11091786 GGGATTTCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (12 bp):
TTTAAGGTTTCA
Found at i:11092063 original size:3 final size:3
Alignment explanation
Indices: 11092055--11092085 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
11092045 AAATCTTTCT
*
11092055 TAA TAA TAA TAA TAA TAA TAA TTA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
11092086 TATTATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:11092090 original size:3 final size:3
Alignment explanation
Indices: 11092084--11092131 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
11092074 AATTATAATA
*
11092084 ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
11092132 TCTTTTAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:11093878 original size:16 final size:15
Alignment explanation
Indices: 11093849--11093924 Score: 73
Period size: 15 Copynumber: 4.8 Consensus size: 15
11093839 GCCAAGTTTC
*
11093849 TTATTTTATTTTATT
1 TTATTTTTTTTTATT
11093864 TTATTTTTTTATTA-T
1 TTATTTTTTT-TTATT
*
11093879 TTATTTATTTTTATAT
1 TTATTTTTTTTTAT-T
*
11093895 TTATATTTTTTGTATT
1 TTAT-TTTTTTTTATT
11093911 TTATATTTGTTTTT
1 TTAT-TTT-TTTTT
11093925 TTAATGGATG
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
14 3 0.06
15 19 0.37
16 17 0.33
17 12 0.24
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.78
Consensus pattern (15 bp):
TTATTTTTTTTTATT
Found at i:11093905 original size:34 final size:32
Alignment explanation
Indices: 11093860--11093924 Score: 78
Period size: 34 Copynumber: 2.0 Consensus size: 32
11093850 TATTTTATTT
*
11093860 TATTTTATTTTTTTATTATT-TATTTATTTTTA
1 TATTTTATTTTTGTATT-TTATATTTATTTTTA
*
11093892 TATTTATATTTTTTGTATTTTATATTTGTTTTT
1 TATTT-TA-TTTTTGTATTTTATATTTATTTTT
11093925 TTAATGGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 5 0.18
33 4 0.14
34 19 0.68
ACGTcount: A:0.20, C:0.00, G:0.03, T:0.77
Consensus pattern (32 bp):
TATTTTATTTTTGTATTTTATATTTATTTTTA
Found at i:11094366 original size:47 final size:47
Alignment explanation
Indices: 11094307--11094413 Score: 126
Period size: 46 Copynumber: 2.3 Consensus size: 47
11094297 GACCATTTGG
* * ** * * *
11094307 AAATGAATTTAAAAAACTTCTTCTAGCAAAGGCTCTATAACTTTCAA
1 AAATAAATTTAAAAAACTCCTTAAAGCAAAGACTCAAAAACTTTCAA
*
11094354 AAATAAATTT-AAAAACTCCTTAAAGCAAAGACTCAAAAACTTTTAA
1 AAATAAATTTAAAAAACTCCTTAAAGCAAAGACTCAAAAACTTTCAA
*
11094400 AACTAAATTTAAAA
1 AAATAAATTTAAAA
11094414 GCTCTTTTAA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 38 0.76
47 12 0.24
ACGTcount: A:0.50, C:0.15, G:0.06, T:0.29
Consensus pattern (47 bp):
AAATAAATTTAAAAAACTCCTTAAAGCAAAGACTCAAAAACTTTCAA
Found at i:11094381 original size:46 final size:46
Alignment explanation
Indices: 11094307--11094430 Score: 124
Period size: 46 Copynumber: 2.7 Consensus size: 46
11094297 GACCATTTGG
* * ** * *
11094307 AAATGAATTTAAAAAACTTCTTCTAGCAAAGGCTCTATAACTTTCAA
1 AAATAAATTT-AAAAACTCCTTAAAGCAAAGGCTCAAAAACTTTCAA
* *
11094354 AAATAAATTTAAAAACTCCTTAAAGCAAAGACTCAAAAACTTTTAA
1 AAATAAATTTAAAAACTCCTTAAAGCAAAGGCTCAAAAACTTTCAA
* * *
11094400 AACTAAATTTAAAAGCTCTTTTAAA-CAAAGG
1 AAATAAATTTAAAAACTC-CTTAAAGCAAAGG
11094431 TTTAATAGCT
Statistics
Matches: 64, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
46 50 0.78
47 14 0.22
ACGTcount: A:0.48, C:0.15, G:0.07, T:0.29
Consensus pattern (46 bp):
AAATAAATTTAAAAACTCCTTAAAGCAAAGGCTCAAAAACTTTCAA
Found at i:11094861 original size:41 final size:39
Alignment explanation
Indices: 11094772--11094909 Score: 141
Period size: 40 Copynumber: 3.4 Consensus size: 39
11094762 AAGTCTTTTG
* *
11094772 AAAATTTAAAATTTTGCTTGGAGGTCTTAGAGATCATTTA
1 AAAATTTAAAATTTTGCTTGAAGGTCTTA-AAATCATTTA
* * *
11094812 AAGATTTAAGATTTTGCTTGAAGGTCTTTCACAATCATTTA
1 AAAATTTAAAATTTTGCTTGAAGGTC-TT-AAAATCATTTA
** ** *
11094853 AAAATTTAAGGTTTTGCTCAAAGGTCTTGAAAATCATTCA
1 AAAATTTAAAATTTTGCTTGAAGGTCTT-AAAATCATTTA
*
11094893 AAATTTTAAAATTTTGC
1 AAAATTTAAAATTTTGC
11094910 CCAAATGTCT
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 48 0.59
41 32 0.40
42 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.40
Consensus pattern (39 bp):
AAAATTTAAAATTTTGCTTGAAGGTCTTAAAATCATTTA
Found at i:11094920 original size:40 final size:40
Alignment explanation
Indices: 11094772--11094934 Score: 121
Period size: 40 Copynumber: 4.0 Consensus size: 40
11094762 AAGTCTTTTG
**** * * *
11094772 AAAATTTAAAATTTTGCTTGGAGGTCTTAGAGATCATTTA
1 AAAATTTAAAATTTTGCCCAAAGGTCTTACAAATCATTCA
* * *** * *
11094812 AAGATTTAAGATTTTGCTTGAAGGTCTTTCACAATCATTTA
1 AAAATTTAAAATTTTGCCCAAAGGTCTTACA-AATCATTCA
** *
11094853 AAAATTTAAGGTTTTGCTCAAAGGTCTTGA-AAATCATTCA
1 AAAATTTAAAATTTTGCCCAAAGGTCTT-ACAAATCATTCA
* * *
11094893 AAATTTTAAAATTTTGCCCAAATGTCTTACAGATCATTCA
1 AAAATTTAAAATTTTGCCCAAAGGTCTTACAAATCATTCA
11094933 AA
1 AA
11094935 GTTATAAGAT
Statistics
Matches: 102, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
39 1 0.01
40 68 0.67
41 33 0.32
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (40 bp):
AAAATTTAAAATTTTGCCCAAAGGTCTTACAAATCATTCA
Found at i:11095093 original size:22 final size:23
Alignment explanation
Indices: 11095057--11095112 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
11095047 TTGAAATCTT
*
11095057 TTTACTTC-AAAA-TTTTCACT-
1 TTTAATTCAAAAATTTTTCACTC
*
11095077 TTTCATTTCAAAAATTTTTCACTC
1 TTT-AATTCAAAAATTTTTCACTC
11095101 TTTAATTCAAAA
1 TTTAATTCAAAA
11095113 CATCTCATCT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
20 3 0.10
21 4 0.13
22 4 0.13
23 16 0.53
24 3 0.10
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.48
Consensus pattern (23 bp):
TTTAATTCAAAAATTTTTCACTC
Found at i:11096573 original size:19 final size:19
Alignment explanation
Indices: 11096524--11096572 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 19
11096514 TCTCTTTCTC
*
11096524 TTCC-TTTTCTTTCTCCTT
1 TTCCTTTTTTTTTCTCCTT
* *
11096542 TTCCTTTCTTTTTCTTCTT
1 TTCCTTTTTTTTTCTCCTT
11096561 TT-CTTTTTTTTT
1 TTCCTTTTTTTTT
11096573 TTTATTTTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTCCTTTTTTTTTCTCCTT
Found at i:11096990 original size:25 final size:25
Alignment explanation
Indices: 11096932--11097020 Score: 76
Period size: 25 Copynumber: 3.4 Consensus size: 25
11096922 TTTTTTCTTT
*
11096932 CTTTTCTTTTTTCATTCATTTT-TT-TC
1 CTTTTC-TTTTTCATT--TTTTCTTCAC
11096958 CTTATTCTTTTTC-TCTTTTTCTTCAC
1 CTT-TTCTTTTTCAT-TTTTTCTTCAC
**
11096984 CTTTTCTTTTTCATTTTTTCTTCTT
1 CTTTTCTTTTTCATTTTTTCTTCAC
11097009 CTTTTCCTTTTT
1 CTTTT-CTTTTT
11097021 TATGAGTGGA
Statistics
Matches: 54, Mismatches: 3, Indels: 12
0.78 0.04 0.17
Matches are distributed among these distances:
24 4 0.07
25 26 0.48
26 21 0.39
27 3 0.06
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (25 bp):
CTTTTCTTTTTCATTTTTTCTTCAC
Found at i:11097397 original size:12 final size:13
Alignment explanation
Indices: 11097354--11097413 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
11097344 CCTTTTTTAT
11097354 ATTTT-GCTTTTC
1 ATTTTGGCTTTTC
*
11097366 AATTTTTGC-TTT-
1 -ATTTTGGCTTTTC
11097378 -TTTT-GCTTTTC
1 ATTTTGGCTTTTC
11097389 -TTTTGGCTTTTC
1 ATTTTGGCTTTTC
11097401 ATTTTGGGCTTTT
1 ATTTT-GGCTTTT
11097414 ATGTTTTTTC
Statistics
Matches: 41, Mismatches: 0, Indels: 11
0.79 0.00 0.21
Matches are distributed among these distances:
9 2 0.05
10 7 0.17
11 4 0.10
12 7 0.17
13 12 0.29
14 9 0.22
ACGTcount: A:0.07, C:0.13, G:0.13, T:0.67
Consensus pattern (13 bp):
ATTTTGGCTTTTC
Found at i:11100250 original size:3 final size:3
Alignment explanation
Indices: 11100242--11100280 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
11100232 AACACATAGT
11100242 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11100281 TGAAATGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11102061 original size:20 final size:19
Alignment explanation
Indices: 11102031--11102082 Score: 79
Period size: 19 Copynumber: 2.7 Consensus size: 19
11102021 GGATTTTGAA
11102031 TTTTTGG-TTTCACCTAAGG
1 TTTTTGGATTTCACCTAA-G
11102050 TTTTTGGATTTCACCTAAG
1 TTTTTGGATTTCACCTAAG
*
11102069 ATTTTGGATTTCAC
1 TTTTTGGATTTCAC
11102083 TTAGAGTCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 21 0.68
20 10 0.32
ACGTcount: A:0.19, C:0.15, G:0.17, T:0.48
Consensus pattern (19 bp):
TTTTTGGATTTCACCTAAG
Found at i:11104859 original size:31 final size:31
Alignment explanation
Indices: 11104821--11104879 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
11104811 AAAAAACTTA
* * *
11104821 TTCATTAATGAGATGATATTATTTAATTCAC
1 TTCATTAATAAGAGGATATTATTCAATTCAC
11104852 TTCATTAATAAGAGGATATTATTCAATT
1 TTCATTAATAAGAGGATATTATTCAATT
11104880 TTATTGATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.44
Consensus pattern (31 bp):
TTCATTAATAAGAGGATATTATTCAATTCAC
Found at i:11107293 original size:33 final size:33
Alignment explanation
Indices: 11107256--11107320 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
11107246 CAAATAATCC
* * * *
11107256 TATCCAATTAATTTTTTAATATTTTAAAATTAA
1 TATCCAATCAATTATTCAATATTTCAAAATTAA
11107289 TATCCAATCAATTATTCAATATTTCAAAATTA
1 TATCCAATCAATTATTCAATATTTCAAAATTA
11107321 CCAAGATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (33 bp):
TATCCAATCAATTATTCAATATTTCAAAATTAA
Found at i:11109696 original size:28 final size:28
Alignment explanation
Indices: 11109665--11109722 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
11109655 TTTAAAAAAA
11109665 TTAGAATTTTTTTT-AAAAATTTTTAAAT
1 TTAG-ATTTTTTTTCAAAAATTTTTAAAT
*
11109693 TTAGATTTTTTTTCAAAAATTTTTAGAT
1 TTAGATTTTTTTTCAAAAATTTTTAAAT
11109721 TT
1 TT
11109723 TTTTATTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
27 9 0.32
28 19 0.68
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (28 bp):
TTAGATTTTTTTTCAAAAATTTTTAAAT
Found at i:11117680 original size:72 final size:72
Alignment explanation
Indices: 11117563--11117709 Score: 294
Period size: 72 Copynumber: 2.0 Consensus size: 72
11117553 ATAAGTAAAG
11117563 TAAGAAGATTTTATATTACATATATATGATTTTATGTCATGACACAAAAGTCTACTATATATACG
1 TAAGAAGATTTTATATTACATATATATGATTTTATGTCATGACACAAAAGTCTACTATATATACG
11117628 TATACAT
66 TATACAT
11117635 TAAGAAGATTTTATATTACATATATATGATTTTATGTCATGACACAAAAGTCTACTATATATACG
1 TAAGAAGATTTTATATTACATATATATGATTTTATGTCATGACACAAAAGTCTACTATATATACG
11117700 TATACAT
66 TATACAT
11117707 TAA
1 TAA
11117710 AAAATCATTA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.39
Consensus pattern (72 bp):
TAAGAAGATTTTATATTACATATATATGATTTTATGTCATGACACAAAAGTCTACTATATATACG
TATACAT
Found at i:11135478 original size:34 final size:34
Alignment explanation
Indices: 11135435--11135558 Score: 99
Period size: 34 Copynumber: 3.6 Consensus size: 34
11135425 ATAAAACACC
* *
11135435 GCTATATTAACGGCATTTGTATGTCAAAAATGTT
1 GCTATATTAACGACATTTGTATATCAAAAATGTT
* * **
11135469 GCTATATTAATGACATTTGTATATGAAAAATGCC
1 GCTATATTAACGACATTTGTATATCAAAAATGTT
* * * **
11135503 ACTATATTAGCAACATTTG-A-ATCTAGAAAATGCC
1 GCTATATTAACGACATTTGTATATC-A-AAAATGTT
* *
11135537 GCTATATTAGCAACATTTGTAT
1 GCTATATTAACGACATTTGTAT
11135559 CTAGAAAACA
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
32 2 0.03
33 2 0.03
34 69 0.93
35 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (34 bp):
GCTATATTAACGACATTTGTATATCAAAAATGTT
Found at i:11135561 original size:34 final size:34
Alignment explanation
Indices: 11135481--11135602 Score: 140
Period size: 34 Copynumber: 3.6 Consensus size: 34
11135471 TATATTAATG
* *
11135481 ACATTTGTATAT-GAAAAATGCCACTATATTAGCA
1 ACATTTGTATCTAG-AAAATGCCGCTATATTAGCA
*
11135515 ACATTTGAATCTAGAAAATGCCGCTATATTAGCA
1 ACATTTGTATCTAGAAAATGCCGCTATATTAGCA
** *
11135549 ACATTTGTATCTAGAAAACACCGTTATATTAG-A
1 ACATTTGTATCTAGAAAATGCCGCTATATTAGCA
* *
11135582 GGCATTTGTATCTAAAAAATG
1 -ACATTTGTATCTAGAAAATG
11135603 TCATTATTTT
Statistics
Matches: 75, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
33 1 0.01
34 73 0.97
35 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (34 bp):
ACATTTGTATCTAGAAAATGCCGCTATATTAGCA
Found at i:11137326 original size:140 final size:138
Alignment explanation
Indices: 11137131--11137389 Score: 308
Period size: 140 Copynumber: 1.8 Consensus size: 138
11137121 AAATAGTCCC
*
11137131 AAATAGACATAAACAATAACTTTTTCTCTTATATCAACCATAGAAACCAATTTCAATCAA-TTGG
1 AAATAGACATAAACAATAACTTTTTCTC-TATATCAACCATAGAAACCAAGTTCAA--AACTTGG
* * * * * *
11137195 ATAAGTTTAATATCAAGTATTGAACCTATCCAAACTGTTTAAATAGAACCATAACAACAAATTTG
63 ATAAGTTTAATATCAAGTATTGAAACTATCAAAACTATTAAAACAGAACAATAACAACAAATTTG
11137260 TATTTTTACCT
128 TATTTTTACCT
* * * * * *
11137271 AAATAGACGTAAACAATAACTTTTTCATAC-ATATCATCCGT-GTCAACTAAGTTCAAAACTTTT
1 AAATAGACATAAACAATAACTTTTTC-T-CTATATCAACCATAG-AAACCAAGTTCAAAAC-TTG
*
11137334 GATAAGTTTAATATCATGTATTGAAACTATCAAAACTATTAAAACAGAACAATAAC
62 GATAAGTTTAATATCAAGTATTGAAACTATCAAAACTATTAAAACAGAACAATAAC
11137390 TGTTAATTTG
Statistics
Matches: 100, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
138 2 0.02
139 1 0.01
140 95 0.95
141 1 0.01
142 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (138 bp):
AAATAGACATAAACAATAACTTTTTCTCTATATCAACCATAGAAACCAAGTTCAAAACTTGGATA
AGTTTAATATCAAGTATTGAAACTATCAAAACTATTAAAACAGAACAATAACAACAAATTTGTAT
TTTTACCT
Found at i:11143885 original size:61 final size:60
Alignment explanation
Indices: 11143646--11144455 Score: 199
Period size: 63 Copynumber: 13.0 Consensus size: 60
11143636 ATTGAAAATA
* *
11143646 ATTTTTTTAGAACAAACGCCTTCAATAAGTTCATTTTTAAAATTTTTGAGATTATTAAAGGC
1 ATTTTTTTAGAA-AAACACCTTCAATAA-TTCATTTTTAAAATTTTTAAGATTATTAAAGGC
* * * * ** * * *
11143708 -GTTTTTTAGTGAAAAACACTTTCAAT-ATACCAATACTCAAA-TTTTAAGATGGTTAATGAAGG
1 ATTTTTTTA--GAAAAACACCTTCAATAAT-TCATTTTTAAAATTTTTAAGA---TTATTAAAGG
11143770 C
60 C
** * * * *
11143771 ATTTATTCCAGAAAAATACCTTCAATAATT--TCTTTT-AAATTTGTAAATAATTATTGAAGGC
1 ATTT-TTTTAGAAAAACACCTTCAATAATTCAT-TTTTAAAATTT-TTAA-GATTATTAAAGGC
**
11143832 ATTTTTTTAGAACAAACACCTTCAATAATTTTTTTTTAAAATTTTTAAGATTATTAAAGGC
1 ATTTTTTTAGAA-AAACACCTTCAATAATTCATTTTTAAAATTTTTAAGATTATTAAAGGC
* * * * ** * * ** * * **
11143893 -GTCTTTCAGTGAAAAGCGTCTTCAATATTTCACTACTCAAA-TTTTAAGATGGTTAGTAAAGAT
1 ATTTTTTTA--GAAAAACACCTTCAATAATTCATTTTTAAAATTTTTAAGA---TTATTAAAGGC
* * * *
11143956 GTTTATTTTAGAAAAACACCTTCACTGATTCCA--TTT--AATTTATGTACGCAATTATTAAAGG
1 ATTT-TTTTAGAAAAACACCTTCAATAATT-CATTTTTAAAATTT-T-TAAG--ATTATTAAAGG
*
11144017 T
60 C
* * **
11144018 ATTTTTTTAGAACAAACGCCTTCAATAATTTCATTTTAAAAATTTTTGGGATTATTAAAGGC
1 ATTTTTTTAGAA-AAACACCTTCAATAA-TTCATTTTTAAAATTTTTAAGATTATTAAAGGC
* * *** * * ** * * **
11144080 GTCTTCCAATGAAAAAAACCTTCAAT-ATATCAGTACTCAAATTTTAAGACGATTAGAAAAGGC
1 ATTTTTTTA-GAAAAACACCTTCAATAAT-TCATTTTTAAAATTTTTA-A-GATTATTAAAGGC
** * ** * * *
11144143 ATTTATTCCAAAAAAATGCTTTCAATAATTC-CTTAT-AAATTTTGTACATGATTATTGAAAGGC
1 ATTT-TTTTAGAAAAACACCTTCAATAATTCATTTTTAAAATTTT-TA-A-GATTATT-AAAGGC
* * ** *
11144206 ATTTTTTGAGAACAAACGCCTTCAATAATTTTTCTTTTAAAAATTTTTGAGATTATTAAAGGC
1 ATTTTTTTAGAA-AAACACCTTCAATAATTCAT-TTTT-AAAATTTTTAAGATTATTAAAGGC
* * * * ** * * *
11144269 A-TCTTCTAGTGAAAAACGA-TTTCAAT-ATTCTACTAATCAAA-TTTTAAGACAATTAGTGAAG
1 ATTTTTTTA--GAAAAAC-ACCTTCAATAATTC-ATTTTTAAAATTTTTAAG---ATTATTAAAG
11144330 GC
59 GC
* * * * * * * * *
11144332 CTTTATTATAGAAAAACACCTTTACTAATTC-GTTTT-AATTTTTTACATAATTATTGAAGGT
1 ATTT-TTTTAGAAAAACACCTTCAATAATTCATTTTTAAAATTTTTA-A-GATTATTAAAGGC
* * *
11144393 A-TTTTTTAGAACAAACGCCTTCAATAATTTTC-TTTTAAAAATTTTTGAGATTATTAAAGGC
1 ATTTTTTTAGAA-AAACACCTTCAATAA--TTCATTTTTAAAATTTTTAAGATTATTAAAGGC
11144454 AT
1 AT
11144456 CTTCTAGTGA
Statistics
Matches: 532, Mismatches: 148, Indels: 136
0.65 0.18 0.17
Matches are distributed among these distances:
59 7 0.01
60 50 0.09
61 132 0.25
62 117 0.22
63 164 0.31
64 32 0.06
65 17 0.03
66 6 0.01
67 7 0.01
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.40
Consensus pattern (60 bp):
ATTTTTTTAGAAAAACACCTTCAATAATTCATTTTTAAAATTTTTAAGATTATTAAAGGC
Found at i:11144474 original size:15 final size:15
Alignment explanation
Indices: 11144454--11144485 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
11144444 TATTAAAGGC
11144454 ATCTTCTAGTGAAAA
1 ATCTTCTAGTGAAAA
11144469 ATCTTCTAGTGAAAA
1 ATCTTCTAGTGAAAA
11144484 AT
1 AT
11144486 GCCTTCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.34
Consensus pattern (15 bp):
ATCTTCTAGTGAAAA
Found at i:11144644 original size:203 final size:200
Alignment explanation
Indices: 11144269--11144666 Score: 530
Period size: 200 Copynumber: 2.0 Consensus size: 200
11144259 TATTAAAGGC
* * *
11144269 ATCTTCTAGTGAAAAACGATTTCAATATTCTACTAATCAAATTTTAAGACAATTAGTGAAGGCCT
1 ATCTTCTAGTGAAAAACGACTTCAATATTCTACTAATCAAAATTTAAGACAATTAGTGAAGACCT
* * * *
11144334 TTATTATAGAAAAACACCTTTACTAATTCGTTTTAATTTTTTACATAATTATTGAAGGTATTTTT
66 TTATTATAAAAAAACACATTCACTAATTCATTTTAATTTTTTACATAATTATTGAAGGTATTTTT
* *
11144399 TAGAACAAACGCCTTCAATAATTTTCTTTTAAAAATTTTTGAGATTATTAAAGGCATCTTCTAGT
131 GAGAACAAACGCCTTCAATAATTTTCTTTTAAAAAGTTTTGAGATTATTAAAGGCATCTTCTAGT
11144464 GAAAA
196 GAAAA
* * * * ** *
11144469 ATCTTCTAGTGAAAAATGCCTTCAATATT-TCACTACTCAAAATTTAATACGGTTAGTGAAGACG
1 ATCTTCTAGTGAAAAACGACTTCAATATTCT-ACTAATCAAAATTTAAGACAATTAGTGAAGACC
* * * *
11144533 TTTATTCTAAAAAAAATACATTCACTAATTCATTTTAATTTTTTTACGTAATTATTGAAGGTGTT
65 TTTATTAT-AAAAAAACACATTCACTAATTCATTTTAA-TTTTTTACATAATTATTGAAGGTATT
* *
11144598 TTCTGAGAACAAATGCCATT-AATAATTTTCTTTTAAAAAGTTTTGAGATTATTAAATGCATCTT
128 TT-TGAGAACAAACGCC-TTCAATAATTTTCTTTTAAAAAGTTTTGAGATTATTAAAGGCATCTT
*
11144662 TTAGT
191 CTAGT
11144667 ATAAAATGCC
Statistics
Matches: 170, Mismatches: 23, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
199 1 0.01
200 59 0.35
201 24 0.14
202 26 0.15
203 58 0.34
204 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (200 bp):
ATCTTCTAGTGAAAAACGACTTCAATATTCTACTAATCAAAATTTAAGACAATTAGTGAAGACCT
TTATTATAAAAAAACACATTCACTAATTCATTTTAATTTTTTACATAATTATTGAAGGTATTTTT
GAGAACAAACGCCTTCAATAATTTTCTTTTAAAAAGTTTTGAGATTATTAAAGGCATCTTCTAGT
GAAAA
Found at i:11148751 original size:35 final size:35
Alignment explanation
Indices: 11148699--11148768 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
11148689 ATATATAAAC
** *
11148699 CAAATGTTTTTTGAGCATAAATATACAACTGACTT
1 CAAATGTTTTTCAAGCATAAACATACAACTGACTT
*
11148734 CAAATGTTTTTCAAGCATAAACCTACAACTGACTT
1 CAAATGTTTTTCAAGCATAAACATACAACTGACTT
11148769 GACATATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.37, C:0.19, G:0.10, T:0.34
Consensus pattern (35 bp):
CAAATGTTTTTCAAGCATAAACATACAACTGACTT
Found at i:11162129 original size:26 final size:26
Alignment explanation
Indices: 11162098--11162149 Score: 88
Period size: 25 Copynumber: 2.0 Consensus size: 26
11162088 TTTAACCAGA
*
11162098 TGAAAGGGCTTCTCTAATT-AAATTT
1 TGAAAAGGCTTCTCTAATTAAAATTT
11162123 TGAAAAGGCTTCTCTAATTAAAATTT
1 TGAAAAGGCTTCTCTAATTAAAATTT
11162149 T
1 T
11162150 TTTCACTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 18 0.72
26 7 0.28
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (26 bp):
TGAAAAGGCTTCTCTAATTAAAATTT
Found at i:11163883 original size:24 final size:24
Alignment explanation
Indices: 11163850--11163898 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
11163840 TTATCCTTCA
*
11163850 ACTCAGAGCTCACTACCAACATTT
1 ACTCAAAGCTCACTACCAACATTT
11163874 ACTCAAAGCTCACTACCAACATTT
1 ACTCAAAGCTCACTACCAACATTT
11163898 A
1 A
11163899 GTGCACCATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.33, G:0.06, T:0.24
Consensus pattern (24 bp):
ACTCAAAGCTCACTACCAACATTT
Found at i:11179951 original size:81 final size:81
Alignment explanation
Indices: 11179847--11180005 Score: 241
Period size: 81 Copynumber: 2.0 Consensus size: 81
11179837 TTACGCGCAG
* * *
11179847 AAGCCATTTTAATCGGTCGCGTTCGC-ATACCATGCTAGTCCAGTTTGTTGAAAAACATATAAGG
1 AAGCCATTTTAATCGGTCGCGTTC-CAATACCACGCTAGTCAAGTTTGTTGAAAAACATATAACG
11179911 AAGAC-ATTTCATGCAA
65 AAGACAATTTCATGCAA
* *
11179927 AAGCCATTTTTAATCGGTCGCGTTCCAATACCACGCTAGTCAAGTTTGTTGAAAAACCTGTAACG
1 AAGCCA-TTTTAATCGGTCGCGTTCCAATACCACGCTAGTCAAGTTTGTTGAAAAACATATAACG
11179992 AAGACAATTTCATG
65 AAGACAATTTCATG
11180006 GATAGGGATG
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
80 7 0.10
81 56 0.79
82 8 0.11
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (81 bp):
AAGCCATTTTAATCGGTCGCGTTCCAATACCACGCTAGTCAAGTTTGTTGAAAAACATATAACGA
AGACAATTTCATGCAA
Found at i:11181774 original size:48 final size:48
Alignment explanation
Indices: 11181721--11181815 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
11181711 AATTATCATA
11181721 TGATAAAGGTAAACATTCAATTAAAACTCTAAAGAAATTGTAAACATG
1 TGATAAAGGTAAACATTCAATTAAAACTCTAAAGAAATTGTAAACATG
*
11181769 TGATAAAGGTAATCATTCAATTAAAACTCTAAAGAAATTGTAAACAT
1 TGATAAAGGTAAACATTCAATTAAAACTCTAAAGAAATTGTAAACAT
11181816 TCATATTAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.49, C:0.11, G:0.12, T:0.28
Consensus pattern (48 bp):
TGATAAAGGTAAACATTCAATTAAAACTCTAAAGAAATTGTAAACATG
Found at i:11185120 original size:16 final size:17
Alignment explanation
Indices: 11185083--11185125 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
11185073 ATTTATCAAT
11185083 AAAATAATATTTTTAACGA
1 AAAATAA-ATTTTTAAC-A
11185102 AAAATAAATTTTTAA-A
1 AAAATAAATTTTTAACA
*
11185118 AAATTAAA
1 AAAATAAA
11185126 ATTAAGTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 8 0.35
18 8 0.35
19 7 0.30
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (17 bp):
AAAATAAATTTTTAACA
Found at i:11185264 original size:32 final size:32
Alignment explanation
Indices: 11185153--11185281 Score: 111
Period size: 33 Copynumber: 4.0 Consensus size: 32
11185143 AAAAATATTT
11185153 TAAAAA-TTCTATATCATTTGTAAAAAATTGAAG
1 TAAAAATTTCTATATCATTT-TAAAAAATT-AAG
* *
11185186 TAAAAATTTCTATATCGATTTAAAAAAATTAAA
1 TAAAAATTTCTATATC-ATTTTAAAAAATTAAG
* * * * *
11185219 TTAAAA-CTCCATATCATTTTAAAATATTATG
1 TAAAAATTTCTATATCATTTTAAAAAATTAAG
**
11185250 TAAAAAATTTC-ATATTGTTTTAAAAAAATTAA
1 T-AAAAATTTCTATATCATTTT-AAAAAATTAA
11185282 TTTATTAATT
Statistics
Matches: 76, Mismatches: 15, Indels: 10
0.75 0.15 0.10
Matches are distributed among these distances:
31 13 0.17
32 19 0.25
33 23 0.30
34 17 0.22
35 4 0.05
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.39
Consensus pattern (32 bp):
TAAAAATTTCTATATCATTTTAAAAAATTAAG
Found at i:11185391 original size:23 final size:24
Alignment explanation
Indices: 11185347--11185391 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
11185337 TTTTTTTGGT
* * *
11185347 TAAAAACATTATATTCATATAAGA
1 TAAAAACATAATATTAAAATAAGA
11185371 TAAAAACATAAT-TTAAAATAA
1 TAAAAACATAATATTAAAATAA
11185392 TTTTATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 7 0.39
24 11 0.61
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (24 bp):
TAAAAACATAATATTAAAATAAGA
Found at i:11185730 original size:20 final size:20
Alignment explanation
Indices: 11185707--11185748 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
11185697 ATTAAATATC
11185707 TTATAAAATATAT-AAAAAAT
1 TTATAAAAT-TATGAAAAAAT
*
11185727 TTATAAAATTTTGAAAAAAT
1 TTATAAAATTATGAAAAAAT
11185747 TT
1 TT
11185749 CATCTTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
TTATAAAATTATGAAAAAAT
Found at i:11196623 original size:51 final size:51
Alignment explanation
Indices: 11196562--11196663 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
11196552 GTGAAAATCA
11196562 TCTATAGTAGTATATGAATTTCTTAATTAGCGTTTACTGATAAAACTATGT
1 TCTATAGTAGTATATGAATTTCTTAATTAGCGTTTACTGATAAAACTATGT
11196613 TCTATAGTAGTATATGAATTTCTTAATTAGCGTTTACTGATAAAACTATGT
1 TCTATAGTAGTATATGAATTTCTTAATTAGCGTTTACTGATAAAACTATGT
11196664 AAAAATGCAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (51 bp):
TCTATAGTAGTATATGAATTTCTTAATTAGCGTTTACTGATAAAACTATGT
Found at i:11218740 original size:30 final size:27
Alignment explanation
Indices: 11218684--11218741 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 27
11218674 TATAGTAAGA
*
11218684 AAAAATTATTATTAAAGATATTAAATT
1 AAAAATTATTATTAAAAATATTAAATT
*
11218711 AAAAATTATATATAATAAAAATTTTAAATT
1 AAAAATTAT-TAT--TAAAAATATTAAATT
11218741 A
1 A
11218742 TTTAATATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 9 0.35
28 3 0.12
30 14 0.54
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
AAAAATTATTATTAAAAATATTAAATT
Found at i:11218784 original size:19 final size:19
Alignment explanation
Indices: 11218736--11218785 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
11218726 TAAAAATTTT
* * *
11218736 AAATTATTTAATATTTACA
1 AAATTATTAAATAATTAAA
11218755 AAATT-TATAAATAATTAAA
1 AAATTAT-TAAATAATTAAA
11218774 AAATTATTAAAT
1 AAATTATTAAAT
11218786 TATTTTCATA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 24 0.92
20 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
AAATTATTAAATAATTAAA
Found at i:11218891 original size:5 final size:5
Alignment explanation
Indices: 11218881--11218906 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11218871 TAAAATATTT
11218881 TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA T
11218907 TACCAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:11219480 original size:27 final size:26
Alignment explanation
Indices: 11219431--11219493 Score: 90
Period size: 27 Copynumber: 2.4 Consensus size: 26
11219421 TATTTGGTAT
*
11219431 ATAAAATTATGATAGGATAAGATAAA
1 ATAATATTATGATAGGATAAGATAAA
* *
11219457 ATAATATTATGAATAGGATTAGATTAA
1 ATAATATTATG-ATAGGATAAGATAAA
11219484 ATAATATTAT
1 ATAATATTAT
11219494 TTTATATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 10 0.30
27 23 0.70
ACGTcount: A:0.52, C:0.00, G:0.13, T:0.35
Consensus pattern (26 bp):
ATAATATTATGATAGGATAAGATAAA
Found at i:11222585 original size:12 final size:12
Alignment explanation
Indices: 11222568--11222592 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11222558 TTTCTCTCAT
11222568 ATTTAAAAAATA
1 ATTTAAAAAATA
11222580 ATTTAAAAAATA
1 ATTTAAAAAATA
11222592 A
1 A
11222593 AAAATTATCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATTTAAAAAATA
Found at i:11224788 original size:4 final size:4
Alignment explanation
Indices: 11224779--11224805 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
11224769 ATTTTGGTAC
11224779 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
11224806 TTGTTGAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:11225584 original size:22 final size:22
Alignment explanation
Indices: 11225556--11225600 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
11225546 TAACTCTCTC
11225556 TCTCTACTTCGCTTATAAGCTT
1 TCTCTACTTCGCTTATAAGCTT
11225578 TCTCTACTTCGCTTATAAGCTT
1 TCTCTACTTCGCTTATAAGCTT
11225600 T
1 T
11225601 ATAAATCGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.18, C:0.27, G:0.09, T:0.47
Consensus pattern (22 bp):
TCTCTACTTCGCTTATAAGCTT
Found at i:11229672 original size:16 final size:15
Alignment explanation
Indices: 11229651--11229696 Score: 60
Period size: 13 Copynumber: 3.1 Consensus size: 15
11229641 GGTCTTGAAT
11229651 TTTAGGGTTTGGAAA
1 TTTAGGGTTTGGAAA
*
11229666 GTTTAGGGTTTTG--A
1 -TTTAGGGTTTGGAAA
11229680 TTTAGGGTTTGGAAA
1 TTTAGGGTTTGGAAA
11229695 TT
1 TT
11229697 AGGTTTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 11 0.42
14 1 0.04
15 3 0.12
16 11 0.42
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.46
Consensus pattern (15 bp):
TTTAGGGTTTGGAAA
Found at i:11229685 original size:29 final size:30
Alignment explanation
Indices: 11229649--11229778 Score: 119
Period size: 30 Copynumber: 4.4 Consensus size: 30
11229639 TAGGTCTTGA
11229649 ATTTTAGGGTTTGGAAAGTTTAGGGTTTTG
1 ATTTTAGGGTTTGGAAAGTTTAGGGTTTTG
*
11229679 A-TTTAGGGTTTGGAAA--TTAGGTTTTTG
1 ATTTTAGGGTTTGGAAAGTTTAGGGTTTTG
* * * * **
11229706 ATTTCAGGGTTT-TAAAGGTTTAAGGATTCA
1 ATTTTAGGGTTTGGAAA-GTTTAGGGTTTTG
*
11229736 ATTTTAAGGGTTT-G-AGGTTTTAGGGTTTTG
1 ATTTT-AGGGTTTGGAAAG-TTTAGGGTTTTG
11229766 ATTTTAGGGTTTG
1 ATTTTAGGGTTTG
11229779 ACGTTTGGGG
Statistics
Matches: 78, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
27 14 0.18
28 9 0.12
29 23 0.29
30 25 0.32
31 7 0.09
ACGTcount: A:0.22, C:0.02, G:0.30, T:0.47
Consensus pattern (30 bp):
ATTTTAGGGTTTGGAAAGTTTAGGGTTTTG
Found at i:11229762 original size:15 final size:14
Alignment explanation
Indices: 11229735--11229820 Score: 66
Period size: 14 Copynumber: 5.9 Consensus size: 14
11229725 TTAAGGATTC
11229735 AATTTTAAGGGTTTG
1 AATTTT-AGGGTTTG
*
11229750 AGGTTTTAGGGTTTTG
1 A-ATTTTAGGG-TTTG
11229766 -ATTTTAGGGTTTG
1 AATTTTAGGGTTTG
** * *
11229779 ACGTTTGGGGTTTC
1 AATTTTAGGGTTTG
*
11229793 AATTTTAAGGTTTG
1 AATTTTAGGGTTTG
*
11229807 AGATTTTAAGGTTT
1 A-ATTTTAGGGTTT
11229821 AGTGCTTTGA
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
13 4 0.07
14 27 0.48
15 17 0.30
16 8 0.14
ACGTcount: A:0.20, C:0.02, G:0.29, T:0.49
Consensus pattern (14 bp):
AATTTTAGGGTTTG
Found at i:11229772 original size:14 final size:14
Alignment explanation
Indices: 11229636--11229777 Score: 65
Period size: 14 Copynumber: 9.8 Consensus size: 14
11229626 GTTTTAAAGG
*
11229636 TTTTA-GGTCTTGAA
1 TTTTAGGGTTTTG-A
*
11229650 TTTTAGGGTTTGGAAA
1 TTTTAGGGTTTTG--A
*
11229666 GTTTAGGGTTTTGA
1 TTTTAGGGTTTTGA
*
11229680 -TTTAGGGTTTGGA
1 TTTTAGGGTTTTGA
** *
11229693 AATTAGGTTTTTGA
1 TTTTAGGGTTTTGA
* *
11229707 TTTCAGGGTTTTAAA
1 TTTTAGGGTTTT-GA
* * * **
11229722 GGTTTAAGGATTCAA
1 -TTTTAGGGTTTTGA
11229737 TTTTAAGGG-TTTGA
1 TTTT-AGGGTTTTGA
11229751 GGTTTTAGGGTTTTGA
1 --TTTTAGGGTTTTGA
11229767 TTTTAGGGTTT
1 TTTTAGGGTTT
11229778 GACGTTTGGG
Statistics
Matches: 97, Mismatches: 22, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
13 12 0.12
14 41 0.42
15 15 0.15
16 29 0.30
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.48
Consensus pattern (14 bp):
TTTTAGGGTTTTGA
Found at i:11229779 original size:29 final size:28
Alignment explanation
Indices: 11229649--11230111 Score: 116
Period size: 29 Copynumber: 15.4 Consensus size: 28
11229639 TAGGTCTTGA
*
11229649 ATTTTAGGGTTTGGAAAGTTTAGGGTTTTG
1 ATTTTAGGGTTT-G-AGGTTTAGGGTTTTG
** *
11229679 A-TTTAGGGTTTG-GAAATTAGGTTTTTG
1 ATTTTAGGGTTTGAG-GTTTAGGGTTTTG
* * * * **
11229706 ATTTCAGGGTTTTAAAGGTTTAAGGATTCA
1 ATTTTAGGG-TTT-GAGGTTTAGGGTTTTG
11229736 ATTTTAAGGGTTTGAGGTTTTAGGGTTTTG
1 ATTTT-AGGGTTTGAGG-TTTAGGGTTTTG
* * **
11229766 ATTTTAGGGTTTGACGTTTGGGGTTTCA
1 ATTTTAGGGTTTGAGGTTTAGGGTTTTG
* *
11229794 ATTTTAAGGTTTGAGATTTTAAGGTTTAGTGCTTTG
1 ATTTTAGGGTTTGAG-GTTT-AGG----GT--TTTG
*
11229830 ATTTTAGGGTTTAAATTTTGAGGTTTCA-TGTTTTG
1 ATTTTAGGG-------TTTGAGGTTT-AGGGTTTTG
* * *
11229865 TTTTTAGGGTTTAGATGGTTTA-GGATTTC
1 ATTTTAGGGTTT-GA-GGTTTAGGGTTTTG
* *
11229894 ATTTCAGGGTTTAGAGGGTTTAGAGTTTTG
1 ATTTTAGGGTTT-GA-GGTTTAGGGTTTTG
* ** * * *
11229924 TTTTTATAGTTTAAAAGGTTTAGGG-ATTC
1 ATTTTAGGGTTT--GAGGTTTAGGGTTTTG
* *
11229953 ATTTTTAGGGTTTAGAGGATTTA-GGATTTC
1 A-TTTTAGGGTTT-GAGG-TTTAGGGTTTTG
* * *
11229983 ATTTTAAGGTTT-AGATTTTAGGG-TTTC
1 ATTTTAGGGTTTGAG-GTTTAGGGTTTTG
* ** * * *
11230010 ATTTTTAGGGATTGGAAAATTTAAGATTTCG
1 A-TTTTAGGG-TTTG-AGGTTTAGGGTTTTG
*
11230041 -TTTTAGGGTTTGGAGGTTTAGAGTTTTG
1 ATTTTAGGGTTT-GAGGTTTAGGGTTTTG
* *
11230069 TTTTTAGGGTTTAGAGGGTTTAGGATTTTG
1 ATTTTAGGGTTT-GA-GGTTTAGGGTTTTG
*
11230099 AAATTTAGGGTTT
1 -ATTTTAGGGTTT
11230112 TATTTTTTTA
Statistics
Matches: 315, Mismatches: 78, Indels: 79
0.67 0.17 0.17
Matches are distributed among these distances:
27 22 0.07
28 52 0.17
29 97 0.31
30 88 0.28
31 20 0.06
34 2 0.01
35 12 0.04
36 10 0.03
37 2 0.01
42 4 0.01
43 6 0.02
ACGTcount: A:0.22, C:0.03, G:0.28, T:0.48
Consensus pattern (28 bp):
ATTTTAGGGTTTGAGGTTTAGGGTTTTG
Found at i:11229805 original size:88 final size:88
Alignment explanation
Indices: 11229626--11229805 Score: 188
Period size: 88 Copynumber: 2.0 Consensus size: 88
11229616 ATTGGTTCGA
* * *
11229626 GTTTTAAAGGTTTTAGGTCTTGAATTTTAGGGTTTGGAAAGTTTAGGGTTTTGATTTAGGGTTTG
1 GTTTTAAAGGTTTAAGGTATTCAATTTTAGGGTTTGGAAAGTTTAGGGTTTTGATTTAGGGTTTG
* ** *
11229691 GAAATTAGGTTTTTGATTTCAGG
66 GAAATTAGGGTTTCAATTTCAAG
*
11229714 GTTTTAAAGGTTTAAGG-ATTCAATTTTAAGGGTTT-G-AGGTTTTAGGGTTTTGATTTTAGGGT
1 GTTTTAAAGGTTTAAGGTATTCAATTTT-AGGGTTTGGAAAG-TTTAGGGTTTTGA-TTTAGGGT
** * *
11229776 TT-GACGTTTGGGGTTTCAATTTTAAG
63 TTGGA-AATTAGGGTTTCAATTTCAAG
11229802 GTTT
1 GTTT
11229806 GAGATTTTAA
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
86 2 0.03
87 24 0.32
88 50 0.66
ACGTcount: A:0.21, C:0.03, G:0.29, T:0.47
Consensus pattern (88 bp):
GTTTTAAAGGTTTAAGGTATTCAATTTTAGGGTTTGGAAAGTTTAGGGTTTTGATTTAGGGTTTG
GAAATTAGGGTTTCAATTTCAAG
Found at i:11229855 original size:35 final size:35
Alignment explanation
Indices: 11229794--11229877 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 35
11229784 TGGGGTTTCA
* *
11229794 ATTTTAAGGTTTGAGATTTTAAGGTTT-AGTGCTTTG
1 ATTTTAGGGTTT-AAATTTTAAGGTTTCA-TGCTTTG
* *
11229830 ATTTTAGGGTTTAAATTTTGAGGTTTCATGTTTTG
1 ATTTTAGGGTTTAAATTTTAAGGTTTCATGCTTTG
*
11229865 TTTTTAGGGTTTA
1 ATTTTAGGGTTTA
11229878 GATGGTTTAG
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
35 30 0.71
36 12 0.29
ACGTcount: A:0.20, C:0.02, G:0.24, T:0.54
Consensus pattern (35 bp):
ATTTTAGGGTTTAAATTTTAAGGTTTCATGCTTTG
Found at i:11229922 original size:59 final size:60
Alignment explanation
Indices: 11229859--11230091 Score: 196
Period size: 59 Copynumber: 4.0 Consensus size: 60
11229849 GAGGTTTCAT
* *
11229859 GTTTTGTTTTTAGGGTTTAGATGGTTTAGGATTTCA-TTTCAGGGTTTAGAGGGTTTAGA
1 GTTTTGTTTTTAGGGTTTAGATGGTTTAGGATTTCATTTTTAGGGTTTAGAGGATTTAGA
** * *
11229918 GTTTTGTTTTTATAGTTTAAAAGGTTTAGGGA-TTCATTTTTAGGGTTTAGAGGATTTAG-
1 GTTTTGTTTTTAGGGTTTAGATGGTTTA-GGATTTCATTTTTAGGGTTTAGAGGATTTAGA
* ** * * * * **
11229977 GATTTCATTTTAAGGTTTAGAT--TTTAGGGTTTCATTTTTAGGGATTGGAAAATTTA-A
1 GTTTTGTTTTTAGGGTTTAGATGGTTTAGGATTTCATTTTTAGGGTTTAGAGGATTTAGA
* * ** *
11230034 GATTTCG-TTTTAGGGTTTGGA-GGTTTA-GAGTTTTGTTTTTAGGGTTTAGAGGGTTTAG
1 G-TTTTGTTTTTAGGGTTTAGATGGTTTAGGA-TTTCATTTTTAGGGTTTAGAGGATTTAG
11230092 GATTTTGAAA
Statistics
Matches: 134, Mismatches: 31, Indels: 18
0.73 0.17 0.10
Matches are distributed among these distances:
56 2 0.01
57 40 0.30
58 26 0.19
59 43 0.32
60 23 0.17
ACGTcount: A:0.21, C:0.03, G:0.28, T:0.48
Consensus pattern (60 bp):
GTTTTGTTTTTAGGGTTTAGATGGTTTAGGATTTCATTTTTAGGGTTTAGAGGATTTAGA
Found at i:11230015 original size:14 final size:14
Alignment explanation
Indices: 11229942--11230019 Score: 52
Period size: 14 Copynumber: 5.5 Consensus size: 14
11229932 GTTTAAAAGG
*
11229942 TTTAGGGATTCATT
1 TTTAGGGTTTCATT
* **
11229956 TTTAGGGTTTAGAGGA
1 TTTAGGGTTT-CA-TT
*
11229972 TTTAGGATTTCA-T
1 TTTAGGGTTTCATT
* *
11229985 TTTAAGGTTT-AGAT
1 TTTAGGGTTTCA-TT
11229999 TTTAGGGTTTCATT
1 TTTAGGGTTTCATT
11230013 TTTAGGG
1 TTTAGGG
11230020 ATTGGAAAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
12 1 0.02
13 8 0.17
14 27 0.56
15 3 0.06
16 9 0.19
ACGTcount: A:0.22, C:0.04, G:0.26, T:0.49
Consensus pattern (14 bp):
TTTAGGGTTTCATT
Found at i:11230098 original size:30 final size:30
Alignment explanation
Indices: 11229860--11230098 Score: 154
Period size: 29 Copynumber: 8.2 Consensus size: 30
11229850 AGGTTTCATG
*
11229860 TTTTGTTTTTAGGGTTTAGATGGTTTAGGA
1 TTTTGTTTTTAGGGTTTAGAGGGTTTAGGA
** *
11229890 -TTTCATTTCAGGGTTTAGAGGGTTTA-GA
1 TTTTGTTTTTAGGGTTTAGAGGGTTTAGGA
** * *
11229918 GTTTTGTTTTTATAGTTTAAAAGGTTTAGGGA
1 -TTTTGTTTTTAGGGTTTAGAGGGTTTA-GGA
** *
11229950 -TTCATTTTTAGGGTTTAGAGGATTTAGGA
1 TTTTGTTTTTAGGGTTTAGAGGGTTTAGGA
** * * *
11229979 -TTTCATTTTAAGGTTTAGA--TTTTAGGG
1 TTTTGTTTTTAGGGTTTAGAGGGTTTAGGA
** * * *** *
11230006 TTTCATTTTTAGGGATTGGAAAATTTAAGA
1 TTTTGTTTTTAGGGTTTAGAGGGTTTAGGA
* *
11230036 TTTCG-TTTTAGGGTTTGGA-GGTTTA-GA
1 TTTTGTTTTTAGGGTTTAGAGGGTTTAGGA
11230063 GTTTTGTTTTTAGGGTTTAGAGGGTTTAGGA
1 -TTTTGTTTTTAGGGTTTAGAGGGTTTAGGA
11230094 TTTTG
1 TTTTG
11230099 AAATTTAGGG
Statistics
Matches: 159, Mismatches: 39, Indels: 22
0.72 0.18 0.10
Matches are distributed among these distances:
27 8 0.05
28 23 0.14
29 66 0.42
30 58 0.36
31 2 0.01
32 2 0.01
ACGTcount: A:0.21, C:0.03, G:0.28, T:0.49
Consensus pattern (30 bp):
TTTTGTTTTTAGGGTTTAGAGGGTTTAGGA
Found at i:11231654 original size:16 final size:16
Alignment explanation
Indices: 11231605--11231656 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
11231595 CTTTTTTTTC
11231605 TTTAATTAATTAATT--
1 TTTAATT-ATTAATTAA
*
11231620 TTTTATTATTAA-TATA
1 TTTAATTATTAATTA-A
11231636 TTTAATTATTAATTAA
1 TTTAATTATTAATTAA
11231652 TTTAA
1 TTTAA
11231657 AATTTTAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
13 1 0.03
14 5 0.16
15 6 0.19
16 17 0.55
17 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTAATTATTAATTAA
Found at i:11231944 original size:37 final size:36
Alignment explanation
Indices: 11231903--11232242 Score: 193
Period size: 37 Copynumber: 9.2 Consensus size: 36
11231893 ACAATATTAC
*
11231903 AAGTCAAGAAATAAAGAATCGACTGGGACAACACCGT
1 AAGTCAA-AAATAAAGAATCGACTGGGACAACACCAT
* * * *
11231940 AAGTCGAAAGATAAAGAATCGA-TCGAGACAAAATCAT
1 AAGTC-AAAAATAAAGAATCGACT-GGGACAACACCAT
* * * *** *
11231977 AAGTCAAAATTAAAGTATTGACTCAAACAACACCGT
1 AAGTCAAAAATAAAGAATCGACTGGGACAACACCAT
* *
11232013 AAGTCAAAAAATAAAGAATTGA-TCGGGACAACACCAC
1 AAGTC-AAAAATAAAGAATCGACT-GGGACAACACCAT
* * * * *
11232050 AAGTTGAAAAGTAACGAATCGACTAGGACAACATCAT
1 AAG-TCAAAAATAAAGAATCGACTGGGACAACACCAT
**
11232087 AAGTCAAAAGATAAAGAATCGACTTAGACAAC-CCTAT
1 AAGTCAAAA-ATAAAGAATCGACTGGGACAACACC-AT
* * * * * * *** *
11232124 GAGTTGAGAGATAGAGAATCAACCAAGACAGCACCAT
1 AAG-TCAAAAATAAAGAATCGACTGGGACAACACCAT
* * * * *
11232161 GAGTCGAAATTAAAGAATCGACAGGGATAACACCAT
1 AAGTCAAAAATAAAGAATCGACTGGGACAACACCAT
* * *
11232197 GAGTCTAGAAATAAAGAATCGA-TCAGGACAACACCAT
1 AAGTC-AAAAATAAAGAATCGACT-GGGACAACACCAT
*
11232234 AAATCAAAA
1 AAGTCAAAA
11232243 TTACGTTCGG
Statistics
Matches: 226, Mismatches: 64, Indels: 27
0.71 0.20 0.09
Matches are distributed among these distances:
36 62 0.27
37 155 0.69
38 9 0.04
ACGTcount: A:0.48, C:0.18, G:0.18, T:0.16
Consensus pattern (36 bp):
AAGTCAAAAATAAAGAATCGACTGGGACAACACCAT
Found at i:11232416 original size:132 final size:131
Alignment explanation
Indices: 11232205--11232542 Score: 354
Period size: 132 Copynumber: 2.6 Consensus size: 131
11232195 ATGAGTCTAG
* * **** **
11232205 AAATAAAGAATCGATCAGGACAACACCATAAATCA-AAATTACGTTCGGAGGTCTTAAAGATTAT
1 AAATAAAGAATCGATCAGAATAACACCATAAAT-AGAAATTATACCCAAAGGTCTTAAAGATTAT
** * * * * * * * * *
11232269 GTCCAAAAGTCTTAAAAATCATGCTCGAAGATTTTACAGAATCGACTGGGACAATACCGTAAATC
65 G-CCGGAGGTATTAAAAATCATACCCAAAGATCTTACAGAATCAACCGGGACAATACCATAAATC
11232334 AAA
129 AAA
** * * * * * *
11232337 AAATAAAGAATCGATTGGGATAACATCGTAAATTGTAATTATACCTAAAGGTCTTAAAGATTATG
1 AAATAAAGAATCGATCAGAATAACACCATAAATAGAAATTATACCCAAAGGTCTTAAAGATTATG
* *
11232402 CCTGGAGGTATTAAAAATCATACCCAAAGGTCTTACAGAATCAACCGGGACAATACCATAAGTCA
66 CC-GGAGGTATTAAAAATCATACCCAAAGATCTTACAGAATCAACCGGGACAATACCATAAATCA
11232467 AA
130 AA
* *
11232469 AAATAAAGAATCGATCAGAATAACACCATGAATAGAAATTATGCCCAAAGGTCTTAAAGATTATG
1 AAATAAAGAATCGATCAGAATAACACCATAAATAGAAATTATACCCAAAGGTCTTAAAGATTATG
11232534 CCCGGAGGT
66 -CCGGAGGT
11232543 CTTATAGAAT
Statistics
Matches: 166, Mismatches: 37, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
131 2 0.01
132 162 0.98
133 2 0.01
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.24
Consensus pattern (131 bp):
AAATAAAGAATCGATCAGAATAACACCATAAATAGAAATTATACCCAAAGGTCTTAAAGATTATG
CCGGAGGTATTAAAAATCATACCCAAAGATCTTACAGAATCAACCGGGACAATACCATAAATCAA
A
Found at i:11232689 original size:88 final size:88
Alignment explanation
Indices: 11232528--11232689 Score: 225
Period size: 88 Copynumber: 1.8 Consensus size: 88
11232518 GGTCTTAAAG
** * *
11232528 ATTATGCCCGGAGGTCTTATAGAATCGACTGAGATAACACCGCAAGTTAAAAAATAAAGAATCAA
1 ATTATGCCCAAAGGTCTTATAGAATCGACTGAGACAACACCGCAAGTCAAAAAATAAAGAATCAA
*
11232593 TTGAGATAACATCGTGAATCAAA
66 TCGAGATAACATCGTGAATCAAA
* * * * *
11232616 ATTATGCCCAAAGGTCTTATAGAATCGATTGGGACGACACCGTAAGTCAAAAAATAAAGAATCGA
1 ATTATGCCCAAAGGTCTTATAGAATCGACTGAGACAACACCGCAAGTCAAAAAATAAAGAATCAA
*
11232681 TCGGGATAA
66 TCGAGATAA
11232690 TACTGTAAAT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
88 63 1.00
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (88 bp):
ATTATGCCCAAAGGTCTTATAGAATCGACTGAGACAACACCGCAAGTCAAAAAATAAAGAATCAA
TCGAGATAACATCGTGAATCAAA
Found at i:11232706 original size:88 final size:88
Alignment explanation
Indices: 11232528--11232722 Score: 221
Period size: 88 Copynumber: 2.2 Consensus size: 88
11232518 GGTCTTAAAG
** * *
11232528 ATTATGCCCGGAGGTCTTATAGAATCGACTGAGATAACACCGCAAGTTAAAAAATAAAGAATCAA
1 ATTATGCCCAAAGGTCTTATAGAATCGACTGAGACAACACCGCAAGTCAAAAAATAAAGAATCAA
* *
11232593 TTGAGATAACATCGTGAATCAAA
66 TCGAGATAACATCGTAAATCAAA
* * * * *
11232616 ATTATGCCCAAAGGTCTTATAGAATCGATTGGGACGACACCGTAAGTCAAAAAATAAAGAATCGA
1 ATTATGCCCAAAGGTCTTATAGAATCGACTGAGACAACACCGCAAGTCAAAAAATAAAGAATCAA
* * **
11232681 TCGGGATAATA-CTGTAAATTGAA
66 TCGAGATAACATC-GTAAATCAAA
* *
11232704 ATTATACTCAAAGGTCTTA
1 ATTATGCCCAAAGGTCTTA
11232723 AAGATTATAC
Statistics
Matches: 89, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
87 1 0.01
88 88 0.99
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (88 bp):
ATTATGCCCAAAGGTCTTATAGAATCGACTGAGACAACACCGCAAGTCAAAAAATAAAGAATCAA
TCGAGATAACATCGTAAATCAAA
Found at i:11232923 original size:330 final size:329
Alignment explanation
Indices: 11232306--11232923 Score: 825
Period size: 330 Copynumber: 1.9 Consensus size: 329
11232296 AAGATTTTAC
* *
11232306 AGAATCGACTGGGACAATACCGTAAATCAAAAAATAAAGAATCGATTGGGATAACATCGTAAATT
1 AGAATCGACTGGGACAACACCGTAAATCAAAAAATAAAGAATCGATCGGGATAACATCGTAAATT
* * * * *
11232371 GTAATTATACCTAAAGGTCTTAAAGATTATGCCTGGAGGTATTAAAAATCATACCCAAAGGTCTT
66 GAAATTATACCTAAAGGTCTTAAAGATTATACCTAGAGATATTAAAAATCATACCCAAAGATCTT
* * *
11232436 ACAGAATCAACCGGGACAATACCATAAGTCAAAAAATAAAGAATCGATCAGAATAACACCATGAA
131 ACAGAATCAACCGGGACAATACCACAAGCCAAAAAATAAAAAATCGATCAGAATAACACCA-GAA
* * *
11232501 TAGAAATTATGCCCAAAGGTCTTAAAGATTATGCCCGGAGGTCTTATAGAATCGACTGAGATAAC
195 TAGAAATTATGCCCAAAGGTCTTAAAAATTATGCCCGAAGGTCTTACAGAATCGACTGAGATAAC
* *
11232566 ACCGCAAGTTAAAAAATAAAGAATCAATTGAGATAACATCGTGAATCAAAATTATGCCCAAAGGT
260 ACCGCAAGTCAAAAAATAAAAAATCAATTGAGATAACATCGTGAATCAAAATTATGCCCAAAGGT
11232631 CTTAT
325 CTTAT
* * * *
11232636 AGAATCGATTGGGACGACACCGTAAGTCAAAAAATAAAGAATCGATCGGGATAATA-CTGTAAAT
1 AGAATCGACTGGGACAACACCGTAAATCAAAAAATAAAGAATCGATCGGGATAACATC-GTAAAT
* * ***
11232700 TGAAATTATA-CTCAAAGGTCTTAAAGATTATACCTAGAGATCTTATAAATCAT-GTTAAGAGAT
65 TGAAATTATACCT-AAAGGTCTTAAAGATTATACCTAGAGATATTAAAAATCATACCCAA-AGAT
* * * *
11232763 CTTACA-AATCGATCGGGACAATACCACAAGCCAAAAAATAAAAAATCGATCAGGATAATACTGC
128 CTTACAGAATCAACCGGGACAATACCACAAGCCAAAAAATAAAAAATCGATCAGAATAACAC--C
* * *
11232827 A-AATCA-AAATTATGCCCAGAGGTCTTTAAAAATTATGCTCGAAGGTCTTACAGAATCGATTGA
191 AGAAT-AGAAATTATGCCCAAAGGTC-TTAAAAATTATGCCCGAAGGTCTTACAGAATCGACTGA
* *
11232890 GATAACACCGTAAGTCAAAAATTAAAAAATCAAT
254 GATAACACCGCAAGTCAAAAAATAAAAAATCAAT
11232924 CAGGATAATA
Statistics
Matches: 248, Mismatches: 33, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
329 73 0.29
330 173 0.70
331 2 0.01
ACGTcount: A:0.44, C:0.16, G:0.17, T:0.24
Consensus pattern (329 bp):
AGAATCGACTGGGACAACACCGTAAATCAAAAAATAAAGAATCGATCGGGATAACATCGTAAATT
GAAATTATACCTAAAGGTCTTAAAGATTATACCTAGAGATATTAAAAATCATACCCAAAGATCTT
ACAGAATCAACCGGGACAATACCACAAGCCAAAAAATAAAAAATCGATCAGAATAACACCAGAAT
AGAAATTATGCCCAAAGGTCTTAAAAATTATGCCCGAAGGTCTTACAGAATCGACTGAGATAACA
CCGCAAGTCAAAAAATAAAAAATCAATTGAGATAACATCGTGAATCAAAATTATGCCCAAAGGTC
TTAT
Found at i:11233187 original size:220 final size:221
Alignment explanation
Indices: 11232782--11233192 Score: 549
Period size: 220 Copynumber: 1.9 Consensus size: 221
11232772 CGATCGGGAC
* *
11232782 AATACCACAAGCCAAAAAATAAAAAATCGATCAGGATAATACTGCAAATCAAAATTATGCCCAGA
1 AATACCACAAGCCAAAAAATAAAAAATCGATCAGGATAACACTACAAATCAAAATTATGCCCAGA
* * * *
11232847 GGTCTTTAAAAATTATGCTCGAAGGTCTTACAGAATCGATTGAGATAACACCGTAAGTCAAAAAT
66 GGTCTTTAAAAATCATACTCGAAGGTCTTACAGAATCGATCGAGATAACACCGTAAGTCAAAAAA
* * * * * *
11232912 TAAAAAATCAATCAGGATAATACTTCGAATCGAAATTATGTCCGGAGGTCTTAAAGCTTATACCT
131 TAAAAAATCAATCAGAATAATACTGCGAAACAAAATTATGTCCGGAGGCCTTAAAGATTATACCT
11232977 GAAGATCTTATAGAATCGACTGAAAA
196 GAAGATCTTATAGAATCGACTGAAAA
* * * * *
11233003 AATACCATAAGTCAAAAAATAAAGAATCGATCGGGATAACACTACGAATCAAAATTATGCCCAGA
1 AATACCACAAGCCAAAAAATAAAAAATCGATCAGGATAACACTACAAATCAAAATTATGCCCAGA
* * * * * * *
11233068 GGTC-TTAGAAATCATACTTGGAGGTCTTTCATAATCGATCGAGATAATACCGTAAGTTAAAAAA
66 GGTCTTTAAAAATCATACTCGAAGGTCTTACAGAATCGATCGAGATAACACCGTAAGTCAAAAAA
* *
11233132 TAAAGAATCAATCAGAATAATA-TCGCGAAACAAAATTATG-CTTGGAGGCCTTAAAGATTAT
131 TAAAAAATCAATCAGAATAATACT-GCGAAACAAAATTATGTC-CGGAGGCCTTAAAGATTAT
11233193 GCACGGAGGT
Statistics
Matches: 162, Mismatches: 26, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
219 2 0.01
220 98 0.60
221 62 0.38
ACGTcount: A:0.44, C:0.16, G:0.16, T:0.25
Consensus pattern (221 bp):
AATACCACAAGCCAAAAAATAAAAAATCGATCAGGATAACACTACAAATCAAAATTATGCCCAGA
GGTCTTTAAAAATCATACTCGAAGGTCTTACAGAATCGATCGAGATAACACCGTAAGTCAAAAAA
TAAAAAATCAATCAGAATAATACTGCGAAACAAAATTATGTCCGGAGGCCTTAAAGATTATACCT
GAAGATCTTATAGAATCGACTGAAAA
Found at i:11233202 original size:110 final size:110
Alignment explanation
Indices: 11232769--11233192 Score: 374
Period size: 110 Copynumber: 3.8 Consensus size: 110
11232759 AGATCTTACA
* * ** * *
11232769 AATCGATCGGGACAATACCACAAGCCAAAAAATAAAAAATCGATCAGGATAATACTGC-AAATCA
1 AATCGATCGAGATAATACCGTAAGTCAAAAAATAAAAAATCAATCAGGATAATACTGCGAAA-CA
* * * *
11232833 AAATTATGCCCAGAGGTCTTTAAAAATTATGCTCGAAGGTCTTACAG
65 AAATTATGCCCAGAGG-CCTTAAAGATTATACTCGAAGGTCTTTCAG
* * * * * *
11232880 AATCGATTGAGATAACACCGTAAGTCAAAAATTAAAAAATCAATCAGGATAATACTTCGAATCGA
1 AATCGATCGAGATAATACCGTAAGTCAAAAAATAAAAAATCAATCAGGATAATACTGCGAAACAA
* * * * *
11232945 AATTATGTCCGGAGGTCTTAAAGCTTATAC-CTGAAGATCTTAT-AG
66 AATTATGCCCAGAGGCCTTAAAGATTATACTC-GAAGGTCTT-TCAG
* * * * * * * * *
11232990 AATCGA-CTGAAAAAATACCATAAGTCAAAAAATAAAGAATCGATCGGGATAACACTACGAATCA
1 AATCGATC-GAGATAATACCGTAAGTCAAAAAATAAAAAATCAATCAGGATAATACTGCGAAACA
* * * * *
11233054 AAATTATGCCCAGAGGTCTTAGAA-ATCATACTTGGAGGTCTTTCAT
65 AAATTATGCCCAGAGGCCTTA-AAGATTATACTCGAAGGTCTTTCAG
* * *
11233100 AATCGATCGAGATAATACCGTAAGTTAAAAAATAAAGAATCAATCAGAATAATA-TCGCGAAACA
1 AATCGATCGAGATAATACCGTAAGTCAAAAAATAAAAAATCAATCAGGATAATACT-GCGAAACA
***
11233164 AAATTATGCTTGGAGGCCTTAAAGATTAT
65 AAATTATGCCCAGAGGCCTTAAAGATTAT
11233193 GCACGGAGGT
Statistics
Matches: 247, Mismatches: 56, Indels: 21
0.76 0.17 0.06
Matches are distributed among these distances:
109 5 0.02
110 174 0.70
111 66 0.27
112 2 0.01
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (110 bp):
AATCGATCGAGATAATACCGTAAGTCAAAAAATAAAAAATCAATCAGGATAATACTGCGAAACAA
AATTATGCCCAGAGGCCTTAAAGATTATACTCGAAGGTCTTTCAG
Found at i:11234627 original size:11 final size:10
Alignment explanation
Indices: 11234607--11234648 Score: 52
Period size: 9 Copynumber: 4.3 Consensus size: 10
11234597 GTACATGCTC
11234607 TTTT-TTTTT
1 TTTTGTTTTT
*
11234616 TTTTG-CTTT
1 TTTTGTTTTT
11234625 TTTTGTTTTTT
1 TTTTG-TTTTT
11234636 TTTTGTTTTT
1 TTTTGTTTTT
11234646 TTT
1 TTT
11234649 AATTCTAACT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 12 0.43
10 8 0.29
11 8 0.29
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.90
Consensus pattern (10 bp):
TTTTGTTTTT
Found at i:11234627 original size:17 final size:18
Alignment explanation
Indices: 11234602--11234637 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
11234592 TCAAGGTACA
11234602 TGCTCTTTTT-TTTTTTT
1 TGCTCTTTTTGTTTTTTT
*
11234619 TGCTTTTTTTGTTTTTTT
1 TGCTCTTTTTGTTTTTTT
11234637 T
1 T
11234638 TTGTTTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.83
Consensus pattern (18 bp):
TGCTCTTTTTGTTTTTTT
Found at i:11234648 original size:20 final size:20
Alignment explanation
Indices: 11234610--11234647 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11234600 CATGCTCTTT
11234610 TTTTTTTTTTGCTTTTTTTG
1 TTTTTTTTTTGCTTTTTTTG
11234630 TTTTTTTTTTG-TTTTTTT
1 TTTTTTTTTTGCTTTTTTT
11234648 TAATTCTAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.00, C:0.03, G:0.08, T:0.89
Consensus pattern (20 bp):
TTTTTTTTTTGCTTTTTTTG
Found at i:11235083 original size:30 final size:30
Alignment explanation
Indices: 11235047--11235104 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
11235037 GTCTTTTTGG
*
11235047 TTTTTTTGTTTTTTTTTATGTTTTTTTACCT
1 TTTTTTTG-CTTTTTTTATGTTTTTTTACCT
*
11235078 TTTTTTTGCTTTTTTTATTTTTTTTTA
1 TTTTTTTGCTTTTTTTATGTTTTTTTA
11235105 TGATGCCCCA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.07, C:0.05, G:0.05, T:0.83
Consensus pattern (30 bp):
TTTTTTTGCTTTTTTTATGTTTTTTTACCT
Found at i:11235104 original size:10 final size:10
Alignment explanation
Indices: 11235047--11235105 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
11235037 GTCTTTTTGG
*
11235047 TTTTTTTGTT
1 TTTTTTTATT
*
11235057 TTTTTTTATG
1 TTTTTTTATT
*
11235067 TTTTTTTACCT
1 TTTTTTTA-TT
**
11235078 TTTTTTT-GC
1 TTTTTTTATT
11235087 TTTTTTTATT
1 TTTTTTTATT
11235097 TTTTTTTAT
1 TTTTTTTAT
11235106 GATGCCCCAT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
9 7 0.18
10 25 0.64
11 7 0.18
ACGTcount: A:0.07, C:0.05, G:0.05, T:0.83
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:11241750 original size:16 final size:15
Alignment explanation
Indices: 11241729--11241773 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
11241719 GGGCTTAAAT
11241729 TTTAGGGTTTGGAAA
1 TTTAGGGTTTGGAAA
*
11241744 GTTTA-GGTTTTG--A
1 -TTTAGGGTTTGGAAA
11241757 TTTAGGGTTTGGAAA
1 TTTAGGGTTTGGAAA
11241772 TT
1 TT
11241774 AGGTTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
12 4 0.17
13 7 0.29
15 9 0.38
16 4 0.17
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.47
Consensus pattern (15 bp):
TTTAGGGTTTGGAAA
Found at i:11241762 original size:28 final size:28
Alignment explanation
Indices: 11241729--11241816 Score: 90
Period size: 28 Copynumber: 3.1 Consensus size: 28
11241719 GGGCTTAAAT
11241729 TTTAGGGTTTGGAAAGTTTAGGTTTTGA
1 TTTAGGGTTTGGAAAGTTTAGGTTTTGA
*
11241757 TTTAGGGTTTGGAAA--TTAGGTTTTTTA
1 TTTAGGGTTTGGAAAGTTTAGG-TTTTGA
* ** *
11241784 TTTTTGGGTTTGGAGGGTTTAAGGTTTCGA
1 -TTTAGGGTTTGGAAAGTTT-AGGTTTTGA
11241814 TTT
1 TTT
11241817 TAGAGTTTTG
Statistics
Matches: 49, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
26 5 0.10
27 5 0.10
28 27 0.55
29 3 0.06
30 6 0.12
31 3 0.06
ACGTcount: A:0.18, C:0.01, G:0.31, T:0.50
Consensus pattern (28 bp):
TTTAGGGTTTGGAAAGTTTAGGTTTTGA
Found at i:11241835 original size:30 final size:30
Alignment explanation
Indices: 11241790--11242055 Score: 136
Period size: 30 Copynumber: 9.2 Consensus size: 30
11241780 TTTATTTTTG
*
11241790 GGTTTGGAGGGTTTAAGGTTTCGATTTTAGA
1 GGTTT-GAGGTTTTAAGGTTTCGATTTTAGA
* *
11241821 GTTTTGAGGTTTTAAGATTTCGATTTTA-A
1 GGTTTGAGGTTTTAAGGTTTCGATTTTAGA
* *
11241850 GGTTTGAGG-TTTGAGGTTTCAATTTTAG-
1 GGTTTGAGGTTTTAAGGTTTCGATTTTAGA
* * *
11241878 GGTTTGAGGTTTTAGGGTTTAGTACTTT-GA
1 GGTTTGAGGTTTTAAGGTTTCG-ATTTTAGA
* * **
11241908 --TTTTAGGGTTTAATATTTC-ATTTTTAG-
1 GGTTTGAGGTTTTAAGGTTTCGA-TTTTAGA
* *
11241935 GGTTTGAAGGGTTTAGGGTTTC-ATTTTTAG-
1 GGTTTG-AGGTTTTAAGGTTTCGA-TTTTAGA
*
11241965 GGTTTGAAAGG-TTTAGGGTTTC-ATTTTTA-A
1 GGTTTG--AGGTTTTAAGGTTTCGA-TTTTAGA
* * *
11241995 GGTTTAGAGGGTTTAAGATTTC-ATTTT-CA
1 GGTTT-GAGGTTTTAAGGTTTCGATTTTAGA
* * *
11242024 GTTTTG-GATTTT-AGGTTTCGTTTTTA-A
1 GGTTTGAGGTTTTAAGGTTTCGATTTTAGA
11242051 GGTTT
1 GGTTT
11242056 ATAAGGTTTA
Statistics
Matches: 188, Mismatches: 31, Indels: 36
0.74 0.12 0.14
Matches are distributed among these distances:
26 7 0.04
27 16 0.09
28 39 0.21
29 33 0.18
30 84 0.45
31 9 0.05
ACGTcount: A:0.20, C:0.04, G:0.27, T:0.49
Consensus pattern (30 bp):
GGTTTGAGGTTTTAAGGTTTCGATTTTAGA
Found at i:11241912 original size:21 final size:21
Alignment explanation
Indices: 11241887--11241939 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
11241877 GGGTTTGAGG
* *
11241887 TTTTAGGGTTTAGTACTTTGA-
1 TTTTAGGGTTTAATA-TTTCAT
11241908 TTTTAGGGTTTAATATTTCAT
1 TTTTAGGGTTTAATATTTCAT
11241929 TTTTAGGGTTT
1 TTTTAGGGTTT
11241940 GAAGGGTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.19, C:0.04, G:0.21, T:0.57
Consensus pattern (21 bp):
TTTTAGGGTTTAATATTTCAT
Found at i:11241951 original size:16 final size:15
Alignment explanation
Indices: 11241930--11241985 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 15
11241920 ATATTTCATT
11241930 TTTAGGGTTTGAAGGG
1 TTTAGGGTTTGAA-GG
* **
11241946 TTTAGGGTTT-CATT
1 TTTAGGGTTTGAAGG
11241960 TTTAGGGTTTGAAAGG
1 TTTAGGGTTTG-AAGG
11241976 TTTAGGGTTT
1 TTTAGGGTTT
11241986 CATTTTTAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
14 10 0.31
15 1 0.03
16 21 0.66
ACGTcount: A:0.18, C:0.02, G:0.34, T:0.46
Consensus pattern (15 bp):
TTTAGGGTTTGAAGG
Found at i:11242036 original size:145 final size:146
Alignment explanation
Indices: 11241783--11242175 Score: 373
Period size: 145 Copynumber: 2.7 Consensus size: 146
11241773 TAGGTTTTTT
* * * * *
11241783 ATTTTT-GGGTTTGGAGGGTTTAAGGTTTCGA-TTTTAGAGTTTTG-AGGTTTTAAGATTTCGA-
1 ATTTTTAGGGTTTGAAGGGTTTAGGGTTTC-ATTTTTAG-GGTTTGAAGG-TTTAGGGTTTC-AT
* * *
11241844 TTTTAAGGTTT-GA-GGTTTGAGGTTTCAATTTTAGGGTTTGAGGTTTTAGGGTTTAGTACTTT-
62 TTTTAAGGTTTAGAGGGTTTAAGATTTCAATTTTAGGGTTTGAGATTTTA-GGTTTAGT-CTTTA
* *
11241906 GATTT-TAGGGTTTAATATTTC
125 GATTTATAAGGTTTAAGATTTC
11241927 ATTTTTAGGGTTTGAAGGGTTTAGGGTTTCATTTTTAGGGTTTGAAAGGTTTAGGGTTTCATTTT
1 ATTTTTAGGGTTTGAAGGGTTTAGGGTTTCATTTTTAGGGTTTG-AAGGTTTAGGGTTTCATTTT
* * * *
11241992 TAAGGTTTAGAGGGTTTAAGATTTC-ATTTTCA-GTTTTG-GATTTTAGGTTTCGTTTTTAAGGT
65 TAAGGTTTAGAGGGTTTAAGATTTCAATTTT-AGGGTTTGAGATTTTAGGTTTAGTCTTT-AGAT
* *
11242054 TTATAAGGTTTAGGGTTTC
128 TTATAAGGTTTAAGATTTC
* * *
11242073 ATTTTTAGGGTTTGGAA-GGTTTAGGATTT--TGTTTCAGGGTTTGGAGGGTTTAGGGTTTCATT
1 ATTTTTAGGGTTT-GAAGGGTTTAGGGTTTCAT-TTTTAGGGTTT-GAAGGTTTAGGGTTTCATT
* * *
11242135 TTTAAGGTTTAGAGGGTTTAGGATTTTGAAATTTAGGGTTT
63 TTTAAGGTTTAGAGGGTTTAAGA-TTTCAATTTTAGGGTTT
11242176 TATTTAAAAT
Statistics
Matches: 209, Mismatches: 23, Indels: 31
0.79 0.09 0.12
Matches are distributed among these distances:
143 3 0.01
144 21 0.10
145 106 0.51
146 56 0.27
147 23 0.11
ACGTcount: A:0.20, C:0.03, G:0.28, T:0.49
Consensus pattern (146 bp):
ATTTTTAGGGTTTGAAGGGTTTAGGGTTTCATTTTTAGGGTTTGAAGGTTTAGGGTTTCATTTTT
AAGGTTTAGAGGGTTTAAGATTTCAATTTTAGGGTTTGAGATTTTAGGTTTAGTCTTTAGATTTA
TAAGGTTTAAGATTTC
Found at i:11242062 original size:86 final size:87
Alignment explanation
Indices: 11241933--11242156 Score: 267
Period size: 86 Copynumber: 2.5 Consensus size: 87
11241923 TTTCATTTTT
* *
11241933 AGGGTTTGAAGGGTTTAGGGTTTCATTTTTAGGGTTTGAAAGGTTTAGGGTTTCATTTTTAAGGT
1 AGGGTTTGGA-GGTTTAGGGTTTCATTTTTAAGGTTT-AAAGGTTTAGGGTTTCATTTTTAAGGT
*
11241998 TTAGAGGGTTTAAGATTTCAT-TTTC
64 TTAGAAGGTTTAAGATTT--TGTTTC
* * * *
11242023 A-GTTTTGGA-TTTTA-GGTTTCGTTTTTAAGGTTTATAAGGTTTAGGGTTTCATTTTTAGGGTT
1 AGGGTTTGGAGGTTTAGGGTTTCATTTTTAAGGTTTA-AAGGTTTAGGGTTTCATTTTTAAGGTT
* *
11242085 TGGAAGGTTTAGGATTTTGTTTC
65 TAGAAGGTTTAAGATTTTGTTTC
*
11242108 AGGGTTTGGAGGGTTTAGGGTTTCATTTTTAAGGTTTAGAGGGTTTAGG
1 AGGGTTTGGA-GGTTTAGGGTTTCATTTTTAAGGTTTA-AAGGTTTAGG
11242157 ATTTTGAAAT
Statistics
Matches: 114, Mismatches: 14, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
84 1 0.01
85 6 0.05
86 64 0.56
87 4 0.04
88 4 0.04
89 34 0.30
90 1 0.01
ACGTcount: A:0.19, C:0.04, G:0.30, T:0.47
Consensus pattern (87 bp):
AGGGTTTGGAGGTTTAGGGTTTCATTTTTAAGGTTTAAAGGTTTAGGGTTTCATTTTTAAGGTTT
AGAAGGTTTAAGATTTTGTTTC
Found at i:11242072 original size:30 final size:30
Alignment explanation
Indices: 11241923--11242156 Score: 214
Period size: 30 Copynumber: 8.0 Consensus size: 30
11241913 GGGTTTAATA
*
11241923 TTTCATTTTTAGGGTTT-GAAGGGTTTAGGG
1 TTTCATTTTTAAGGTTTAGAA-GGTTTAGGG
*
11241953 TTTCATTTTTAGGGTTT-GAAAGGTTTAGGG
1 TTTCATTTTTAAGGTTTAG-AAGGTTTAGGG
* * *
11241983 TTTCATTTTTAAGGTTTAGAGGGTTTAAGA
1 TTTCATTTTTAAGGTTTAGAAGGTTTAGGG
* * * *
11242013 TTTCA-TTTTCA-GTTTTGGA-TTTTA-GG
1 TTTCATTTTTAAGGTTTAGAAGGTTTAGGG
* *
11242039 TTTCGTTTTTAAGGTTTATAAGGTTTAGGG
1 TTTCATTTTTAAGGTTTAGAAGGTTTAGGG
* * *
11242069 TTTCATTTTTAGGGTTTGGAAGGTTTAGGA
1 TTTCATTTTTAAGGTTTAGAAGGTTTAGGG
* * * *
11242099 TTT--TGTTTCAGGGTTTGGAGGGTTTAGGG
1 TTTCAT-TTTTAAGGTTTAGAAGGTTTAGGG
*
11242128 TTTCATTTTTAAGGTTTAGAGGGTTTAGG
1 TTTCATTTTTAAGGTTTAGAAGGTTTAGG
11242157 ATTTTGAAAT
Statistics
Matches: 168, Mismatches: 27, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
26 5 0.03
27 9 0.05
28 11 0.07
29 33 0.20
30 106 0.63
31 4 0.02
ACGTcount: A:0.19, C:0.04, G:0.29, T:0.48
Consensus pattern (30 bp):
TTTCATTTTTAAGGTTTAGAAGGTTTAGGG
Found at i:11243314 original size:14 final size:14
Alignment explanation
Indices: 11243295--11243321 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11243285 GGACTATTTT
11243295 AATTTTTTTTTGTG
1 AATTTTTTTTTGTG
11243309 AATTTTTTTTTGT
1 AATTTTTTTTTGT
11243322 TTTCTTATAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.11, T:0.74
Consensus pattern (14 bp):
AATTTTTTTTTGTG
Found at i:11243691 original size:23 final size:23
Alignment explanation
Indices: 11243664--11243711 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
11243654 TGTCACTTTT
*
11243664 TTTTTAATTAATTAAT-TTTTTAA
1 TTTTTAATT-ATTAATGTATTTAA
*
11243687 TTTTTTATTATTAATGTATTTAA
1 TTTTTAATTATTAATGTATTTAA
11243710 TT
1 TT
11243712 AATTAACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
TTTTTAATTATTAATGTATTTAA
Found at i:11247137 original size:27 final size:26
Alignment explanation
Indices: 11247106--11247169 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 26
11247096 AAAATATTTG
11247106 AATTAAAAAATAATACTATTATAT-TAA
1 AATTAAAAAATAATA-TATTATATAT-A
*
11247133 AATTAAAAAA-ATTATATTATATATA
1 AATTAAAAAATAATATATTATATATA
11247158 AA-TAAAAAATAA
1 AATTAAAAAATAA
11247170 AAAAAATCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
24 7 0.21
25 12 0.36
26 4 0.12
27 10 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (26 bp):
AATTAAAAAATAATATATTATATATA
Found at i:11247159 original size:20 final size:21
Alignment explanation
Indices: 11247123--11247164 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
11247113 AAATAATACT
11247123 ATTATATTAAAATTAAA-AAA
1 ATTATATTAAAATTAAATAAA
*
11247143 ATTATATT-ATATATAAATAAA
1 ATTATATTAAAAT-TAAATAAA
11247164 A
1 A
11247165 AATAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 3 0.16
20 12 0.63
21 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTATATTAAAATTAAATAAA
Found at i:11247776 original size:17 final size:17
Alignment explanation
Indices: 11247751--11247785 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11247741 TTTCAAGATC
* *
11247751 ATCACGATAATTTTATT
1 ATCAAGATAATCTTATT
11247768 ATCAAGATAATCTTATT
1 ATCAAGATAATCTTATT
11247785 A
1 A
11247786 CTGAGGTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.11, G:0.06, T:0.43
Consensus pattern (17 bp):
ATCAAGATAATCTTATT
Found at i:11248060 original size:19 final size:20
Alignment explanation
Indices: 11248036--11248082 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
11248026 CAATTAAATT
*
11248036 AACAAATTTA-TTATTTATA
1 AACAAATTTACTTATTGATA
*
11248055 AACAAATATACTTATTGATA
1 AACAAATTTACTTATTGATA
*
11248075 AATAAATT
1 AACAAATT
11248083 AATTTTTTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 9 0.39
20 14 0.61
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.40
Consensus pattern (20 bp):
AACAAATTTACTTATTGATA
Found at i:11248282 original size:21 final size:21
Alignment explanation
Indices: 11248243--11248304 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
11248233 GAATTATTAC
*
11248243 AATAAATATTTAATTTAAAAAT
1 AATAAAT-TTTAATATAAAAAT
*
11248265 AATAAATTATAATAT-AAAAT
1 AATAAATTTTAATATAAAAAT
*
11248285 AATTAAATTTTAAAATAAAA
1 AA-TAAATTTTAATATAAAA
11248305 TAAATTTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
20 7 0.21
21 17 0.50
22 10 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AATAAATTTTAATATAAAAAT
Found at i:11248298 original size:16 final size:17
Alignment explanation
Indices: 11248279--11248312 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
11248269 AATTATAATA
*
11248279 TAAAAT-AATTAAATTT
1 TAAAATAAAATAAATTT
11248295 TAAAATAAAATAAATTT
1 TAAAATAAAATAAATTT
11248312 T
1 T
11248313 TAATTCACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAATAAAATAAATTT
Found at i:11248972 original size:27 final size:29
Alignment explanation
Indices: 11248933--11248995 Score: 67
Period size: 31 Copynumber: 2.2 Consensus size: 29
11248923 ATTTTAATTT
*
11248933 TTTAATTAAATAT-ACCA-AATTATGGTA
1 TTTAACTAAATATAACCATAATTATGGTA
* *
11248960 TTTAACTAGATATCAAACCATAATTATTGTA
1 TTTAACTAAATAT--AACCATAATTATGGTA
11248991 TTTAA
1 TTTAA
11248996 ATATAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 11 0.38
30 4 0.14
31 14 0.48
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (29 bp):
TTTAACTAAATATAACCATAATTATGGTA
Found at i:11249226 original size:40 final size:40
Alignment explanation
Indices: 11249166--11249267 Score: 120
Period size: 40 Copynumber: 2.6 Consensus size: 40
11249156 AGAAAAATCG
* *
11249166 CTTTAATTAATATCAA-TAAGATACTTATAAGAAA-AAATA
1 CTTTAATTGATATCAATTAAGATACTTATAA-AAAGAAACA
**
11249205 CTTTAATTGATAAT-AATTAAGAGGCTTATAAAAAGAAACA
1 CTTTAATTGAT-ATCAATTAAGATACTTATAAAAAGAAACA
*
11249245 TTTTAATTGATATCAATTAAGAT
1 CTTTAATTGATATCAATTAAGAT
11249268 TTTTTTTTAT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
39 17 0.32
40 36 0.68
ACGTcount: A:0.49, C:0.07, G:0.09, T:0.35
Consensus pattern (40 bp):
CTTTAATTGATATCAATTAAGATACTTATAAAAAGAAACA
Found at i:11249354 original size:21 final size:21
Alignment explanation
Indices: 11249299--11249355 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 21
11249289 ATTATTATAT
11249299 ATTAAAATTAAA-TTT--AAA
1 ATTAAAATTAAATTTTAAAAA
*
11249317 A-TAAGA-TAAATTTTTAAAAA
1 ATTAAAATTAAA-TTTTAAAAA
11249337 ATTAAAATTAAATTTTAAA
1 ATTAAAATTAAATTTTAAA
11249356 TTTACTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
16 4 0.13
17 4 0.13
18 4 0.13
20 4 0.13
21 11 0.35
22 4 0.13
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
ATTAAAATTAAATTTTAAAAA
Found at i:11252687 original size:2 final size:2
Alignment explanation
Indices: 11252680--11252710 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11252670 CCTTTTTAAT
11252680 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
11252711 GTATGGAAGA
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:11253731 original size:16 final size:17
Alignment explanation
Indices: 11253699--11253731 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11253689 ATTAATTTTG
*
11253699 TACAAATTTTATTTATA
1 TACAAATTTTATATATA
11253716 TACAAATTTTA-ATATA
1 TACAAATTTTATATATA
11253732 ATATTTTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.48
Consensus pattern (17 bp):
TACAAATTTTATATATA
Found at i:11255058 original size:3 final size:3
Alignment explanation
Indices: 11255050--11255077 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
11255040 AAGAAACCCA
11255050 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11255078 GATGATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11258009 original size:2 final size:2
Alignment explanation
Indices: 11258002--11258034 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11257992 TACTTGGTGA
*
11258002 AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11258035 CAAGAAACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 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):
AT
Found at i:11261583 original size:4 final size:4
Alignment explanation
Indices: 11261574--11261642 Score: 102
Period size: 4 Copynumber: 17.2 Consensus size: 4
11261564 CTTTGGAGTC
* * *
11261574 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAA ATAT AAAT AAAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
*
11261622 ATAA ATAT ATAT ATAT ATAT A
1 ATAT ATAT ATAT ATAT ATAT A
11261643 AATACTTATA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (4 bp):
ATAT
Found at i:11261585 original size:6 final size:6
Alignment explanation
Indices: 11261574--11261642 Score: 102
Period size: 6 Copynumber: 11.5 Consensus size: 6
11261564 CTTTGGAGTC
* * *
11261574 ATATAT ATATAT ATATAT ATATAT ATATAT AAATAT AAATAA ATATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
*
11261622 ATAAAT ATATAT ATATAT ATA
1 ATATAT ATATAT ATATAT ATA
11261643 AATACTTATA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 57 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (6 bp):
ATATAT
Found at i:11261587 original size:10 final size:10
Alignment explanation
Indices: 11261574--11261642 Score: 102
Period size: 10 Copynumber: 6.9 Consensus size: 10
11261564 CTTTGGAGTC
11261574 ATATATATAT
1 ATATATATAT
11261584 ATATATATAT
1 ATATATATAT
11261594 ATATATATAT
1 ATATATATAT
* *
11261604 AAATATAAAT
1 ATATATATAT
*
11261614 AAATATATAT
1 ATATATATAT
*
11261624 AAATATATAT
1 ATATATATAT
11261634 ATATATATA
1 ATATATATA
11261643 AATACTTATA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 55 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (10 bp):
ATATATATAT
Found at i:11261808 original size:13 final size:13
Alignment explanation
Indices: 11261790--11261832 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
11261780 TGTTTGATCA
11261790 TCTTCTACATTCT
1 TCTTCTACATTCT
* *
11261803 TCTTCT-GA-TCA
1 TCTTCTACATTCT
11261814 TCTTCTACATTCT
1 TCTTCTACATTCT
11261827 TCTTCT
1 TCTTCT
11261833 TACACTTTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 8 0.33
12 2 0.08
13 14 0.58
ACGTcount: A:0.14, C:0.30, G:0.02, T:0.53
Consensus pattern (13 bp):
TCTTCTACATTCT
Found at i:11261812 original size:24 final size:24
Alignment explanation
Indices: 11261784--11261832 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
11261774 TAATTATGTT
11261784 TGATCATCTTCTACATTCTTCTTC
1 TGATCATCTTCTACATTCTTCTTC
11261808 TGATCATCTTCTACATTCTTCTTC
1 TGATCATCTTCTACATTCTTCTTC
11261832 T
1 T
11261833 TACACTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.16, C:0.29, G:0.04, T:0.51
Consensus pattern (24 bp):
TGATCATCTTCTACATTCTTCTTC
Found at i:11264536 original size:19 final size:19
Alignment explanation
Indices: 11264512--11264552 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
11264502 ATCTGACATG
* *
11264512 ATACAATTAATATAATTAT
1 ATACAAATAATACAATTAT
*
11264531 ATACAAATAATGCAATTAT
1 ATACAAATAATACAATTAT
11264550 ATA
1 ATA
11264553 TGATTAATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.54, C:0.07, G:0.02, T:0.37
Consensus pattern (19 bp):
ATACAAATAATACAATTAT
Found at i:11264692 original size:30 final size:29
Alignment explanation
Indices: 11264628--11264692 Score: 69
Period size: 30 Copynumber: 2.2 Consensus size: 29
11264618 TAATCTATTT
* **
11264628 ATTTAAACAAAAAATATAATTTAAATTAGT
1 ATTTAAACAAAAAATAT-ATTAAAATTAAA
11264658 ATTTAAACAAAAAATAT-TTAAAAATTAAAA
1 ATTTAAACAAAAAATATATT-AAAATT-AAA
11264688 ATTTA
1 ATTTA
11264693 TAATCTATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
28 2 0.07
29 5 0.17
30 23 0.77
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (29 bp):
ATTTAAACAAAAAATATATTAAAATTAAA
Done.