Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 19 of 352
Found at i:6069930 original size:17 final size:19
Alignment explanation
Indices: 6069892--6069931 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6069882 GGTTTCTTTT
*
6069892 TAAAAATATATATTATTTA
1 TAAAAATATATATTATTAA
6069911 TAAAAATAT-TATT-TTAA
1 TAAAAATATATATTATTAA
6069928 TAAA
1 TAAA
6069932 TAAATTACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 7 0.35
18 4 0.20
19 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAAATATATATTATTAA
Found at i:6069936 original size:19 final size:19
Alignment explanation
Indices: 6069889--6069936 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 19
6069879 GTGGGTTTCT
*
6069889 TTTTAA-AAATATATATTA
1 TTTTAATAAATAAATATTA
6069907 -TTT-AT-AA-AAATATTA
1 TTTTAATAAATAAATATTA
6069922 TTTTAATAAATAAAT
1 TTTTAATAAATAAAT
6069937 TACATGTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 9
0.71 0.03 0.26
Matches are distributed among these distances:
15 7 0.29
16 6 0.25
17 5 0.21
18 2 0.08
19 4 0.17
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
TTTTAATAAATAAATATTA
Found at i:6069938 original size:17 final size:18
Alignment explanation
Indices: 6069889--6069938 Score: 56
Period size: 17 Copynumber: 3.0 Consensus size: 18
6069879 GTGGGTTTCT
6069889 TTTTAA-AAATATATATTA
1 TTTTAATAAATA-ATATTA
6069907 -TTT-ATAAA-AATATTA
1 TTTTAATAAATAATATTA
6069922 TTTTAATAAATAA-ATTA
1 TTTTAATAAATAATATTA
6069939 CATGTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 6 0.21
16 5 0.18
17 15 0.54
18 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TTTTAATAAATAATATTA
Found at i:6076914 original size:2 final size:2
Alignment explanation
Indices: 6076907--6076933 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6076897 TACGCACAAA
6076907 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
6076934 TTGTCAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:6080238 original size:14 final size:14
Alignment explanation
Indices: 6080219--6080266 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
6080209 TAAGTAAAAC
6080219 ATAATATAAAATTT
1 ATAATATAAAATTT
6080233 ATAATATATAACATTT
1 ATAATATA-AA-ATTT
*
6080249 ATAA-ATAATATTT
1 ATAATATAAAATTT
6080262 -TAATA
1 ATAATA
6080267 AATTGTCCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
12 3 0.10
13 5 0.17
14 9 0.30
15 5 0.17
16 8 0.27
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (14 bp):
ATAATATAAAATTT
Found at i:6080243 original size:16 final size:16
Alignment explanation
Indices: 6080222--6080252 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6080212 GTAAAACATA
6080222 ATATAAAATTTATAAT
1 ATATAAAATTTATAAT
*
6080238 ATATAACATTTATAA
1 ATATAAAATTTATAA
6080253 ATAATATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATAAAATTTATAAT
Found at i:6083025 original size:20 final size:20
Alignment explanation
Indices: 6082988--6083059 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
6082978 AATATTTTGA
* * *
6082988 TATATCGAAGTTTCTAAGCT
1 TATATCAAAATTTTTAAGCT
6083008 TATATCAAAATTTTTAAGGC-
1 TATATCAAAATTTTTAA-GCT
* * *
6083028 TACAT-AAAAATTTTAAGAT
1 TATATCAAAATTTTTAAGCT
*
6083047 TTTATCAAAATTT
1 TATATCAAAATTT
6083060 CTAATGATTT
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
18 1 0.03
19 13 0.32
20 24 0.60
21 2 0.05
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (20 bp):
TATATCAAAATTTTTAAGCT
Found at i:6083070 original size:20 final size:19
Alignment explanation
Indices: 6083034--6083082 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
6083024 AGGCTACATA
6083034 AAAATTT-TAAGATTTTATC
1 AAAATTTCTAAGATTTTA-C
6083053 AAAATTTCTAATGA-TTTAC
1 AAAATTTCTAA-GATTTTAC
6083072 AAAATTTCTAA
1 AAAATTTCTAA
6083083 AAGTATACCT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 19 0.68
20 7 0.25
21 2 0.07
ACGTcount: A:0.45, C:0.08, G:0.04, T:0.43
Consensus pattern (19 bp):
AAAATTTCTAAGATTTTAC
Found at i:6083201 original size:20 final size:20
Alignment explanation
Indices: 6083155--6083211 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
6083145 TTAATATATT
* *
6083155 AAAATTCTTAAGATTATACC
1 AAAATTTTTAAGATTATACA
*
6083175 AAAATTTTTAAGGTTATACA
1 AAAATTTTTAAGATTATACA
*
6083195 AAAATTTATAATGATTA
1 AAAATTTTTAA-GATTA
6083212 AGCAAAATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
20 27 0.87
21 4 0.13
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (20 bp):
AAAATTTTTAAGATTATACA
Found at i:6083592 original size:16 final size:16
Alignment explanation
Indices: 6083571--6083612 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
6083561 ATATTTCTTG
*
6083571 ATATATTTTTTTATAA
1 ATATATTTTTATATAA
*
6083587 ATATATATTTAATATAA
1 ATATAT-TTTTATATAA
6083604 AT-TATTTTT
1 ATATATTTTT
6083613 GTTCAATCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 3 0.14
16 9 0.41
17 10 0.45
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATATTTTTATATAA
Found at i:6083916 original size:16 final size:15
Alignment explanation
Indices: 6083895--6083932 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
6083885 TTGTTATTTT
6083895 TAATATATATATAATA
1 TAATATATATATAA-A
*
6083911 TAATATATATTTAAA
1 TAATATATATATAAA
6083926 TAA-ATAT
1 TAATATAT
6083933 GTAGACAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 4 0.19
15 4 0.19
16 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATATATATATAAA
Found at i:6087112 original size:22 final size:22
Alignment explanation
Indices: 6087087--6087131 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
6087077 TTTAATAAAG
6087087 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
6087109 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
6087131 A
1 A
6087132 CACTCCCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:6090857 original size:22 final size:22
Alignment explanation
Indices: 6090832--6090876 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
6090822 TTTAATAAAG
6090832 AAAATATCTACAAAATATTCCT
1 AAAATATCTACAAAATATTCCT
* *
6090854 AAAATATTTACAGAATATTCCT
1 AAAATATCTACAAAATATTCCT
6090876 A
1 A
6090877 CACTACCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (22 bp):
AAAATATCTACAAAATATTCCT
Found at i:6095530 original size:13 final size:14
Alignment explanation
Indices: 6095514--6095559 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 14
6095504 ATGATTTTAT
6095514 TTTTATT-TATATA
1 TTTTATTATATATA
*
6095527 TTTT-TTATAAATA
1 TTTTATTATATATA
*
6095540 TATTTATTATATAAA
1 T-TTTATTATATATA
6095555 TTTTA
1 TTTTA
6095560 GTGAGACATA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
12 2 0.07
13 10 0.37
14 7 0.26
15 8 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTATTATATATA
Found at i:6095552 original size:17 final size:15
Alignment explanation
Indices: 6095522--6095555 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 15
6095512 ATTTTTATTT
6095522 ATATATTTTTTATAA
1 ATATATTTTTTATAA
6095537 ATATATTTATTATATAA
1 ATATATTT-TT-TATAA
6095554 AT
1 AT
6095556 TTTAGTGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 2 0.12
17 7 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATATATTTTTTATAA
Found at i:6097004 original size:33 final size:36
Alignment explanation
Indices: 6096923--6097006 Score: 86
Period size: 37 Copynumber: 2.4 Consensus size: 36
6096913 TAGAGCACCA
* *
6096923 ATTTAATTAAAATAATTTATTATTTTTTACAAAATT
1 ATTTAAATAAAATAATTTATTATCTTTTACAAAATT
*
6096959 ATATTATTATAAAGAT-ATTT-TTATCTTTTA-AAAA-T
1 AT-TTA-AATAAA-ATAATTTATTATCTTTTACAAAATT
6096994 ATTTAAATAAAAT
1 ATTTAAATAAAAT
6097007 GAATAAAATC
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
32 2 0.05
33 5 0.12
34 3 0.07
35 3 0.07
36 6 0.15
37 12 0.29
38 8 0.20
39 2 0.05
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.50
Consensus pattern (36 bp):
ATTTAAATAAAATAATTTATTATCTTTTACAAAATT
Found at i:6107376 original size:12 final size:12
Alignment explanation
Indices: 6107359--6107384 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6107349 TCATGACAAC
6107359 AAGAAGGAGGAG
1 AAGAAGGAGGAG
6107371 AAGAAGGAGGAG
1 AAGAAGGAGGAG
6107383 AA
1 AA
6107385 ACTTGTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (12 bp):
AAGAAGGAGGAG
Found at i:6117612 original size:22 final size:21
Alignment explanation
Indices: 6117587--6117633 Score: 85
Period size: 22 Copynumber: 2.2 Consensus size: 21
6117577 TGTCTAATTG
6117587 AAAAGATAATTTTGTAAAAGTT
1 AAAAGATAATTTTGTAAAAG-T
6117609 AAAAGATAATTTTGTAAAAGT
1 AAAAGATAATTTTGTAAAAGT
6117630 AAAA
1 AAAA
6117634 CCTTATCTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 5 0.20
22 20 0.80
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (21 bp):
AAAAGATAATTTTGTAAAAGT
Found at i:6122459 original size:2 final size:2
Alignment explanation
Indices: 6122452--6122477 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6122442 TTTCATCAAC
6122452 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
6122478 AGAGAGAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:6131213 original size:14 final size:13
Alignment explanation
Indices: 6131194--6131235 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 13
6131184 TTTAAAGAGA
6131194 TATTTTATTATTT
1 TATTTTATTATTT
6131207 TAGTTTTATTATTT
1 TA-TTTTATTATTT
6131221 TATTATTATTTATTT
1 TATT-TTA-TTATTT
6131236 AGTATAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
13 4 0.15
14 16 0.62
15 6 0.23
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (13 bp):
TATTTTATTATTT
Found at i:6133207 original size:46 final size:46
Alignment explanation
Indices: 6133088--6133317 Score: 282
Period size: 46 Copynumber: 5.0 Consensus size: 46
6133078 GTTTTCTGAA
* *
6133088 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
6133134 ATGAAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATG--AAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
6133182 ATGGAATGTATAAGACCATGGTTGAAACATACAATGGCAACGTGAC
1 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
6133228 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGTAACATGAC
1 ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * *
6133274 AGGAAATG-AGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATGAAATGTA-TAAGACCATGGTTGAAAGATACCATGGCAACATG
6133318 TCAAAGATAA
Statistics
Matches: 161, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
45 1 0.01
46 114 0.71
48 46 0.29
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.22
Consensus pattern (46 bp):
ATGAAATGTATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:6135152 original size:18 final size:19
Alignment explanation
Indices: 6135122--6135163 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
6135112 TCCGATGATG
6135122 TATTA-TGTATACCGCTAC
1 TATTACTGTATACCGCTAC
*
6135140 TATTACTGT-TACCGTTAC
1 TATTACTGTATACCGCTAC
*
6135158 TGTTAC
1 TATTAC
6135164 CGATACGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 18 0.86
19 3 0.14
ACGTcount: A:0.24, C:0.21, G:0.12, T:0.43
Consensus pattern (19 bp):
TATTACTGTATACCGCTAC
Found at i:6142531 original size:22 final size:22
Alignment explanation
Indices: 6142514--6142565 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
6142504 TATAATTTTA
*
6142514 AAATATATGTTAAATAATAATT
1 AAATATATATTAAATAATAATT
* *
6142536 AAATATATATTAAGTAATAAAT
1 AAATATATATTAAATAATAATT
*
6142558 ATATATAT
1 AAATATAT
6142566 CAAAATCATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
AAATATATATTAAATAATAATT
Found at i:6142714 original size:12 final size:13
Alignment explanation
Indices: 6142683--6142716 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
6142673 ATAATATTTA
6142683 TATTAAAATAAAT
1 TATTAAAATAAAT
*
6142696 TAATAAAAT-AAT
1 TATTAAAATAAAT
6142708 TATTAAAAT
1 TATTAAAAT
6142717 GTTAAGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TATTAAAATAAAT
Found at i:6143873 original size:16 final size:15
Alignment explanation
Indices: 6143839--6143897 Score: 50
Period size: 17 Copynumber: 3.8 Consensus size: 15
6143829 ATACACACAT
*
6143839 TTATAATTTTTATACAA
1 TTAT-ATTTTAATA-AA
6143856 TTAATATTTTAATAAA
1 TT-ATATTTTAATAAA
*
6143872 TTA-ATTTTAAT-AT
1 TTATATTTTAATAAA
6143885 TTCATATTTTAAT
1 TT-ATATTTTAAT
6143898 CACATATATA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
13 3 0.08
14 9 0.24
15 9 0.24
16 4 0.11
17 10 0.27
18 2 0.05
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATATTTTAATAAA
Found at i:6143880 original size:14 final size:15
Alignment explanation
Indices: 6143842--6143883 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
6143832 CACACATTTA
*
6143842 TAATTTTTATACAAT
1 TAATTTTAATACAAT
6143857 TAATATTTTAATA-AAT
1 T-A-ATTTTAATACAAT
6143873 TAATTTTAATA
1 TAATTTTAATA
6143884 TTTCATATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 9 0.38
15 2 0.08
16 5 0.21
17 8 0.33
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATTTTAATACAAT
Found at i:6147760 original size:246 final size:241
Alignment explanation
Indices: 6147312--6147792 Score: 537
Period size: 246 Copynumber: 2.0 Consensus size: 241
6147302 GTATTATTGA
* * * *
6147312 AACCATTTTTTTTTGCAATCGGGTCGATTTTGGTTTTGAAAATGAAAACGAACATGGGAATCGAC
1 AACCATTTTTTTTTGAAAACGGGTCGATCTTGGTTTTGAAAATGAAAACGAAAATGGGAATCGAC
* * *
6147377 CAATCCTTGTTATGAGGTGTGATCGAATCACCTCGTAATTTGATCGTTTTAATAAACAATTTCGA
66 CAATCCTTGTTATGAGGTGTGATCGAATCACCTCGTAATTTAATCATTTTAATAAACAATTTAGA
* * *** * * * **
6147442 TTTACTAAAACGGCGATTTTAGTCTACGAAATTTGAGAAAACGGGTTCGGGATTCGGTTATGTGC
131 TTTACTAAAACGACAATTTTAGTCTACGAAATAACAGAAAACGAGTTCGGGAGTCGGTTACGCAC
6147507 AAGGAAGGATTAGCACCCTCG-TCACGCCCAAAATTGGTACTGTCGT
196 AAGGAAGGATTAGCACCCTCGAT-ACGCCCAAAATTGGTACTGTCGT
6147553 AACCATTTTTTTTTGGAAAACGGTAGTCGA-CTTGGATTTTGAAAATGAAAACGAAAAACT-GGA
1 AACCATTTTTTTTT-GAAAACGG--GTCGATCTTGG-TTTTGAAAATGAAAACG-AAAA-TGGGA
* * * * * * *
6147616 GTCGTCACCAATCTTTTTTGATGAGGTGTGATTGGATCACCT-TTGA-TTAATCATTTTAAT-AA
60 ATCG--ACCAATCCTTGTT-ATGAGGTGTGATCGAATCACCTCGTAATTTAATCATTTTAATAAA
* *
6147678 -AATTTAAGATTTACTAAAACGATAATTTTTTAGTCTACGAAA-AACAGAAAATGAGTTCGGGAG
122 CAATTT-AGATTTACTAAAACGACAA--TTTTAGTCTACGAAATAACAGAAAACGAGTTCGGGAG
* *
6147741 TCGGTTACGCACGAGGAAGGGTTAGCACCCTCGATACGCCCAAAATTGGTAC
184 TCGGTTACGCACAAGGAAGGATTAGCACCCTCGATACGCCCAAAATTGGTAC
6147793 CTAGTTGATT
Statistics
Matches: 199, Mismatches: 28, Indels: 21
0.80 0.11 0.08
Matches are distributed among these distances:
241 14 0.07
242 6 0.03
243 4 0.02
244 27 0.14
245 26 0.13
246 73 0.37
247 29 0.15
248 20 0.10
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (241 bp):
AACCATTTTTTTTTGAAAACGGGTCGATCTTGGTTTTGAAAATGAAAACGAAAATGGGAATCGAC
CAATCCTTGTTATGAGGTGTGATCGAATCACCTCGTAATTTAATCATTTTAATAAACAATTTAGA
TTTACTAAAACGACAATTTTAGTCTACGAAATAACAGAAAACGAGTTCGGGAGTCGGTTACGCAC
AAGGAAGGATTAGCACCCTCGATACGCCCAAAATTGGTACTGTCGT
Found at i:6148944 original size:25 final size:25
Alignment explanation
Indices: 6148925--6148972 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
6148915 TAAATATGGT
6148925 ATAATAATG-GAAATATAAATATAAG
1 ATAAT-ATGAGAAATATAAATATAAG
*
6148950 ATAATATGAGAAATAAAAATATA
1 ATAATATGAGAAATATAAATATA
6148973 GAAGTGACGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.62, C:0.00, G:0.10, T:0.27
Consensus pattern (25 bp):
ATAATATGAGAAATATAAATATAAG
Found at i:6149133 original size:23 final size:23
Alignment explanation
Indices: 6149107--6149154 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
6149097 TAGTATATAT
6149107 ATGTGCTAAAAATA-ATAATAATA
1 ATGT-CTAAAAATAGATAATAATA
* *
6149130 ATGTTTAAAAATAGATATTAATA
1 ATGTCTAAAAATAGATAATAATA
6149153 AT
1 AT
6149155 ATTACATAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.35
Consensus pattern (23 bp):
ATGTCTAAAAATAGATAATAATA
Found at i:6150011 original size:8 final size:8
Alignment explanation
Indices: 6149994--6150031 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
6149984 GTCTGACCGT
6149994 CGCC-CGC
1 CGCCGCGC
6150001 CGCCGCGC
1 CGCCGCGC
6150009 CGCCGCGC
1 CGCCGCGC
6150017 CGCCGCGC
1 CGCCGCGC
6150025 CGACCGC
1 CG-CCGC
6150032 CGTGGCCGGC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 4 0.14
8 21 0.72
9 4 0.14
ACGTcount: A:0.03, C:0.63, G:0.34, T:0.00
Consensus pattern (8 bp):
CGCCGCGC
Found at i:6151459 original size:22 final size:22
Alignment explanation
Indices: 6151425--6151473 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
6151415 TTCTGAAAAT
6151425 AAAT-AATAATAAAA-AAGTTTA
1 AAATAAATAATAAAAGAA-TTTA
* *
6151446 CAATAAATAGTAAAAGAATTTA
1 AAATAAATAATAAAAGAATTTA
6151468 AAATAA
1 AAATAA
6151474 TTAACATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 3 0.13
22 18 0.78
23 2 0.09
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (22 bp):
AAATAAATAATAAAAGAATTTA
Found at i:6151586 original size:25 final size:25
Alignment explanation
Indices: 6151558--6151636 Score: 88
Period size: 25 Copynumber: 3.1 Consensus size: 25
6151548 ATAAAAAGGT
* *
6151558 ATATATACAAAACTTCAAAAT-AATA
1 ATATATATAAAA-TTTAAAATAAATA
* *
6151583 ATATGTATAATAGTTTAAAATAAATA
1 ATATATATAA-AATTTAAAATAAATA
*
6151609 ATATATATAAAATTTAAAATGAATA
1 ATATATATAAAATTTAAAATAAATA
6151634 ATA
1 ATA
6151637 GTTTAAAATA
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
25 31 0.69
26 14 0.31
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (25 bp):
ATATATATAAAATTTAAAATAAATA
Found at i:6159751 original size:27 final size:26
Alignment explanation
Indices: 6159703--6159756 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
6159693 TACTTATACG
*
6159703 TATAAAAATTAAATTTACTATACTATA
1 TATAAAAATTAAAATTACTATA-TATA
*
6159730 TATAAATATTAAAAATTA-TATATATA
1 TATAAAAATT-AAAATTACTATATATA
6159756 T
1 T
6159757 GAACTTGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.21
27 13 0.54
28 6 0.25
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (26 bp):
TATAAAAATTAAAATTACTATATATA
Found at i:6167572 original size:27 final size:27
Alignment explanation
Indices: 6167541--6167604 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
6167531 TCCCATTCCT
* *
6167541 CCACCCCCCCCTCCTCCACCTTCACCC
1 CCACCACCACCTCCTCCACCTTCACCC
6167568 CCACCACCACCTCCTCCACCTTCACCC
1 CCACCACCACCTCCTCCACCTTCACCC
*
6167595 CCACCTCCAC
1 CCACCACCAC
6167605 TTGGCATTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.16, C:0.70, G:0.00, T:0.14
Consensus pattern (27 bp):
CCACCACCACCTCCTCCACCTTCACCC
Found at i:6168380 original size:6 final size:6
Alignment explanation
Indices: 6168365--6168404 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
6168355 CTTTTTTATG
*
6168365 TTTCTC TTTCTT TTTCTT TTTCTT TTTCTT TTT-TT TTTCT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCT
6168405 AATCTTCGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 5 0.16
6 27 0.84
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTCTT
Found at i:6168386 original size:18 final size:17
Alignment explanation
Indices: 6168355--6168404 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 17
6168345 TCTTATGATC
6168355 CTTTTTTATGTTTCTCTTT
1 CTTTTTT-T-TTTCTCTTT
*
6168374 CTTTTTCTTTTTCTTTTT
1 CTTTTT-TTTTTCTCTTT
6168392 CTTTTTTTTTTCT
1 CTTTTTTTTTTCT
6168405 AATCTTCGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 7 0.24
18 14 0.48
19 7 0.24
20 1 0.03
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (17 bp):
CTTTTTTTTTTCTCTTT
Found at i:6175006 original size:23 final size:24
Alignment explanation
Indices: 6174955--6175006 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
6174945 TTTTTATAAG
*
6174955 TATTTAAATAAATTATAAAAAATT
1 TATTTAAATAAATAATAAAAAATT
* * *
6174979 GATTTAAATAAA-AATTAAAACTT
1 TATTTAAATAAATAATAAAAAATT
6175002 TATTT
1 TATTT
6175007 TGTAGTATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (24 bp):
TATTTAAATAAATAATAAAAAATT
Found at i:6184233 original size:14 final size:14
Alignment explanation
Indices: 6184214--6184244 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
6184204 AAGCAGTAAC
6184214 GCATTCCCCAGTGA
1 GCATTCCCCAGTGA
6184228 GCATTCCCCAGTGA
1 GCATTCCCCAGTGA
6184242 GCA
1 GCA
6184245 ACAAGACGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.35, G:0.23, T:0.19
Consensus pattern (14 bp):
GCATTCCCCAGTGA
Found at i:6185724 original size:13 final size:13
Alignment explanation
Indices: 6185706--6185739 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6185696 TATCACATAA
6185706 AATTAAATTTAAC
1 AATTAAATTTAAC
* *
6185719 AATTAATTTTAAT
1 AATTAAATTTAAC
6185732 AATTAAAT
1 AATTAAAT
6185740 AATCTAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (13 bp):
AATTAAATTTAAC
Found at i:6189775 original size:33 final size:32
Alignment explanation
Indices: 6189702--6189781 Score: 124
Period size: 32 Copynumber: 2.5 Consensus size: 32
6189692 AGTAATTTCG
* *
6189702 AAAGTTAGGATTTATGTATCACCAAAAAAAGT
1 AAAGTTAGGATTTATATATCACCAAAAAAAGA
*
6189734 AAAGTTAGGATTTATATGTCACCAAAAAAAGA
1 AAAGTTAGGATTTATATATCACCAAAAAAAGA
6189766 AAAGTTTAGGATTTAT
1 AAAG-TTAGGATTTAT
6189782 TTAAAAGATA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
32 33 0.75
33 11 0.25
ACGTcount: A:0.46, C:0.07, G:0.16, T:0.30
Consensus pattern (32 bp):
AAAGTTAGGATTTATATATCACCAAAAAAAGA
Found at i:6190719 original size:15 final size:16
Alignment explanation
Indices: 6190693--6190722 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6190683 TTAACTAAAA
6190693 AACTATAAATTAATTG
1 AACTATAAATTAATTG
6190709 AACTA-AAATTAATT
1 AACTATAAATTAATT
6190723 TTACTAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.37
Consensus pattern (16 bp):
AACTATAAATTAATTG
Found at i:6190990 original size:18 final size:17
Alignment explanation
Indices: 6190954--6191007 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
6190944 CATTTTAAAA
* *
6190954 TATTTTAATAAAAATAT
1 TATTTTAAAAAAAACAT
6190971 TATTTTCAAAAAAAACAT
1 TATTTT-AAAAAAAACAT
* *
6190989 TATTATTTAAAAATACAT
1 TATT-TTAAAAAAAACAT
6191007 T
1 T
6191008 GTAAGGTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 6 0.19
18 23 0.74
19 2 0.06
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.43
Consensus pattern (17 bp):
TATTTTAAAAAAAACAT
Found at i:6191511 original size:21 final size:21
Alignment explanation
Indices: 6191485--6191524 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6191475 GTGTATTTTT
6191485 ATATAATTTATATTTTTTAAA
1 ATATAATTTATATTTTTTAAA
*
6191506 ATATAATTTTTATTTTTTA
1 ATATAATTTATATTTTTTA
6191525 TTTTCTATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATATAATTTATATTTTTTAAA
Found at i:6192113 original size:27 final size:26
Alignment explanation
Indices: 6192071--6192136 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
6192061 TAAATTGTCC
*
6192071 TTTTACTTT-TTTCTTTTTTTTTAAGT
1 TTTTACTTTATTTC-TTTTTTTTAAAT
6192097 TTTTA-TTTATTTACTTTTTTTTAAAT
1 TTTTACTTTATTT-CTTTTTTTTAAAT
*
6192123 TATTTATTTTATTT
1 T-TTTACTTTATTT
6192137 TATTTTATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
25 3 0.09
26 20 0.57
27 5 0.14
28 7 0.20
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.76
Consensus pattern (26 bp):
TTTTACTTTATTTCTTTTTTTTAAAT
Found at i:6192118 original size:19 final size:18
Alignment explanation
Indices: 6192096--6192165 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 18
6192086 TTTTTTTAAG
6192096 TTTTTATTTATTTACTTTT
1 TTTTTATTTATTTA-TTTT
* *
6192115 TTTTAAATTATTTATTTT
1 TTTTTATTTATTTATTTT
*
6192133 ATTTTATTTTATTTATTTGT
1 TTTTTA-TTTATTTATTT-T
* *
6192153 TTATTATTGATTT
1 TTTTTATTTATTT
6192166 TTAAAAAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
18 8 0.20
19 28 0.68
20 5 0.12
ACGTcount: A:0.21, C:0.01, G:0.03, T:0.74
Consensus pattern (18 bp):
TTTTTATTTATTTATTTT
Found at i:6192137 original size:23 final size:24
Alignment explanation
Indices: 6192099--6192143 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
6192089 TTTTAAGTTT
6192099 TTATTTATTTACTTTT-TTTTAAA
1 TTATTTATTTACTTTTATTTTAAA
6192122 TTATTTATTTTA-TTTTATTTTA
1 TTATTTA-TTTACTTTTATTTTA
6192144 TTTATTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (24 bp):
TTATTTATTTACTTTTATTTTAAA
Found at i:6192147 original size:28 final size:26
Alignment explanation
Indices: 6192085--6192136 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 26
6192075 ACTTTTTTCT
*
6192085 TTTTTTTTAAGTTTTTATTTATTTAC
1 TTTTTTTTAAATTTTTATTTATTTAC
6192111 TTTTTTTTAAATTATTTATTTTATTT
1 TTTTTTTTAAATT-TTTA-TTTATTT
6192137 TATTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 12 0.52
27 4 0.17
28 7 0.30
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (26 bp):
TTTTTTTTAAATTTTTATTTATTTAC
Found at i:6192148 original size:23 final size:23
Alignment explanation
Indices: 6192098--6192155 Score: 66
Period size: 23 Copynumber: 2.5 Consensus size: 23
6192088 TTTTTAAGTT
6192098 TTTATTTATTTACTTTTTTTTAA
1 TTTATTTATTTACTTTTTTTTAA
*
6192121 ATTATTTATTTTA-TTTTATTTT-A
1 TTTATTTA-TTTACTTTT-TTTTAA
*
6192144 TTTATTTGTTTA
1 TTTATTTATTTA
6192156 TTATTGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 4 0.13
23 18 0.60
24 8 0.27
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTATTTATTTACTTTTTTTTAA
Found at i:6192247 original size:34 final size:35
Alignment explanation
Indices: 6192199--6192280 Score: 114
Period size: 35 Copynumber: 2.3 Consensus size: 35
6192189 ATTTGAAATG
6192199 TTTAATAATATATTTTTTAAAA-ATTTAAATA-TATAT
1 TTTAA-AAT-TATTTTTTAAAATATTTAAATATTAT-T
6192235 TTTAAAATTATTTTTTAAAATATTTAAATATTATT
1 TTTAAAATTATTTTTTAAAATATTTAAATATTATT
*
6192270 TTTTAAATTAT
1 TTTAAAATTAT
6192281 ATATATATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
34 12 0.28
35 23 0.53
36 8 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (35 bp):
TTTAAAATTATTTTTTAAAATATTTAAATATTATT
Found at i:6192291 original size:20 final size:23
Alignment explanation
Indices: 6192237--6192308 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 23
6192227 ATATATATTT
*
6192237 TAAA-ATTATTTTTTAAAATATT
1 TAAATATTATTTTTTAAAATATA
6192259 TAAATATTATTTTTT-AAAT-TA
1 TAAATATTATTTTTTAAAATATA
*
6192280 TATATA-TA-TTTTTAATAATATA
1 TAAATATTATTTTTTAA-AATATA
6192302 -AAATATT
1 TAAATATT
6192309 TAAATATTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
19 5 0.12
20 3 0.07
21 13 0.31
22 11 0.26
23 10 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TAAATATTATTTTTTAAAATATA
Found at i:6192300 original size:18 final size:18
Alignment explanation
Indices: 6192261--6192301 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
6192251 AAAATATTTA
6192261 AATAT-TATTTTTTAAAT
1 AATATATATTTTTTAAAT
*
6192278 TATATATATATTTTT-AAT
1 AATATATAT-TTTTTAAAT
6192296 AATATA
1 AATATA
6192302 AAATATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
AATATATATTTTTTAAAT
Found at i:6192608 original size:23 final size:21
Alignment explanation
Indices: 6192559--6192606 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
6192549 TGACTTTATT
* **
6192559 TAAAAATATATATTAAAGAGG
1 TAAAAATATATATTAAAAAAA
6192580 TAAAAATATATATTAAAAAAA
1 TAAAAATATATATTAAAAAAA
6192601 TAAAAA
1 TAAAAA
6192607 AAAATATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (21 bp):
TAAAAATATATATTAAAAAAA
Found at i:6193575 original size:16 final size:15
Alignment explanation
Indices: 6193537--6193575 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
6193527 CAATTTTTTT
6193537 TAAAAATTATTTATA
1 TAAAAATTATTTATA
*
6193552 AAATAAATTATTTTATA
1 TAA-AAATTA-TTTATA
6193569 TAAAAAT
1 TAAAAAT
6193576 AAATAAATCT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
15 2 0.10
16 10 0.50
17 8 0.40
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAAAAATTATTTATA
Found at i:6193666 original size:16 final size:18
Alignment explanation
Indices: 6193647--6193682 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
6193637 CACTCATCAC
6193647 TTTTT-TTCTC-A-AATT
1 TTTTTATTCTCTAGAATT
6193662 TTTTTATTCTCTAGAATT
1 TTTTTATTCTCTAGAATT
6193680 TTT
1 TTT
6193683 ACAAGACATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.28
16 5 0.28
17 1 0.06
18 7 0.39
ACGTcount: A:0.19, C:0.11, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTTTATTCTCTAGAATT
Found at i:6199020 original size:20 final size:20
Alignment explanation
Indices: 6198983--6199021 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
6198973 TAATAATTCA
*
6198983 TTAATGAATTAATATAATTT
1 TTAATGAAATAATATAATTT
6199003 TTAATGATAATAAT-TAATT
1 TTAATGA-AATAATATAATT
6199022 CAGATAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
TTAATGAAATAATATAATTT
Found at i:6201293 original size:22 final size:22
Alignment explanation
Indices: 6201268--6201315 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
6201258 CTTTCAACTC
6201268 TATTAAAATTT-TTGTTGTCTTT
1 TATTAAAATTTCTTGTT-TCTTT
* **
6201290 TATTTATTTTTCTTGTTTCTTT
1 TATTAAAATTTCTTGTTTCTTT
6201312 TATT
1 TATT
6201316 TTTTTAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.17, C:0.06, G:0.06, T:0.71
Consensus pattern (22 bp):
TATTAAAATTTCTTGTTTCTTT
Found at i:6201316 original size:22 final size:22
Alignment explanation
Indices: 6201279--6201320 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
6201269 ATTAAAATTT
6201279 TTGTTGTCTTTTATTTATTTTTC
1 TTGTTGTCTTTTATTT-TTTTTC
6201302 TTGTT-TCTTTTATTTTTTT
1 TTGTTGTCTTTTATTTTTTT
6201321 AAATTGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 10 0.53
23 5 0.26
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (22 bp):
TTGTTGTCTTTTATTTTTTTTC
Found at i:6201327 original size:22 final size:22
Alignment explanation
Indices: 6201279--6201336 Score: 55
Period size: 22 Copynumber: 2.5 Consensus size: 22
6201269 ATTAAAATTT
**
6201279 TTGTTGTCTTTTATTTATTTTTC
1 TTGTT-TCTTTTATTTATTTTAA
6201302 TTGTTTCTTTTATTT-TTTTAAA
1 TTGTTTCTTTTATTTATTTT-AA
6201324 TTGTATTACTTTT
1 TTGT-TT-CTTTT
6201337 TAAATTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
21 4 0.13
22 14 0.47
23 7 0.23
24 5 0.17
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.72
Consensus pattern (22 bp):
TTGTTTCTTTTATTTATTTTAA
Found at i:6201846 original size:15 final size:15
Alignment explanation
Indices: 6201826--6201855 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6201816 CACTATTTAC
6201826 AATTTAGTTTTTATT
1 AATTTAGTTTTTATT
6201841 AATTTAGTTTTTATT
1 AATTTAGTTTTTATT
6201856 TTCATAAAAA
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:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (15 bp):
AATTTAGTTTTTATT
Found at i:6210088 original size:6 final size:6
Alignment explanation
Indices: 6210079--6210107 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
6210069 TTAAATAATA
6210079 ATATTT ATATTT ATATTT ATATTT ATATT
1 ATATTT ATATTT ATATTT ATATTT ATATT
6210108 AAATCACTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
ATATTT
Found at i:6210342 original size:17 final size:17
Alignment explanation
Indices: 6210320--6210352 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
6210310 AAAAATTATA
*
6210320 AAAAATTATTTTTAAAT
1 AAAAATTAATTTTAAAT
6210337 AAAAATTAATTTTAAA
1 AAAAATTAATTTTAAA
6210353 AAAGTCAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AAAAATTAATTTTAAAT
Found at i:6211045 original size:18 final size:18
Alignment explanation
Indices: 6211019--6211054 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
6211009 TATGAACAGA
*
6211019 GACAGAAGAAAAGTCTTT
1 GACACAAGAAAAGTCTTT
6211037 GACACAAGAAAAGTCTTT
1 GACACAAGAAAAGTCTTT
6211055 TTGTTGACGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.14, G:0.19, T:0.22
Consensus pattern (18 bp):
GACACAAGAAAAGTCTTT
Found at i:6215227 original size:20 final size:20
Alignment explanation
Indices: 6215178--6215227 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
6215168 TAATATTATA
*
6215178 AAATTTT-ATTATTTTTAAT
1 AAATTTTAATAATTTTTAAT
* *
6215197 TAATTTCTAATAATTTTTCAT
1 AAATTT-TAATAATTTTTAAT
6215218 AAATTTTAAT
1 AAATTTTAAT
6215228 GAGCTTTCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
19 5 0.20
20 5 0.20
21 15 0.60
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (20 bp):
AAATTTTAATAATTTTTAAT
Found at i:6227149 original size:3 final size:3
Alignment explanation
Indices: 6227143--6227172 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
6227133 TATTTATTGT
6227143 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
6227173 AATTGAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:6238290 original size:16 final size:15
Alignment explanation
Indices: 6238269--6238307 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
6238259 TTTAATATTT
*
6238269 TAAAATTCTAAAAATA
1 TAAAATT-TAAAAAAA
6238285 TAAAATATTAAAAAAA
1 TAAAAT-TTAAAAAAA
6238301 TAAAATT
1 TAAAATT
6238308 ACACTTTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 19 0.90
17 1 0.05
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAATTTAAAAAAA
Found at i:6241189 original size:30 final size:30
Alignment explanation
Indices: 6241153--6241215 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
6241143 ACTTAATTTA
6241153 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
6241183 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
6241213 TTG
1 TTG
6241216 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:6242363 original size:28 final size:28
Alignment explanation
Indices: 6242299--6242363 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
6242289 TTTCTTCATT
6242299 TTGATATTT-AAATATTTTTTATCACAA
1 TTGATATTTAAAATATTTTTTATCACAA
* * *
6242326 GTAATATTTAAAATATTTTTTTTCA-AA
1 TTGATATTTAAAATATTTTTTATCACAA
6242353 TTGATACTTTA
1 TTGATA-TTTA
6242364 TAAGTTCAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 13 0.42
28 18 0.58
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (28 bp):
TTGATATTTAAAATATTTTTTATCACAA
Found at i:6242737 original size:20 final size:22
Alignment explanation
Indices: 6242700--6242750 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
6242690 AAAGTAATAA
6242700 AAAGCTTTTTAACATATGGA-G
1 AAAGCTTTTTAACATATGGATG
* *
6242721 AAAGCTTTTTTA-GTATGGATG
1 AAAGCTTTTTAACATATGGATG
6242742 AACAGCTTT
1 AA-AGCTTT
6242751 ACTAAAGACG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 14 0.54
22 6 0.23
ACGTcount: A:0.33, C:0.10, G:0.20, T:0.37
Consensus pattern (22 bp):
AAAGCTTTTTAACATATGGATG
Found at i:6246022 original size:4 final size:4
Alignment explanation
Indices: 6246013--6246038 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
6246003 GTAACTCTAC
6246013 AATA AATA AATA AATA AATA AATA AA
1 AATA AATA AATA AATA AATA AATA AA
6246039 GCAATTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:6247719 original size:81 final size:81
Alignment explanation
Indices: 6247608--6247771 Score: 328
Period size: 81 Copynumber: 2.0 Consensus size: 81
6247598 ATTTTAAATG
6247608 TTAGCACGTCAATTTTTAGGATTTCTATAATCTATATCGAGGAACTTGTTGATGCAATTTATTTG
1 TTAGCACGTCAATTTTTAGGATTTCTATAATCTATATCGAGGAACTTGTTGATGCAATTTATTTG
6247673 CTATTCATTACTAAAC
66 CTATTCATTACTAAAC
6247689 TTAGCACGTCAATTTTTAGGATTTCTATAATCTATATCGAGGAACTTGTTGATGCAATTTATTTG
1 TTAGCACGTCAATTTTTAGGATTTCTATAATCTATATCGAGGAACTTGTTGATGCAATTTATTTG
6247754 CTATTCATTACTAAAC
66 CTATTCATTACTAAAC
6247770 TT
1 TT
6247772 TAAGTATATG
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.43
Consensus pattern (81 bp):
TTAGCACGTCAATTTTTAGGATTTCTATAATCTATATCGAGGAACTTGTTGATGCAATTTATTTG
CTATTCATTACTAAAC
Found at i:6248528 original size:3 final size:3
Alignment explanation
Indices: 6248520--6248545 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6248510 TTTAAATTTA
6248520 GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GA
6248546 ACTTGGTCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:6254170 original size:46 final size:47
Alignment explanation
Indices: 6254122--6254213 Score: 116
Period size: 47 Copynumber: 2.0 Consensus size: 47
6254112 ATTTCTTTTA
*
6254122 TTTATTATTAT-TAACTTTAAAAATTTTGAAATATATA-TTTGAAATAT
1 TTTATTAATATGT-ACTTTAAAAATTTT-AAATATATATTTTGAAATAT
* **
6254169 TTTATTAATATGTATTTTTTAAATTTTAAATATATATTTTGAAAT
1 TTTATTAATATGTACTTTAAAAATTTTAAATATATATTTTGAAAT
6254214 TACTTTTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
46 9 0.23
47 29 0.74
48 1 0.03
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (47 bp):
TTTATTAATATGTACTTTAAAAATTTTAAATATATATTTTGAAATAT
Found at i:6254242 original size:22 final size:21
Alignment explanation
Indices: 6254204--6254258 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
6254194 TTAAATATAT
*
6254204 ATTTTGAA-ATTACTTTTTTAA
1 ATTTTAAATATTA-TTTTTTAA
6254225 ATTTTAAATATTATTTTTTAA
1 ATTTTAAATATTATTTTTTAA
6254246 ATATTTAAATATT
1 AT-TTTAAATATT
6254259 TTAAACTTTC
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
ATTTTAAATATTATTTTTTAA
Found at i:6255069 original size:10 final size:10
Alignment explanation
Indices: 6255004--6255076 Score: 51
Period size: 11 Copynumber: 6.8 Consensus size: 10
6254994 GCCGAATACC
6255004 TTTAAAAATAA
1 TTTAAAAAT-A
6255015 TTTAAAAATCA
1 TTTAAAAAT-A
*
6255026 TAATTTAAAATA
1 T--TTAAAAATA
6255038 TTATAAAACA-A
1 TT-TAAAA-ATA
*
6255049 ATTAAATAATA
1 TTTAAA-AATA
6255060 TTTAAAAATA
1 TTTAAAAATA
6255070 -TTAAAAA
1 TTTAAAAA
6255077 ACTAATAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
9 7 0.14
10 10 0.20
11 24 0.47
12 3 0.06
13 7 0.14
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (10 bp):
TTTAAAAATA
Found at i:6255184 original size:21 final size:22
Alignment explanation
Indices: 6255158--6255204 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
6255148 TAATGTTTAA
*
6255158 AAAAATAATATTCAAA-AT-TTT
1 AAAAATAA-ATTAAAATATATTT
6255179 AAAAATAAATTAAAATATATTT
1 AAAAATAAATTAAAATATATTT
6255201 AAAA
1 AAAA
6255205 TTTAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 10 0.43
22 7 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAAATAAATTAAAATATATTT
Found at i:6255187 original size:29 final size:28
Alignment explanation
Indices: 6255155--6255214 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
6255145 ATTTAATGTT
6255155 TAAA-AAAATAATATTCAAAATTTTAAAAA
1 TAAATAAAAT-ATATTCAAAA-TTTAAAAA
*
6255184 TAAATTAAAATATATTTAAAATTTAAAAA
1 TAAA-TAAAATATATTCAAAATTTAAAAA
6255213 TA
1 TA
6255215 TATATATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
29 14 0.50
30 9 0.32
31 5 0.18
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (28 bp):
TAAATAAAATATATTCAAAATTTAAAAA
Found at i:6255277 original size:10 final size:9
Alignment explanation
Indices: 6255264--6255389 Score: 67
Period size: 9 Copynumber: 13.2 Consensus size: 9
6255254 TTTTAAAATT
6255264 AATAACAAAA
1 AATAA-AAAA
*
6255274 AATAAATAA
1 AATAAAAAA
6255283 AATAAAATAA
1 AATAAAA-AA
6255293 AATAAGAAAA
1 AATAA-AAAA
*
6255303 AATATAAAA
1 AATAAAAAA
**
6255312 CTTAAAAAA
1 AATAAAAAA
6255321 AGA-AAAAAA
1 A-ATAAAAAA
**
6255330 TTTAAAGAAA
1 AATAAA-AAA
* *
6255340 AAGACAAAA
1 AATAAAAAA
*
6255349 GATAATAAAA
1 AATAA-AAAA
6255359 AACT-AAAAA
1 AA-TAAAAAA
6255368 AATAATAAATA
1 AATAA-AAA-A
*
6255379 AGTAAAAAA
1 AATAAAAAA
6255388 AA
1 AA
6255390 AGTGAGAGAT
Statistics
Matches: 86, Mismatches: 20, Indels: 21
0.68 0.16 0.17
Matches are distributed among these distances:
8 1 0.01
9 42 0.49
10 35 0.41
11 8 0.09
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (9 bp):
AATAAAAAA
Found at i:6255281 original size:14 final size:13
Alignment explanation
Indices: 6255258--6255306 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
6255248 AAATTTTTTT
*
6255258 AAAATTAATAACAA
1 AAAATAAATAA-AA
6255272 AAAATAAATAAAA
1 AAAATAAATAAAA
6255285 TAAAATAAAATAAGAA
1 -AAAAT-AAATAA-AA
6255301 AAAATA
1 AAAATA
6255307 TAAAACTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
13 2 0.06
14 16 0.52
15 11 0.35
16 2 0.06
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (13 bp):
AAAATAAATAAAA
Found at i:6255295 original size:15 final size:15
Alignment explanation
Indices: 6255264--6255306 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
6255254 TTTTAAAATT
*
6255264 AATAACAAAAAAT-A
1 AATAAGAAAAAATAA
6255278 AATAA-AATAAAATAA
1 AATAAGAA-AAAATAA
6255293 AATAAGAAAAAATA
1 AATAAGAAAAAATA
6255307 TAAAACTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.08
14 10 0.38
15 12 0.46
16 2 0.08
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.16
Consensus pattern (15 bp):
AATAAGAAAAAATAA
Found at i:6255317 original size:29 final size:28
Alignment explanation
Indices: 6255256--6255318 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
6255246 TTAAATTTTT
*
6255256 TTAAAATTAATAACAAAAAATAAATAAAA
1 TTAAAATAAATAACAAAAAAT-AATAAAA
*
6255285 -TAAAATAAAATAAGAAAAAAT-ATAAAA
1 TTAAAAT-AAATAACAAAAAATAATAAAA
6255312 CTTAAAA
1 -TTAAAA
6255319 AAAGAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
27 6 0.21
28 6 0.21
29 17 0.59
ACGTcount: A:0.73, C:0.03, G:0.02, T:0.22
Consensus pattern (28 bp):
TTAAAATAAATAACAAAAAATAATAAAA
Found at i:6255367 original size:19 final size:19
Alignment explanation
Indices: 6255345--6255388 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
6255335 AGAAAAAGAC
*
6255345 AAAAGATAATAAAAAACTA
1 AAAAAATAATAAAAAACTA
* *
6255364 AAAAAATAATAAATAAGTA
1 AAAAAATAATAAAAAACTA
6255383 AAAAAA
1 AAAAAA
6255389 AAGTGAGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (19 bp):
AAAAAATAATAAAAAACTA
Found at i:6255688 original size:22 final size:22
Alignment explanation
Indices: 6255658--6255704 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
6255648 GAAAGTTTAA
6255658 AATACTT-AAATATTTAAAAAAT
1 AATACTTAAAAT-TTTAAAAAAT
*
6255680 AATATTTAAAATTTTAAAAAAT
1 AATACTTAAAATTTTAAAAAAT
6255702 AAT
1 AAT
6255705 TTCAAAATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AATACTTAAAATTTTAAAAAAT
Found at i:6255698 original size:21 final size:22
Alignment explanation
Indices: 6255658--6255712 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
6255648 GAAAGTTTAA
*
6255658 AATACTTAAATATTT-AAAAAAT
1 AATATTTAAA-ATTTAAAAAAAT
*
6255680 AATATTTAAAATTTTAAAAAAT
1 AATATTTAAAATTTAAAAAAAT
*
6255702 AAT-TTCAAAAT
1 AATATTTAAAAT
6255713 ATATATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 11 0.37
22 19 0.63
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAAT
Found at i:6255741 original size:24 final size:25
Alignment explanation
Indices: 6255693--6255743 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 25
6255683 ATTTAAAATT
6255693 TTAAAAAATAATTTCAAAATATATA
1 TTAAAAAATAATTTCAAAATATATA
6255718 TTAATAAAAT-ATTTC-AAATATATA
1 TTAA-AAAATAATTTCAAAATATATA
6255742 TT
1 TT
6255744 TCAAAATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 11 0.44
25 9 0.36
26 5 0.20
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (25 bp):
TTAAAAAATAATTTCAAAATATATA
Found at i:6255786 original size:14 final size:15
Alignment explanation
Indices: 6255761--6255790 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
6255751 TTTTAAAGTT
6255761 AATAATAATAAATAA
1 AATAATAATAAATAA
6255776 AATAA-AATAAATAA
1 AATAATAATAAATAA
6255790 A
1 A
6255791 GACAAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (15 bp):
AATAATAATAAATAA
Found at i:6255834 original size:8 final size:8
Alignment explanation
Indices: 6255799--6255833 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
6255789 AAGACAAAAG
6255799 AAAAGTCA
1 AAAAGTCA
6255807 AAAAGTCA
1 AAAAGTCA
6255815 AAAAGTCA
1 AAAAGTCA
6255823 AAAAGT-A
1 AAAAGTCA
6255830 AAAA
1 AAAA
6255834 AAAAAAAGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 5 0.19
8 22 0.81
ACGTcount: A:0.69, C:0.09, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAAGTCA
Found at i:6259458 original size:53 final size:53
Alignment explanation
Indices: 6259378--6259484 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
6259368 TAATGTGAGA
*
6259378 TTGGCTCTTTGAGATGTGTAAGGGCTTGTAATTGTGGCATGATAACACACACT
1 TTGGCTCTTTGAGATGCGTAAGGGCTTGTAATTGTGGCATGATAACACACACT
*
6259431 TTGGCTCTTTGAGATGCGTATGGGCTTGTAATTGTGGCATGATAACACACACT
1 TTGGCTCTTTGAGATGCGTAAGGGCTTGTAATTGTGGCATGATAACACACACT
6259484 T
1 T
6259485 GAATTTAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (53 bp):
TTGGCTCTTTGAGATGCGTAAGGGCTTGTAATTGTGGCATGATAACACACACT
Found at i:6261986 original size:15 final size:15
Alignment explanation
Indices: 6261958--6261990 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
6261948 TTACCATCAA
6261958 AAAAGAGAAGAGAAG
1 AAAAGAGAAGAGAAG
6261973 AAAA-AGAAGAAGAAG
1 AAAAGAGAAG-AGAAG
6261988 AAA
1 AAA
6261991 TGGGCGCACC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (15 bp):
AAAAGAGAAGAGAAG
Found at i:6265303 original size:14 final size:14
Alignment explanation
Indices: 6265286--6265316 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6265276 TTAATTTTAA
6265286 AAATTTAATTAATT
1 AAATTTAATTAATT
*
6265300 AAATTTATTTAATT
1 AAATTTAATTAATT
6265314 AAA
1 AAA
6265317 AAATCAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AAATTTAATTAATT
Found at i:6265967 original size:17 final size:18
Alignment explanation
Indices: 6265947--6265989 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
6265937 TTAAATATTA
6265947 TTATATTTATTTTT-TAT
1 TTATATTTATTTTTATAT
6265964 TTATA--TATTTTTAATAT
1 TTATATTTATTTTT-ATAT
6265981 TTATATTTA
1 TTATATTTA
6265990 AAAAAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.32
17 13 0.59
19 2 0.09
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTATATTTATTTTTATAT
Found at i:6265974 original size:15 final size:15
Alignment explanation
Indices: 6265944--6265986 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
6265934 ATTTTAAATA
*
6265944 TTATTATATTTATTTT
1 TTATT-TATATATTTT
6265960 TTATTTATATATTTT
1 TTATTTATATATTTT
6265975 TAATATTTATAT
1 T--TATTTATAT
6265987 TTAAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 10 0.42
16 5 0.21
17 9 0.38
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTATTTATATATTTT
Found at i:6265987 original size:15 final size:14
Alignment explanation
Indices: 6265941--6265988 Score: 55
Period size: 13 Copynumber: 3.4 Consensus size: 14
6265931 GATATTTTAA
*
6265941 ATATTATTATATTT
1 ATATTTTTATATTT
6265955 AT-TTTTTAT-TTAT
1 ATATTTTTATATT-T
6265968 ATATTTTTAATATTT
1 ATATTTTT-ATATTT
6265983 ATATTT
1 ATATTT
6265989 AAAAAAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 2 0.07
13 9 0.31
14 7 0.24
15 9 0.31
16 2 0.07
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
ATATTTTTATATTT
Found at i:6265989 original size:27 final size:27
Alignment explanation
Indices: 6265936--6265989 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
6265926 AAAATGATAT
*
6265936 TTTAAATATTATTATATTTATTTTTTA
1 TTTAAATATTATTATATTTATTATTTA
* *
6265963 TTTATATATTTTTAATATTTA-TATTTA
1 TTTAAATATTATT-ATATTTATTATTTA
6265990 AAAAAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 16 0.70
28 7 0.30
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (27 bp):
TTTAAATATTATTATATTTATTATTTA
Found at i:6267373 original size:22 final size:22
Alignment explanation
Indices: 6267345--6267386 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
6267335 CATGTTAAGC
6267345 TTTATTAGATTATGACACATGA
1 TTTATTAGATTATGACACATGA
6267367 TTTATTAGATTATGACACAT
1 TTTATTAGATTATGACACAT
6267387 TAATAATGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.43
Consensus pattern (22 bp):
TTTATTAGATTATGACACATGA
Found at i:6270785 original size:65 final size:65
Alignment explanation
Indices: 6270681--6270812 Score: 255
Period size: 65 Copynumber: 2.0 Consensus size: 65
6270671 CCACAGCCTA
*
6270681 TAACTGCAAAATATTTCTTTCACAGTGCCACCAAGAATGGCTGCTTCATTCATGCTTATCGTTGC
1 TAACTGCAAAATATTTCTTTCACAGTGCCACCAAGAATGGCTGCTTCATTCATACTTATCGTTGC
6270746 TAACTGCAAAATATTTCTTTCACAGTGCCACCAAGAATGGCTGCTTCATTCATACTTATCGTTGC
1 TAACTGCAAAATATTTCTTTCACAGTGCCACCAAGAATGGCTGCTTCATTCATACTTATCGTTGC
6270811 TA
1 TA
6270813 TCAATTCATA
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (65 bp):
TAACTGCAAAATATTTCTTTCACAGTGCCACCAAGAATGGCTGCTTCATTCATACTTATCGTTGC
Found at i:6277539 original size:20 final size:20
Alignment explanation
Indices: 6277510--6277566 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
6277500 ACTTTTTAAG
*
6277510 TATATATATTTTAAT-TTGTT
1 TATATTTATTTTAATATT-TT
6277530 TATATTTATTTTAATATTTT
1 TATATTTATTTTAATATTTT
*
6277550 TAGTATTT-TTTAAATAT
1 TA-TATTTATTTTAATAT
6277567 ATATAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 26 0.79
21 7 0.21
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.65
Consensus pattern (20 bp):
TATATTTATTTTAATATTTT
Found at i:6285479 original size:24 final size:24
Alignment explanation
Indices: 6285450--6285497 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
6285440 GATGGTTGAA
*
6285450 TGATGATTTTGTGAAATAAAATAG
1 TGATGATATTGTGAAATAAAATAG
6285474 TGATGATATTGTGAAATAAAATAG
1 TGATGATATTGTGAAATAAAATAG
6285498 CGTTTGGAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.21, T:0.35
Consensus pattern (24 bp):
TGATGATATTGTGAAATAAAATAG
Found at i:6286458 original size:18 final size:19
Alignment explanation
Indices: 6286435--6286485 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
6286425 AAAAGTTGTG
6286435 ATAATTATAAATA-TAAAT
1 ATAATTATAAATATTAAAT
* *
6286453 ATAATTATAATTATTAATT
1 ATAATTATAAATATTAAAT
*
6286472 ATTAATTAAAAATA
1 A-TAATTATAAATA
6286486 ATTGTGATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 12 0.44
19 5 0.19
20 10 0.37
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATAATTATAAATATTAAAT
Found at i:6286463 original size:6 final size:6
Alignment explanation
Indices: 6286435--6286479 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
6286425 AAAAGTTGTG
* *
6286435 ATAATT ATAAAT ATAAAT ATAATT ATAATT ATTAATT ATTAATT A
1 ATAATT ATAATT ATAATT ATAATT ATAATT A-TAATT A-TAATT A
6286480 AAAATAATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 23 0.64
7 13 0.36
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
ATAATT
Found at i:6294599 original size:18 final size:19
Alignment explanation
Indices: 6294555--6294599 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
6294545 CTGATTTTTC
*
6294555 TTCCTTTTGTTTTTGGGGT
1 TTCCTTTTGTTTTTGGGGA
**
6294574 TTAATTTTGTTTTT-GGGA
1 TTCCTTTTGTTTTTGGGGA
6294592 TTCCTTTT
1 TTCCTTTT
6294600 TCTTTCCATT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.07, C:0.09, G:0.20, T:0.64
Consensus pattern (19 bp):
TTCCTTTTGTTTTTGGGGA
Found at i:6306317 original size:28 final size:30
Alignment explanation
Indices: 6306272--6306336 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 30
6306262 CTTAACAATT
6306272 ATATATTTTAAAATTTTA-AATA-ATTATA
1 ATATATTTTAAAATTTTATAATATATTATA
* * *
6306300 ATATATTTT-TAATGTTTATATTATATTATC
1 ATATATTTTAAAAT-TTTATAATATATTATA
6306330 ATATATT
1 ATATATT
6306337 CAATTTTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
27 3 0.10
28 13 0.42
29 3 0.10
30 12 0.39
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (30 bp):
ATATATTTTAAAATTTTATAATATATTATA
Found at i:6315596 original size:4 final size:4
Alignment explanation
Indices: 6315587--6315617 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
6315577 TCTTCGCTGC
6315587 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC
1 TTCT TTCT TTCT TTCT TTCT TTCT TTCT TTC
6315618 AATGATGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (4 bp):
TTCT
Found at i:6317790 original size:72 final size:73
Alignment explanation
Indices: 6317707--6317850 Score: 272
Period size: 72 Copynumber: 2.0 Consensus size: 73
6317697 AAAATGAAAA
*
6317707 AAAAAAAAAAGAATCATAAATAGTCCCATGTTTTATCAAATTTTCATGATGGTTACTTTCAATTT
1 AAAAAAAAAAGAATCATAAATAGTCCCATGTTTTATCAAATTTTCATGATAGTTACTTTCAATTT
6317772 -TTTTTTG
66 GTTTTTTG
6317779 AAAAAAAAAAGAATCATAAATAGTCCCATGTTTTATCAAATTTTCATGATAGTTACTTTCAATTT
1 AAAAAAAAAAGAATCATAAATAGTCCCATGTTTTATCAAATTTTCATGATAGTTACTTTCAATTT
6317844 GTTTTTT
66 GTTTTTT
6317851 TCAGTTTCAA
Statistics
Matches: 70, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
72 64 0.91
73 6 0.09
ACGTcount: A:0.38, C:0.11, G:0.09, T:0.42
Consensus pattern (73 bp):
AAAAAAAAAAGAATCATAAATAGTCCCATGTTTTATCAAATTTTCATGATAGTTACTTTCAATTT
GTTTTTTG
Found at i:6319447 original size:6 final size:6
Alignment explanation
Indices: 6319438--6319469 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
6319428 AAATTGAATT
*
6319438 AAGCTT AAGCTC AAGCTC AAGCTC AAGCTC AA
1 AAGCTC AAGCTC AAGCTC AAGCTC AAGCTC AA
6319470 CTCGAAATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.38, C:0.28, G:0.16, T:0.19
Consensus pattern (6 bp):
AAGCTC
Found at i:6319918 original size:22 final size:24
Alignment explanation
Indices: 6319879--6319924 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
6319869 TTTTTAATAA
**
6319879 TAAAAAAATAATTTAAAT-TTAAT
1 TAAAAAAATAATAGAAATATTAAT
6319902 TAAAAAAAT-ATAGAAATATTAAT
1 TAAAAAAATAATAGAAATATTAAT
6319925 AGTATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
TAAAAAAATAATAGAAATATTAAT
Found at i:6330281 original size:70 final size:70
Alignment explanation
Indices: 6330168--6330304 Score: 222
Period size: 70 Copynumber: 2.0 Consensus size: 70
6330158 ATGTAACATA
* *
6330168 TAAGACAAATAATGTCATGTCAGCATAAAGCACACGTGAACTACCACGGAGATTACCATGCCAAC
1 TAAGACAAATAATGTCATGTCAGCATAAAGCACACATGAACTACCACGCAGATTACCATGCCAAC
6330233 ATCAT
66 ATCAT
* *
6330238 TAAGACAAATAATGTCATGTCAGCATGAAA-CACATATGAACTACCACGCAGATTACGATGCCAA
1 TAAGACAAATAATGTCATGTCAGCAT-AAAGCACACATGAACTACCACGCAGATTACCATGCCAA
6330302 CAT
65 CAT
6330305 TGTTAACAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
70 59 0.95
71 3 0.05
ACGTcount: A:0.41, C:0.23, G:0.15, T:0.20
Consensus pattern (70 bp):
TAAGACAAATAATGTCATGTCAGCATAAAGCACACATGAACTACCACGCAGATTACCATGCCAAC
ATCAT
Found at i:6330818 original size:3 final size:3
Alignment explanation
Indices: 6330812--6330838 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
6330802 CCCCAAAAAA
6330812 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
6330839 GGCCTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:6333521 original size:10 final size:10
Alignment explanation
Indices: 6333506--6333531 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
6333496 AAGATAATTT
6333506 TATTTTCAAA
1 TATTTTCAAA
6333516 TATTTTCAAA
1 TATTTTCAAA
6333526 TATTTT
1 TATTTT
6333532 AACCTGATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (10 bp):
TATTTTCAAA
Found at i:6338782 original size:121 final size:121
Alignment explanation
Indices: 6338645--6338862 Score: 307
Period size: 121 Copynumber: 1.8 Consensus size: 121
6338635 ATCATGCATT
* * * * * *
6338645 TGAAATTTCAAAAGGATATTTGGCTA-TCTGGTCAAACGGTAAGTCGAAACCCAGCACGATT-GG
1 TGAAACTTCAAAAGGATATTTAGCTATTC-GGCCAAACAGAAAATCGAAACCCAGCAC-ATTAGG
*
6338708 GCACGATTTCTCGAATTT-TCAAACACAAAATATTGCCTCAAATTTAAGAAAACATGGA
64 ACACGATTTCTCGAATTTCT-AAACACAAAATATTGCCTCAAATTTAAGAAAACATGGA
*
6338766 TGAAACTTCAAAAGGATATTTAGTTATTCGGCCAAACAGAAAATCGAAACCCAGCACATTAGGAC
1 TGAAACTTCAAAAGGATATTTAGCTATTCGGCCAAACAGAAAATCGAAACCCAGCACATTAGGAC
*
6338831 ACGATTTCTCGAATTTCTAAACACGAAATATT
66 ACGATTTCTCGAATTTCTAAACACAAAATATT
6338863 TCCTTATTTT
Statistics
Matches: 85, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
120 3 0.04
121 79 0.93
122 3 0.04
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.26
Consensus pattern (121 bp):
TGAAACTTCAAAAGGATATTTAGCTATTCGGCCAAACAGAAAATCGAAACCCAGCACATTAGGAC
ACGATTTCTCGAATTTCTAAACACAAAATATTGCCTCAAATTTAAGAAAACATGGA
Found at i:6341156 original size:47 final size:47
Alignment explanation
Indices: 6341040--6341245 Score: 184
Period size: 47 Copynumber: 4.3 Consensus size: 47
6341030 ATAGTAAAAT
** * *
6341040 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTATACAGTAG-CACATATCAC--ACCGATGCCATAGCCCAGA
* * * *
6341089 CATGGTCTTATAC-G-ATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
* *
6341134 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
* * * * *
6341181 TATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAAGCCATAGCCCAGC
1 TATGGTCTTATACAGTAGCACATATCACA-----CCGATGCCATAGCCCAGA
6341233 TATGGTCTTATAC
1 TATGGTCTTATAC
6341246 GGAAATCACA
Statistics
Matches: 130, Mismatches: 19, Indels: 13
0.80 0.12 0.08
Matches are distributed among these distances:
45 27 0.21
46 1 0.01
47 64 0.49
48 1 0.01
49 10 0.08
52 27 0.21
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (47 bp):
TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
Found at i:6343789 original size:15 final size:15
Alignment explanation
Indices: 6343755--6343835 Score: 101
Period size: 15 Copynumber: 5.5 Consensus size: 15
6343745 GCAAAGATAA
*
6343755 AAAGAAAACC-GAAT
1 AAAGAAATCCAGAAT
*
6343769 AAAGAAATCCAAAAT
1 AAAGAAATCCAGAAT
* *
6343784 AGAGAAACCCAGAAT
1 AAAGAAATCCAGAAT
6343799 AAAGAAATCCAGAAT
1 AAAGAAATCCAGAAT
* *
6343814 AAAGAGATCCAGGAT
1 AAAGAAATCCAGAAT
6343829 AAAGAAA
1 AAAGAAA
6343836 CCCAAGATAC
Statistics
Matches: 56, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
14 9 0.16
15 47 0.84
ACGTcount: A:0.60, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAAGAAATCCAGAAT
Found at i:6343816 original size:45 final size:44
Alignment explanation
Indices: 6343755--6343839 Score: 116
Period size: 45 Copynumber: 1.9 Consensus size: 44
6343745 GCAAAGATAA
*
6343755 AAAGAAAACCGAATAAAGAAATCCAAAATAGAGAAACCCAGAAT
1 AAAGAAAACCGAATAAAGAAATCCAAAATAAAGAAACCCAGAAT
* * **
6343799 AAAGAAATCCAGAATAAAGAGATCCAGGATAAAGAAACCCA
1 AAAGAAAACC-GAATAAAGAAATCCAAAATAAAGAAACCCA
6343840 AGATACGATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 9 0.26
45 26 0.74
ACGTcount: A:0.59, C:0.16, G:0.15, T:0.09
Consensus pattern (44 bp):
AAAGAAAACCGAATAAAGAAATCCAAAATAAAGAAACCCAGAAT
Found at i:6343844 original size:15 final size:15
Alignment explanation
Indices: 6343767--6343844 Score: 70
Period size: 15 Copynumber: 5.2 Consensus size: 15
6343757 AGAAAACCGA
*
6343767 ATAAAGAAATCCAAA
1 ATAAAGAAATCCAAG
* *
6343782 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
6343796 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
6343811 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
6343827 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
6343842 ATA
1 ATA
6343845 CGATACTATG
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
14 3 0.06
15 45 0.88
16 3 0.06
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:6347164 original size:47 final size:47
Alignment explanation
Indices: 6347031--6347237 Score: 184
Period size: 47 Copynumber: 4.3 Consensus size: 47
6347021 ATAGTAAAAT
** * *
6347031 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTATACAGTAG-CACATATCAC--ACCGATGCCATAGCCCAGA
* * * * *
6347080 CATGGTCTTATAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
* *
6347126 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCCGGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
* * * * *
6347173 TATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAAGCCATAGCCCAGC
1 TATGGTCTTATACAGTAGCACATATCACA-----CCGATGCCATAGCCCAGA
6347225 TATGGTCTTATAC
1 TATGGTCTTATAC
6347238 GGAAATCACA
Statistics
Matches: 130, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
46 27 0.21
47 55 0.42
48 10 0.08
49 11 0.08
52 27 0.21
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (47 bp):
TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
Found at i:6348716 original size:17 final size:17
Alignment explanation
Indices: 6348650--6348716 Score: 57
Period size: 18 Copynumber: 3.8 Consensus size: 17
6348640 CGTTACAGAA
*
6348650 ACAATATAAATGATATAC
1 ACAA-ATAAATAATATAC
*
6348668 A-AAACAATATATATATAC
1 ACAAATAA-ATA-ATATAC
*
6348686 ACGAATAAATAATATAC
1 ACAAATAAATAATATAC
6348703 ACAAAATAAA-AATA
1 AC-AAATAAATAATA
6348717 GCTTAATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
16 3 0.08
17 16 0.40
18 17 0.43
19 4 0.10
ACGTcount: A:0.63, C:0.10, G:0.03, T:0.24
Consensus pattern (17 bp):
ACAAATAAATAATATAC
Found at i:6348829 original size:14 final size:14
Alignment explanation
Indices: 6348810--6348842 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6348800 AAAGCAGAAT
6348810 GAAAATATACAA-AA
1 GAAAATA-ACAACAA
6348824 GAAAATAACAACAA
1 GAAAATAACAACAA
6348838 GAAAA
1 GAAAA
6348843 AAAATTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.73, C:0.09, G:0.09, T:0.09
Consensus pattern (14 bp):
GAAAATAACAACAA
Found at i:6359765 original size:7 final size:7
Alignment explanation
Indices: 6359739--6359781 Score: 52
Period size: 7 Copynumber: 6.3 Consensus size: 7
6359729 TTTTTTTTTT
6359739 GGGGGG-
1 GGGGGGA
*
6359745 GGGGGGG
1 GGGGGGA
6359752 GGGGGGA
1 GGGGGGA
6359759 GGGGGGA
1 GGGGGGA
*
6359766 GGCGGGA
1 GGGGGGA
*
6359773 GGCGGGA
1 GGGGGGA
6359780 GG
1 GG
6359782 AAGTGATGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 6 0.18
7 28 0.82
ACGTcount: A:0.09, C:0.05, G:0.86, T:0.00
Consensus pattern (7 bp):
GGGGGGA
Found at i:6368026 original size:37 final size:37
Alignment explanation
Indices: 6367985--6368059 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
6367975 AGGAAAATTA
6367985 ACGATACAAAATAGATGGAGAAAGAAAGGAATTACAG
1 ACGATACAAAATAGATGGAGAAAGAAAGGAATTACAG
*
6368022 ACGATACAAAATAGATGGAGAAAGAAAGGACTTACAG
1 ACGATACAAAATAGATGGAGAAAGAAAGGAATTACAG
6368059 A
1 A
6368060 GGAGAATAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.53, C:0.09, G:0.24, T:0.13
Consensus pattern (37 bp):
ACGATACAAAATAGATGGAGAAAGAAAGGAATTACAG
Found at i:6369900 original size:15 final size:14
Alignment explanation
Indices: 6369872--6369914 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
6369862 GGGTTTGAGA
6369872 AAAAGAAAAAGAAG
1 AAAAGAAAAAGAAG
*
6369886 AAAAGAATAAGGAAG
1 AAAAGAA-AAAGAAG
* *
6369901 AGAAGAAGAAGAAG
1 AAAAGAAAAAGAAG
6369915 GAGAAGAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 12 0.50
15 12 0.50
ACGTcount: A:0.70, C:0.00, G:0.28, T:0.02
Consensus pattern (14 bp):
AAAAGAAAAAGAAG
Found at i:6369918 original size:15 final size:14
Alignment explanation
Indices: 6369874--6369921 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
6369864 GTTTGAGAAA
*
6369874 AAGAAAAAGAAGAA
1 AAGAAAAAGAAGAG
*
6369888 AAGAATAAGGAAGAG
1 AAGAA-AAAGAAGAG
*
6369903 AAGAAGAAGAAGGAG
1 AAGAAAAAGAA-GAG
6369918 AAGA
1 AAGA
6369922 GGAAAAACGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
14 9 0.32
15 19 0.68
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (14 bp):
AAGAAAAAGAAGAG
Done.