Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D06
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: 68668488
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1920000 characters in sequence are not A, C, G, or T
File 197 of 230
Found at i:59285974 original size:17 final size:18
Alignment explanation
Indices: 59285951--59285992 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
59285941 ATAAATATTA
59285951 ATAAAAATTA-ATAAAAAT
1 ATAAAAATTAGA-AAAAAT
59285969 -TAAAAATTAGAAAAAAT
1 ATAAAAATTAGAAAAAAT
59285986 ATAAAAA
1 ATAAAAA
59285993 ATGTAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (18 bp):
ATAAAAATTAGAAAAAAT
Found at i:59286389 original size:19 final size:19
Alignment explanation
Indices: 59286339--59286380 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
59286329 TTCAAGTTTT
*
59286339 TTTAA-AATTTTTATTAAAA
1 TTTAATAATTTTT-CTAAAA
59286358 TTTAATAATTTTTCTAAAA
1 TTTAATAATTTTTCTAAAA
59286377 TTTA
1 TTTA
59286381 TTATTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAATAATTTTTCTAAAA
Found at i:59286396 original size:18 final size:19
Alignment explanation
Indices: 59286339--59286397 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 19
59286329 TTCAAGTTTT
59286339 TTTAA-AATTTTTATTAAAA
1 TTTAATAATTTTT-TTAAAA
*
59286358 TTTAATAATTTTTCTAAAA
1 TTTAATAATTTTTTTAAAA
* *
59286377 TTT-ATTATTTTTTTATAA
1 TTTAATAATTTTTTTAAAA
59286395 TTT
1 TTT
59286398 TTTCTATTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 15 0.43
19 13 0.37
20 7 0.20
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (19 bp):
TTTAATAATTTTTTTAAAA
Found at i:59289735 original size:24 final size:24
Alignment explanation
Indices: 59289681--59289736 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
59289671 TTAAAATACT
*
59289681 TTAAAAATATTTTTATTTTTTATT
1 TTAAAAATATTTTTATTTTTTATA
*
59289705 TTTAAAATATTTTT-TTTGTGTT-TA
1 TTAAAAATATTTTTATTT-T-TTATA
59289729 TTAAAAAT
1 TTAAAAAT
59289737 CGGGCCGGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 3 0.11
24 22 0.81
25 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (24 bp):
TTAAAAATATTTTTATTTTTTATA
Found at i:59305583 original size:18 final size:18
Alignment explanation
Indices: 59305562--59305598 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
59305552 GAGTAATAAG
*
59305562 AGCAGTTAGAAGTCAGTT
1 AGCAATTAGAAGTCAGTT
59305580 AGCAATTAGAAGTCAGTT
1 AGCAATTAGAAGTCAGTT
59305598 A
1 A
59305599 ACACAAACTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (18 bp):
AGCAATTAGAAGTCAGTT
Found at i:59312890 original size:10 final size:11
Alignment explanation
Indices: 59312860--59312889 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
59312850 TCAGACTTGT
*
59312860 AAATATTTTTA
1 AAATATTTTAA
59312871 AAATATTTTAA
1 AAATATTTTAA
59312882 AAATATTT
1 AAATATTT
59312890 ACAAAGTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
AAATATTTTAA
Found at i:59313159 original size:7 final size:7
Alignment explanation
Indices: 59313147--59313172 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
59313137 ATATATGTAT
59313147 TATATAA
1 TATATAA
59313154 TATATAA
1 TATATAA
59313161 TATATAA
1 TATATAA
59313168 TATAT
1 TATAT
59313173 GATAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TATATAA
Found at i:59313241 original size:9 final size:9
Alignment explanation
Indices: 59313226--59313286 Score: 61
Period size: 9 Copynumber: 6.3 Consensus size: 9
59313216 ATGCAAATTG
59313226 AAAGAAA-A
1 AAAGAAATA
59313234 AGAAGAAATA
1 A-AAGAAATA
59313244 AAAGAAATAA
1 AAAGAAAT-A
*
59313254 AATAGAAAGAA
1 AA-AGAAA-TA
59313265 AGAAGAAATA
1 A-AAGAAATA
59313275 AAAGAAATA
1 AAAGAAATA
59313284 AAA
1 AAA
59313287 TAGAAAGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
8 1 0.02
9 24 0.53
10 7 0.16
11 12 0.27
12 1 0.02
ACGTcount: A:0.77, C:0.00, G:0.15, T:0.08
Consensus pattern (9 bp):
AAAGAAATA
Found at i:59313267 original size:31 final size:31
Alignment explanation
Indices: 59313232--59313302 Score: 142
Period size: 31 Copynumber: 2.3 Consensus size: 31
59313222 ATTGAAAGAA
59313232 AAAGAAGAAATAAAAGAAATAAAATAGAAAG
1 AAAGAAGAAATAAAAGAAATAAAATAGAAAG
59313263 AAAGAAGAAATAAAAGAAATAAAATAGAAAG
1 AAAGAAGAAATAAAAGAAATAAAATAGAAAG
59313294 AAAGAAGAA
1 AAAGAAGAA
59313303 GGGTGACCGA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.75, C:0.00, G:0.17, T:0.08
Consensus pattern (31 bp):
AAAGAAGAAATAAAAGAAATAAAATAGAAAG
Found at i:59314908 original size:24 final size:24
Alignment explanation
Indices: 59314862--59314909 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
59314852 GGATTGTAAA
*
59314862 TTGAGTTATAAATATAATGTTGGT
1 TTGAGTTATAAATATAATATTGGT
59314886 TTGAGTATATAAATAT-ATATTGGT
1 TTGAGT-TATAAATATAATATTGGT
59314910 GTTTGAAGCC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (24 bp):
TTGAGTTATAAATATAATATTGGT
Found at i:59321661 original size:43 final size:43
Alignment explanation
Indices: 59321600--59321737 Score: 179
Period size: 43 Copynumber: 3.2 Consensus size: 43
59321590 AGTTTTGTAT
* ** *
59321600 TTCACCAATGGGCGAATTGTATAAAGTTTGCTTGTGTATAGTA
1 TTCACCAATTGGAAAATTGTATAAAGTCTGCTTGTGTATAGTA
59321643 TTCACCAATTGGAAAATTGTATAAAGTCTGCTTGTGTATAGTA
1 TTCACCAATTGGAAAATTGTATAAAGTCTGCTTGTGTATAGTA
** * *
59321686 TTTGCCAA-TAGACAAATTGTATAAAGCCTGCTTGTGTATAGTA
1 TTCACCAATTGGA-AAATTGTATAAAGTCTGCTTGTGTATAGTA
*
59321729 TTCGCCAAT
1 TTCACCAAT
59321738 AGGTGAACTA
Statistics
Matches: 84, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
42 3 0.04
43 81 0.96
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (43 bp):
TTCACCAATTGGAAAATTGTATAAAGTCTGCTTGTGTATAGTA
Found at i:59321738 original size:43 final size:42
Alignment explanation
Indices: 59321614--59321739 Score: 189
Period size: 43 Copynumber: 3.0 Consensus size: 42
59321604 CCAATGGGCG
* * *
59321614 AATTGTATAAAGTTTGCTTGTGTATAGTATTCACCAATTGGAA
1 AATTGTATAAAGTCTGCTTGTGTATAGTATTCGCCAA-TAGAA
*
59321657 AATTGTATAAAGTCTGCTTGTGTATAGTATTTGCCAATAGACA
1 AATTGTATAAAGTCTGCTTGTGTATAGTATTCGCCAATAGA-A
*
59321700 AATTGTATAAAGCCTGCTTGTGTATAGTATTCGCCAATAG
1 AATTGTATAAAGTCTGCTTGTGTATAGTATTCGCCAATAG
59321740 GTGAACTATG
Statistics
Matches: 76, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
42 3 0.04
43 73 0.96
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (42 bp):
AATTGTATAAAGTCTGCTTGTGTATAGTATTCGCCAATAGAA
Found at i:59325963 original size:22 final size:20
Alignment explanation
Indices: 59325933--59325972 Score: 53
Period size: 22 Copynumber: 1.9 Consensus size: 20
59325923 TACATAACCA
59325933 AATCAAATATGATAATATATGC
1 AATCAAATA-GA-AATATATGC
*
59325955 AATCTAATAGAAATATAT
1 AATCAAATAGAAATATAT
59325973 ATTCGAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 2 0.12
22 8 0.47
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (20 bp):
AATCAAATAGAAATATATGC
Found at i:59327610 original size:9 final size:9
Alignment explanation
Indices: 59327596--59327651 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
59327586 CAACATGGTT
*
59327596 TTTTATTGA
1 TTTTATTTA
59327605 TTTTATTTTA
1 TTTTA-TTTA
59327615 TTTTATTTA
1 TTTTATTTA
59327624 -TTTATTTTA
1 TTTTA-TTTA
* *
59327633 TCTTATCT-
1 TTTTATTTA
59327641 TTTTATTTA
1 TTTTATTTA
59327650 TT
1 TT
59327652 ACCCTAGCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
8 10 0.26
9 17 0.45
10 11 0.29
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.75
Consensus pattern (9 bp):
TTTTATTTA
Found at i:59327624 original size:23 final size:22
Alignment explanation
Indices: 59327595--59327647 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
59327585 TCAACATGGT
* *
59327595 TTTTTATTGATTTTATTTTATT
1 TTTTTATTGATTTTATCTTATC
*
59327617 TTATTTATTTATTTTATCTTATC
1 TT-TTTATTGATTTTATCTTATC
59327640 TTTTTATT
1 TTTTTATT
59327648 TATTACCCTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (22 bp):
TTTTTATTGATTTTATCTTATC
Found at i:59327629 original size:18 final size:18
Alignment explanation
Indices: 59327596--59327648 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
59327586 CAACATGGTT
*
59327596 TTTTATTGATTTTATTTTA
1 TTTTATTTA-TTTATTTTA
59327615 TTTTATTTATTTATTTTA
1 TTTTATTTATTTATTTTA
*
59327633 TCTTATCTT-TTTATTT
1 TTTTAT-TTATTTATTT
59327649 ATTACCCTAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 21 0.68
19 10 0.32
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.75
Consensus pattern (18 bp):
TTTTATTTATTTATTTTA
Found at i:59328379 original size:61 final size:62
Alignment explanation
Indices: 59328264--59328382 Score: 170
Period size: 62 Copynumber: 1.9 Consensus size: 62
59328254 AAAGATCGGC
* *
59328264 GGCGACTCCATTTTTATTTTTTAAAATAAAAGTCGATTTCAAAAAAAAGGTTTCGACAGCTT
1 GGCGACTCCATTTTCATTTTTTAAAATAAAAGTCGATTTAAAAAAAAAGGTTTCGACAGCTT
* **
59328326 GGCGACTCCGTTTTCATTTTTTAAAATAATAA-TTTA-TTAAAAAAAAAGGTTTCGACA
1 GGCGACTCCATTTTCATTTTTTAAAATAA-AAGTCGATTTAAAAAAAAAGGTTTCGACA
59328383 ATCTCCTTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
61 20 0.39
62 29 0.57
63 2 0.04
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.36
Consensus pattern (62 bp):
GGCGACTCCATTTTCATTTTTTAAAATAAAAGTCGATTTAAAAAAAAAGGTTTCGACAGCTT
Found at i:59344147 original size:15 final size:15
Alignment explanation
Indices: 59344127--59344157 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
59344117 GCCCATATGG
59344127 ATCATCTTCATCTTC
1 ATCATCTTCATCTTC
*
59344142 ATCATCTTCTTCTTC
1 ATCATCTTCATCTTC
59344157 A
1 A
59344158 CTTTTAACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.32, G:0.00, T:0.48
Consensus pattern (15 bp):
ATCATCTTCATCTTC
Found at i:59348904 original size:24 final size:24
Alignment explanation
Indices: 59348876--59348927 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
59348866 TTAGTAAGTC
* *
59348876 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
59348900 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
59348924 AAAT
1 AAAT
59348928 CTTTTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:59350802 original size:82 final size:81
Alignment explanation
Indices: 59350647--59350802 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 81
59350637 TGGTCTCCTT
* * * * *
59350647 AAAATGATAAAATTTTAATTTATACCTTTTATAATATATGAAATTTTAAATTAATAATGATAAAA
1 AAAATGATAAAAATTTAATTTATACCTTTTATAAAATATAAAAATATAAATTAATAATGATAAAA
*
59350712 TTATACTTTAACCTCA
66 TTACACTTTAACCTCA
59350728 AAAATGATAAAAATTTAATTTA-ACCTTTTA-AAAACTATAAAAATATAGACTATTAA-AATGAT
1 AAAATGATAAAAATTTAATTTATACCTTTTATAAAA-TATAAAAATATA-A--ATTAATAATGAT
59350790 AAAATTACACTTT
62 AAAATTACACTTT
59350803 TACTATAATA
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
79 3 0.05
80 17 0.26
81 22 0.34
82 18 0.28
83 5 0.08
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (81 bp):
AAAATGATAAAAATTTAATTTATACCTTTTATAAAATATAAAAATATAAATTAATAATGATAAAA
TTACACTTTAACCTCA
Found at i:59356373 original size:124 final size:123
Alignment explanation
Indices: 59356149--59356397 Score: 462
Period size: 124 Copynumber: 2.0 Consensus size: 123
59356139 CCTGTCTCCA
*
59356149 AGTACTACTTCTTTCCTCGGTGTTCTTTTTTTAAATCTCTTCAATCTTTTTTTTTGTTAAAATTA
1 AGTACTACTTCTTTCCTCGGTGTTCTTATTTTAAATCTCTTCAATCTTTTTTTTTGTTAAAATTA
*
59356214 TCAAGTTCTTCTCTCCAAGGACCCCGGCTAGGTAGATGGTGGCGATTGAGGACTAGTT
66 TCAAGTTCTTCTCTCCAAGCACCCCGGCTAGGTAGATGGTGGCGATTGAGGACTAGTT
*
59356272 AGTATTACTTCTTTCCTCGGTGTTCTTATTTTAAATCTCTTCAATCTTTTTTTTTGGTTAAAATT
1 AGTACTACTTCTTTCCTCGGTGTTCTTATTTTAAATCTCTTCAATCTTTTTTTTT-GTTAAAATT
59356337 ATCAAGTTCTTCTCTCCAAGCACCCCGGCTAGGTAGATGGTGGCGATTGAGGACTAGTT
65 ATCAAGTTCTTCTCTCCAAGCACCCCGGCTAGGTAGATGGTGGCGATTGAGGACTAGTT
59356396 AG
1 AG
59356398 CTGATGGTTC
Statistics
Matches: 122, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
123 53 0.43
124 69 0.57
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.42
Consensus pattern (123 bp):
AGTACTACTTCTTTCCTCGGTGTTCTTATTTTAAATCTCTTCAATCTTTTTTTTTGTTAAAATTA
TCAAGTTCTTCTCTCCAAGCACCCCGGCTAGGTAGATGGTGGCGATTGAGGACTAGTT
Found at i:59366747 original size:73 final size:73
Alignment explanation
Indices: 59366654--59366798 Score: 236
Period size: 73 Copynumber: 2.0 Consensus size: 73
59366644 ATAACCTTTT
* * *
59366654 CATGTTATAAAACATATACAAGTAAACACATTAGACATATCATTTATTCAACATCTATTCATTTA
1 CATGTTATAAAACATATACAAGTAAACACATTAGACATACCATTCATTCAACATCTATTAATTTA
59366719 ACATTTCA
66 ACATTTCA
* * *
59366727 CATGTTATAAAACGTGTACAAGTAAACACATTAGATATACCATTCATTCAACATCTATTAATTTA
1 CATGTTATAAAACATATACAAGTAAACACATTAGACATACCATTCATTCAACATCTATTAATTTA
59366792 ACATTTC
66 ACATTTC
59366799 CCATTTCCCA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
73 66 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (73 bp):
CATGTTATAAAACATATACAAGTAAACACATTAGACATACCATTCATTCAACATCTATTAATTTA
ACATTTCA
Found at i:59366882 original size:13 final size:13
Alignment explanation
Indices: 59366851--59366922 Score: 58
Period size: 13 Copynumber: 5.5 Consensus size: 13
59366841 TATATCTATC
59366851 CATATAAACATTT
1 CATATAAACATTT
*
59366864 CGTATAAACACTTT
1 CATATAAACA-TTT
**
59366878 -ATATAATTATTT
1 CATATAAACATTT
*
59366890 CCATATAACCGA-TT
1 -CATATAAAC-ATTT
*
59366904 CATATAATCATTT
1 CATATAAACATTT
59366917 CATATA
1 CATATA
59366923 TTCTTTTTAT
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
12 4 0.09
13 31 0.66
14 11 0.23
15 1 0.02
ACGTcount: A:0.40, C:0.17, G:0.03, T:0.40
Consensus pattern (13 bp):
CATATAAACATTT
Found at i:59367009 original size:12 final size:12
Alignment explanation
Indices: 59366992--59367020 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
59366982 TTTAACACAT
59366992 AATCATTTTGTA
1 AATCATTTTGTA
59367004 AATCATTTTGTA
1 AATCATTTTGTA
59367016 AATCA
1 AATCA
59367021 CATTTCGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (12 bp):
AATCATTTTGTA
Found at i:59367369 original size:44 final size:45
Alignment explanation
Indices: 59367313--59367465 Score: 159
Period size: 45 Copynumber: 3.4 Consensus size: 45
59367303 TACCATAATG
* *
59367313 TCTTTCAACTATGGTCTTACACG-TTGAATCGTGATGCCATAGCA
1 TCTTTCAGCTATGGTCTTACACGTTTGAATCATGATGCCATAGCA
* * *
59367357 TCTTTTAGCTATGGTCTTACTCGTTTGAATCATGATGCCATAGCG
1 TCTTTCAGCTATGGTCTTACACGTTTGAATCATGATGCCATAGCA
* * * * * *
59367402 TCTTTCAGCTATGATCTTACTCATTTCCAGT-AT-AGTGCCATAGTA
1 TCTTTCAGCTATGGTCTTACACGTTT-GAATCATGA-TGCCATAGCA
*
59367447 TCTTTCAACTATGGTCTTA
1 TCTTTCAGCTATGGTCTTA
59367466 TTCACTCCCG
Statistics
Matches: 92, Mismatches: 14, Indels: 5
0.83 0.13 0.05
Matches are distributed among these distances:
44 21 0.23
45 69 0.75
46 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (45 bp):
TCTTTCAGCTATGGTCTTACACGTTTGAATCATGATGCCATAGCA
Found at i:59367441 original size:45 final size:45
Alignment explanation
Indices: 59367347--59367517 Score: 141
Period size: 45 Copynumber: 3.8 Consensus size: 45
59367337 TGAATCGTGA
* * * * * *
59367347 TGCCATAGCATCTTTTAGCTATGGTCTTACTCGTTT-GAATCAT-G
1 TGCCATAGCATCTTTCAACTATGATCTTACTCATTTCCAGT-ATAG
* *
59367391 ATGCCATAGCGTCTTTCAGCTATGATCTTACTCATTTCCAGTATAG
1 -TGCCATAGCATCTTTCAACTATGATCTTACTCATTTCCAGTATAG
* * * * *
59367437 TGCCATAGTATCTTTCAACTATGGTCTTATTCA-CTCCCGATATAG
1 TGCCATAGCATCTTTCAACTATGATCTTACTCATTTCCAG-TATAG
* ** *
59367482 TACCATAGTGTCTTTCAACTATGATCTTATTCATTT
1 TGCCATAGCATCTTTCAACTATGATCTTACTCATTT
59367518 TTCAAGCCAA
Statistics
Matches: 105, Mismatches: 17, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
44 4 0.04
45 97 0.92
46 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.40
Consensus pattern (45 bp):
TGCCATAGCATCTTTCAACTATGATCTTACTCATTTCCAGTATAG
Found at i:59369058 original size:24 final size:27
Alignment explanation
Indices: 59369031--59369080 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
59369021 CAAATACTCA
59369031 TTTATA-TA-ATTAAAATAT-TCATAT
1 TTTATACTAGATTAAAATATGTCATAT
59369055 TTTATACTAGATTAAAATATGTCATA
1 TTTATACTAGATTAAAATATGTCATA
59369081 AGTCCTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 6 0.26
25 2 0.09
26 10 0.43
27 5 0.22
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (27 bp):
TTTATACTAGATTAAAATATGTCATAT
Found at i:59369465 original size:23 final size:23
Alignment explanation
Indices: 59369422--59369507 Score: 59
Period size: 23 Copynumber: 3.6 Consensus size: 23
59369412 TACTATAAAA
* *
59369422 ATTTATTATTAATTTTGTAATAT
1 ATTTATTATTAAATATGTAATAT
59369445 ATTTATTATTAAAATAT-TAATATT
1 ATTTATTATT-AAATATGTAATA-T
* * *
59369469 AATATTGTTCATTAATATATGT-TTAA
1 -AT-TTATT-ATTAA-ATATGTAATAT
59369495 ATTTATTATTAAA
1 ATTTATTATTAAA
59369508 ATAAAATTGT
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
22 1 0.02
23 20 0.40
24 9 0.18
25 4 0.08
26 6 0.12
27 9 0.18
28 1 0.02
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (23 bp):
ATTTATTATTAAATATGTAATAT
Found at i:59369650 original size:39 final size:38
Alignment explanation
Indices: 59369607--59369682 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 38
59369597 AATATGTATG
59369607 TTTAATA-ATATTGAAAATTACAATATTTTATT-TTAATAT
1 TTTAATATAT-TTGAAAATTA-AA-ATTTTATTATTAATAT
*
59369646 TTTAATATATTTTAAAATTAAAATTTTATTATTAATA
1 TTTAATATATTTGAAAATTAAAATTTTATTATTAATA
59369683 GAATAATATA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
37 8 0.24
38 8 0.24
39 16 0.47
40 2 0.06
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (38 bp):
TTTAATATATTTGAAAATTAAAATTTTATTATTAATAT
Found at i:59388601 original size:16 final size:17
Alignment explanation
Indices: 59388561--59388603 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
59388551 TTCTCCACAT
59388561 AGTTATTCTCAATATAG
1 AGTTATTCTCAATATAG
59388578 AGGTTATTC-CGAATA-AG
1 A-GTTATTCTC-AATATAG
59388595 AGTTATTCT
1 AGTTATTCT
59388604 GTGATAATGC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 7 0.30
17 5 0.22
18 11 0.48
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.40
Consensus pattern (17 bp):
AGTTATTCTCAATATAG
Found at i:59388666 original size:15 final size:16
Alignment explanation
Indices: 59388646--59388684 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
59388636 AAATAATGGC
*
59388646 TCTAAATAC-ATTTGT
1 TCTAAATACAAGTTGT
59388661 TCTAAATACAAGTTGT
1 TCTAAATACAAGTTGT
*
59388677 TCCAAATA
1 TCTAAATA
59388685 ATGGTTGGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (16 bp):
TCTAAATACAAGTTGT
Found at i:59393155 original size:21 final size:21
Alignment explanation
Indices: 59393129--59393168 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
59393119 CAAATGAAGT
59393129 AAGCATTTTAACTCGATTGTG
1 AAGCATTTTAACTCGATTGTG
59393150 AAGCATTTTAACTCGATTG
1 AAGCATTTTAACTCGATTG
59393169 GCGGTGACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (21 bp):
AAGCATTTTAACTCGATTGTG
Found at i:59397464 original size:17 final size:17
Alignment explanation
Indices: 59397435--59397477 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
59397425 AATTAGTTAT
*
59397435 TTAAAAAATTTATAATA
1 TTAAAAAATTTATAAAA
59397452 TTAAACAAA-TTATAAAA
1 TTAAA-AAATTTATAAAA
59397469 TTACAAAAA
1 TTA-AAAAA
59397478 AGAATATATA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (17 bp):
TTAAAAAATTTATAAAA
Found at i:59397544 original size:17 final size:18
Alignment explanation
Indices: 59397513--59397548 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
59397503 TTACTATTTT
59397513 TTTTAAATATATTATAAA
1 TTTTAAATATATTATAAA
*
59397531 TTTT-AATATTTTATAAA
1 TTTTAAATATATTATAAA
59397548 T
1 T
59397549 CACATTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAAATATATTATAAA
Found at i:59397838 original size:22 final size:22
Alignment explanation
Indices: 59397812--59397869 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
59397802 ATTTTCAGTA
* *
59397812 ATTTTTT-TTATTTTTATATAT
1 ATTTTTTGTAATTTTTAAATAT
59397833 ATTTTTTGTAATTTTTAAATAT
1 ATTTTTTGTAATTTTTAAATAT
* *
59397855 -GTTTTTGGAATTTTT
1 ATTTTTTGTAATTTTT
59397870 TTGTAACTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
ATTTTTTGTAATTTTTAAATAT
Found at i:59397861 original size:21 final size:22
Alignment explanation
Indices: 59397821--59397891 Score: 67
Period size: 22 Copynumber: 3.3 Consensus size: 22
59397811 AATTTTTTTT
*
59397821 ATTTTTATATATATTTTTTGTA
1 ATTTTTATATATATTTTTTGGA
59397843 ATTTTTA-A-ATATGTTTTTGGA
1 ATTTTTATATATAT-TTTTTGGA
* *
59397864 ATTTTTTTGTA-ACTTTTTTGGA
1 ATTTTTATATATA-TTTTTTGGA
*
59397886 TTTTTT
1 ATTTTT
59397892 TCATTTAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
20 4 0.10
21 14 0.34
22 21 0.51
23 2 0.05
ACGTcount: A:0.23, C:0.01, G:0.10, T:0.66
Consensus pattern (22 bp):
ATTTTTATATATATTTTTTGGA
Found at i:59405160 original size:92 final size:91
Alignment explanation
Indices: 59404915--59405183 Score: 403
Period size: 91 Copynumber: 2.9 Consensus size: 91
59404905 AATATGCCAG
* * * *
59404915 ATGCACATAGTGCAAACCCGTAGGCTAAATATTCTCCCTCGATAACACGCCAGATTTCTCATAAG
1 ATGCACATAGTGCAAAGCCGTAGGCTAAATATTCTCCCCCGATAAAACGCCAGATTGCTCATAAG
* * * *
59404980 AGCTATTCTAATCAATAACATGCTAG
66 AGCTATTCTAATCGAGAACACGCTAA
* *
59405006 ATGCACATAGTGCAAAGCCGTAGGCTAAATATTCTCCCCCGATAATATGCCAGATTGCTCATAAG
1 ATGCACATAGTGCAAAGCCGTAGGCTAAATATTCTCCCCCGATAAAACGCCAGATTGCTCATAAG
*
59405071 AGCTATTCTAATCGAGAACACGTTAA
66 AGCTATTCTAATCGAGAACACGCTAA
* *
59405097 ATGCACATAGTGCAAAGACTGTAGGCTAAATATTCTCCCCCGATAAAACGCTAGATTGCTCATAA
1 ATGCACATAGTGCAAAG-CCGTAGGCTAAATATTCTCCCCCGATAAAACGCCAGATTGCTCATAA
*
59405162 GAGCTATTCCAATCGAGAACAC
65 GAGCTATTCTAATCGAGAACAC
59405184 ACTAGAATCT
Statistics
Matches: 162, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
91 98 0.60
92 64 0.40
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (91 bp):
ATGCACATAGTGCAAAGCCGTAGGCTAAATATTCTCCCCCGATAAAACGCCAGATTGCTCATAAG
AGCTATTCTAATCGAGAACACGCTAA
Found at i:59409908 original size:22 final size:24
Alignment explanation
Indices: 59409883--59409931 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 24
59409873 CTCTTGAAAG
* *
59409883 AATACCTAAAAGAGAGT-CA-CAA
1 AATAACTAAAAGAAAGTACACCAA
*
59409905 AATAACTACAAGAAAGTACACCAA
1 AATAACTAAAAGAAAGTACACCAA
59409929 AAT
1 AAT
59409932 TGTGAACAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 14 0.64
23 2 0.09
24 6 0.27
ACGTcount: A:0.57, C:0.18, G:0.10, T:0.14
Consensus pattern (24 bp):
AATAACTAAAAGAAAGTACACCAA
Found at i:59415707 original size:51 final size:51
Alignment explanation
Indices: 59415638--59415932 Score: 312
Period size: 51 Copynumber: 5.8 Consensus size: 51
59415628 TAAGGTATCG
* * * *
59415638 ATGAACACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATA
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA
* * * *
59415689 ATGCTCACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAATTT
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA-TA
* * * * * *
59415740 TTGGTCACGTGTGTAGTACTGTGTGAAGGCTACTACATGTACCGATAAATG
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA
* * *
59415791 ATGAACACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGA-AAAGCT-
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA--TA
* * * *
59415842 TTGGTCACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACC-ATAAA-A
1 ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA
* *
59415891 CTTGATCACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 -ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTA
59415933 TCGAATGATA
Statistics
Matches: 204, Mismatches: 33, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
50 46 0.23
51 154 0.75
52 4 0.02
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (51 bp):
ATGATCACATGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATA
Found at i:59415727 original size:26 final size:26
Alignment explanation
Indices: 59415647--59415729 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
59415637 GATGAACACG
**
59415647 TGTGTAGTACTGTGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
* * *
59415673 CGTGTA-T-CGATAAAT-AATGCTCAC-A
1 TGTGTAGTAC--TAAGTGAAGGCT-ACTA
59415698 TGTGTAGTACTAAGTGAAGGCTACTA
1 TGTGTAGTACTAAGTGAAGGCTACTA
59415724 TGTGTA
1 TGTGTA
59415730 CCGAAAATTT
Statistics
Matches: 42, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
24 1 0.02
25 18 0.43
26 22 0.52
27 1 0.02
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGAAGGCTACTA
Found at i:59415819 original size:102 final size:102
Alignment explanation
Indices: 59415643--59415937 Score: 441
Period size: 102 Copynumber: 2.9 Consensus size: 102
59415633 TATCGATGAA
* *
59415643 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGCTCACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGATCACATGTGTAGTAC
**
59415708 TAAGTGAAGGCTACTATGTGTACCGAAAATTTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* * *
59415745 CACGTGTGTAGTACTGTGTGAAGGCTACTACATGTACCGATAAATGATGAACACATGTGTAGTAC
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGATCACATGTGTAGTAC
59415810 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
* * * *
59415847 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAACC-ATAAA-ACTTGATCACGTGTGTAGTA
1 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATA-ATGATCACATGTGTAGTA
* * *
59415910 CTATGTGAAGGCTACTACGTGTATCGAA
65 CTAAGTGAAGGCTACTATGTGTACCGAA
59415938 TGATAAAAGT
Statistics
Matches: 175, Mismatches: 17, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
101 45 0.26
102 130 0.74
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (102 bp):
CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGTACCGATAAATAATGATCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTACCGAAAAGCTTTGGT
Found at i:59417092 original size:13 final size:12
Alignment explanation
Indices: 59417074--59417114 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
59417064 ATAATTTTAA
59417074 TTTTTTATAACTT
1 TTTTTTATAA-TT
59417087 TTTTTTATAAATT
1 TTTTTTAT-AATT
*
59417100 TTGTTTATAATT
1 TTTTTTATAATT
59417112 TTT
1 TTT
59417115 ATGATTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 6 0.24
13 17 0.68
14 2 0.08
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (12 bp):
TTTTTTATAATT
Found at i:59423897 original size:52 final size:48
Alignment explanation
Indices: 59423878--59424080 Score: 265
Period size: 46 Copynumber: 4.3 Consensus size: 48
59423868 TGACAAGTGG
* *
59423878 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
59423924 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGA
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGAC-A---A
* *
59423976 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
** *
59424022 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC--
1 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
59424068 AAAGTGATAAGTG
1 AAAGTGATAAGTG
59424081 GCTACACTTA
Statistics
Matches: 144, Mismatches: 7, Indels: 12
0.88 0.04 0.07
Matches are distributed among these distances:
46 100 0.69
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.22, T:0.28
Consensus pattern (48 bp):
AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAA
Found at i:59423932 original size:98 final size:98
Alignment explanation
Indices: 59423812--59424080 Score: 457
Period size: 98 Copynumber: 2.7 Consensus size: 98
59423802 TTTGAGTACT
*
59423812 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
59423877 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
**
59423910 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
59423975 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
* *
59424008 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
59424073 GATAAGTG
65 GAAAAGTG
59424081 GCTACACTTA
Statistics
Matches: 160, Mismatches: 10, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
98 149 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGGCTATACTTA
Found at i:59424088 original size:37 final size:37
Alignment explanation
Indices: 59424044--59424189 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
59424034 GATAGCTTTA
*
59424044 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59424081 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
59424118 GCTACACTTATCTAATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
59424155 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
59424190 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:59426002 original size:14 final size:13
Alignment explanation
Indices: 59425959--59426010 Score: 56
Period size: 14 Copynumber: 4.2 Consensus size: 13
59425949 AGTCATCATC
59425959 TAAAAATTATAAA
1 TAAAAATTATAAA
59425972 TTAAAAATTAT-AA
1 -TAAAAATTATAAA
*
59425985 -AAAACTTATAAA
1 TAAAAATTATAAA
*
59425997 TGAAAATTA-AAA
1 TAAAAATTATAAA
59426009 TA
1 TA
59426011 TATATTTGAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
11 8 0.25
12 6 0.19
13 8 0.25
14 10 0.31
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (13 bp):
TAAAAATTATAAA
Found at i:59426008 original size:20 final size:20
Alignment explanation
Indices: 59425991--59426032 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
59425981 ATAAAAAACT
59425991 TATAAATGAAAATTAAAATA
1 TATAAATGAAAATTAAAATA
**
59426011 TATATTTGAAAATTAAAA-A
1 TATAAATGAAAATTAAAATA
59426030 TAT
1 TAT
59426033 TAAAAAAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
TATAAATGAAAATTAAAATA
Found at i:59430840 original size:17 final size:17
Alignment explanation
Indices: 59430818--59430865 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 17
59430808 AAATAGGAAA
59430818 GTAATTTGATAATATTT
1 GTAATTTGATAATATTT
59430835 GTAATTTGATAATATTT
1 GTAATTTGATAATATTT
*
59430852 G-ATTTTG-TAATATT
1 GTAATTTGATAATATT
59430866 GGGGATTATG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 7 0.23
16 5 0.17
17 18 0.60
ACGTcount: A:0.33, C:0.00, G:0.12, T:0.54
Consensus pattern (17 bp):
GTAATTTGATAATATTT
Found at i:59431441 original size:123 final size:123
Alignment explanation
Indices: 59431222--59431469 Score: 496
Period size: 123 Copynumber: 2.0 Consensus size: 123
59431212 AAAAATTACT
59431222 TAAAATTATATAAATTATGAGACGAAAGATCTAATTCTGTGACACTTGTATGTACTCTAATAATA
1 TAAAATTATATAAATTATGAGACGAAAGATCTAATTCTGTGACACTTGTATGTACTCTAATAATA
59431287 AGATAATGACTATTACACTTATCAGAAATCAACATACGTCATAAATCTATAATTTGTA
66 AGATAATGACTATTACACTTATCAGAAATCAACATACGTCATAAATCTATAATTTGTA
59431345 TAAAATTATATAAATTATGAGACGAAAGATCTAATTCTGTGACACTTGTATGTACTCTAATAATA
1 TAAAATTATATAAATTATGAGACGAAAGATCTAATTCTGTGACACTTGTATGTACTCTAATAATA
59431410 AGATAATGACTATTACACTTATCAGAAATCAACATACGTCATAAATCTATAATTTGTA
66 AGATAATGACTATTACACTTATCAGAAATCAACATACGTCATAAATCTATAATTTGTA
59431468 TA
1 TA
59431470 TCGCATAGAT
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
123 125 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.34
Consensus pattern (123 bp):
TAAAATTATATAAATTATGAGACGAAAGATCTAATTCTGTGACACTTGTATGTACTCTAATAATA
AGATAATGACTATTACACTTATCAGAAATCAACATACGTCATAAATCTATAATTTGTA
Found at i:59440760 original size:114 final size:111
Alignment explanation
Indices: 59440619--59440830 Score: 300
Period size: 111 Copynumber: 1.9 Consensus size: 111
59440609 GAGAAAATAA
* *
59440619 TATTTTTTTCGTATACTGATATTTGATTCTGACATGAAAAAAAAAAGAAAAAAAATTTT-AAATT
1 TATTTTTTTCGTATACTGATATCTGATTCTGACACG--AAAAAAAAG--AAAAAATTTTAAAATT
* *
59440683 GTATTGGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATATTTTATTAT
62 GTACTAGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATATTTTATTAT
****
59440733 TATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAATTTTTTTTAAAATTGTAC
1 TATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAAAAAATTTTAAAATTGTAC
*
59440798 TAGGTGTCGGCCATTGACAGGCCAGCACCCAAA
66 TAGGTGCCGGCCATTGACAGGCCAGCACCCAAA
59440831 TTTTTTTTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
110 6 0.07
111 39 0.44
112 9 0.10
114 34 0.39
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (111 bp):
TATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAGAAAAAATTTTAAAATTGTAC
TAGGTGCCGGCCATTGACAGGCCAGCACCCAAAAATATTTTATTAT
Found at i:59446008 original size:26 final size:26
Alignment explanation
Indices: 59445979--59446028 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
59445969 CAAATAAACC
*
59445979 TAGCCCAATACACCACAACTCAAAAA
1 TAGCCCAATACACCACAACCCAAAAA
*
59446005 TAGCCCAATACACTACAACCCAAA
1 TAGCCCAATACACCACAACCCAAA
59446029 TCAGAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.48, C:0.36, G:0.04, T:0.12
Consensus pattern (26 bp):
TAGCCCAATACACCACAACCCAAAAA
Found at i:59449073 original size:12 final size:12
Alignment explanation
Indices: 59449049--59449081 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
59449039 AAACTTGAAG
59449049 TATATTT-TATA
1 TATATTTATATA
59449060 TATATTTATATA
1 TATATTTATATA
*
59449072 TATACTTATA
1 TATATTTATA
59449082 AACAATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 7 0.35
12 13 0.65
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (12 bp):
TATATTTATATA
Found at i:59449810 original size:12 final size:12
Alignment explanation
Indices: 59449773--59449811 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
59449763 GAGAACCAAT
*
59449773 AAAAGGAAAAAG
1 AAAAGGAAAAGG
*
59449785 AAAGAGGAAGAGG
1 AAA-AGGAAAAGG
59449798 AAAAGGAAAAGG
1 AAAAGGAAAAGG
59449810 AA
1 AA
59449812 GAAAATAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (12 bp):
AAAAGGAAAAGG
Found at i:59449810 original size:18 final size:19
Alignment explanation
Indices: 59449776--59449813 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
59449766 AACCAATAAA
59449776 AGGAAAAAGAAAGAGGAAG
1 AGGAAAAAGAAAGAGGAAG
*
59449795 AGGAAAAGGAAA-AGGAAG
1 AGGAAAAAGAAAGAGGAAG
59449813 A
1 A
59449814 AAATAAGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (19 bp):
AGGAAAAAGAAAGAGGAAG
Found at i:59452261 original size:109 final size:111
Alignment explanation
Indices: 59452143--59452351 Score: 298
Period size: 115 Copynumber: 1.9 Consensus size: 111
59452133 AAAAAAATTC
* * * * *
59452143 GTGTTAAAATAAGATATCAGTATATGAAAAAAGT-AAAAA-AAAAA-TTGGGTGCTGGCCTGTTA
1 GTGTCAAAATAAGATATCAGTATACGAAAAAAATAAAAAATAAAAATTTGGGTGCTGGCCTATCA
*
59452205 ATGGCCGGCACCGAGTACAATTTAGAAAAAAAAATTTAATTTTTTTT
66 ATGGCCGGCACCCAGTACAATTTA-AAAAAAAAATTTAATTTTTTTT
*
59452252 GTGTCAAAATCAGATATCAGTATACGAAAAAAATAAAAAAAATAAAAATTTTGGGTGCTGGCCTA
1 GTGTCAAAATAAGATATCAGTATACGAAAAAAAT--AAAAAATAAAAA-TTTGGGTGCTGGCCTA
59452317 TCAATGGCCGGCACCCAGTACAATTTAAAAAAAAA
63 TCAATGGCCGGCACCCAGTACAATTTAAAAAAAAA
59452352 TTGTGTCAAA
Statistics
Matches: 87, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
109 30 0.34
112 5 0.06
113 5 0.06
114 8 0.09
115 39 0.45
ACGTcount: A:0.44, C:0.12, G:0.17, T:0.26
Consensus pattern (111 bp):
GTGTCAAAATAAGATATCAGTATACGAAAAAAATAAAAAATAAAAATTTGGGTGCTGGCCTATCA
ATGGCCGGCACCCAGTACAATTTAAAAAAAAAATTTAATTTTTTTT
Found at i:59452467 original size:57 final size:57
Alignment explanation
Indices: 59452381--59452501 Score: 233
Period size: 57 Copynumber: 2.1 Consensus size: 57
59452371 CAGTATACGA
*
59452381 TTTTTTTTTATTTTTTTCGTATACTGATATCTGATTCTGACACGAAAAAAAAAGAAT
1 TTTTTTTTTATTTTTTTCGTATACTGATATCTAATTCTGACACGAAAAAAAAAGAAT
59452438 TTTTTTTTTATTTTTTTCGTATACTGATATCTAATTCTGACACGAAAAAAAAAGAAT
1 TTTTTTTTTATTTTTTTCGTATACTGATATCTAATTCTGACACGAAAAAAAAAGAAT
59452495 TTTTTTT
1 TTTTTTT
59452502 AAATTGTACT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 63 1.00
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.49
Consensus pattern (57 bp):
TTTTTTTTTATTTTTTTCGTATACTGATATCTAATTCTGACACGAAAAAAAAAGAAT
Found at i:59453254 original size:19 final size:19
Alignment explanation
Indices: 59453227--59453268 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
59453217 CATACAATTT
*
59453227 TATTACCAAAAATAAAACG
1 TATTACCAAAAAGAAAACG
* *
59453246 TATTTCCAAAAAGAAAACT
1 TATTACCAAAAAGAAAACG
59453265 TATT
1 TATT
59453269 GCCATAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (19 bp):
TATTACCAAAAAGAAAACG
Found at i:59454467 original size:108 final size:106
Alignment explanation
Indices: 59454280--59454479 Score: 301
Period size: 108 Copynumber: 1.9 Consensus size: 106
59454270 TGGATTGAGA
* * *
59454280 TTTAAGAGGATATTTGACTATTTGGTCAAACGAGAAATCGAAACCCAACACATTAGGGCGCGTTT
1 TTTAAAAGGATATTTGACTATTTGATCAAACGAGAAATCGAAACCCAACACATTAGGGCACGTTT
* *
59454345 CCTCGAATTTCCAAACGCAAAATATTATCTTACTTCGAAAT
66 CCTCAAATCTCCAAACGCAAAATATTATCTTACTTCGAAAT
* *
59454386 TTTAAAAGGATATTTGGCTATTTGATCGAACGAGAAAAATCGAAACCCAACACATTAGGGCACGT
1 TTTAAAAGGATATTTGACTATTTGATCAAACGAG--AAATCGAAACCCAACACATTAGGGCACGT
* *
59454451 TTTCTCAAATCTCCAAACGTAAAATATTA
64 TTCCTCAAATCTCCAAACGCAAAATATTA
59454480 CCTTTATTAT
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
106 30 0.36
108 53 0.64
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.28
Consensus pattern (106 bp):
TTTAAAAGGATATTTGACTATTTGATCAAACGAGAAATCGAAACCCAACACATTAGGGCACGTTT
CCTCAAATCTCCAAACGCAAAATATTATCTTACTTCGAAAT
Found at i:59455170 original size:17 final size:18
Alignment explanation
Indices: 59455148--59455184 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
59455138 ATGAAGTGTA
59455148 AAGTATATATATC-ATAT
1 AAGTATATATATCTATAT
*
59455165 AAGTATTTATATCTATAT
1 AAGTATATATATCTATAT
59455183 AA
1 AA
59455185 ATTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.43
Consensus pattern (18 bp):
AAGTATATATATCTATAT
Found at i:59461938 original size:108 final size:106
Alignment explanation
Indices: 59461751--59461954 Score: 302
Period size: 108 Copynumber: 1.9 Consensus size: 106
59461741 TGGATTAAGA
* * * *
59461751 TTTAAGAGGATATTTGGCAATTTGGTCAAACGAGAAATCGAAACCCAGCACATTAGGGCACATTT
1 TTTAAAAGGATATTTGACAATTTGATCAAACGAGAAAACGAAACCCAGCACATTAGGGCACATTT
*
59461816 TCTCGAATTTCCAAACGCAAAACATTGCCTTACTTCGAAAT
66 TCTCGAATCTCCAAACGCAAAACATTGCCTTACTTCGAAAT
* *
59461857 TTTAAAAGGATATTTGACTATTTGAT-AGAACGAGAAAAAACGAAACCCAGCACATTAGGGCACG
1 TTTAAAAGGATATTTGACAATTTGATCA-AACGAG--AAAACGAAACCCAGCACATTAGGGCACA
*
59461921 TTTTCTCGAATCTCCAAACGCAAAATATTGCCTT
63 TTTTCTCGAATCTCCAAACGCAAAACATTGCCTT
59461955 TATTATTCTT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
105 1 0.01
106 28 0.32
108 58 0.67
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (106 bp):
TTTAAAAGGATATTTGACAATTTGATCAAACGAGAAAACGAAACCCAGCACATTAGGGCACATTT
TCTCGAATCTCCAAACGCAAAACATTGCCTTACTTCGAAAT
Found at i:59462742 original size:3 final size:3
Alignment explanation
Indices: 59462734--59462785 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
59462724 AAAATGAAAC
** * * *
59462734 TAA TAA TAA TTAA TGG TAA TAA TAA AAA TAA AAA TAA TAA TGA TAA
1 TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
59462780 TAA TAA
1 TAA TAA
59462786 AAATGATCAT
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
3 35 0.92
4 3 0.08
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:59462797 original size:15 final size:15
Alignment explanation
Indices: 59462734--59462797 Score: 62
Period size: 15 Copynumber: 4.4 Consensus size: 15
59462724 AAAATGAAAC
* *
59462734 TAATAATAATTAATGG
1 TAATAATAA-AAATGA
59462750 TAATAATAAAAAT-A
1 TAATAATAAAAATGA
*
59462764 -AA-AATAATAATGA
1 TAATAATAAAAATGA
59462777 TAATAATAAAAATGA
1 TAATAATAAAAATGA
*
59462792 TCATAA
1 TAATAA
59462798 CACTAAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
12 8 0.20
13 3 0.08
14 2 0.05
15 18 0.45
16 9 0.22
ACGTcount: A:0.62, C:0.02, G:0.06, T:0.30
Consensus pattern (15 bp):
TAATAATAAAAATGA
Found at i:59466026 original size:15 final size:14
Alignment explanation
Indices: 59466008--59466063 Score: 62
Period size: 15 Copynumber: 3.9 Consensus size: 14
59465998 ATTAATTTAA
59466008 TATTATTATTACCAT
1 TATTATTATTACC-T
59466023 TATTATT-TTACCCT
1 TATTATTATTA-CCT
59466037 TATTATTTATATA-CT
1 TATTA-TTAT-TACCT
59466052 TATTATTATTAC
1 TATTATTATTAC
59466064 TATATTGTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
13 2 0.06
14 13 0.36
15 18 0.50
16 1 0.03
17 2 0.06
ACGTcount: A:0.30, C:0.12, G:0.00, T:0.57
Consensus pattern (14 bp):
TATTATTATTACCT
Found at i:59466033 original size:14 final size:14
Alignment explanation
Indices: 59466008--59466044 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
59465998 ATTAATTTAA
59466008 TATTATTATTACCAT
1 TATTATT-TTACCAT
*
59466023 TATTATTTTACCCT
1 TATTATTTTACCAT
59466037 TATTATTT
1 TATTATTT
59466045 ATATACTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.27, C:0.14, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATTTTACCAT
Found at i:59466227 original size:15 final size:16
Alignment explanation
Indices: 59466204--59466233 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
59466194 AGACTATTTA
59466204 TTTATTTTTTATTATT
1 TTTATTTTTTATTATT
59466220 TTTA-TTTTTATTAT
1 TTTATTTTTTATTAT
59466234 AACTCTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTATTTTTTATTATT
Found at i:59466305 original size:3 final size:3
Alignment explanation
Indices: 59466297--59466327 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
59466287 TGTTACTACC
59466297 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
59466328 CAATCTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:59466469 original size:21 final size:22
Alignment explanation
Indices: 59466445--59466489 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
59466435 TAGTATGGCT
* *
59466445 TTGTTTTTTTTAATTGTT-TTA
1 TTGTTGTTATTAATTGTTATTA
*
59466466 TTGTTGTTATTCATTGTTATTA
1 TTGTTGTTATTAATTGTTATTA
59466488 TT
1 TT
59466490 TATTTATTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.16, C:0.02, G:0.11, T:0.71
Consensus pattern (22 bp):
TTGTTGTTATTAATTGTTATTA
Found at i:59467053 original size:18 final size:19
Alignment explanation
Indices: 59467019--59467054 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
59467009 AGGATCATAT
59467019 TTTTAAATTTCTTTTCGAA
1 TTTTAAATTTCTTTTCGAA
59467038 TTTTAAATTT-TTTTCGA
1 TTTTAAATTTCTTTTCGA
59467055 CATTAAGACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.61
Consensus pattern (19 bp):
TTTTAAATTTCTTTTCGAA
Found at i:59484645 original size:10 final size:10
Alignment explanation
Indices: 59484630--59484688 Score: 52
Period size: 10 Copynumber: 6.0 Consensus size: 10
59484620 TAAAATATTT
59484630 TTATATTAAA
1 TTATATTAAA
59484640 TTATATTAAA
1 TTATATTAAA
59484650 --ATATTCAAA
1 TTATATT-AAA
*
59484659 ATATTATTAAA
1 TTA-TATTAAA
*
59484670 TCATATTAAA
1 TTATATTAAA
*
59484680 CTAT-TTAAA
1 TTATATTAAA
59484689 AATATTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
8 5 0.12
9 8 0.20
10 19 0.46
11 5 0.12
12 4 0.10
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (10 bp):
TTATATTAAA
Found at i:59484661 original size:9 final size:8
Alignment explanation
Indices: 59484601--59484664 Score: 51
Period size: 8 Copynumber: 7.9 Consensus size: 8
59484591 TCAAAATAAT
*
59484601 AATATTTA
1 AATATTAA
59484609 AATA-TAA
1 AATATTAA
59484616 AATA-TAA
1 AATATTAA
**
59484623 AATATTTT
1 AATATTAA
*
59484631 TATATTAA
1 AATATTAA
59484639 ATTATATTAA
1 A--ATATTAA
59484649 AATATTCAA
1 AATATT-AA
59484658 AATATTA
1 AATATTA
59484665 TTAAATCATA
Statistics
Matches: 45, Mismatches: 7, Indels: 8
0.75 0.12 0.13
Matches are distributed among these distances:
7 13 0.29
8 16 0.36
9 8 0.18
10 8 0.18
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (8 bp):
AATATTAA
Found at i:59484669 original size:30 final size:31
Alignment explanation
Indices: 59484633--59484694 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
59484623 AATATTTTTA
* *
59484633 TATTAAATTATATTAAAATA-TTCAAAATAT
1 TATTAAATCATATTAAAATATTTAAAAATAT
*
59484663 TATTAAATCATATTAAACTATTTAAAAATAT
1 TATTAAATCATATTAAAATATTTAAAAATAT
59484694 T
1 T
59484695 TTTTTATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 18 0.64
31 10 0.36
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.44
Consensus pattern (31 bp):
TATTAAATCATATTAAAATATTTAAAAATAT
Found at i:59484762 original size:25 final size:25
Alignment explanation
Indices: 59484723--59484804 Score: 105
Period size: 25 Copynumber: 3.4 Consensus size: 25
59484713 ATTAGAAATG
*
59484723 ATATTTTATTTTAAATTATATTAAA
1 ATATTTTATATTAAATTATATTAAA
* * *
59484748 ATATTTTATAATAAA-TAAATT-TA
1 ATATTTTATATTAAATTATATTAAA
59484771 ATATTTTATATTAAATTATATTAAA
1 ATATTTTATATTAAATTATATTAAA
*
59484796 ATTTTTTAT
1 ATATTTTAT
59484805 TTTTTAAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
23 15 0.32
24 10 0.21
25 22 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
ATATTTTATATTAAATTATATTAAA
Found at i:59486668 original size:23 final size:23
Alignment explanation
Indices: 59486630--59486680 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
59486620 AACCCATTTA
* *
59486630 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
59486653 TGTAATACCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
59486676 AGTAA
1 TGTAA
59486681 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:59489093 original size:50 final size:50
Alignment explanation
Indices: 59488946--59489277 Score: 282
Period size: 50 Copynumber: 6.6 Consensus size: 50
59488936 CGATCTCGTA
*** * * *
59488946 TAAGACCATGTCTGGGACATGGCATCAACATCGATATGTG-AG--CCAGTG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCCCA-TG
* * *
59488994 TAAGACCATGTCTGAGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAAGTCCCATG
* * *
59489050 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCACATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCCCATG
* * * *
59489100 TAAGA-CATGTTTGGGACATGACGTTGGCACTGAGATGAGAAGTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCCCATG
* * * *
59489149 TAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCCCATG
* * * * * *
59489199 TAAGACCATATCTGGGATATGGCATTGGCA--G-TATAAGAAACATCTCATG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAG-AA-GTCCCATG
* *
59489248 TAAGACCATGTCTGGGATATGGCTTTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
59489278 TGTTATTATC
Statistics
Matches: 239, Mismatches: 33, Indels: 23
0.81 0.11 0.08
Matches are distributed among these distances:
47 5 0.02
48 29 0.12
49 78 0.33
50 83 0.35
51 2 0.01
53 3 0.01
54 4 0.02
55 2 0.01
56 30 0.13
57 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAAGTCCCATG
Found at i:59489157 original size:99 final size:99
Alignment explanation
Indices: 59488946--59489277 Score: 276
Period size: 99 Copynumber: 3.3 Consensus size: 99
59488936 CGATCTCGTA
*** * * * * * * *
59488946 TAAGACCATGTCTGGGACATGGCATCAACATCGATATGTGAGC-CA-GTGTAAGACCATGTCTGA
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCACATGTAAGACCATATCTGG
* *
59489009 GACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATG
66 GACATGACATTGGCA-C--T-AG---ATGAGAAGTCCCATG
* ** * *
59489050 TAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCACATGTAAGA-CATGTTTGG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCACATGTAAGACCATATCTGG
*
59489114 GACATGACGTTGGCACTGAGATGAGAAGTCCCATG
66 GACATGACATTGGCACT-AGATGAGAAGTCCCATG
* * * *
59489149 TAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAACTCCCATGTAAGACCATATCTGG
1 TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCACATGTAAGACCATATCTGG
* * * * * * *
59489214 GATATGGCATTGGCAGTATAAGA-AACATCTCATG
66 GACATGACATTGGCACTAGATGAGAA-GTCCCATG
* *
59489248 TAAGACCATGTCTGGGATATGGCTTTGGCA
1 TAAGACCATGTCTGGGACATGGCATTGGCA
59489278 TGTTATTATC
Statistics
Matches: 189, Mismatches: 35, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
98 2 0.01
99 98 0.52
100 20 0.11
102 4 0.02
104 36 0.19
105 22 0.12
106 7 0.04
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (99 bp):
TAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAACTCACATGTAAGACCATATCTGG
GACATGACATTGGCACTAGATGAGAAGTCCCATG
Found at i:59489262 original size:49 final size:49
Alignment explanation
Indices: 59489043--59489277 Score: 215
Period size: 49 Copynumber: 4.8 Consensus size: 49
59489033 TTATGAGAGG
* * * * **
59489043 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGATATGGCATTGGCA-CGATAAGAGAAC
* * * * * * * *
59489093 TCACATGTAAGA-CATGTTTGGGACATGACGTTGGCACTGAGATGAGAAG
1 TCCCATGTAAGACCATGTCTGGGATATGGCATTGGCAC-GATAAGAGAAC
* * * *
59489142 TCCCATGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGATATGGCATTGGCA-CGATAAGAGAAC
*
59489192 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTATAAGA-AAC
1 TCCCATGTAAGACCATGTCTGGGATATGGCATTGGCACG-ATAAGAGAAC
* *
59489240 ATCTCATGTAAGACCATGTCTGGGATATGGCTTTGGCA
1 -TCCCATGTAAGACCATGTCTGGGATATGGCATTGGCA
59489278 TGTTATTATC
Statistics
Matches: 162, Mismatches: 18, Indels: 11
0.85 0.09 0.06
Matches are distributed among these distances:
48 5 0.03
49 82 0.51
50 74 0.46
51 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (49 bp):
TCCCATGTAAGACCATGTCTGGGATATGGCATTGGCACGATAAGAGAAC
Found at i:59490805 original size:23 final size:23
Alignment explanation
Indices: 59490755--59490799 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
59490745 GGGAGAGAAA
*
59490755 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
59490778 TGTAATACCCCGAAAATTACTA
1 TGTAATACCCCGAAAATTACTA
59490800 TAGTAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:59493118 original size:16 final size:16
Alignment explanation
Indices: 59493097--59493136 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
59493087 TAATTTGATG
*
59493097 ATTTTACTAACAATTA
1 ATTTTAATAACAATTA
*
59493113 ATTTTAATAATAATTA
1 ATTTTAATAACAATTA
*
59493129 GTTTTAAT
1 ATTTTAAT
59493137 TTTATTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (16 bp):
ATTTTAATAACAATTA
Found at i:59493137 original size:22 final size:22
Alignment explanation
Indices: 59493110--59493170 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
59493100 TTACTAACAA
* * *
59493110 TTAATTTTAATAATAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
59493132 TTAATTTTATTAAAAAATAATT
1 TTAATTTTAATAAAAAATAATT
*
59493154 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
59493171 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:59495652 original size:37 final size:37
Alignment explanation
Indices: 59495555--59495726 Score: 155
Period size: 37 Copynumber: 4.5 Consensus size: 37
59495545 ACTAGTTTGG
* ** * *
59495555 CACCCAGTGCCTCATCGGATAATTCGAAGTAATAAAATAA
1 CACCCAGTGCCTCATCGGCTAAACCGAAG---TAAATTGA
* * *
59495595 CACCTAGTGTCTCATCGGCTAAACCGAAGTAAATTGG
1 CACCCAGTGCCTCATCGGCTAAACCGAAGTAAATTGA
*
59495632 CACCCAGTGCCTCATCGGCTAAACTGAAGTAAATTGA
1 CACCCAGTGCCTCATCGGCTAAACCGAAGTAAATTGA
** **
59495669 CACCCAGTGCCTCATCGAATTAATTCGAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCG-GCTAAACCG-A--AGTAAATTGA
*
59495710 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
59495727 ACTCGAAGCC
Statistics
Matches: 110, Mismatches: 18, Indels: 7
0.81 0.13 0.05
Matches are distributed among these distances:
37 55 0.50
38 4 0.04
39 1 0.01
40 24 0.22
41 26 0.24
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.24
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGCTAAACCGAAGTAAATTGA
Found at i:59503829 original size:17 final size:16
Alignment explanation
Indices: 59503792--59503830 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
59503782 AATAAATAAT
59503792 TAAA-TAAATTGAAAA
1 TAAATTAAATTGAAAA
59503807 TAAAATTAAATTGAGAAA
1 T-AAATTAAATTGA-AAA
59503825 TAAATT
1 TAAATT
59503831 TAGATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 3 0.14
17 13 0.62
18 4 0.19
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (16 bp):
TAAATTAAATTGAAAA
Found at i:59507371 original size:141 final size:141
Alignment explanation
Indices: 59507190--59507464 Score: 394
Period size: 141 Copynumber: 2.0 Consensus size: 141
59507180 TACTTAGAGA
* * *
59507190 GAGAAAAACAGAAGCAGCTCTCTTCTTGCCTTTCTCTATGGCATGCTCGAGAAGAATTTGGGGCT
1 GAGAAAAACAGAAGCAGCTCTCTTCTTGCCTTTCTATATGGCATGCCCGAGAAGAATTTAGGGCT
*
59507255 AGTGGCCGAAGGCGAAGCAAGCAATAAAGGCT-GAGTGAGAAG-GACTGTCGGGTTGAGTGAGGA
66 AGTGGCCGAAGGCGAAGCAAGCAATAAAGGCTGGA-TGAGAAGAG-CTGTCGGGTTGAGTGAAGA
59507318 AGGTTTTAGAACG
129 AGGTTTTAGAACG
** *
59507331 GAGAAAAACA-AAGGTGACTCTCTTCTTGCCTTTCTATATGGCATGCCCGAGAAGAGTTTAGGGC
1 GAGAAAAACAGAAGCAG-CTCTCTTCTTGCCTTTCTATATGGCATGCCCGAGAAGAATTTAGGGC
* * ** *
59507395 TAGTGGCCGGAGGTGAAGCAAGCAATGGAGGCTGGATGAGAAGAGTTGTCGGGTTGAGTGAAGAA
65 TAGTGGCCGAAGGCGAAGCAAGCAATAAAGGCTGGATGAGAAGAGCTGTCGGGTTGAGTGAAGAA
59507460 GGTTT
130 GGTTT
59507465 CAAAATGATA
Statistics
Matches: 119, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
140 4 0.03
141 112 0.94
142 3 0.03
ACGTcount: A:0.28, C:0.15, G:0.33, T:0.23
Consensus pattern (141 bp):
GAGAAAAACAGAAGCAGCTCTCTTCTTGCCTTTCTATATGGCATGCCCGAGAAGAATTTAGGGCT
AGTGGCCGAAGGCGAAGCAAGCAATAAAGGCTGGATGAGAAGAGCTGTCGGGTTGAGTGAAGAAG
GTTTTAGAACG
Found at i:59513031 original size:26 final size:28
Alignment explanation
Indices: 59512999--59513057 Score: 77
Period size: 26 Copynumber: 2.2 Consensus size: 28
59512989 TGGGTTAATG
59512999 ATTTAATATAAATAA-AAATAT-ATATT
1 ATTTAATATAAATAATAAATATGATATT
* *
59513025 ATTTAATATATATAATTAATATGATATT
1 ATTTAATATAAATAATAAATATGATATT
*
59513053 TTTTA
1 ATTTA
59513058 TAATATAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 14 0.50
27 5 0.18
28 9 0.32
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (28 bp):
ATTTAATATAAATAATAAATATGATATT
Found at i:59513032 original size:14 final size:14
Alignment explanation
Indices: 59513015--59513057 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
59513005 TATAAATAAA
59513015 AATATATATTATTT
1 AATATATATTATTT
*
59513029 AATATATA-TAATT
1 AATATATATTATTT
*
59513042 AATATGATATTTTTT
1 AATAT-ATATTATTT
59513057 A
1 A
59513058 TAATATAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 9 0.38
14 11 0.46
15 4 0.17
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
AATATATATTATTT
Found at i:59519492 original size:24 final size:24
Alignment explanation
Indices: 59519442--59519493 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
59519432 AATCAAAGTC
* *
59519442 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
* *
59519466 AAATATATTATACTCATAAATATT
1 AAATATATTATACTAATAAATACT
59519490 AAAT
1 AAAT
59519494 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:59523857 original size:24 final size:24
Alignment explanation
Indices: 59523830--59523881 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
59523820 AATCAAAGTC
* *
59523830 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
59523854 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
59523878 AAAT
1 AAAT
59523882 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:59528507 original size:85 final size:83
Alignment explanation
Indices: 59528329--59528488 Score: 205
Period size: 85 Copynumber: 1.9 Consensus size: 83
59528319 CAAAATTTCC
* * ** *
59528329 CTATATTTTATGCTTAGAGTTCTATTCAACTAATAAATTTATTTTAAAATTAGCACAACTTTTTT
1 CTATATTTTATACTTAGAATTCTATTCAACTAATAAACATACTTTAAAATTAGCACAA--TTTTT
* *
59528394 TTTACGTCAAACTTTTTTTT
64 TTTACATCAAACTTTTTTGT
* *
59528414 CTATATTTTATACTTAGAATTCTATTCAAGTAATAAACATACTTTAAAATTAGTACAA-TTTTTT
1 CTATATTTTATACTTAGAATTCTATTCAACTAATAAACATACTTTAAAATTAGCACAATTTTTTT
*
59528478 TACATTAAACT
66 TACATCAAACT
59528489 AATTATTAAT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
82 15 0.23
85 51 0.77
ACGTcount: A:0.35, C:0.12, G:0.05, T:0.47
Consensus pattern (83 bp):
CTATATTTTATACTTAGAATTCTATTCAACTAATAAACATACTTTAAAATTAGCACAATTTTTTT
TACATCAAACTTTTTTGT
Found at i:59530918 original size:163 final size:164
Alignment explanation
Indices: 59530547--59530934 Score: 625
Period size: 164 Copynumber: 2.4 Consensus size: 164
59530537 GGTTTGTAGA
*
59530547 GAAAATTGAAAAGAAATACGGAGAATGGGGGTTTCAATTTGGGTTAGAATCAAATAGGAAATCCT
1 GAAAATTGAAAAGAAATAGGGAGAATGGGGGTTTCAATTTGGGTTAGAATCAAATAGGAAATCCT
* *
59530612 AATTGTGCTAGGAAATGGTTTATTAGTTGGACTTTGGGAAAAAAATAAGGGTTGTTTGAAAACTA
66 AATTGTGCTAGGAAATGGTTTATTAGTTGCACTTTGGAAAAAAAATAAGGGTTGTTTGAAAACTA
* *
59530677 ACCTTTTTTGGCCGAAATTAAGGAAAAATTAAAG
131 ACCTCTTTTGGCCGAAATCAAGGAAAAATTAAAG
*
59530711 GAAAATTGATAAGAAATAGGGAGAATGGGGGTTTCAATTTGGGTTAGAATCAAATAGGAAATCCT
1 GAAAATTGAAAAGAAATAGGGAGAATGGGGGTTTCAATTTGGGTTAGAATCAAATAGGAAATCCT
* * * * *
59530776 ATTTGTGCTAGGGAGTGGTTTATTAGTTGCACTTTGGAAAAAAAATAAGGGTTGTTTGACAATTA
66 AATTGTGCTAGGAAATGGTTTATTAGTTGCACTTTGGAAAAAAAATAAGGGTTGTTTGAAAACTA
* * *
59530841 ACC-CTTTTGGCCGGAATCAATGAAAAATTAAGG
131 ACCTCTTTTGGCCGAAATCAAGGAAAAATTAAAG
* *
59530874 GAAAATTGAGAAGAAATAGGGAGAATGGGGGTTTCAGTTTGGGTTAGAATCAAATAGGAAA
1 GAAAATTGAAAAGAAATAGGGAGAATGGGGGTTTCAATTTGGGTTAGAATCAAATAGGAAA
59530935 CTTTAAGAGA
Statistics
Matches: 208, Mismatches: 16, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
163 84 0.40
164 124 0.60
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.29
Consensus pattern (164 bp):
GAAAATTGAAAAGAAATAGGGAGAATGGGGGTTTCAATTTGGGTTAGAATCAAATAGGAAATCCT
AATTGTGCTAGGAAATGGTTTATTAGTTGCACTTTGGAAAAAAAATAAGGGTTGTTTGAAAACTA
ACCTCTTTTGGCCGAAATCAAGGAAAAATTAAAG
Found at i:59535912 original size:6 final size:6
Alignment explanation
Indices: 59535901--59535928 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
59535891 GAAGTTTGGG
59535901 TTCACT TTCACT TTCACT TTCACT TTCA
1 TTCACT TTCACT TTCACT TTCACT TTCA
59535929 ACTTGGAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.32, G:0.00, T:0.50
Consensus pattern (6 bp):
TTCACT
Found at i:59539578 original size:19 final size:20
Alignment explanation
Indices: 59539536--59539578 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
59539526 TCATGCTTTC
*
59539536 TATTCACATTTTCATATTCA
1 TATTCACATTTTCAAATTCA
59539556 -ATTCACATTTTCAAATT-A
1 TATTCACATTTTCAAATTCA
59539574 TATTC
1 TATTC
59539579 TACAATCACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.33, C:0.19, G:0.00, T:0.49
Consensus pattern (20 bp):
TATTCACATTTTCAAATTCA
Found at i:59539818 original size:45 final size:45
Alignment explanation
Indices: 59539745--59539854 Score: 157
Period size: 45 Copynumber: 2.4 Consensus size: 45
59539735 CCTAAACAGT
* * * *
59539745 AATCAGTAACGGTAGCAGTAACAATATTCAACACACAAAGTGTCA
1 AATCGGTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCA
* * *
59539790 AATCGGTAACAGTAACAGTAACAGTATTCGACACACAAAGTGCCG
1 AATCGGTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCA
59539835 AATCGGTAACAGTAACAGTA
1 AATCGGTAACAGTAACAGTA
59539855 GTCGGCATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.43, C:0.20, G:0.18, T:0.19
Consensus pattern (45 bp):
AATCGGTAACAGTAACAGTAACAATATTCAACACACAAAGTGCCA
Found at i:59541737 original size:11 final size:11
Alignment explanation
Indices: 59541723--59541749 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
59541713 AATAATGCTA
59541723 AAAATCTTAAT
1 AAAATCTTAAT
59541734 AAAATCTTAAT
1 AAAATCTTAAT
59541745 AAAAT
1 AAAAT
59541750 AACATTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (11 bp):
AAAATCTTAAT
Found at i:59544169 original size:3 final size:3
Alignment explanation
Indices: 59544161--59544201 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
59544151 TTGCACCATG
59544161 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
59544202 GTCATTCACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:59546974 original size:24 final size:24
Alignment explanation
Indices: 59546926--59546972 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
59546916 ACTGGTCATA
*
59546926 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
59546950 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
59546973 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:59547384 original size:35 final size:35
Alignment explanation
Indices: 59547338--59547408 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
59547328 CCGTTATGAG
59547338 TATGTTTCTTAGATTATTATGTAATTGTCACGACA
1 TATGTTTCTTAGATTATTATGTAATTGTCACGACA
59547373 TATGTTTCTTAGATTATTATGTAATTGTCACGACA
1 TATGTTTCTTAGATTATTATGTAATTGTCACGACA
59547408 T
1 T
59547409 TACTCATAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.46
Consensus pattern (35 bp):
TATGTTTCTTAGATTATTATGTAATTGTCACGACA
Found at i:59556256 original size:27 final size:27
Alignment explanation
Indices: 59556217--59556328 Score: 161
Period size: 27 Copynumber: 4.1 Consensus size: 27
59556207 AGAGGTCGAT
* * * *
59556217 AAATGACCAAAATACCCCTACAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
*
59556244 AAATGATCGAAATACCCCCGTAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
* *
59556271 AAATGATTGAAATACCCCCGTAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
59556298 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGATCGAAATACCCCCATAGGGTA
59556325 AAAT
1 AAAT
59556329 AACTGTTATA
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (27 bp):
AAATGATCGAAATACCCCCATAGGGTA
Found at i:59556357 original size:54 final size:54
Alignment explanation
Indices: 59556238--59556342 Score: 165
Period size: 54 Copynumber: 1.9 Consensus size: 54
59556228 ATACCCCTAC
* * *
59556238 AGGGTAAAATGATCGAAATACCCCCGTAGGGTAAAATGATTGAAATACCCCCGT
1 AGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCGT
**
59556292 AGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATAACTGTTATACCCC
1 AGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATAACTGAAATACCCC
59556343 TAGGAGATGA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (54 bp):
AGGGTAAAATGATCGAAATACCCCCATAGGGTAAAATAACTGAAATACCCCCGT
Found at i:59559341 original size:26 final size:26
Alignment explanation
Indices: 59559301--59559359 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
59559291 AGCTTGACAG
*
59559301 AATCATTTTAGACCAATCTAGTCCTT
1 AATCATTTTACACCAATCTAGTCCTT
59559327 AATCATTTTACACCAATCTAGTCCTT
1 AATCATTTTACACCAATCTAGTCCTT
59559353 AATCATT
1 AATCATT
59559360 AACATGTCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.32, C:0.24, G:0.05, T:0.39
Consensus pattern (26 bp):
AATCATTTTACACCAATCTAGTCCTT
Found at i:59562969 original size:20 final size:20
Alignment explanation
Indices: 59562931--59562969 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
59562921 AATCAGTTAC
**
59562931 CCGAAATCCCTTATTTTTTT
1 CCGAAATCCCTTAAATTTTT
59562951 CCGAAATCCCTTAAATTTT
1 CCGAAATCCCTTAAATTTT
59562970 CCCCGATCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.26, G:0.05, T:0.44
Consensus pattern (20 bp):
CCGAAATCCCTTAAATTTTT
Found at i:59562975 original size:21 final size:20
Alignment explanation
Indices: 59562930--59562975 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
59562920 AAATCAGTTA
* *
59562930 CCCGAAATCCCTTATTTTTT
1 CCCGAAATCCCTTAATTTTC
*
59562950 TCCGAAATCCCTTAAATTTTC
1 CCCGAAATCCCTT-AATTTTC
59562971 CCCGA
1 CCCGA
59562976 TCGTCTGTTG
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.24, C:0.33, G:0.07, T:0.37
Consensus pattern (20 bp):
CCCGAAATCCCTTAATTTTC
Found at i:59566837 original size:50 final size:50
Alignment explanation
Indices: 59566708--59567004 Score: 283
Period size: 50 Copynumber: 5.8 Consensus size: 50
59566698 GATAATAACA
* *** * *
59566708 TGCCAAAGCCATGTCCCAAACATGGTCTTACATGGGGTGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * **
59566757 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
* ** *
59566807 TGCCCATGCCATGTCCCAAACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
59566857 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
* *
59566907 TACCAATGCCATGTCCCAAACATGGTCTTACATGTGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCAT-A--TC--GG
* * * *
59566962 ATACCAATGCCATGTCCTAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCT
59567005 TTACCCAAAT
Statistics
Matches: 204, Mismatches: 36, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
48 1 0.00
49 37 0.18
50 124 0.61
53 2 0.01
55 2 0.01
56 38 0.19
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:59568154 original size:13 final size:13
Alignment explanation
Indices: 59568118--59568154 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
59568108 AATTAATACA
59568118 TTGTTATAATTATT
1 TTGTTATAA-TATT
59568132 TT-TTAT-ATATT
1 TTGTTATAATATT
59568143 TTGTTATAATAT
1 TTGTTATAATAT
59568155 ATGCGAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.29
12 5 0.24
13 8 0.38
14 2 0.10
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (13 bp):
TTGTTATAATATT
Found at i:59568496 original size:51 final size:50
Alignment explanation
Indices: 59568420--59568610 Score: 215
Period size: 51 Copynumber: 3.8 Consensus size: 50
59568410 TGTCTGCGAA
59568420 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGTAAATAAC-GGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGG-AAA-AACTGGT
* * ***
59568471 CACGTGTGTAGTACTAAGTGCAGGCTACTATGTGAATCGGAAGGCCTTGGT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGAAAAAC-TGGT
* * * * * *
59568522 CACGTGTGTAGTACTATGTGTAGGCTACTACGTG-AACCGAAAAGCTTGAT
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGAAAAAC-TGGT
* *
59568572 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCG
1 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCG
59568611 AATGATAATA
Statistics
Matches: 120, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
49 1 0.01
50 45 0.38
51 74 0.62
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (50 bp):
CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGGAAAAACTGGT
Found at i:59571596 original size:50 final size:50
Alignment explanation
Indices: 59571495--59571609 Score: 140
Period size: 50 Copynumber: 2.3 Consensus size: 50
59571485 TACGAGCACT
* * ***
59571495 TAACGAGAAGCTCATGTGAGTTGTATAACGGGAAGCTCATGTGAGCCGTA
1 TAACGAGAAGCTCATGTGAGCTCTATAACGGGAAGCTCATCCAAGCCGTA
* * **
59571545 TAACGGGAAGCTCATGTGAGCTCTATAACGGGAAGCTTATCCAAGTTGTA
1 TAACGAGAAGCTCATGTGAGCTCTATAACGGGAAGCTCATCCAAGCCGTA
*
59571595 TAACAAGAAGCTCAT
1 TAACGAGAAGCTCAT
59571610 AAGAGCCATA
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.32, C:0.17, G:0.26, T:0.24
Consensus pattern (50 bp):
TAACGAGAAGCTCATGTGAGCTCTATAACGGGAAGCTCATCCAAGCCGTA
Found at i:59571598 original size:25 final size:25
Alignment explanation
Indices: 59571495--59571581 Score: 138
Period size: 25 Copynumber: 3.5 Consensus size: 25
59571485 TACGAGCACT
* *
59571495 TAACGAGAAGCTCATGTGAGTTGTA
1 TAACGGGAAGCTCATGTGAGCTGTA
*
59571520 TAACGGGAAGCTCATGTGAGCCGTA
1 TAACGGGAAGCTCATGTGAGCTGTA
*
59571545 TAACGGGAAGCTCATGTGAGCTCTA
1 TAACGGGAAGCTCATGTGAGCTGTA
59571570 TAACGGGAAGCT
1 TAACGGGAAGCT
59571582 TATCCAAGTT
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 57 1.00
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (25 bp):
TAACGGGAAGCTCATGTGAGCTGTA
Found at i:59572701 original size:20 final size:20
Alignment explanation
Indices: 59572673--59572715 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
59572663 TCTAAAAAAC
59572673 ATAAAAATTACAAGAAACAA
1 ATAAAAATTACAAGAAACAA
* ** *
59572693 ATAAGAATTGGACGAAACAA
1 ATAAAAATTACAAGAAACAA
59572713 ATA
1 ATA
59572716 TGCAAGACCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.63, C:0.09, G:0.12, T:0.16
Consensus pattern (20 bp):
ATAAAAATTACAAGAAACAA
Found at i:59573990 original size:18 final size:18
Alignment explanation
Indices: 59573957--59573991 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59573947 GTGAGGAGAA
* *
59573957 TGCTGATACAGGTGGTGG
1 TGCTGATAAAGATGGTGG
59573975 TGCTGATAAAGATGGTG
1 TGCTGATAAAGATGGTG
59573992 ATGGAGATGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.09, G:0.40, T:0.29
Consensus pattern (18 bp):
TGCTGATAAAGATGGTGG
Found at i:59589424 original size:24 final size:24
Alignment explanation
Indices: 59589392--59589442 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
59589382 ATTGTTTGGT
*
59589392 TTGATTTGGTTTAATTGAATTAAA
1 TTGAATTGGTTTAATTGAATTAAA
*
59589416 TTGAATTGGTTTCATTGAATTAAA
1 TTGAATTGGTTTAATTGAATTAAA
59589440 TTG
1 TTG
59589443 TACGAGGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49
Consensus pattern (24 bp):
TTGAATTGGTTTAATTGAATTAAA
Found at i:59596631 original size:16 final size:16
Alignment explanation
Indices: 59596592--59596631 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
59596582 AGTTAATATG
59596592 GTTAAAAAAATAAAAT
1 GTTAAAAAAATAAAAT
* *
59596608 TTTAAAAAAATTAAAT
1 GTTAAAAAAATAAAAT
59596624 GTTGAAAA
1 GTT-AAAA
59596632 CTTTCATCGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (16 bp):
GTTAAAAAAATAAAAT
Found at i:59597548 original size:296 final size:293
Alignment explanation
Indices: 59597082--59597649 Score: 682
Period size: 296 Copynumber: 1.9 Consensus size: 293
59597072 AAGTACCACG
* * *
59597082 GAATAATATAACTTATTTTAAATACGAAAGGACACTGAAGTAATTTCCCCAATCTAGTTTGGTGC
1 GAATAATATAACTTATTTTAAATACGAAAGGACACTAAAGTAATTTCCCCAAGCGAGTTTGGTGC
* ***
59597147 CTAATTAACTAGTGAGACAAACTCAATCAAACACTTAAATAGTAGTATAGATGTACAATTGATGT
66 CTAATTAACTAGTGACACAAACTCAATCAAACACTTAAATAGTAGTATAGAAAAACAATTGATGT
* **
59597212 AAATAATAAAATGTGCATATTAAAACTAAAATGCATAAAAAAATAGTAAAATAAAACTTTGATTG
131 AAATAATAAAATGTGCATATTAAAACTAAAATGCAT-AAAAAAT--CAAAATAAAACTTTGACCG
* *
59597277 AGTGTTAAATTTAA-AGTTTTAT-TAATGCAATTGGCATTG-GTTCAAATATCACCATATGT-AT
193 AGTGATAAATTTAATA-TTTT-TCTAATACAATTGGCA-TGCGTTCAAATATCACCATAT-TCAT
*
59597338 ATTTTTATTGATTTTTTAAATAAAAAGACTAAAGTACTTTT
254 ATTTTTATT-AGTTTTTAAATAAAAAGACTAAAGTACTTTT
* *
59597379 GAATAATATAACTTATTTTAAATACGAAAGGACA-TCAAAGTAATTTTCCTAAGCGAG-TTGGTG
1 GAATAATATAACTTATTTTAAATACGAAAGGACACT-AAAGTAATTTCCCCAAGCGAGTTTGGTG
* ** * * * * ** * *
59597442 CTTGGTTGATTCGTGACACCAACTCCGTCTAATACTTAAATAGTAGTATAGAAAAACAATTGATG
65 CCTAATTAACTAGTGACACAAACTCAATCAAACACTTAAATAGTAGTATAGAAAAACAATTGATG
** * * * * *
59597507 -AAAGTTTTAGAATGTGTATATTAAAACTAAAATGTATAAAAAATCAAAATAAAGCTTTGGCCGA
130 TAAA-TAATAAAATGTGCATATTAAAACTAAAATGCATAAAAAATCAAAATAAAACTTTGACCGA
* *
59597571 GTGATAAATTTAATATTTTTCTAATACAATTGGCATGCGTTCAAATATTATCATATTCATATTTT
194 GTGATAAATTTAATATTTTTCTAATACAATTGGCATGCGTTCAAATATCACCATATTCATATTTT
59597636 TATTAGTTTTTAAA
259 TATTAGTTTTTAAA
59597650 ATAGTAGGTC
Statistics
Matches: 230, Mismatches: 35, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
292 13 0.06
293 71 0.31
294 1 0.00
295 10 0.04
296 85 0.37
297 50 0.22
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (293 bp):
GAATAATATAACTTATTTTAAATACGAAAGGACACTAAAGTAATTTCCCCAAGCGAGTTTGGTGC
CTAATTAACTAGTGACACAAACTCAATCAAACACTTAAATAGTAGTATAGAAAAACAATTGATGT
AAATAATAAAATGTGCATATTAAAACTAAAATGCATAAAAAATCAAAATAAAACTTTGACCGAGT
GATAAATTTAATATTTTTCTAATACAATTGGCATGCGTTCAAATATCACCATATTCATATTTTTA
TTAGTTTTTAAATAAAAAGACTAAAGTACTTTT
Found at i:59598721 original size:3 final size:3
Alignment explanation
Indices: 59598713--59598739 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
59598703 CAAGAACAAA
59598713 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
59598740 GAAAAGATAA
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:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:59599682 original size:23 final size:22
Alignment explanation
Indices: 59599656--59599700 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
59599646 AAATTAAATC
59599656 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC-AAATCATATCT
* *
59599679 TCTAAGATTGCATATCATATCT
1 TCTAAGATTACAAATCATATCT
59599701 AAGATTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (22 bp):
TCTAAGATTACAAATCATATCT
Found at i:59599703 original size:19 final size:19
Alignment explanation
Indices: 59599679--59599814 Score: 209
Period size: 19 Copynumber: 6.9 Consensus size: 19
59599669 AATCATATCT
59599679 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
59599698 TCTAAGATTTCATATATCATA
1 TCTAAGATTGC--ATATCATA
59599719 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
59599738 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
59599757 TCTAAGATTTCATATATCATA
1 TCTAAGATTGC--ATATCATA
59599778 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
59599797 TCTAAGATTACATATCAT
1 TCTAAGATTGCATATCAT
59599815 TGAAGATTAT
Statistics
Matches: 108, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
19 72 0.67
21 36 0.33
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.39
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:59599727 original size:40 final size:38
Alignment explanation
Indices: 59599672--59599814 Score: 209
Period size: 40 Copynumber: 3.7 Consensus size: 38
59599662 ATTACAAAAT
*
59599672 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTT
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
59599708 CATATATCATATCTAAGATTGCATATCATATCTAAGATTG
1 C--ATATCATATCTAAGATTGCATATCATATCTAAGATTG
*
59599748 CATATCATATCTAAGATTTCATATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGC--ATATCATATCTAAGATTG
*
59599788 CATATCATATCTAAGATTACATATCAT
1 CATATCATATCTAAGATTGCATATCAT
59599815 TGAAGATTAT
Statistics
Matches: 98, Mismatches: 3, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
36 1 0.01
38 30 0.31
39 1 0.01
40 66 0.67
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:59599750 original size:59 final size:59
Alignment explanation
Indices: 59599672--59599814 Score: 263
Period size: 59 Copynumber: 2.5 Consensus size: 59
59599662 ATTACAAAAT
59599672 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTTCATATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTTCATATATCATATCTAAGATTG
59599729 CATATCATATCTAAGATTGCATATCATATCTAAGATTTCATATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTTCATATATCATATCTAAGATTG
*
59599788 CATATCATATCTAAGATTACATATCAT
1 CATATCATATCTAAGATTGCATATCAT
59599815 TGAAGATTAT
Statistics
Matches: 83, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
57 6 0.07
58 1 0.01
59 76 0.92
ACGTcount: A:0.37, C:0.16, G:0.08, T:0.39
Consensus pattern (59 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTTCATATATCATATCTAAGATTG
Found at i:59600422 original size:44 final size:44
Alignment explanation
Indices: 59600370--59600477 Score: 121
Period size: 44 Copynumber: 2.5 Consensus size: 44
59600360 GATCTATTCT
* * *
59600370 ACTGCAACTTTAGAGAGATAAGATCTATTA-TTTTAATCCGCTTC
1 ACTGCAACTTTAGAGAGATAAGAT-TACTAGCTTTAATCCGCTCC
** * * *
59600414 ACTGCAACTCCAGGGAGATAGGATTACTAGCTTTAATCTGCTCC
1 ACTGCAACTTTAGAGAGATAAGATTACTAGCTTTAATCCGCTCC
59600458 ACTGCAAC-TTAGAGAGATAA
1 ACTGCAACTTTAGAGAGATAA
59600478 AATATGTAAT
Statistics
Matches: 51, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
43 12 0.24
44 39 0.76
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (44 bp):
ACTGCAACTTTAGAGAGATAAGATTACTAGCTTTAATCCGCTCC
Found at i:59600519 original size:44 final size:44
Alignment explanation
Indices: 59600471--59600698 Score: 165
Period size: 44 Copynumber: 5.2 Consensus size: 44
59600461 GCAACTTAGA
* * *
59600471 GAGATAAAATATGTAATTTTCAACCTACTCCACTGCTGCTCATG
1 GAGATAAGATATGTAATCTTCAACCTACTCCACTGCTGCTCAGG
** * * * * * *
59600515 GAGATAAGACTA-GT-GGCTTAAATCTGCTTCC-CTACTACCTTAGG
1 GAGATAAGA-TATGTAATCTTCAACCTAC-TCCACTGCT-GCTCAGG
* * ** * * * * *
59600559 AAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAAG
1 GAGATAAGATATGTAATCTTCAACCTACTCCACTGCTGCTCAGG
* * *
59600603 GAGATAAGATCTGTAATTTTCAACCTACTCCTCTGCTGCTCAGG
1 GAGATAAGATATGTAATCTTCAACCTACTCCACTGCTGCTCAGG
* * **
59600647 GAGATAAGGTCTACAATCTTCAACCTACTCCACTGCTGCTCAGG
1 GAGATAAGATATGTAATCTTCAACCTACTCCACTGCTGCTCAGG
59600691 GAGATAAG
1 GAGATAAG
59600699 GCTAGTGGCT
Statistics
Matches: 143, Mismatches: 35, Indels: 12
0.75 0.18 0.06
Matches are distributed among these distances:
43 12 0.08
44 115 0.80
45 16 0.11
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
GAGATAAGATATGTAATCTTCAACCTACTCCACTGCTGCTCAGG
Found at i:59600587 original size:88 final size:87
Alignment explanation
Indices: 59600495--59600787 Score: 259
Period size: 88 Copynumber: 3.3 Consensus size: 87
59600485 AATTTTCAAC
* *
59600495 CTACTCCACTGCTGCTCATGGAGATAAGACTAGTGGCTTAAATCTGCTTCCCTACTACCTTAGGA
1 CTACTCCACTACTGCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTTCCCTACTACCTTAGGA
*
59600560 AGATAAGATTTGTCGTCTTCGAT
66 AGATAAGATTT-ACGTCTTCGAT
* * *** * * * * * *
59600583 CTACTCCACTACTGCTTAAGGAGATAAGATCT-GTAATTTTCAACCTAC-TCCTCTGCT-GCTCA
1 CTACTCCACTACTGCTCAGGGAGATAAGA-CTAGT-GGCTTAAATCTGCTTCC-CTACTACCTTA
* * * * * *
59600645 GGGAGATAAGGTCTACAATCTTCAAC
63 GGAAGATAAGATTTAC-GTCTTCGAT
* * * * *
59600671 CTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATATGCTTCCCTATTACCTTGGGA
1 CTACTCCACTACTGCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTTCCCTACTACCTTAGGA
*
59600736 AGATAAGATTCACCGTCTTCGAT
66 AGATAAGATTTA-CGTCTTCGAT
* *
59600759 CTGCTCCACTACTGCTTAGGGAGATAAGA
1 CTACTCCACTACTGCTCAGGGAGATAAGA
59600788 TCTGTAATTT
Statistics
Matches: 151, Mismatches: 46, Indels: 16
0.71 0.22 0.08
Matches are distributed among these distances:
87 12 0.08
88 125 0.83
89 14 0.09
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (87 bp):
CTACTCCACTACTGCTCAGGGAGATAAGACTAGTGGCTTAAATCTGCTTCCCTACTACCTTAGGA
AGATAAGATTTACGTCTTCGAT
Found at i:59600679 original size:176 final size:176
Alignment explanation
Indices: 59600489--59600854 Score: 565
Period size: 176 Copynumber: 2.1 Consensus size: 176
59600479 ATATGTAATT
* *
59600489 TTCAACCTACTCCACTGCTGCTCATGGAGATAAGACTAGTGGCTTAAATCTGCTTCCCTACTACC
1 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGACTAGTGGCTTAAATATGCTTCCCTACTACC
***
59600554 TTAGGAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAAGGAGATAAGATCTGTAA
66 TTAGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAAGGAGATAAGATCTGTAA
* * *
59600619 TTTTCAACCTACTCC-TCTGCTGCTCAGGGAGATAAGGTCT-ACAATC
131 TTTTCAACCTACCCCAT-TGCTGCTCAGAGAGAT-AGGACTCACAATC
* *
59600665 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATATGCTTCCCTATTACC
1 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGACTAGTGGCTTAAATATGCTTCCCTACTACC
* * *
59600730 TTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAA
66 TTAGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAAGGAGATAAGATCTGTAA
*
59600795 TTTTTAACCTACCCCATTGCTGCTCAGAGAGATAGGACTCACAATC
131 TTTTCAACCTACCCCATTGCTGCTCAGAGAGATAGGACTCACAATC
*
59600841 TTCAACCTATTCCA
1 TTCAACCTACTCCA
59600855 TTGTTGACCA
Statistics
Matches: 173, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
175 5 0.03
176 167 0.97
177 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.30
Consensus pattern (176 bp):
TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGACTAGTGGCTTAAATATGCTTCCCTACTACC
TTAGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTACTGCTTAAGGAGATAAGATCTGTAA
TTTTCAACCTACCCCATTGCTGCTCAGAGAGATAGGACTCACAATC
Found at i:59600843 original size:88 final size:88
Alignment explanation
Indices: 59600575--59600843 Score: 217
Period size: 88 Copynumber: 3.1 Consensus size: 88
59600565 AGATTTGTCG
* * *
59600575 TCTTCGATCTACTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCAACCTACTCC-TCTGC
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAACCTACCCCAT-TGC
*
59600639 TGCTCAGGGAGATAAGGTCT-ACAA
65 TGCTCAGGGAGAT-AGGACTCACAA
* * * * * ** ** ** * *
59600663 TCTTCAACCTACTCCACTGCTGCTCAGGGAGATAAG-GCTAGTGGCTTAAATATGCTTCCCTATT
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCT-GT-AATT-TTTAACCTACCCCATT
* * * * **
59600727 AC--CT-TGGGAAGATAAGATTCACCG
63 GCTGCTCAGGG-AGATAGGACTCACAA
*
59600751 TCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAACCTACCCCATTGCT
1 TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAACCTACCCCATTGCT
*
59600816 GCTCAGAGAGATAGGACTCACAA
66 GCTCAGGGAGATAGGACTCACAA
59600839 TCTTC
1 TCTTC
59600844 AACCTATTCC
Statistics
Matches: 127, Mismatches: 44, Indels: 20
0.66 0.23 0.10
Matches are distributed among these distances:
86 11 0.09
87 10 0.08
88 92 0.72
89 6 0.05
90 7 0.06
91 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (88 bp):
TCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTTAACCTACCCCATTGCT
GCTCAGGGAGATAGGACTCACAA
Done.