Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 68 of 345
Found at i:21480205 original size:26 final size:28
Alignment explanation
Indices: 21480145--21480202 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 28
21480135 ATGATTTCAT
*
21480145 TTGTTGATAAATAATTCCACTTGATTTC
1 TTGTTGATAAATAATTCCACTTGACTTC
21480173 ATTTGTTGATAAATAATTCCACTT-ACTTC
1 --TTGTTGATAAATAATTCCACTTGACTTC
21480202 T
1 T
21480203 GTTCTTTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 1 0.04
29 4 0.15
30 22 0.81
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.47
Consensus pattern (28 bp):
TTGTTGATAAATAATTCCACTTGACTTC
Found at i:21480638 original size:33 final size:33
Alignment explanation
Indices: 21480575--21480639 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
21480565 TGTGTGTTCT
** *
21480575 TTTTTTTTCTCTCTTTTCTTTGTGATACATTGC
1 TTTTTTTTCTCTCTTTTCTTTACGACACATTGC
21480608 TTTTTTTTCTCTCTTTTCTTTACGACACATTG
1 TTTTTTTTCTCTCTTTTCTTTACGACACATTG
21480640 TCATTATCGA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.11, C:0.20, G:0.08, T:0.62
Consensus pattern (33 bp):
TTTTTTTTCTCTCTTTTCTTTACGACACATTGC
Found at i:21487158 original size:20 final size:20
Alignment explanation
Indices: 21487133--21487172 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
21487123 ATTAGGTTAG
21487133 ATTAGATTAGATTTTTCTTT
1 ATTAGATTAGATTTTTCTTT
21487153 ATTAGATTAGATTTTTCTTT
1 ATTAGATTAGATTTTTCTTT
21487173 GTTTTCTAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.05, G:0.10, T:0.60
Consensus pattern (20 bp):
ATTAGATTAGATTTTTCTTT
Found at i:21493262 original size:31 final size:31
Alignment explanation
Indices: 21493227--21493288 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
21493217 TTTGTTAGAG
* *
21493227 AAAGCACGTTTTGTAGGGCGCATTTTCTGTC
1 AAAGCACGCTCTGTAGGGCGCATTTTCTGTC
21493258 AAAGCACGCTCTGTAGGGCGCATTTTCTGTC
1 AAAGCACGCTCTGTAGGGCGCATTTTCTGTC
21493289 CATTCCTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (31 bp):
AAAGCACGCTCTGTAGGGCGCATTTTCTGTC
Found at i:21493395 original size:16 final size:16
Alignment explanation
Indices: 21493363--21493396 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
21493353 TTTTCTTTTC
*
21493363 TAAAAATTTTTAAATT
1 TAAAAATTTGTAAATT
*
21493379 TAAAAATTTGTAGATT
1 TAAAAATTTGTAAATT
21493395 TA
1 TA
21493397 TTAATAAGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (16 bp):
TAAAAATTTGTAAATT
Found at i:21495185 original size:17 final size:17
Alignment explanation
Indices: 21495165--21495209 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
21495155 AGATAAGTAG
*
21495165 CATTGTAAGAACGTTTA
1 CATTGCAAGAACGTTTA
*
21495182 CATTGCGAGAACGTTTA
1 CATTGCAAGAACGTTTA
*
21495199 CATTGCGAGAA
1 CATTGCAAGAA
21495210 AGACAACTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (17 bp):
CATTGCAAGAACGTTTA
Found at i:21496329 original size:21 final size:21
Alignment explanation
Indices: 21496303--21496342 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
21496293 CACAAGGAAT
21496303 GGGTTTTGAAAACCATGTTTA
1 GGGTTTTGAAAACCATGTTTA
21496324 GGGTTTTGAAAACCATGTT
1 GGGTTTTGAAAACCATGTT
21496343 GTCTTGGTAG
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:0.28, C:0.10, G:0.25, T:0.38
Consensus pattern (21 bp):
GGGTTTTGAAAACCATGTTTA
Found at i:21498911 original size:20 final size:21
Alignment explanation
Indices: 21498872--21498912 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
21498862 AATAAGATTT
21498872 AATATTAAATTTAATCTAATA
1 AATATTAAATTTAATCTAATA
* *
21498893 AATATTATA-TTAATTTAATA
1 AATATTAAATTTAATCTAATA
21498913 TTAAAGTGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (21 bp):
AATATTAAATTTAATCTAATA
Found at i:21500853 original size:28 final size:26
Alignment explanation
Indices: 21500624--21500900 Score: 119
Period size: 24 Copynumber: 11.3 Consensus size: 26
21500614 CAATTCGAAG
*
21500624 TAAATAATATATAAAA-AGTTTGAAA
1 TAAATAATATATAAAACAGTTTAAAA
**
21500649 TAAATAATATATAGGAAA-AAATTAAAA
1 TAAATAATATATA--AAACAGTTTAAAA
* * * ** *
21500676 TAAATTACA-AAAAAATGGTTCAAAA
1 TAAATAATATATAAAACAGTTTAAAA
* * *
21500701 TAAA-CAT-TA-AAAA-A-ATTAACA
1 TAAATAATATATAAAACAGTTTAAAA
* *
21500722 TAAATAAAATATAAAACAGTTTGAAA
1 TAAATAATATATAAAACAGTTTAAAA
* * *
21500748 TAAAT-A-ATCTAAAGCAATTTAAAA
1 TAAATAATATATAAAACAGTTTAAAA
* * *
21500772 TAAATAACATATAAAGCATTTTTTAAAA
1 TAAATAATATATAAAACA--GTTTAAAA
* * * *
21500800 GAAATAAAAAATCTAAA-A---T-AAA
1 TAAATAATATAT-AAAACAGTTTAAAA
*
21500822 T-AAT-ATATATGAAACAGTTTAAAA
1 TAAATAATATATAAAACAGTTTAAAA
* *
21500846 TAAAT-A-ATAGAAAACAGTTTAATA
1 TAAATAATATATAAAACAGTTTAAAA
21500870 TAAATAATATATAAAA-A-TTTAAAA
1 TAAATAATATATAAAACAGTTTAAAA
21500894 TAAATAA
1 TAAATAA
21500901 AATAGCTTAA
Statistics
Matches: 189, Mismatches: 41, Indels: 45
0.69 0.15 0.16
Matches are distributed among these distances:
19 3 0.02
20 5 0.03
21 11 0.06
22 4 0.02
23 8 0.04
24 65 0.34
25 31 0.16
26 27 0.14
27 16 0.08
28 17 0.09
29 2 0.01
ACGTcount: A:0.62, C:0.04, G:0.05, T:0.29
Consensus pattern (26 bp):
TAAATAATATATAAAACAGTTTAAAA
Found at i:21500873 original size:98 final size:94
Alignment explanation
Indices: 21500710--21500925 Score: 249
Period size: 98 Copynumber: 2.3 Consensus size: 94
21500700 ATAAACATTA
* * ** *
21500710 AAAAAAT-TAACATAAATAA-A-ATATAAAACAGTTTGAAATAAATAATCTAAAGCAATTTAAAA
1 AAAAAATCTAAAATAAATAATATATATAAAACAGTTTAAAATAAATAATAGAAAACAATTTAAAA
*
21500772 TAAATAACATATAAAGCATTTTTTAAAAGAAAT
66 TAAATAACATATAAA--A--ATTTAAAAGAAAT
* * *
21500805 AAAAAATCTAAAATAAATAATATATATGAAACAGTTTAAAATAAATAATAGAAAACAGTTTAATA
1 AAAAAATCTAAAATAAATAATATATATAAAACAGTTTAAAATAAATAATAGAAAACAATTTAAAA
* *
21500870 TAAATAATATATAAAAATTTAAAATAAAT
66 TAAATAACATATAAAAATTTAAAAGAAAT
* *
21500899 AAAATAGCTTAAAATAAATAATATATA
1 AAAAAATC-TAAAATAAATAATATATA
21500926 AAACTATTAA
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
94 17 0.16
95 25 0.24
96 12 0.12
97 1 0.01
98 49 0.47
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (94 bp):
AAAAAATCTAAAATAAATAATATATATAAAACAGTTTAAAATAAATAATAGAAAACAATTTAAAA
TAAATAACATATAAAAATTTAAAAGAAAT
Found at i:21500917 original size:43 final size:44
Alignment explanation
Indices: 21500708--21500948 Score: 157
Period size: 50 Copynumber: 5.2 Consensus size: 44
21500698 AAATAAACAT
* * * * *
21500708 TAAAAAA-ATTAACATAAATAAAATATAAAACAGTTTGAAATAAA
1 TAAAAAAGCTTAAAATAAATAATATATAAAATA-TTTAAAATAAA
* * * *
21500752 TAATCTAAAGCAATTTAAAATAAATAACATATAAAGCATTTTTTAAAAGAAA
1 TAA--AAAAGC---TTAAAATAAATAATATATAAA--A-TATTTAAAATAAA
* *
21500804 TAAAAAATC-TAAAATAAATAATATATATGAAACAGTTTAAAATAAATAA
1 TAAAAAAGCTTAAAATAAATAATATATA--AAATA-TTTAAAAT--A-AA
* *
21500853 TAGAAAACAGTTTAATATAAATAATATATAAAA-ATTTAAAATAAA
1 TA-AAAA-AGCTTAAAATAAATAATATATAAAATATTTAAAATAAA
* *
21500898 TAAAATAGCTTAAAATAAATAATATATAAAACTA-TTAAAATGAA
1 TAAAAAAGCTTAAAATAAATAATATATAAAA-TATTTAAAATAAA
21500942 TAAAAAA
1 TAAAAAA
21500949 TAAATAAAAA
Statistics
Matches: 155, Mismatches: 22, Indels: 40
0.71 0.10 0.18
Matches are distributed among these distances:
43 23 0.15
44 21 0.14
45 5 0.03
46 29 0.19
48 11 0.07
49 5 0.03
50 30 0.19
51 1 0.01
52 30 0.19
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (44 bp):
TAAAAAAGCTTAAAATAAATAATATATAAAATATTTAAAATAAA
Found at i:21501014 original size:17 final size:18
Alignment explanation
Indices: 21500992--21501027 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
21500982 CAGGTTAGGG
*
21500992 ATTAAATTAGAA-TAAAA
1 ATTAAATTAAAAGTAAAA
21501009 ATTAAATTAAAAGTAAAA
1 ATTAAATTAAAAGTAAAA
21501027 A
1 A
21501028 CCATAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.28
Consensus pattern (18 bp):
ATTAAATTAAAAGTAAAA
Found at i:21502102 original size:14 final size:15
Alignment explanation
Indices: 21502073--21502107 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
21502063 ATTAGGCTTA
*
21502073 GGGTTTTTATATTTT
1 GGGTTTGTATATTTT
21502088 GGGTTTGTA-ATTTT
1 GGGTTTGTATATTTT
21502102 GGGTTT
1 GGGTTT
21502108 AGTTGATTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.58
15 8 0.42
ACGTcount: A:0.11, C:0.00, G:0.29, T:0.60
Consensus pattern (15 bp):
GGGTTTGTATATTTT
Found at i:21502708 original size:44 final size:43
Alignment explanation
Indices: 21502652--21502867 Score: 135
Period size: 44 Copynumber: 4.7 Consensus size: 43
21502642 TATATTCAGG
*
21502652 CTGCTCCGCTGCAACTTCAGAGAGATAAGGCTGGTGGCTTCAAT
1 CTGCTCCACTGCAACTTCAG-GAGATAAGGCTGGTGGCTTCAAT
* * *
21502696 CTGCTCCACTGCAATTTCAGGAAGATAAGATCTGCCATAATTTGTAGCTTCAAT
1 CTGCTCCACTGCAACTTCAGG-AGATAAG----G-C-----TGGTGGCTTCAAT
* * * * ** * * * *
21502750 CTGTTCTAATGCAACTTCAGGGAAATAAGATTCGTTGTCTTTAGT
1 CTGCTCCACTGCAACTTCA-GGAGATAAGGCT-GGTGGCTTCAAT
* *
21502795 CTGCTCCGCTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAAT
1 CTGCTCCACTGCAACTTCA-GGAGATAAGGCTGGTGGCTTCAAT
*
21502839 CTGCTCCACTGTAACTTCAGGAAGATAAG
1 CTGCTCCACTGCAACTTCAGG-AGATAAG
21502868 ATCCGCCATA
Statistics
Matches: 126, Mismatches: 32, Indels: 28
0.68 0.17 0.15
Matches are distributed among these distances:
43 3 0.02
44 57 0.45
45 30 0.24
48 1 0.01
49 1 0.01
54 32 0.25
55 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (43 bp):
CTGCTCCACTGCAACTTCAGGAGATAAGGCTGGTGGCTTCAAT
Found at i:21502715 original size:143 final size:141
Alignment explanation
Indices: 21502467--21503294 Score: 831
Period size: 143 Copynumber: 5.9 Consensus size: 141
21502457 TTTAGTTTAT
* * * *** *
21502467 TTCACTGCAACGTCAGGGAACTAAAATCTGCTATTTTCAGTCTGCTTTTACTGCAACTTCAAGGA
1 TTCACTGCAACGTCAGGGAAATAAGAT-TGCTATCTTCAGTCTGC-TCCGCTGCAACTTCAGGGA
* * * * *
21502532 GATAAGACTTGTGGCTTCAACCTACTCTACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTG
64 GATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTG
*
21502597 TAGCTTTAATCTG
129 TAGCTTCAATCTG
* * * *
21502610 TTCGATTGCAACGTCAGGGAAATAAGATGTGCTATATTCAGGCTGCTCCGCTGCAACTTCAGAGA
1 TTC-ACTGCAACGTCAGGGAAATAAGAT-TGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGA
* *
21502675 GATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAATTTCAGGAAGATAAGATCTGCCATAATTTG
64 GATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTG
21502740 TAGCTTCAATCTG
129 TAGCTTCAATCTG
* * * * * *
21502753 TTCTAATGCAACTTCAGGGAAATAAGATTCGTTGTCTTTAGTCTGCTCCGCTACAACTTCAGGGA
1 TTC-ACTGCAACGTCAGGGAAATAAGATT-GCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGA
*
21502818 GATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTCAGGAAGATAAGATCCGCCATAATTTG
64 GATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTG
*
21502883 TAGCTTCAATTTG
129 TAGCTTCAATCTG
* * * *
21502896 TTCCACTGCAAC-TCCAAGAAAATAAAATTTGCTTTCTTCAGTCTGCTCCGCTGCAACTTCAGGG
1 TT-CACTGCAACGT-CAGGGAAATAAGA-TTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGG
* * * * *
21502960 AGAT-AGAGCTGATGGCTTCAATCTGCTCCATTGCAACTTCAGAAAGAAAAGATCCGCCATACTT
63 AGATAAG-GCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATT
** *
21503024 CATAGCTTCAATCTAT
127 TGTAGCTTCAATCT-G
* * * *
21503040 TTCACTGCAACTTCAGGGAAATAAGATTCGCTTTCTTTAGTCTGCTCCGCTGTAACTTCAGGGAG
1 TTCACTGCAACGTCAGGGAAATAAGATT-GCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAG
* * * * * *
21503105 ATAAGGCTGAT-GCTTCGAT-TCGCTCCAATGTAATTTCAGG--GAGAAGA---G-----ATTTG
65 ATAAGGCTGGTGGCTTCAATCT-GCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTG
*
21503158 TAGCTTCGATCTAG
129 TAGCTTCAATCT-G
* * * * * ** * *
21503172 -TCTGCTGGAACTTCAAGGAGATAAGAATCACTGTCTTCAGTCTGCTCCGCTGCAAGTTCAGGGA
1 TTC-ACTGCAACGTCAGGGAAATAAG-ATTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGA
* * * * *
21503236 GATAGGGCTGGTGGCTTCAATTTACTCCACTGCAACTTAAGGAAGATAAGATCTGCCAT
64 GATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCAT
21503295 CTTCGATCTA
Statistics
Matches: 575, Mismatches: 86, Indels: 49
0.81 0.12 0.07
Matches are distributed among these distances:
131 2 0.00
132 72 0.13
133 23 0.04
134 1 0.00
135 6 0.01
137 1 0.00
138 1 0.00
140 6 0.01
141 1 0.00
142 28 0.05
143 390 0.68
144 44 0.08
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (141 bp):
TTCACTGCAACGTCAGGGAAATAAGATTGCTATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGA
TAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTCAGGAAGATAAGATCCGCCATAATTTGTA
GCTTCAATCTG
Found at i:21505437 original size:47 final size:47
Alignment explanation
Indices: 21505366--21505821 Score: 777
Period size: 47 Copynumber: 9.6 Consensus size: 47
21505356 CCCTTCGGGA
* * * *
21505366 CTTATCACATATTTACACTTTCACATCCATCACGTTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21505413 CCTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21505460 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21505507 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21505554 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21505603 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21505650 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21505699 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21505746 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21505795 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
21505822 TATTCAAATA
Statistics
Matches: 391, Mismatches: 12, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
47 254 0.65
49 137 0.35
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21505595 original size:96 final size:96
Alignment explanation
Indices: 21505366--21505821 Score: 821
Period size: 96 Copynumber: 4.8 Consensus size: 96
21505356 CCCTTCGGGA
* * *
21505366 CTTATCACATAT-T-TACACTTTCACATCCATCACGTTGGCCATTAGGCCCTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
21505429 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
21505460 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
21505523 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
21505554 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
21505619 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
21505650 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
21505715 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
21505746 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
21505811 ACTTTCACATT
66 ACTTTCACATT
21505822 TATTCAAATA
Statistics
Matches: 352, Mismatches: 6, Indels: 6
0.97 0.02 0.02
Matches are distributed among these distances:
92 2 0.01
93 1 0.00
94 93 0.26
96 256 0.73
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21505624 original size:143 final size:141
Alignment explanation
Indices: 21505366--21505821 Score: 786
Period size: 143 Copynumber: 3.2 Consensus size: 141
21505356 CCCTTCGGGA
* * * *
21505366 CTTATCACATATTTACACTTTCACATCCATCACGTTGGCCATTAGGCCCTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
21505431 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
21505496 GGCCATTAGGC
131 GGCCATTAGGC
*
21505507 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC--ATATATAC
21505572 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
21505637 TCGGCCATTAGGC
129 TCGGCCATTAGGC
*
21505650 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATAC
21505715 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
* *
21505780 CATTGGCCATTCGGC
127 CATCGGCCATTAGGC
21505795 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
21505822 TATTCAAATA
Statistics
Matches: 300, Mismatches: 9, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
141 50 0.17
143 160 0.53
145 90 0.30
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:21509297 original size:40 final size:40
Alignment explanation
Indices: 21509265--21509572 Score: 483
Period size: 40 Copynumber: 7.7 Consensus size: 40
21509255 CCAGCATGAT
* * * *
21509265 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
21509305 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
21509345 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
21509385 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
21509425 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
21509465 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
21509505 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
21509545 TGCTCTTCGGGACTTAGCCCGGAT-CATC
1 TGCTCTTCGGGACTTAGCCCGGATACATC
21509573 GTCGAGACCT
Statistics
Matches: 250, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
39 4 0.02
40 246 0.98
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:21509651 original size:38 final size:39
Alignment explanation
Indices: 21509620--21509739 Score: 165
Period size: 38 Copynumber: 3.1 Consensus size: 39
21509610 GCCAGCGAAT
21509620 TTTAATCCGGACATAATCTCTGTACATAGCCATCGGGTC
1 TTTAATCCGGACATAATCTCTGTACATAGCCATCGGGTC
*
21509659 TTT-ACCCGGACATAATCTCTGTACATAGCCATCGGGTC
1 TTTAATCCGGACATAATCTCTGTACATAGCCATCGGGTC
* * * *
21509697 TTTACT-CGGACATAATCTCT-TCATATAGTCAGCGGGTC
1 TTTAATCCGGACATAATCTCTGT-ACATAGCCATCGGGTC
21509735 TTTAA
1 TTTAA
21509740 ACTCGGATTC
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
37 1 0.01
38 68 0.94
39 3 0.04
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (39 bp):
TTTAATCCGGACATAATCTCTGTACATAGCCATCGGGTC
Found at i:21512243 original size:47 final size:47
Alignment explanation
Indices: 21512165--21512667 Score: 817
Period size: 47 Copynumber: 10.6 Consensus size: 47
21512155 CCCTTCGGGA
* * * * * *
21512165 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21512212 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
21512259 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21512306 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21512353 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21512400 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21512447 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21512496 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21512545 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
21512592 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
21512641 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
21512668 TATTCAAATA
Statistics
Matches: 430, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 291 0.68
49 139 0.32
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:21515897 original size:53 final size:53
Alignment explanation
Indices: 21515817--21515920 Score: 190
Period size: 53 Copynumber: 2.0 Consensus size: 53
21515807 GGGAGCATAG
21515817 CTCGAAATGAATAAATTAATCAAAGATAGAAAATGCAATAAGAAGGAAATTAA
1 CTCGAAATGAATAAATTAATCAAAGATAGAAAATGCAATAAGAAGGAAATTAA
* *
21515870 CTCGAAATGAATAAGTTAATCAAAGATAGAAAATGTAATAAGAAGGAAATT
1 CTCGAAATGAATAAATTAATCAAAGATAGAAAATGCAATAAGAAGGAAATT
21515921 GAGTAGAAGC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.55, C:0.07, G:0.16, T:0.22
Consensus pattern (53 bp):
CTCGAAATGAATAAATTAATCAAAGATAGAAAATGCAATAAGAAGGAAATTAA
Found at i:21517553 original size:46 final size:46
Alignment explanation
Indices: 21517448--21517554 Score: 117
Period size: 46 Copynumber: 2.3 Consensus size: 46
21517438 TCAATTGATT
* * *
21517448 GAAGAAGCCACAAATCCTATACCCATGAGCTGCAATGGGATGGATT
1 GAAGAAACCAAAAATCCTATACCCATGAGCTGCAATGGGATGGATG
* * * * * *
21517494 AAAGATGA-TAAAAATCCTATACCCTTGAGTTGCAGTGGGATGGATG
1 GAAGA-AACCAAAAATCCTATACCCATGAGCTGCAATGGGATGGATG
21517540 GAAGAAACCAAAAAT
1 GAAGAAACCAAAAAT
21517555 TTTATCTCCC
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
45 1 0.02
46 46 0.98
ACGTcount: A:0.39, C:0.17, G:0.23, T:0.21
Consensus pattern (46 bp):
GAAGAAACCAAAAATCCTATACCCATGAGCTGCAATGGGATGGATG
Found at i:21518210 original size:144 final size:143
Alignment explanation
Indices: 21517939--21518213 Score: 329
Period size: 144 Copynumber: 1.9 Consensus size: 143
21517929 AAAGTTGTAA
* * *
21517939 ATCTTATCTCCTTAAAGTTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTTA
1 ATCTTATCTCCTGAAAG-TTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCACTGAAGTTA
* * * * * * *
21518004 CAGCGGAGCAGACTGAAGACAGCATATCTTATTTTCCTGACGTTGCAATAGAACAGATTAAAGCT
65 CAGAGAAGCAGACTGAAAACAGCAGATCTTATTTCCCTGACGTTGCAATAGAACAAACTAAAGCT
21518069 AAAAATTATGGCGG
130 AAAAATTATGGCGG
* * * * *
21518083 ATCTTATCTTCCTGAAA-TTGTAGTGGAGTAGGTTGAAGCCACAAGTCTTATCTCACTGAAGTTG
1 ATCTTATC-TCCTGAAAGTTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCACTGAAGTTA
* * * *
21518147 TAGTAGAAGCAGACTGAAAATAGCAGATCTTATTTCCCTGACGTTGCAGT-GAAATAAACTAAAG
65 CAG-AGAAGCAGACTGAAAACAGCAGATCTTATTTCCCTGACGTTGCAATAG-AACAAACTAAAG
21518211 CTA
128 CTA
21518214 CAAGCCACAA
Statistics
Matches: 109, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
143 43 0.39
144 59 0.54
145 7 0.06
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (143 bp):
ATCTTATCTCCTGAAAGTTGCAGTGGAGCAGATTGAAGCCACAAGCCTTATCTCACTGAAGTTAC
AGAGAAGCAGACTGAAAACAGCAGATCTTATTTCCCTGACGTTGCAATAGAACAAACTAAAGCTA
AAAATTATGGCGG
Found at i:21519799 original size:24 final size:24
Alignment explanation
Indices: 21519751--21519907 Score: 110
Period size: 24 Copynumber: 6.4 Consensus size: 24
21519741 ATTTTATTTA
*
21519751 TTTTAAATT-TTTATATATTAAACTG
1 TTTTATATTATTTAT-T-TTAAACTG
*
21519776 TTTTCTATTATTTATTTTAAACTG
1 TTTTATATTATTTATTTTAAACTG
21519800 TTTCATATATATTATTTATTTTAAA---
1 -TT--T-TATATTATTTATTTTAAACTG
* *
21519825 TTTT-T-TTATTTCTTTTAAAAAATG
1 TTTTATATTATTTATTTT--AAACTG
*
21519849 CTTTATATATTATTTATTTTAAATTG
1 -TTT-TATATTATTTATTTTAAACTG
* *
21519875 CTTTATATTATTTATTTCAAACTG
1 TTTTATATTATTTATTTTAAACTG
*
21519899 TTTTGTATT
1 TTTTATATT
21519908 TTATTTATGT
Statistics
Matches: 107, Mismatches: 11, Indels: 29
0.73 0.07 0.20
Matches are distributed among these distances:
19 10 0.09
20 1 0.01
21 4 0.04
22 1 0.01
24 36 0.34
25 15 0.14
26 11 0.10
27 2 0.02
28 27 0.25
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTTATATTATTTATTTTAAACTG
Found at i:21519833 original size:43 final size:39
Alignment explanation
Indices: 21519716--21519835 Score: 98
Period size: 43 Copynumber: 2.9 Consensus size: 39
21519706 TTGTTAATAG
21519716 TTTTATATATTATTTATTTTAAGCTATTTTATTTATTTTAAAT
1 TTTTATATATTATTTATTTTAA---ATTTT-TTTATTTTAAAT
** * ** *
21519759 TTTTATATATTAAACTGTTTTCTA-TTATTTATTTTAAACT
1 TTTTATATATT-ATTTATTTTAAATTTTTTTATTTTAAA-T
21519799 GTTTCATATATATTATTTATTTTAAATTTTTTTATTT
1 -TTT--TATATATTATTTATTTTAAATTTTTTTATTT
21519836 CTTTTAAAAA
Statistics
Matches: 59, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
39 11 0.19
40 3 0.05
41 4 0.07
42 7 0.12
43 28 0.47
44 6 0.10
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (39 bp):
TTTTATATATTATTTATTTTAAATTTTTTTATTTTAAAT
Found at i:21520000 original size:28 final size:25
Alignment explanation
Indices: 21519781--21520038 Score: 124
Period size: 25 Copynumber: 10.3 Consensus size: 25
21519771 AACTGTTTTC
* *
21519781 TATTATTTATTTTAAACTGTTTCATATA
1 TATTATTTATTTCAAA-T-TTT-TTATA
*
21519809 TATTATTTATTTTAAATTTTTT-TA
1 TATTATTTATTTCAAATTTTTTATA
* *** **
21519833 T-TTCTTT-TAAAAAATGCTTTATA
1 TATTATTTATTTCAAATTTTTTATA
* **
21519856 TATTATTTATTTTAAATTGCTT-TA
1 TATTATTTATTTCAAATTTTTTATA
* *
21519880 TATTATTTATTTCAAACTGTTTTGTA
1 TATTATTTATTTCAAA-TTTTTTATA
* *
21519906 TTTTATTTATGTC-AA-TTTTT-T-
1 TATTATTTATTTCAAATTTTTTATA
* *
21519927 TATTGTTTATTTTGAACCA-TTTTT-T-
1 TATTATTTA-TTTCAA--ATTTTTTATA
* * *
21519952 TGTTATTTATTTTAATTTTTTTCCTATA
1 TATTATTTATTTCAA-ATTTTT--TATA
*
21519980 TATTATTTATTTCAAACTTTTTATA
1 TATTATTTATTTCAAATTTTTTATA
* *
21520005 TATTATTTACTTCGAATTGTTTTATA
1 TATTATTTATTTCAAATT-TTTTATA
21520031 TATTATTT
1 TATTATTT
21520039 TGTTTCGTTT
Statistics
Matches: 178, Mismatches: 37, Indels: 32
0.72 0.15 0.13
Matches are distributed among these distances:
21 7 0.04
22 11 0.06
23 13 0.07
24 34 0.19
25 46 0.26
26 32 0.18
27 6 0.03
28 29 0.16
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.62
Consensus pattern (25 bp):
TATTATTTATTTCAAATTTTTTATA
Found at i:21534648 original size:28 final size:28
Alignment explanation
Indices: 21534616--21534672 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
21534606 GATTATATGC
21534616 ATGTGTTAAAGTTTCATGAAGAAATTCT
1 ATGTGTTAAAGTTTCATGAAGAAATTCT
21534644 ATGTGTTAAAGTTTCATGAAGAAATTCT
1 ATGTGTTAAAGTTTCATGAAGAAATTCT
21534672 A
1 A
21534673 AGTATAAGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.39
Consensus pattern (28 bp):
ATGTGTTAAAGTTTCATGAAGAAATTCT
Found at i:21535617 original size:23 final size:23
Alignment explanation
Indices: 21535576--21535619 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
21535566 AACCCCTAAT
21535576 ATGCATAATTGAATGATTTATGA
1 ATGCATAATTGAATGATTTATGA
*
21535599 ATGCATGA-TGAATGCATTTAT
1 ATGCATAATTGAATG-ATTTAT
21535620 TATTAGCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (23 bp):
ATGCATAATTGAATGATTTATGA
Found at i:21538301 original size:51 final size:51
Alignment explanation
Indices: 21538246--21538413 Score: 187
Period size: 51 Copynumber: 3.3 Consensus size: 51
21538236 TGCATATAGT
* * *
21538246 ACTTTACATAATCAGCAAGCACATACTTTGCATAGACATTTCACACATATA
1 ACTTTACATAATCAGTAAGCACATACTTTGCATAGACAATTCACACATAAA
* * * * * * *
21538297 ACTTTACGTAATTAGTACGCACACACTTTGTATAGACAGTTCACAC--AGA
1 ACTTTACATAATCAGTAAGCACATACTTTGCATAGACAATTCACACATAAA
* * * * *
21538346 ACTTTATATAATTAGTATGCACATACTTTGCATAGAAAATTCATACATAAA
1 ACTTTACATAATCAGTAAGCACATACTTTGCATAGACAATTCACACATAAA
21538397 ACTTTACATAATCAGTA
1 ACTTTACATAATCAGTA
21538414 TGTAACACCC
Statistics
Matches: 96, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 40 0.42
51 56 0.58
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (51 bp):
ACTTTACATAATCAGTAAGCACATACTTTGCATAGACAATTCACACATAAA
Found at i:21549508 original size:12 final size:12
Alignment explanation
Indices: 21549491--21549516 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21549481 ATTACAAAAG
21549491 ACTAGTTCCTAT
1 ACTAGTTCCTAT
21549503 ACTAGTTCCTAT
1 ACTAGTTCCTAT
21549515 AC
1 AC
21549517 ATGCCATAAT
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:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (12 bp):
ACTAGTTCCTAT
Found at i:21550111 original size:48 final size:48
Alignment explanation
Indices: 21550044--21550265 Score: 157
Period size: 49 Copynumber: 4.7 Consensus size: 48
21550034 GGGATAAGAT
* * *
21550044 GCCGACGCCATGTCTCAGACATGGTCTTACATTGGCTAGC-ACATCAAA
1 GCCGATGCCATGTCCCAGACA-GGTCTTACACTGGCTAGCAACATCAAA
* * * ** * *
21550092 GTCGATGCCATGTCCCAGACAGGTTTTACACTGACTTTCATATATCAAG
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTAGCA-ACATCAAA
* ** ** **
21550141 GCCGATGCCGTGTCCCAGACAGGTCTTACACTGGCTCTCATTTATCAGT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTAGCA-ACATCAAA
** * * * *
21550190 GTTGATGCCATGTCCCAGACAGGTTTTACGCTGAC-A-C-ACAAC-AA
1 GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTAGCAACATCAAA
* *
21550234 GCTGACGCCATGTCCCAGACAGGTCTTACACT
1 GCCGATGCCATGTCCCAGACAGGTCTTACACT
21550266 AGCTTGTATA
Statistics
Matches: 138, Mismatches: 34, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
44 28 0.20
45 2 0.01
47 14 0.10
48 18 0.13
49 76 0.55
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.26
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACAGGTCTTACACTGGCTAGCAACATCAAA
Found at i:21550155 original size:49 final size:49
Alignment explanation
Indices: 21550094--21550224 Score: 174
Period size: 49 Copynumber: 2.7 Consensus size: 49
21550084 ACATCAAAGT
*
21550094 CGATGCCATGTCCCAGACAGGTTTTACACTGACTTTCATATATCAAG-GC
1 CGATGCCATGTCCCAGACAGGTTTTACACTGACTCTCATATATC-AGTGC
* * * * *
21550143 CGATGCCGTGTCCCAGACAGGTCTTACACTGGCTCTCATTTATCAGTGT
1 CGATGCCATGTCCCAGACAGGTTTTACACTGACTCTCATATATCAGTGC
* *
21550192 TGATGCCATGTCCCAGACAGGTTTTACGCTGAC
1 CGATGCCATGTCCCAGACAGGTTTTACACTGAC
21550225 ACACAACAAG
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
48 2 0.03
49 68 0.97
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.29
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTTTTACACTGACTCTCATATATCAGTGC
Found at i:21551983 original size:21 final size:21
Alignment explanation
Indices: 21551957--21552015 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
21551947 TCAGCATACT
21551957 CAGATGCATCCACAACA-AAGC
1 CAGATGCATCCACAACAGAA-C
* * *
21551978 CAGATGCATCTACATCAGAAT
1 CAGATGCATCCACAACAGAAC
*
21551999 CAGATGCAACCACAACA
1 CAGATGCATCCACAACA
21552016 CTTTTCAATG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 29 0.94
22 2 0.06
ACGTcount: A:0.42, C:0.31, G:0.14, T:0.14
Consensus pattern (21 bp):
CAGATGCATCCACAACAGAAC
Found at i:21560658 original size:45 final size:45
Alignment explanation
Indices: 21560557--21560675 Score: 127
Period size: 45 Copynumber: 2.7 Consensus size: 45
21560547 AAAAATCCAA
* * *
21560557 CAACCCAAGATTATCTTCTCCTCTATTT--AAATTCTTTTTTCAT
1 CAACCTAAGATTATATTCTCCTCTTTTTAAAAATTCTTTTTTCAT
* *
21560600 CAATCTAAGATTATATTCTCCTTTTTTTAAAAATTCTTTTTTCAAT
1 CAACCTAAGATTATATTCTCCTCTTTTTAAAAATTCTTTTTTC-AT
* * * *
21560646 -GACCTAATATTATCTTCTTCTCTTTTTAAA
1 CAACCTAAGATTATATTCTCCTCTTTTTAAA
21560676 TTTATTTTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
43 23 0.37
45 37 0.60
46 2 0.03
ACGTcount: A:0.28, C:0.20, G:0.03, T:0.50
Consensus pattern (45 bp):
CAACCTAAGATTATATTCTCCTCTTTTTAAAAATTCTTTTTTCAT
Found at i:21562165 original size:5 final size:5
Alignment explanation
Indices: 21562155--21562197 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
21562145 AAGGATATCG
***
21562155 GAAAA GAAAA GAAAA GATGTG GAAAA GAAAA GAAAA GAAAA GA
1 GAAAA GAAAA GAAAA GA-AAA GAAAA GAAAA GAAAA GAAAA GA
21562198 TAAGTTTGTG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
5 29 0.94
6 2 0.06
ACGTcount: A:0.70, C:0.00, G:0.26, T:0.05
Consensus pattern (5 bp):
GAAAA
Found at i:21562876 original size:24 final size:24
Alignment explanation
Indices: 21562755--21562968 Score: 127
Period size: 24 Copynumber: 9.0 Consensus size: 24
21562745 GCATCCCGAT
*
21562755 ATATGGCTCTTCGTGAGCTTCCCG
1 ATATGGCTCTTTGTGAGCTTCCCG
21562779 ATA-GGCTCTTTGTGAGCTTCCCG
1 ATATGGCTCTTTGTGAGCTTCCCG
** * *
21562802 ATA-GTGCTCGCT-TGAACTTCCTG
1 ATATG-GCTCTTTGTGAGCTTCCCG
* ** *
21562825 ATATATGGCTATCCG-GAGCTTCCTG
1 --ATATGGCTCTTTGTGAGCTTCCCG
*
21562850 ATATGGTTCTTTGTGAGCTTCCCG
1 ATATGGCTCTTTGTGAGCTTCCCG
* * * *
21562874 ATATGGTTCTTTGTGAACTACCTG
1 ATATGGCTCTTTGTGAGCTTCCCG
* *
21562898 ATTTCGGCTCTAT-TGAGCTTCCCG
1 ATAT-GGCTCTTTGTGAGCTTCCCG
* * ** *
21562922 TTATAGC-C-CAGATTAGCTTCCCG
1 ATATGGCTCTTTG-TGAGCTTCCCG
* *
21562945 ATATTGCTCTTTATGAGCTTCCCG
1 ATATGGCTCTTTGTGAGCTTCCCG
21562969 TTAAATAGCT
Statistics
Matches: 144, Mismatches: 35, Indels: 22
0.72 0.17 0.11
Matches are distributed among these distances:
22 1 0.01
23 58 0.40
24 62 0.43
25 22 0.15
26 1 0.01
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.36
Consensus pattern (24 bp):
ATATGGCTCTTTGTGAGCTTCCCG
Found at i:21568247 original size:5 final size:5
Alignment explanation
Indices: 21568237--21568264 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
21568227 GTAAGATTTA
21568237 TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TAT
21568265 TAATAGTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:21568299 original size:36 final size:36
Alignment explanation
Indices: 21568235--21568304 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
21568225 TAGTAAGATT
*
21568235 TATATATTATATTATATTATATTATATTATTAATAG
1 TATATATTATATTATATTATATTATATTAGTAATAG
* * *
21568271 TATATATTGTATTACTATTTTA-TGTATTAGTAAT
1 TATATATTATATTA-TATTATATTATATTAGTAAT
21568305 TTATTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
36 23 0.79
37 6 0.21
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (36 bp):
TATATATTATATTATATTATATTATATTAGTAATAG
Found at i:21568437 original size:17 final size:16
Alignment explanation
Indices: 21568392--21568437 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
21568382 ATCATTAAAG
*
21568392 TTTAAT-TTTATAAAT
1 TTTAATATTTATTAAT
*
21568407 TTTAATAATTATTAAT
1 TTTAATATTTATTAAT
21568423 TTTATATATTTATTA
1 TTTA-ATATTTATTA
21568438 TACATATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
15 6 0.23
16 11 0.42
17 9 0.35
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAATATTTATTAAT
Found at i:21569269 original size:3 final size:3
Alignment explanation
Indices: 21569253--21569285 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
21569243 TTTAAAAATA
21569253 ATT ATT AGTT -TT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT
21569286 TTAGATTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.86
4 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:21576410 original size:26 final size:26
Alignment explanation
Indices: 21576381--21576462 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
21576371 TGTGATCACG
21576381 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* * * *
21576407 TGTGTATTA-GATGGTG-AGG-TCAC-G
1 TGTGTAGTACTA-AGTGCAGGCT-ACTA
21576431 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
*
21576457 CGTGTA
1 TGTGTA
21576463 CCAGACTGTT
Statistics
Matches: 41, Mismatches: 9, Indels: 12
0.66 0.15 0.19
Matches are distributed among these distances:
24 12 0.29
25 12 0.29
26 17 0.41
ACGTcount: A:0.24, C:0.13, G:0.30, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:21576451 original size:50 final size:50
Alignment explanation
Indices: 21576318--21576654 Score: 341
Period size: 50 Copynumber: 6.8 Consensus size: 50
21576308 AATGATCTAT
* * *** * *
21576318 TGTGAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATACGTACCCGAAAAC
1 TGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TC--AGAC
* *
21576371 TGTGA--TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATTAGA-
1 TGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAC
*
21576418 TGGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAC
1 T-GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAC
* * * * * * * *
21576469 TGT-TGGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCTGAAAAC
1 TGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA--T-CAGAC
*
21576521 TGTGA--TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-
1 TGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAC
21576568 TGGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CAGAC
1 T-GTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAC
* * *
21576618 TGT-TGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTA
21576655 TGCGTACCAG
Statistics
Matches: 241, Mismatches: 31, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
47 2 0.01
48 43 0.18
49 40 0.17
50 79 0.33
51 66 0.27
52 6 0.02
53 5 0.02
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (50 bp):
TGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGAC
Found at i:21576594 original size:150 final size:149
Alignment explanation
Indices: 21576323--21576662 Score: 635
Period size: 150 Copynumber: 2.3 Consensus size: 149
21576313 TCTATTGTGA
*
21576323 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATACGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
*
21576388 TACTAAGTGCAGGCTACTATGTGTATTAGATGGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCT
66 TACTAAGTGCAGGCTACTACGTGTATTAGATGGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCT
21576453 ACTACGTGTACCAGACTGTT
131 ACTACGTGTA-CAGACTGTT
* *
21576473 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCTGAAAACTGTGATCACGTGTGTAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
21576538 TACTAAGTGCAGGCTACTACGTGTATTAGATGGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCT
66 TACTAAGTGCAGGCTACTACGTGTATTAGATGGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCT
21576603 ACTACGTGTACAGACTGTT
131 ACTACGTGTACAGACTGTT
21576622 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACC
21576663 AGATAGCTTC
Statistics
Matches: 185, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
149 49 0.26
150 136 0.74
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (149 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTGCAGGCTACTACGTGTATTAGATGGTGAGGTCACGTGTGTAGTACTAAGTGCAGGCT
ACTACGTGTACAGACTGTT
Found at i:21576685 original size:101 final size:98
Alignment explanation
Indices: 21576323--21576685 Score: 313
Period size: 101 Copynumber: 3.6 Consensus size: 98
21576313 TCTATTGTGA
* ** * ** * *
21576323 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATACGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAG-ATGCT-TGGTCAAGTGTGTAG
** *
21576388 TACTAAGTGCAGGCTACTATGTGTATTAGA-TGGTGA
64 TACTAAGTGCAGGCTACTATGTGTACCAGACT-GT-T
* * *
21576424 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTG-TTGGTCGCA-TGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGA-TGCTTGGTC-AAGTGTGTAG
* * *
21576487 TACTAAGTGTAGGCTACTATGCGTACCTGAAAACTG-T
64 TACTAAGTGCAGGCTACTATGTGTACC---AGACTGTT
* * * ** * * *
21576524 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTGAGGTCACGTGTGTAGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATGCT-TGGTCAAGTGTGTAGT
*
21576589 ACTAAGTGCAGGCTACTACGTGTA-CAGACTGTT
65 ACTAAGTGCAGGCTACTATGTGTACCAGACTGTT
* *
21576622 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTCGGCTACAAGTGTG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGAT-GCTT-GG-T-CAAGTGTG
21576686 GAAATGGGAA
Statistics
Matches: 211, Mismatches: 37, Indels: 28
0.76 0.13 0.10
Matches are distributed among these distances:
97 5 0.02
98 39 0.18
99 40 0.19
100 46 0.22
101 77 0.36
102 3 0.01
103 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.29
Consensus pattern (98 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCAGATGCTTGGTCAAGTGTGTAGTA
CTAAGTGCAGGCTACTATGTGTACCAGACTGTT
Found at i:21580895 original size:20 final size:21
Alignment explanation
Indices: 21580870--21580909 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21580860 CTCTTCAAAC
*
21580870 AGGGC-ACACGCTCGTGTGGA
1 AGGGCAACACGCTCATGTGGA
21580890 AGGGCAACACGCTCATGTGG
1 AGGGCAACACGCTCATGTGG
21580910 TCATTATACC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.25, G:0.38, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGCTCATGTGGA
Found at i:21582150 original size:49 final size:49
Alignment explanation
Indices: 21582046--21582175 Score: 145
Period size: 49 Copynumber: 2.6 Consensus size: 49
21582036 TGTTAAGATA
* * * *
21582046 CCGACGCCATGTCCCAGACATGGTCTTACACTGGTTTTCATATAGCGAGG
1 CCGATGCCATGTCCCAGACA-GGTCTTACACTAGCTCTCATATAGCGAGG
* * *
21582096 CCGATGCCATATCCCAGACAGGTCTTACACTAGCTCTCATCTATCG-GTG
1 CCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATAGCGAG-G
* * *
21582145 TCGATGCTATGTCCTAGACAGGTCTTACACT
1 CCGATGCCATGTCCCAGACAGGTCTTACACT
21582176 GATAGACAAC
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
48 1 0.01
49 49 0.72
50 18 0.26
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCTCATATAGCGAGG
Found at i:21586898 original size:42 final size:43
Alignment explanation
Indices: 21586826--21586945 Score: 120
Period size: 42 Copynumber: 2.8 Consensus size: 43
21586816 ACATAGAATC
* * *
21586826 CGATATATG-TTTCGTGTAAGACCACGTCTGGGAC-GTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCACATCTGGGACAG-AGGCAT
**
21586868 C-ATATTTGATTTCGTGTAAGACCTTATCTGGGACAGAGGCAT
1 CGATATTTGATTTCGTGTAAGACCACATCTGGGACAGAGGCAT
* * * * *
21586910 CGATATTTGATTACATATAAGACCACGTCTAGGACA
1 CGATATTTGATTTCGTGTAAGACCACATCTGGGACA
21586946 TTGGCATTGT
Statistics
Matches: 63, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
41 6 0.10
42 29 0.46
43 28 0.44
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.31
Consensus pattern (43 bp):
CGATATTTGATTTCGTGTAAGACCACATCTGGGACAGAGGCAT
Found at i:21586952 original size:43 final size:42
Alignment explanation
Indices: 21586842--21586952 Score: 123
Period size: 43 Copynumber: 2.6 Consensus size: 42
21586832 ATGTTTCGTG
* * * *
21586842 TAAGACCACGTCTGGGACGTTGGCATCATATTTGATTTCGTG
1 TAAGACCACGTCTGGGACATTGGCATCATATTTGATTACATA
*** **
21586884 TAAGACCTTATCTGGGACAGAGGCATCGATATTTGATTACATA
1 TAAGACCACGTCTGGGACATTGGCATC-ATATTTGATTACATA
*
21586927 TAAGACCACGTCTAGGACATTGGCAT
1 TAAGACCACGTCTGGGACATTGGCAT
21586953 TGTACGAGCT
Statistics
Matches: 53, Mismatches: 15, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
42 21 0.40
43 32 0.60
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.30
Consensus pattern (42 bp):
TAAGACCACGTCTGGGACATTGGCATCATATTTGATTACATA
Found at i:21589344 original size:3 final size:3
Alignment explanation
Indices: 21589338--21589369 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
21589328 ACAAAAGATA
21589338 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
21589370 GAAGAACTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:21595567 original size:25 final size:27
Alignment explanation
Indices: 21595521--21595570 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
21595511 TGGTTGGATG
*
21595521 TATTATTTTAAATATATTTTAATTATA
1 TATTATTTTAAATATATATTAATTATA
*
21595548 TATTTTTTTAAA-AT-TATTAATTA
1 TATTATTTTAAATATATATTAATTA
21595571 AATGTAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.38
26 2 0.10
27 11 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TATTATTTTAAATATATATTAATTATA
Found at i:21598584 original size:2 final size:2
Alignment explanation
Indices: 21598577--21598602 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21598567 TTAAATTCAC
21598577 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
21598603 TTTATATCGA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21599159 original size:27 final size:26
Alignment explanation
Indices: 21599129--21599185 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
21599119 TTAAAAATTT
*
21599129 TAAA-TAAAATAAAAATTATGATTATTA
1 TAAATTAAAA-AAAAATTATAATT-TTA
* *
21599156 TAAATTTAAAAATAATTATAATTTTA
1 TAAATTAAAAAAAAATTATAATTTTA
21599182 TAAA
1 TAAA
21599186 AGTGGGACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 7 0.27
27 15 0.58
28 4 0.15
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (26 bp):
TAAATTAAAAAAAAATTATAATTTTA
Found at i:21600599 original size:31 final size:31
Alignment explanation
Indices: 21600544--21600609 Score: 75
Period size: 30 Copynumber: 2.1 Consensus size: 31
21600534 GAACTACAAG
21600544 TAAAATTTTATATGCATAATTGCA-TGAAAT
1 TAAAATTTTATATGCATAATTGCATTGAAAT
*
21600574 TAAAATTTATATAT-CA-AATTGTGCATTGAAGT
1 TAAAATTT-TATATGCATAA-T-TGCATTGAAAT
21600606 TAAA
1 TAAA
21600610 TTAATATTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
29 2 0.06
30 11 0.35
31 9 0.29
32 9 0.29
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (31 bp):
TAAAATTTTATATGCATAATTGCATTGAAAT
Found at i:21602655 original size:21 final size:21
Alignment explanation
Indices: 21602631--21602710 Score: 88
Period size: 21 Copynumber: 3.8 Consensus size: 21
21602621 CACATGCTCG
*
21602631 TGTGACTGAGGGACACGGCTA
1 TGTGACTGAGAGACACGGCTA
*
21602652 TGTGGCTGAGAGACACGGCTA
1 TGTGACTGAGAGACACGGCTA
* * * *
21602673 TATGACTGAGATACACGACCA
1 TGTGACTGAGAGACACGGCTA
* *
21602694 TGTAACTGAGATACACG
1 TGTGACTGAGAGACACG
21602711 ACTGTGTGGG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 50 1.00
ACGTcount: A:0.30, C:0.20, G:0.30, T:0.20
Consensus pattern (21 bp):
TGTGACTGAGAGACACGGCTA
Found at i:21602912 original size:15 final size:17
Alignment explanation
Indices: 21602894--21602928 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
21602884 GCACATGGCC
21602894 GTGTGG-AC-CGCCCGT
1 GTGTGGCACACGCCCGT
21602909 GTGTGGCACACGCCCGT
1 GTGTGGCACACGCCCGT
21602926 GTG
1 GTG
21602929 GCTGCCAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 2 0.11
17 10 0.56
ACGTcount: A:0.09, C:0.31, G:0.40, T:0.20
Consensus pattern (17 bp):
GTGTGGCACACGCCCGT
Found at i:21602929 original size:15 final size:15
Alignment explanation
Indices: 21602881--21602930 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
21602871 TAATTTCTAG
* *
21602881 GTGGCACATGGCCGT
1 GTGGCACACGCCCGT
21602896 GTGG-AC-CGCCCGTGT
1 GTGGCACACGCCC--GT
21602911 GTGGCACACGCCCGT
1 GTGGCACACGCCCGT
21602926 GTGGC
1 GTGGC
21602931 TGCCAAGTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
13 3 0.10
14 2 0.07
15 17 0.59
16 2 0.07
17 5 0.17
ACGTcount: A:0.10, C:0.32, G:0.40, T:0.18
Consensus pattern (15 bp):
GTGGCACACGCCCGT
Found at i:21615457 original size:13 final size:13
Alignment explanation
Indices: 21615432--21615498 Score: 64
Period size: 13 Copynumber: 5.2 Consensus size: 13
21615422 ATGGCACAAA
*
21615432 ATATAACCATTTC
1 ATATAATCATTTC
*
21615445 ATGTAATCATTTC
1 ATATAATCATTTC
*
21615458 ATATAACCATTTC
1 ATATAATCATTTC
*
21615471 ATCTGAA-CATTTC
1 ATAT-AATCATTTC
* *
21615484 ATTTGATCATTTC
1 ATATAATCATTTC
21615497 AT
1 AT
21615499 TCACACATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
12 1 0.02
13 42 0.93
14 2 0.04
ACGTcount: A:0.33, C:0.19, G:0.04, T:0.43
Consensus pattern (13 bp):
ATATAATCATTTC
Found at i:21615498 original size:26 final size:26
Alignment explanation
Indices: 21615432--21615485 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
21615422 ATGGCACAAA
*
21615432 ATATAACCATTTCATGTAATCATTTC
1 ATATAACCATTTCATCTAATCATTTC
21615458 ATATAACCATTTCATCTGAA-CATTTC
1 ATATAACCATTTCATCT-AATCATTTC
21615484 AT
1 AT
21615486 TTGATCATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 24 0.92
27 2 0.08
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (26 bp):
ATATAACCATTTCATCTAATCATTTC
Found at i:21616193 original size:12 final size:12
Alignment explanation
Indices: 21616176--21616200 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21616166 ATGTAAGTGA
21616176 TCTTGATGATTT
1 TCTTGATGATTT
21616188 TCTTGATGATTT
1 TCTTGATGATTT
21616200 T
1 T
21616201 TACATTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:21616987 original size:47 final size:46
Alignment explanation
Indices: 21616919--21617230 Score: 193
Period size: 47 Copynumber: 6.7 Consensus size: 46
21616909 TTTGTGCGCT
* *
21616919 AGTGTAAGACATGTCTAGGACATGCTTCGGCCACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
* * * *
21616965 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CATCCA-GACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA--CATTATGAGAGCC
* ** * * *
21617013 AGTGTAAGACATGTCTGGGACATGCTTTAGCCATATTATGAGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
* * * * * ** * *
21617059 AGAGTAAGACATGTTTGGGACATGTATCTGCCTCGACAAAGATAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAGAGCC
* * * * * * *
21617106 AGTGTAAGACGTGTCTAGGACACGCATCGGCCA-A-GA-GTTGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATG-AGAGCC
* *
21617150 AGTGTAAGACATGTCTGGGACATGCATCAGCACGCATATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-CACAT-TATGAGAGCC
* * * *
21617198 AATATAATACCATGTCTGGGGCATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
21617231 ATTTTATTCC
Statistics
Matches: 197, Mismatches: 54, Indels: 26
0.71 0.19 0.09
Matches are distributed among these distances:
43 1 0.01
44 30 0.15
45 3 0.02
46 47 0.24
47 62 0.31
48 31 0.16
49 16 0.08
50 7 0.04
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCC
Found at i:21617071 original size:46 final size:46
Alignment explanation
Indices: 21616916--21617082 Score: 158
Period size: 46 Copynumber: 3.6 Consensus size: 46
21616906 TGATTTGTGC
* ** *
21616916 GCTAGTGTAAGACATGTCTAGGACATGCTTCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCTTTAGCCATATTATGAGA
* * * * * * *
21616962 GCCAGTGTAAGACCATGTCTGGGACATGGC-ATCGGCATCCA-GACGAGG
1 GCTAGTGTAAGA-CATGTCTGGGACAT-GCTTTAGCCAT--ATTATGAGA
*
21617010 GCTAGTGTAAGACATGTCTGGGACATGCTTTAGCCATATTATGAGT
1 GCTAGTGTAAGACATGTCTGGGACATGCTTTAGCCATATTATGAGA
* *
21617056 GCTAGAGTAAGACATGTTTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
21617083 TATCTGCCTC
Statistics
Matches: 96, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
45 1 0.01
46 42 0.44
47 35 0.36
48 17 0.18
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCTTTAGCCATATTATGAGA
Found at i:21620305 original size:39 final size:40
Alignment explanation
Indices: 21620188--21620368 Score: 226
Period size: 40 Copynumber: 4.5 Consensus size: 40
21620178 GCTACTCGTT
*
21620188 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
21620228 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
21620268 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
21620307 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
21620348 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
21620369 GGACATCATT
Statistics
Matches: 123, Mismatches: 13, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 33 0.27
40 75 0.61
41 13 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:21620371 original size:79 final size:81
Alignment explanation
Indices: 21620188--21620368 Score: 228
Period size: 79 Copynumber: 2.3 Consensus size: 81
21620178 GCTACTCGTT
* *
21620188 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
* *
21620252 GATTTAGTAACTCGCA
66 GATATAGTAACTAGCA
* **
21620268 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* *
21620330 GGATATGGTCACTTAGCA
65 GGATATAGTAAC-TAGCA
21620348 CAAA-GCCTTCGGGACTTAGCC
1 CAAATGCCTTCGGGACTTAGCC
21620369 GGACATCATT
Statistics
Matches: 88, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 55 0.62
80 30 0.34
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCG
GATATAGTAACTAGCA
Found at i:21754003 original size:27 final size:27
Alignment explanation
Indices: 21753973--21754128 Score: 145
Period size: 27 Copynumber: 5.7 Consensus size: 27
21753963 TGCTATTCAC
* *
21753973 TCAACTCGCACACTTAGTGCCACGTAA
1 TCAATTCGCACACTTAGTGCCACATAA
* * * *
21754000 TCAAATCGCACCCTTAGTGCTACATAG
1 TCAATTCGCACACTTAGTGCCACATAA
* * **
21754027 TTAGATTCGCACACTTAGTGCCGCATGG
1 TCA-ATTCGCACACTTAGTGCCACATAA
*
21754055 TCAATTCGCACACTTAGTG-CATCATAT
1 TCAATTCGCACACTTAGTGCCA-CATAA
** *
21754082 TCTTTTCGCACACTTAGTGCAACATAA
1 TCAATTCGCACACTTAGTGCCACATAA
21754109 TCGAA-TCGCACACTTAGTGC
1 TC-AATTCGCACACTTAGTGC
21754129 TGTACAATTT
Statistics
Matches: 104, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.01
27 81 0.78
28 22 0.21
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (27 bp):
TCAATTCGCACACTTAGTGCCACATAA
Found at i:21754044 original size:55 final size:55
Alignment explanation
Indices: 21753978--21754129 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 55
21753968 TTCACTCAAC
* *
21753978 TCGCACACTTAGTGCCACGTAATCAAATCGCACCCTTAGTGCTA-CATAGTTAGAT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATA-TTAGAT
* ** * ***
21754033 TCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTAGTGC-ATCATATTCTTT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
* *
21754087 TCGCACACTTAGTGCAACATAATCGAATCGCACACTTAGTGCT
1 TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCT
21754130 GTACAATTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 40 0.50
55 40 0.50
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.29
Consensus pattern (55 bp):
TCGCACACTTAGTGCCACATAATCAAATCGCACACTTAGTGCTATCATATTAGAT
Found at i:21761106 original size:23 final size:18
Alignment explanation
Indices: 21761061--21761098 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
21761051 TTATTTATTT
21761061 ATTTATTTTAAAATAAAA
1 ATTTATTTTAAAATAAAA
21761079 ATTTATTTTAAAATAAAA
1 ATTTATTTTAAAATAAAA
21761097 AT
1 AT
21761099 GTCATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTATTTTAAAATAAAA
Found at i:21761107 original size:18 final size:18
Alignment explanation
Indices: 21761065--21761105 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
21761055 TTATTTATTT
*
21761065 ATTTTAAAATAAAAATTT
1 ATTTTAAAATAAAAATTC
21761083 ATTTTAAAATAAAAATGTC
1 ATTTTAAAATAAAAAT-TC
21761102 ATTT
1 ATTT
21761106 AATTGTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (18 bp):
ATTTTAAAATAAAAATTC
Found at i:21762232 original size:15 final size:15
Alignment explanation
Indices: 21762212--21762241 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21762202 TATCCACATT
21762212 TAATCATAATTTAAA
1 TAATCATAATTTAAA
*
21762227 TAATCATGATTTAAA
1 TAATCATAATTTAAA
21762242 AAAAAGAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.03, T:0.40
Consensus pattern (15 bp):
TAATCATAATTTAAA
Found at i:21766005 original size:18 final size:18
Alignment explanation
Indices: 21765982--21766020 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
21765972 CCACATACAA
*
21765982 AGGTGGTTATTGTGGCAG
1 AGGTGGTTATCGTGGCAG
*
21766000 AGGTGGTTATCGTGGTAG
1 AGGTGGTTATCGTGGCAG
21766018 AGG
1 AGG
21766021 AGGTCGAGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.18, C:0.05, G:0.46, T:0.31
Consensus pattern (18 bp):
AGGTGGTTATCGTGGCAG
Found at i:21774147 original size:50 final size:50
Alignment explanation
Indices: 21774072--21774206 Score: 189
Period size: 50 Copynumber: 2.7 Consensus size: 50
21774062 GGAAAATCCA
* * *
21774072 TATTTAGGAAGTCTTTTGGGTGAGTCACCTATAAATCCTTTATGGCAATT
1 TATTTAGGAAGCCTTTTTGGTGAGTCACCTGTAAATCCTTTATGGCAATT
* * * * *
21774122 TATTTTGGAAGGCTTTTTGGCGAGTCACTTGTAAATCCTTTCTGGCAATT
1 TATTTAGGAAGCCTTTTTGGTGAGTCACCTGTAAATCCTTTATGGCAATT
*
21774172 TATTTAGGAAGCCTTTGTGGTGAGTCACCTGTAAA
1 TATTTAGGAAGCCTTTTTGGTGAGTCACCTGTAAA
21774207 GCCTATGTGG
Statistics
Matches: 73, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 73 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (50 bp):
TATTTAGGAAGCCTTTTTGGTGAGTCACCTGTAAATCCTTTATGGCAATT
Found at i:21777865 original size:23 final size:23
Alignment explanation
Indices: 21777835--21777882 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
21777825 CCTTAGTAAA
*
21777835 TAAGGATCAGTAAAATGCGTATT
1 TAAGGATCAATAAAATGCGTATT
21777858 TAAGGATCAATAAAATGCGTATT
1 TAAGGATCAATAAAATGCGTATT
21777881 TA
1 TA
21777883 CTAAGTAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (23 bp):
TAAGGATCAATAAAATGCGTATT
Found at i:21781945 original size:16 final size:16
Alignment explanation
Indices: 21781924--21781991 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
21781914 TTTGGTTCGC
21781924 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
21781940 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
21781956 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
21781972 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
21781988 TGTA
1 TGTA
21781992 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:21782247 original size:16 final size:16
Alignment explanation
Indices: 21782207--21782261 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
21782197 TTAATCATAT
*
21782207 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
21782223 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
21782238 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
21782256 -TAAAAT
1 TTAAAAT
21782262 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:21782254 original size:18 final size:17
Alignment explanation
Indices: 21782227--21782261 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21782217 TTTTTATTAA
*
21782227 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21782245 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21782262 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21782374 original size:18 final size:17
Alignment explanation
Indices: 21782347--21782381 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
21782337 TTACTATTAA
*
21782347 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
21782365 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
21782382 TCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:21782510 original size:120 final size:120
Alignment explanation
Indices: 21782205--21782488 Score: 437
Period size: 120 Copynumber: 2.4 Consensus size: 120
21782195 ATTTAATCAT
*
21782205 ATTTAAACATAATTTTTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAAT-
* * * * *
21782270 ATT-AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATA
64 ATTAAATATTCTTATATGAATTTACTAAAACCATAATATATAATACTATAAAATATA
* *
21782326 AATTAACATAATTACTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
* *
21782391 TAAATATTCTTATATGAATTTTCTAAAACCATAATATATAATACTATGAAATATA
66 TAAATATTCTTATATGAATTTACTAAAACCATAATATATAATACTATAAAATATA
*
21782446 ATTTAACATAATTATTATTAAATATAATTTAA-TAAAATATATA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATA
21782489 TTTTCAATTA
Statistics
Matches: 149, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
119 14 0.09
120 132 0.89
121 3 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTATATGAATTTACTAAAACCATAATATATAATACTATAAAATATA
Found at i:21784423 original size:19 final size:19
Alignment explanation
Indices: 21784399--21784435 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
21784389 ATAAAATATT
21784399 ATCGTTCAGGTACATATAA
1 ATCGTTCAGGTACATATAA
*
21784418 ATCGTTCAGGTGCATATA
1 ATCGTTCAGGTACATATA
21784436 GAGGTCATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (19 bp):
ATCGTTCAGGTACATATAA
Found at i:21785501 original size:16 final size:15
Alignment explanation
Indices: 21785464--21785493 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21785454 GGAGGGTAAA
*
21785464 ACAGAGAGCAAATCG
1 ACAGAAAGCAAATCG
21785479 ACAGAAAGCAAATCG
1 ACAGAAAGCAAATCG
21785494 GCCAGAAAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.20, G:0.23, T:0.07
Consensus pattern (15 bp):
ACAGAAAGCAAATCG
Found at i:21789564 original size:89 final size:89
Alignment explanation
Indices: 21789413--21789575 Score: 299
Period size: 89 Copynumber: 1.8 Consensus size: 89
21789403 ACTCATAATT
* *
21789413 ATTTTTTTAAAATTTCTAGTGATTTTCAAAAGTTAAGACAGGGGAGTCTAGAATCACTCCAACTC
1 ATTTTTTTAAAATTTATAGTGATTTTCAAAAGTTAAGACAAGGGAGTCTAGAATCACTCCAACTC
*
21789478 TATCTCACAAGAATTCAAATATCC
66 TACCTCACAAGAATTCAAATATCC
21789502 ATTTTTTTAAAATTTATAGTGATTTTCAAAAGTTAAGACAAGGGAGTCTAGAATCACTCCAACTC
1 ATTTTTTTAAAATTTATAGTGATTTTCAAAAGTTAAGACAAGGGAGTCTAGAATCACTCCAACTC
21789567 TACCTCACA
66 TACCTCACA
21789576 TATTCAAAAG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
89 71 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (89 bp):
ATTTTTTTAAAATTTATAGTGATTTTCAAAAGTTAAGACAAGGGAGTCTAGAATCACTCCAACTC
TACCTCACAAGAATTCAAATATCC
Found at i:21790643 original size:123 final size:122
Alignment explanation
Indices: 21790371--21790647 Score: 339
Period size: 123 Copynumber: 2.3 Consensus size: 122
21790361 ATATTGATGC
* * *
21790371 TAGGGACCATGTACA-AGGTCACATATCATAATGGGAGTAAGGCATGCATTTACATTGAGATGTT
1 TAGGGACTATGTACATAAGTCACATATCATAATGGGAGTAAGACATGCATTTACATTGAGATGTT
* * * *
21790435 AGGGACTATTTATGTAGGTCAAATATCACAAAAGGGAATGCATGTAATTTGAGTTAG
66 AAGGACTATGTATATAGATCAAATATCACAAAAGGGAATGCATGTAATTTGAGTTAG
* * *
21790492 TAGGGACTATGTGCATAAGTCGCATATCATAATGGGAGTAAGACATGCATTTACATTGTGATGTT
1 TAGGGACTATGTACATAAGTCACATATCATAATGGGAGTAAGACATGCATTTACATTGAGATGTT
* * * *
21790557 AAGGA-TATAGTATAATA-ATACACATATCATAAGAGGTAATGCATGTAATTTGAGTT-G
66 AAGGACTAT-GTAT-ATAGAT-CAAATATCACAAAAGGGAATGCATGTAATTTGAGTTAG
*
21790614 ATAGAGG-CTATGTACATAAGTCACTTATCATAAT
1 -TAG-GGACTATGTACATAAGTCACATATCATAAT
21790648 AAGGTATGCA
Statistics
Matches: 133, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
121 16 0.12
122 54 0.41
123 61 0.46
124 2 0.02
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (122 bp):
TAGGGACTATGTACATAAGTCACATATCATAATGGGAGTAAGACATGCATTTACATTGAGATGTT
AAGGACTATGTATATAGATCAAATATCACAAAAGGGAATGCATGTAATTTGAGTTAG
Found at i:21790798 original size:141 final size:141
Alignment explanation
Indices: 21790543--21790819 Score: 398
Period size: 141 Copynumber: 2.0 Consensus size: 141
21790533 GACATGCATT
* * *
21790543 TACATTGTGATGTTAAGGATATAGTATAATAATACACATATCATAAGAGGTAATGCATGTAATTT
1 TACATTGTGATGTTAAGGACATAGTATAATAATACACATATCATAAGAGGTAACGCATGCAATTT
* * * *
21790608 GAGTTGATAGAGGCTATGTACATAAGTCACTTATCATAATAAGGTATGCATGTACACATTGATGT
66 CAGTTGATAGAGGCTATGTAAATAAGTCACATATCATAATAAGGCATGCATGTACACATTGATGT
21790673 CAGGGAAAATG
131 CAGGGAAAATG
** *
21790684 TACATTGTGATGTTTGGGACATAGTATAATAGTACACATATCATAAGAAGG-AACGCATGCAATT
1 TACATTGTGATGTTAAGGACATAGTATAATAATACACATATCATAAG-AGGTAACGCATGCAATT
*
21790748 TCAGTT-ATTAG-GGACTATGTAAATAAGTCACATATCATAATAAGGCATGCATGTACATATTGA
65 TCAGTTGA-TAGAGG-CTATGTAAATAAGTCACATATCATAATAAGGCATGCATGTACACATTGA
*
21790811 TGTTAGGGA
128 TGTCAGGGA
21790820 CTAGATATAT
Statistics
Matches: 121, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
140 3 0.02
141 115 0.95
142 3 0.02
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.31
Consensus pattern (141 bp):
TACATTGTGATGTTAAGGACATAGTATAATAATACACATATCATAAGAGGTAACGCATGCAATTT
CAGTTGATAGAGGCTATGTAAATAAGTCACATATCATAATAAGGCATGCATGTACACATTGATGT
CAGGGAAAATG
Found at i:21790836 original size:141 final size:141
Alignment explanation
Indices: 21790563--21790865 Score: 373
Period size: 141 Copynumber: 2.1 Consensus size: 141
21790553 TGTTAAGGAT
* * * *
21790563 ATAGTATAATAATACACATATCATAAGAGGTAATGCATGTAATTTGAGTTGATAGAGGCTATGTA
1 ATAGTATAATAGTACACATATCATAAGAGGTAACGCATGCAATTTCAGTTGATAGAGGCTATGTA
* * * **
21790628 CATAAGTCACTTATCATAATAAGGTATGCATGTACACATTGATGTCAGGGAAAATGTACATTGTG
66 AATAAGTCACATATCATAATAAGGCATGCATGTACACATTGATGTCAGGGAAAATGTACATCATG
*
21790693 ATGTTTGGGAC
131 ATGTTGGGGAC
21790704 ATAGTATAATAGTACACATATCATAAGAAGG-AACGCATGCAATTTCAGTT-ATTAG-GGACTAT
1 ATAGTATAATAGTACACATATCATAAG-AGGTAACGCATGCAATTTCAGTTGA-TAGAGG-CTAT
* * ** *
21790766 GTAAATAAGTCACATATCATAATAAGGCATGCATGTACATATTGATGTTAGGGACTA-GATATAT
63 GTAAATAAGTCACATATCATAATAAGGCATGCATGTACACATTGATGTCAGGGAAAATG-TACAT
*
21790830 CATGATGTTGGGGAT
127 CATGATGTTGGGGAC
*
21790845 GTAGTACT-ATAGTACACATAT
1 ATAGTA-TAATAGTACACATAT
21790866 TATAGTAAGG
Statistics
Matches: 140, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
140 4 0.03
141 132 0.94
142 4 0.03
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.31
Consensus pattern (141 bp):
ATAGTATAATAGTACACATATCATAAGAGGTAACGCATGCAATTTCAGTTGATAGAGGCTATGTA
AATAAGTCACATATCATAATAAGGCATGCATGTACACATTGATGTCAGGGAAAATGTACATCATG
ATGTTGGGGAC
Found at i:21791036 original size:198 final size:198
Alignment explanation
Indices: 21790681--21791041 Score: 460
Period size: 198 Copynumber: 1.8 Consensus size: 198
21790671 GTCAGGGAAA
** *
21790681 ATGTACATTGTGATGTTTGGGACATAGTATAATAGTACACATATCATAAGAAGGAACGCATGCAA
1 ATGTACATTGTGATGTCAGGGACATA-TATAATAGTACACATATCATAAGAAGGAACGCATACAA
* * * *
21790746 TTTCAGTTATTAGGGACTATGTAAATAAGTCACATATCATAATAAGGCATGCATGTACATATTGA
65 TTTAAGTTAGTAAGGACTATATAAATAAGTCACATATCATAATAAGGCATGCATG-ACATATTGA
* * *
21790811 TGTTAGGGACTAGATATATCATGATGTTGGGGATGTAGTACTATAGTACACATATTATAGTAAGG
129 TGTTAGAGACTAGATACATCATGATGTTAGGGATGTAGTACTATAGTACACATATTATAGTAAGG
21790876 CATGT
194 CATGT
* *
21790881 ATGTACATTGTGATGTCAGGGACAT-TATAATAGTACACATATCATAA-AAGGGAATGCATATAA
1 ATGTACATTGTGATGTCAGGGACATATATAATAGTACACATATCATAAGAA-GGAACGCATACAA
* * * * *
21790944 TTTAAGTTGGTAAGGACTATATACATAGGTCACATATTATAATAAGGCATGCATG-CATAATTTA
65 TTTAAGTTAGTAAGGACTATATAAATAAGTCACATATCATAATAAGGCATGCATGACAT-ATTGA
* **
21791008 GTGTTAGAGATTATG-TACATTGTGATGTTAGGGA
129 -TGTTAGAGACTA-GATACATCATGATGTTAGGGA
21791042 CATAGTATAA
Statistics
Matches: 137, Mismatches: 20, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
196 3 0.02
197 6 0.04
198 104 0.76
199 1 0.01
200 23 0.17
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.32
Consensus pattern (198 bp):
ATGTACATTGTGATGTCAGGGACATATATAATAGTACACATATCATAAGAAGGAACGCATACAAT
TTAAGTTAGTAAGGACTATATAAATAAGTCACATATCATAATAAGGCATGCATGACATATTGATG
TTAGAGACTAGATACATCATGATGTTAGGGATGTAGTACTATAGTACACATATTATAGTAAGGCA
TGT
Found at i:21796374 original size:48 final size:47
Alignment explanation
Indices: 21796231--21796462 Score: 185
Period size: 48 Copynumber: 5.0 Consensus size: 47
21796221 AACATAGTAA
*
21796231 GATGCCAATGCCATATCCCAGATATGATCTTACATGGGATCACA---
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATGC
* * ** * *
21796275 GAT-CGAA-GCCAATAGCCCA-ACTATGGTCTTACACAAT-GTCTCATAT-T
1 GATGCCAATGCC-ATATCCCAGA-TATGGTCTT--AC-ATGGGATCACATGC
21796322 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATGTC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATG-C
* * * * * *
21796370 GATGCCAATTCCATGTCCTAGACACGGTCTTATATGGGAT-ATCATAGC
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCA-CAT-GC
* **
21796418 GATGCCAATGCCATGTCCCAGGCATGGTCTTACATGGGATCACAT
1 GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACAT
21796463 ATAACCCTAA
Statistics
Matches: 149, Mismatches: 23, Indels: 28
0.75 0.12 0.14
Matches are distributed among these distances:
42 4 0.03
43 18 0.12
44 3 0.02
45 9 0.06
46 10 0.07
47 4 0.03
48 95 0.64
49 6 0.04
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (47 bp):
GATGCCAATGCCATATCCCAGATATGGTCTTACATGGGATCACATGC
Found at i:21805121 original size:40 final size:39
Alignment explanation
Indices: 21805099--21805294 Score: 250
Period size: 40 Copynumber: 4.9 Consensus size: 39
21805089 AGCCCGGATG
*
21805099 TAACAACCAGCACAAATGCCTTCGGGACTTAACCCGAAAA
1 TAACAACCAGCACGAATGCCTTC-GGACTTAACCCGAAAA
*
21805139 TAGA-AACCAGCATGAATGCCTTCGAGACTTAACCCGAAAA
1 TA-ACAACCAGCACGAATGCCTTCG-GACTTAACCCGAAAA
**
21805179 TAACAACCAGCACGAATGCCTTCGGAACTTAACCCGGGAA
1 TAACAACCAGCACGAATGCCTTCGG-ACTTAACCCGAAAA
* *
21805219 TAACAACCAGCACGATTGCCTTCGAGACTTAACTCGAAAA
1 TAACAACCAGCACGAATGCCTTCG-GACTTAACCCGAAAA
* * *
21805259 TAACAACCAGCATGAATGTCTTTGGGACTTAACCCG
1 TAACAACCAGCACGAATG-CCTTCGGACTTAACCCG
21805295 GATATAATCC
Statistics
Matches: 136, Mismatches: 14, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
39 3 0.02
40 127 0.93
41 6 0.04
ACGTcount: A:0.37, C:0.28, G:0.17, T:0.18
Consensus pattern (39 bp):
TAACAACCAGCACGAATGCCTTCGGACTTAACCCGAAAA
Found at i:21805295 original size:80 final size:80
Alignment explanation
Indices: 21805099--21805296 Score: 290
Period size: 80 Copynumber: 2.5 Consensus size: 80
21805089 AGCCCGGATG
* * *
21805099 TAACAACCAGCACAAATGCCTTCGGGACTTAACCCGAAAATAGAAACCAGCATGAATGCCTTCGA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAATAGAAACCAGCACGAATGCCTTCGA
21805164 GACTTAACCCGAAAA
66 GACTTAACCCGAAAA
* * *
21805179 TAACAACCAGCACGAATGCCTTCGGAACTTAACCCGGGAATA-ACAACCAGCACGATTGCCTTCG
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAATAGA-AACCAGCACGAATGCCTTCG
*
21805243 AGACTTAACTCGAAAA
65 AGACTTAACCCGAAAA
* * *
21805259 TAACAACCAGCATGAATGTCTTTGGGACTTAACCCGGA
1 TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGA
21805297 TATAATCCTC
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 1 0.01
80 104 0.99
ACGTcount: A:0.37, C:0.27, G:0.18, T:0.18
Consensus pattern (80 bp):
TAACAACCAGCACGAATGCCTTCGGGACTTAACCCGGAAATAGAAACCAGCACGAATGCCTTCGA
GACTTAACCCGAAAA
Found at i:21809282 original size:20 final size:20
Alignment explanation
Indices: 21809245--21809282 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21809235 TTTATTTTAA
*
21809245 TTAATTTGATTAATTTAATT
1 TTAATTTGATTAAATTAATT
21809265 TTAA-TTGATTAAAATTAA
1 TTAATTTGATT-AAATTAA
21809283 AAATTTCTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
TTAATTTGATTAAATTAATT
Found at i:21813619 original size:7 final size:6
Alignment explanation
Indices: 21813582--21813615 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
21813572 AGGTGAAATT
*
21813582 AATAAA AACATAA AATAAA AATAAA AATAAA AAT
1 AATAAA AATA-AA AATAAA AATAAA AATAAA AAT
21813616 TAAATTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:21820544 original size:103 final size:104
Alignment explanation
Indices: 21820365--21820629 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
21820355 AACCGTTATT
* * * *
21820365 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
21820430 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
21820468 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
21820532 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
21820572 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
21820630 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:21820991 original size:30 final size:29
Alignment explanation
Indices: 21820957--21821021 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
21820947 TAATCCACCA
21820957 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
21820987 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
21821017 CCCAA
1 CCCAA
21821022 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:21820995 original size:31 final size:30
Alignment explanation
Indices: 21820964--21821021 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21820954 CCACCCAACT
21820964 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
21820994 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
21821022 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:21827913 original size:26 final size:26
Alignment explanation
Indices: 21827883--21827932 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
21827873 CCACTTAATC
*
21827883 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACATAGCAACCCCTT
21827909 GGGGAATCAGCACATAGCAACCCC
1 GGGGAATCAGCACATAGCAACCCC
21827933 CTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (26 bp):
GGGGAATCAGCACATAGCAACCCCTT
Found at i:21828079 original size:104 final size:102
Alignment explanation
Indices: 21827850--21828113 Score: 404
Period size: 104 Copynumber: 2.6 Consensus size: 102
21827840 AACCGTTATT
* * * *
21827850 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGAA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTGGGGGAA
** *
21827915 TCAGCACATAGCAACCCCCTTTTTATTTCAGAGATAC
66 TCAGCACATAGCAACCCCCTTTACATTTCAAAGATAC
21827952 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCT-GGGGG
21828016 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
64 AATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATAC
* **
21828056 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
21828114 TTATGTACAA
Statistics
Matches: 148, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
101 1 0.01
102 53 0.36
103 28 0.19
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (102 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTGGGGGAA
TCAGCACATAGCAACCCCCTTTACATTTCAAAGATAC
Found at i:21828475 original size:30 final size:29
Alignment explanation
Indices: 21828441--21828505 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
21828431 TAATCCACCA
21828441 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
21828471 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
21828501 CCCAA
1 CCCAA
21828506 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:21828479 original size:31 final size:30
Alignment explanation
Indices: 21828448--21828505 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21828438 CCACCCAACT
21828448 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
21828478 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
21828506 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:21829350 original size:13 final size:13
Alignment explanation
Indices: 21829332--21829358 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21829322 GCTCGGCAGG
21829332 GACACGCCCGTGT
1 GACACGCCCGTGT
21829345 GACACGCCCGTGT
1 GACACGCCCGTGT
21829358 G
1 G
21829359 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:21837403 original size:42 final size:42
Alignment explanation
Indices: 21837357--21837505 Score: 163
Period size: 42 Copynumber: 3.5 Consensus size: 42
21837347 AGTTATCATT
* * * *
21837357 TAAGACCATATTTGGGATATGGCGTTGATATGAGATTTTGTG
1 TAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCGTG
* * * *
21837399 TAAGACCATATCTGGGACATGGCGTCGAAATGATAATTCGTA
1 TAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCGTG
* * * * *
21837441 TAAGACCATATCTGGGATATGGCATCGATGTGAGATTCCATG
1 TAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCGTG
* *
21837483 TAAGACCATGTTTGGGACATGGC
1 TAAGACCATATCTGGGACATGGC
21837506 ATTGGCATCT
Statistics
Matches: 87, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (42 bp):
TAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCGTG
Found at i:21843110 original size:26 final size:26
Alignment explanation
Indices: 21843080--21843129 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
21843070 CCACTTAATC
*
21843080 GGGGAATCAGCACTTAGCAACCCCTT
1 GGGGAATCAGCACATAGCAACCCCTT
21843106 GGGGAATCAGCACATAGCAACCCC
1 GGGGAATCAGCACATAGCAACCCC
21843130 CTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.30, C:0.32, G:0.24, T:0.14
Consensus pattern (26 bp):
GGGGAATCAGCACATAGCAACCCCTT
Found at i:21843276 original size:104 final size:102
Alignment explanation
Indices: 21843047--21843310 Score: 404
Period size: 104 Copynumber: 2.6 Consensus size: 102
21843037 AACCGTTATT
* * * *
21843047 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGAA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTGGGGGAA
** *
21843112 TCAGCACATAGCAACCCCCTTTTTATTTCAGAGATAC
66 TCAGCACATAGCAACCCCCTTTACATTTCAAAGATAC
21843149 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCT-GGGGG
21843213 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
64 AATCAGCACATAGCAACCCCCTTT-ACATTTCAAAGATAC
* **
21843253 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
21843311 TTATGTACAA
Statistics
Matches: 148, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
101 1 0.01
102 53 0.36
103 28 0.19
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (102 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTGGGGGAA
TCAGCACATAGCAACCCCCTTTACATTTCAAAGATAC
Found at i:21843672 original size:30 final size:29
Alignment explanation
Indices: 21843638--21843702 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
21843628 TAATCCACCA
21843638 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
21843668 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
21843698 CCCAA
1 CCCAA
21843703 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:21843676 original size:31 final size:30
Alignment explanation
Indices: 21843645--21843702 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21843635 CCACCCAACT
21843645 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
21843675 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
21843703 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:21850709 original size:103 final size:104
Alignment explanation
Indices: 21850530--21850794 Score: 417
Period size: 103 Copynumber: 2.6 Consensus size: 104
21850520 AACCGTTATT
* * * *
21850530 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
21850595 ATCAGCACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
21850633 GGTGGATATCGCACTTAGCACCACCAATGAA-CTGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 GGTGGATATCGCACTTAGCACCACCAATGAATC-GGGGAATCAGCACTTAGCAACCCCTCGGGGG
21850697 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
65 AATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
21850737 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
21850795 TTATGTACAA
Statistics
Matches: 149, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
102 1 0.01
103 82 0.55
104 65 0.44
105 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.20
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:21851156 original size:30 final size:29
Alignment explanation
Indices: 21851122--21851186 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
21851112 TAATCCACCA
21851122 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
21851152 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
21851182 CCCAA
1 CCCAA
21851187 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:21851160 original size:31 final size:30
Alignment explanation
Indices: 21851129--21851186 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
21851119 CCACCCAACT
21851129 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
21851159 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
21851187 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:21852033 original size:13 final size:13
Alignment explanation
Indices: 21852015--21852041 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
21852005 GCTCGGCAGG
21852015 GACACGCCCGTGT
1 GACACGCCCGTGT
21852028 GACACGCCCGTGT
1 GACACGCCCGTGT
21852041 G
1 G
21852042 CGATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:21860090 original size:42 final size:42
Alignment explanation
Indices: 21860044--21860192 Score: 163
Period size: 42 Copynumber: 3.5 Consensus size: 42
21860034 AGTTATCATT
* * * *
21860044 TAAGACCATATTTGGGATATGGCGTTGATATGAGATTTTGTG
1 TAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCGTG
* * * *
21860086 TAAGACCATATCTGGGACATGGCGTCGAAATGATAATTCGTA
1 TAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCGTG
* * * * *
21860128 TAAGACCATATCTGGGATATGGCATCGATGTGAGATTCCATG
1 TAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCGTG
* *
21860170 TAAGACCATGTTTGGGACATGGC
1 TAAGACCATATCTGGGACATGGC
21860193 ATTGGCATCT
Statistics
Matches: 87, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 87 1.00
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (42 bp):
TAAGACCATATCTGGGACATGGCGTCGATATGAGATTTCGTG
Found at i:21865069 original size:31 final size:31
Alignment explanation
Indices: 21865029--21865098 Score: 113
Period size: 31 Copynumber: 2.2 Consensus size: 31
21865019 AGAGCTATGA
* *
21865029 ATACTTAGTTGATTGTGTCCGACGATGATTCC
1 ATAC-TAGTTGATTGTGTCCGACGAAGAATCC
21865061 ATACTAGTTGATTGTGTCCGACGAAGAATCC
1 ATACTAGTTGATTGTGTCCGACGAAGAATCC
21865092 ATACTAG
1 ATACTAG
21865099 CGGAGTTGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
31 32 0.89
32 4 0.11
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (31 bp):
ATACTAGTTGATTGTGTCCGACGAAGAATCC
Found at i:21867885 original size:42 final size:42
Alignment explanation
Indices: 21867838--21867986 Score: 172
Period size: 42 Copynumber: 3.5 Consensus size: 42
21867828 ACTTATCATT
** *
21867838 TAAGACCATATCTGGGATATGATGTTGATATGAGATTTCGTG
1 TAAGACCATATCTGGGATATGGCGTCGATATGAGATTTCGTG
* * * * *
21867880 TAAGACCATGTCTGGGACATGGCGTCGAAATGAGAATTCGTA
1 TAAGACCATATCTGGGATATGGCGTCGATATGAGATTTCGTG
* * * *
21867922 TAAGACCATATCTGGGATATGGCATCGATGTGAGATTCCATG
1 TAAGACCATATCTGGGATATGGCGTCGATATGAGATTTCGTG
* *
21867964 TAAGACCATGTCTGGGACATGGC
1 TAAGACCATATCTGGGATATGGC
21867987 ATTGGCATCT
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCGTCGATATGAGATTTCGTG
Found at i:21879023 original size:16 final size:16
Alignment explanation
Indices: 21879002--21879037 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
21878992 AGAGGGGTAG
21879002 GAGCAAGAGGGATTCA
1 GAGCAAGAGGGATTCA
21879018 GAGCAAGAGGGATTCA
1 GAGCAAGAGGGATTCA
21879034 GAGC
1 GAGC
21879038 CCTCAAGTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.14, G:0.39, T:0.11
Consensus pattern (16 bp):
GAGCAAGAGGGATTCA
Found at i:21880414 original size:18 final size:20
Alignment explanation
Indices: 21880376--21880414 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
21880366 GATTTCGTAC
*
21880376 TTTGGCCCATTTTCTTCGTT
1 TTTGGCCCAGTTTCTTCGTT
21880396 TTTGGCCC-GTTTC-TCGTT
1 TTTGGCCCAGTTTCTTCGTT
21880414 T
1 T
21880415 CTTTCTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 6 0.33
19 4 0.22
20 8 0.44
ACGTcount: A:0.03, C:0.26, G:0.18, T:0.54
Consensus pattern (20 bp):
TTTGGCCCAGTTTCTTCGTT
Found at i:21883101 original size:93 final size:93
Alignment explanation
Indices: 21882989--21883160 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
21882979 GCCCATAAGT
* *
21882989 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
21883054 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
21883082 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
21883147 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
21883161 CAAATATCCT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:21883156 original size:46 final size:46
Alignment explanation
Indices: 21882981--21883156 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
21882971 TGTAACCCGC
* *
21882981 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
21883027 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
21883073 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
21883120 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
21883157 TGCCCAAATA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 70 0.63
47 32 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:21885576 original size:29 final size:29
Alignment explanation
Indices: 21885539--21885622 Score: 100
Period size: 29 Copynumber: 2.9 Consensus size: 29
21885529 GATAACAAGA
*
21885539 AAACC-GAATAAAGAAATCCAAGATAGAG
1 AAACCAGAATAAAGAAATCCAAGATAAAG
21885567 AAACCAGAATAAAGAAATCC-AGAATAAAG
1 AAACCAGAATAAAGAAATCCAAG-ATAAAG
* * *
21885596 AGATCCAGGATAAAGAAACCCAAGATA
1 A-AACCAGAATAAAGAAATCCAAGATA
21885623 CGATACTATG
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.15
29 20 0.42
30 19 0.40
31 2 0.04
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (29 bp):
AAACCAGAATAAAGAAATCCAAGATAAAG
Found at i:21885588 original size:15 final size:15
Alignment explanation
Indices: 21885535--21885613 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
21885525 CAAAGATAAC
*
21885535 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
21885549 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
*
21885564 GAGAAA-CCAGAATA
1 AAGAAATCCAGAATA
21885578 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
21885593 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
21885608 AAGAAA
1 AAGAAA
21885614 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
14 20 0.36
15 35 0.64
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:21885622 original size:15 final size:15
Alignment explanation
Indices: 21885546--21885622 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
21885536 AGAAAACCGA
21885546 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
21885561 ATAGAGAAA-CC-AG
1 ATAAAGAAATCCAAG
21885574 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
21885589 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
21885605 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
21885620 ATA
1 ATA
21885623 CGATACTATG
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
13 2 0.04
14 10 0.19
15 39 0.75
16 1 0.02
ACGTcount: A:0.57, C:0.14, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:21888585 original size:46 final size:45
Alignment explanation
Indices: 21888518--21888691 Score: 201
Period size: 46 Copynumber: 3.8 Consensus size: 45
21888508 TGTAACCCGC
* *
21888518 CCATAAGTGAACTCTGACTCAACTCAACGAGCTCAGACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACG-TCGCAT
*
21888564 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-C-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTCGC-A--T
* *** *
21888610 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGAC-TCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGTCGCAT
*
21888655 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
21888692 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 1 0.01
44 31 0.28
45 5 0.05
46 41 0.38
47 30 0.28
48 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGTCGCAT
Found at i:21888683 original size:91 final size:92
Alignment explanation
Indices: 21888526--21888695 Score: 288
Period size: 91 Copynumber: 1.8 Consensus size: 92
21888516 GCCCATAAGT
*
21888526 GAACTCTGACTCAACTCAACGAGCTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACG-TCGCATCCATAAGTGAACTCGGACTCAACTCAA
21888591 CGAGCTCGGATGCCTAGTTACATCTCTC
65 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
21888619 GAACTCGGACTCAACTCAACGAGTTCGGAC-TCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCAGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
21888683 GAGTTCGGATGCC
66 GAGCTCGGATGCC
21888696 CAAATATCCT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
91 46 0.63
93 27 0.37
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACGTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTC
Found at i:21901462 original size:15 final size:15
Alignment explanation
Indices: 21901444--21901474 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21901434 CATATTCATC
*
21901444 TTATCAAAAATTCAA
1 TTATAAAAAATTCAA
21901459 TTATAAAAAATTCAA
1 TTATAAAAAATTCAA
21901474 T
1 T
21901475 CACATATCTA
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:0.55, C:0.10, G:0.00, T:0.35
Consensus pattern (15 bp):
TTATAAAAAATTCAA
Found at i:21901726 original size:38 final size:38
Alignment explanation
Indices: 21901683--21901759 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
21901673 TTTCAAATTA
21901683 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * *
21901721 ACATGTTTAACTGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
21901759 A
1 A
21901760 ATGAACCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Done.