Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 120 of 168
Found at i:34827610 original size:132 final size:132
Alignment explanation
Indices: 34827373--34828262 Score: 1433
Period size: 132 Copynumber: 6.7 Consensus size: 132
34827363 TAGAACTTAC
* * *
34827373 AATCTTCAACCTATTCCACTGCTGACTAGGG-AGATATG-ATTACTGGCTTCAATGTACTCCACT
1 AATCTTCAATCTATTCCACTGTTGTCTAGGGAAG-TA-GAATTACTGGCTTCAATGTACTCCACT
* * *
34827436 GTAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGGGATAAGAC
64 ATAACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGAT
34827501 CTGA
129 CTGA
* *
34827505 AATCTTCAATCTATTCCACTGTTGTCCAGGGAAGTAGAATTATTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
* *
34827570 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGGGATAAGACCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
34827635 GA
131 GA
34827637 AATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
34827702 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
*
34827767 AA
131 GA
* * * * *
34827769 AATCTTCAATTTATTCCACTGTTTTTTAGGGAAGTAGAATTAATGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
* *
34827834 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATAT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
34827899 GA
131 GA
* * *
34827901 AATCTTCAATCTATTCCACTATTGCCCAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
*
34827966 AACCACTGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
34828031 GA
131 GA
* * * * *
34828033 AATCTTCAATCTATTCCACTATTGCCCAAGGAAGTAGAATTACTGGCTTCAATATACTCCACTAT
1 AATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
*
34828098 AACCACAGGGAGGTAAAATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
34828163 GA
131 GA
* * *
34828165 AATCTTCAATCTATTCCACTGTTGTATAGAGAAGTAGAATTACTGGCTTCAATGTACTCCACTGT
1 AATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
*** *
34828230 AACCACAAAAAGGTAAAATCTGCCATCTTCGAT
66 AACCACAGGGAGGTAAAATCCGCCATCTTCGAT
34828263 ATACTTCGCT
Statistics
Matches: 709, Mismatches: 47, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
131 1 0.00
132 706 1.00
133 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
AATCTTCAATCTATTCCACTGTTGTCTAGGGAAGTAGAATTACTGGCTTCAATGTACTCCACTAT
AACCACAGGGAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
GA
Found at i:34827932 original size:44 final size:44
Alignment explanation
Indices: 34827858--34828184 Score: 132
Period size: 44 Copynumber: 7.4 Consensus size: 44
34827848 AAAATCCGCC
* * * **
34827858 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAAATATGAA
1 ATCTTCAATCTACTCCACTATTGCCCAGGGAGATAAAATATGAA
* *
34827902 ATCTTCAATCTATTCCACTATTGCCCAGGGA-AGTAGAATTACTG--
1 ATCTTCAATCTACTCCACTATTGCCCAGGGAGA-TA-AAATA-TGAA
* * ** * * ** **
34827946 -GCTTCAATGTACTCCACTATAACCACTGGGAGGTAAAATCCGCC
1 ATCTTCAATCTACTCCACTATTGCC-CAGGGAGATAAAATATGAA
* * * ** * *
34827990 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTATTGCCCAGGGAGATAAAATATGAA
* * *
34828034 ATCTTCAATCTATTCCACTATTGCCCAAGGA-AGTAGAATTACTG--
1 ATCTTCAATCTACTCCACTATTGCCCAGGGAGA-TA-AAATA-TGAA
* * ** * **
34828078 -GCTTCAATATACTCCACTATAACCACAGGGAGGTAAAAT-TCGCC
1 ATCTTCAATCTACTCCACTATTGCC-CAGGGAGATAAAATAT-GAA
* * * ** * *
34828122 ATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGAA
1 ATCTTCAATCTACTCCACTATTGCCCAGGGAGATAAAATATGAA
*
34828166 ATCTTCAATCTATTCCACT
1 ATCTTCAATCTACTCCACT
34828185 GTTGTATAGA
Statistics
Matches: 199, Mismatches: 66, Indels: 36
0.66 0.22 0.12
Matches are distributed among these distances:
41 1 0.01
42 2 0.01
43 46 0.23
44 107 0.54
45 39 0.20
46 4 0.02
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTATTGCCCAGGGAGATAAAATATGAA
Found at i:34835184 original size:19 final size:19
Alignment explanation
Indices: 34835160--34835213 Score: 108
Period size: 19 Copynumber: 2.8 Consensus size: 19
34835150 AATTATATCT
34835160 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
34835179 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
34835198 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
34835214 CCTGAAGATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:34838201 original size:92 final size:92
Alignment explanation
Indices: 34837990--34838217 Score: 248
Period size: 92 Copynumber: 2.5 Consensus size: 92
34837980 TGCTTGAGAC
* * * * * * * *
34837990 CCATCCAAACACAATCAGAAAGCACATAATTACTAAGCCCAAAGGTATCATATCACGACCCTCCA
1 CCATCCAAACAAAACCA-AAAGCACATAAGTGCTAAGCTCGAAGGCATCACATCACGACCCTCCA
* *
34838055 AACAGAACCATATTGCACATAAGTGCAT
65 AACACAACCATATTACACATAAGTGCAT
* * *
34838083 CCATCCAAACACAATCGAAGAA-CACATAAGTGCTAAGCTCGAAGGCATCACATCAC-ATCCTTC
1 CCATCCAAACA-AAACCAA-AAGCACATAAGTGCTAAGCTCGAAGGCATCACATCACGA-CCCTC
*
34838146 C-AACACAACCATATTATACATGAA-TGCAT
63 CAAACACAACCATATTACACAT-AAGTGCAT
34838175 CCATCCAAACAAAACCATAAAGCACATAAGTGCTAAGCTCGAA
1 CCATCCAAACAAAACCA-AAAGCACATAAGTGCTAAGCTCGAA
34838218 AGCTAAAAAG
Statistics
Matches: 113, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
91 6 0.05
92 56 0.50
93 47 0.42
94 4 0.04
ACGTcount: A:0.42, C:0.29, G:0.11, T:0.18
Consensus pattern (92 bp):
CCATCCAAACAAAACCAAAAGCACATAAGTGCTAAGCTCGAAGGCATCACATCACGACCCTCCAA
ACACAACCATATTACACATAAGTGCAT
Found at i:34839260 original size:16 final size:16
Alignment explanation
Indices: 34839239--34839269 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
34839229 ATCAAAATCT
34839239 CATAGATACTCGGGGC
1 CATAGATACTCGGGGC
34839255 CATAGATACTCGGGG
1 CATAGATACTCGGGG
34839270 AAGAAGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.32, T:0.19
Consensus pattern (16 bp):
CATAGATACTCGGGGC
Found at i:34839648 original size:33 final size:33
Alignment explanation
Indices: 34839611--34839700 Score: 126
Period size: 33 Copynumber: 2.7 Consensus size: 33
34839601 TACTCTCTAT
* *
34839611 TTGGTGTGCTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATAAGCA
* *
34839644 TTGGTGTGATGGTCGGTTTAGCTCTTATAAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATAAGCA
* *
34839677 TTGGTGTGATGGATGGATTGGCTC
1 TTGGTGTGATGGTTGGATTAGCTC
34839701 AAGTGAGCGT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.16, C:0.11, G:0.34, T:0.39
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTTATAAGCA
Found at i:34841171 original size:20 final size:21
Alignment explanation
Indices: 34841146--34841193 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
34841136 AATTTTTTAA
34841146 CTTAAACCCTGAACTC-AAAT
1 CTTAAACCCTGAACTCTAAAT
* *
34841166 CTTAAAGCTTGAACTCTAAAT
1 CTTAAACCCTGAACTCTAAAT
34841187 CTTAAAC
1 CTTAAAC
34841194 TTGGCATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.40, C:0.25, G:0.06, T:0.29
Consensus pattern (21 bp):
CTTAAACCCTGAACTCTAAAT
Found at i:34841242 original size:21 final size:21
Alignment explanation
Indices: 34841218--34841262 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
34841208 TAGGGTTAAA
*
34841218 GTTCAAGGTTCTAGGTTTGGG
1 GTTCAAGGTTCGAGGTTTGGG
* *
34841239 GTTCATGGTTCGGGGTTTGGG
1 GTTCAAGGTTCGAGGTTTGGG
34841260 GTT
1 GTT
34841263 TGGTGTTCGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.09, C:0.09, G:0.42, T:0.40
Consensus pattern (21 bp):
GTTCAAGGTTCGAGGTTTGGG
Found at i:34841262 original size:14 final size:14
Alignment explanation
Indices: 34841231--34841291 Score: 50
Period size: 14 Copynumber: 4.4 Consensus size: 14
34841221 CAAGGTTCTA
*
34841231 GGTTTGGGGTTCAT
1 GGTTTGGGGTTCAG
* **
34841245 GGTTCGGGGTTTGG
1 GGTTTGGGGTTCAG
* *
34841259 GGTTTGGTGTTCGG
1 GGTTTGGGGTTCAG
**
34841273 GGTTCAGGGTTCAG
1 GGTTTGGGGTTCAG
34841287 GGTTT
1 GGTTT
34841292 AGCTTACAAA
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 35 1.00
ACGTcount: A:0.05, C:0.08, G:0.48, T:0.39
Consensus pattern (14 bp):
GGTTTGGGGTTCAG
Found at i:34852100 original size:23 final size:23
Alignment explanation
Indices: 34852074--34852241 Score: 309
Period size: 23 Copynumber: 7.3 Consensus size: 23
34852064 ATAAGTGCCA
*
34852074 CACTGATATGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
34852097 CACTGATACGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
34852120 CACTGATACGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
*
34852143 CACTGATACGTACCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
*
34852166 CACTGATATGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
34852189 CACTGATACGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
34852212 CACTGATACGTAGCCGAAGCTAC
1 CACTGATACGTAGCCGAAGCTAC
34852235 CACTGAT
1 CACTGAT
34852242 CAATAACACT
Statistics
Matches: 140, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 140 1.00
ACGTcount: A:0.30, C:0.30, G:0.21, T:0.19
Consensus pattern (23 bp):
CACTGATACGTAGCCGAAGCTAC
Found at i:34854266 original size:20 final size:20
Alignment explanation
Indices: 34854225--34854269 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
34854215 CATTCACCAT
*
34854225 CTTTTCCATCTATCTTCTTC
1 CTTTTCCATCTATCTCCTTC
*
34854245 CTTTTCCA-CTTTCTCCTCTC
1 CTTTTCCATCTATCTCCT-TC
34854265 CTTTT
1 CTTTT
34854270 ATACTTATCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.07, C:0.38, G:0.00, T:0.56
Consensus pattern (20 bp):
CTTTTCCATCTATCTCCTTC
Found at i:34864671 original size:4 final size:4
Alignment explanation
Indices: 34864662--34864687 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
34864652 CTGCCGGGAC
34864662 CATA CATA CATA CATA CATA CATA CA
1 CATA CATA CATA CATA CATA CATA CA
34864688 GTTGTTGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.27, G:0.00, T:0.23
Consensus pattern (4 bp):
CATA
Found at i:34867791 original size:6 final size:6
Alignment explanation
Indices: 34867780--34867811 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
34867770 CATCCGAAGA
34867780 TCCATT TCCATT TCCATT TCCATT TCCATT TC
1 TCCATT TCCATT TCCATT TCCATT TCCATT TC
34867812 TTTTTCCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.34, G:0.00, T:0.50
Consensus pattern (6 bp):
TCCATT
Found at i:34876813 original size:5 final size:5
Alignment explanation
Indices: 34876803--34876829 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
34876793 TATTGATTAT
34876803 TTGAA TTGAA TTGAA TTGAA TTGAA TT
1 TTGAA TTGAA TTGAA TTGAA TTGAA TT
34876830 TCAAAATTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.44
Consensus pattern (5 bp):
TTGAA
Found at i:34877003 original size:17 final size:18
Alignment explanation
Indices: 34876981--34877015 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
34876971 ATCTAAGAAG
34876981 TTAG-TTATTATAAAATA
1 TTAGTTTATTATAAAATA
34876998 TTAGTTTATTATAAAATA
1 TTAGTTTATTATAAAATA
34877016 AATTCCGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (18 bp):
TTAGTTTATTATAAAATA
Found at i:34881137 original size:28 final size:29
Alignment explanation
Indices: 34881082--34881138 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
34881072 CACTTTCAAA
* *
34881082 TTTGACAGGGACTAAATTGCTCCAATTTT
1 TTTGACAGGGACCAAATTGCTCAAATTTT
* *
34881111 TTTGAGAGGGACCAATTTGCT-AAATTTT
1 TTTGACAGGGACCAAATTGCTCAAATTTT
34881139 AAAATTAGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (29 bp):
TTTGACAGGGACCAAATTGCTCAAATTTT
Found at i:34885656 original size:61 final size:59
Alignment explanation
Indices: 34885579--34885691 Score: 149
Period size: 61 Copynumber: 1.9 Consensus size: 59
34885569 CATATGCTCA
* *
34885579 TAATTATATTTATTAATTT-GTAAAAAGAATGAATCATATAATCAATTTCTAATTTAGTGTT
1 TAATTATATTTATTAATTTAATAAAAA-AATCAA-CAT-TAATCAATTTCTAATTTAGTGTT
*
34885640 TAATT-TATTTATTTAATTTAATAAAAAAATCAACATTAATCAATTTTTAATT
1 TAATTATATTTA-TTAATTTAATAAAAAAATCAACATTAATCAATTTCTAATT
34885692 ATACAATGTT
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
59 15 0.32
60 9 0.19
61 17 0.36
62 6 0.13
ACGTcount: A:0.43, C:0.05, G:0.04, T:0.47
Consensus pattern (59 bp):
TAATTATATTTATTAATTTAATAAAAAAATCAACATTAATCAATTTCTAATTTAGTGTT
Found at i:34889906 original size:50 final size:50
Alignment explanation
Indices: 34889844--34890057 Score: 148
Period size: 50 Copynumber: 4.3 Consensus size: 50
34889834 GATCTGTAAT
* *
34889844 CTTCAATTTGTTCAACTGCAATGTCGGGGAAACCAGATCCGCCGTCGTGG
1 CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCGTGG
** * * *** *
34889894 CTTCAATCTGTTCCGCTGCACTG-CTAAGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATGTC-AGGGAAACCAGATCCGCCGTCGTGG
* * *
34889944 CTTTAATCT-TTTAAATCGCAA-GATCAGGGAAACCAGATCCGCCGTCGTGG
1 CTTCAATCTGTTCAACT-GCAATG-TCAGGGAAACCAGATCCGCCGTCGTGG
* * ** * * *** *
34889994 CTTCAACCTGCTCCGCTGCACTG-CTAAGGAAGTAAGATCCGCCGTTGTGG
1 CTTCAATCTGTTCAACTGCAATGTC-AGGGAAACCAGATCCGCCGTCGTGG
*
34890044 CTTCAATCTTTTCA
1 CTTCAATCTGTTCA
34890058 CTTTTCAACC
Statistics
Matches: 119, Mismatches: 38, Indels: 14
0.70 0.22 0.08
Matches are distributed among these distances:
49 6 0.05
50 109 0.92
51 4 0.03
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (50 bp):
CTTCAATCTGTTCAACTGCAATGTCAGGGAAACCAGATCCGCCGTCGTGG
Found at i:34890043 original size:100 final size:100
Alignment explanation
Indices: 34889870--34890055 Score: 345
Period size: 100 Copynumber: 1.9 Consensus size: 100
34889860 TGCAATGTCG
* *
34889870 GGGAAACCAGATCCGCCGTCGTGGCTTCAATCTGTTCCGCTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCCGCCGTCGTGGCTTCAACCTGCTCCGCTGCACTGCTAAGGAAGTAAGATCCG
*
34889935 CCGTTGTGGCTTTAATCTTTTAAATCGCAAGATCA
66 CCGTTGTGGCTTCAATCTTTTAAATCGCAAGATCA
34889970 GGGAAACCAGATCCGCCGTCGTGGCTTCAACCTGCTCCGCTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCCGCCGTCGTGGCTTCAACCTGCTCCGCTGCACTGCTAAGGAAGTAAGATCCG
34890035 CCGTTGTGGCTTCAATCTTTT
66 CCGTTGTGGCTTCAATCTTTT
34890056 CACTTTTCAA
Statistics
Matches: 83, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.26
Consensus pattern (100 bp):
GGGAAACCAGATCCGCCGTCGTGGCTTCAACCTGCTCCGCTGCACTGCTAAGGAAGTAAGATCCG
CCGTTGTGGCTTCAATCTTTTAAATCGCAAGATCA
Found at i:34902630 original size:50 final size:50
Alignment explanation
Indices: 34902515--34902707 Score: 278
Period size: 50 Copynumber: 3.8 Consensus size: 50
34902505 GATAATAACA
* ** * *
34902515 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * * **
34902566 TGCCCATGCCATGTCCCAGACATGATCTTACGGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
34902616 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
34902666 TGCCAACGTCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
34902708 TTACCCAAAT
Statistics
Matches: 127, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
50 95 0.75
51 32 0.25
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:34904419 original size:35 final size:35
Alignment explanation
Indices: 34904371--34904441 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
34904361 TTTCTAAGTT
*
34904371 TGCAAAGGGCAATGGTGTATTTTTTAGTTTTATCC
1 TGCAAAGGACAATGGTGTATTTTTTAGTTTTATCC
*
34904406 TGCAAAGGACAATGGTTTATTTTTTAGTTTTATCC
1 TGCAAAGGACAATGGTGTATTTTTTAGTTTTATCC
34904441 T
1 T
34904442 AATTGTTGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (35 bp):
TGCAAAGGACAATGGTGTATTTTTTAGTTTTATCC
Found at i:34907072 original size:21 final size:21
Alignment explanation
Indices: 34907046--34907088 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
34907036 ATTGACTAAG
34907046 ATAGGTTTAAAGCTTAGTGGT
1 ATAGGTTTAAAGCTTAGTGGT
34907067 ATAGGTTTAAAGCTTAGTGGT
1 ATAGGTTTAAAGCTTAGTGGT
34907088 A
1 A
34907089 CACCAGTTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.28, T:0.37
Consensus pattern (21 bp):
ATAGGTTTAAAGCTTAGTGGT
Found at i:34916419 original size:24 final size:24
Alignment explanation
Indices: 34916387--34916434 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
34916377 AGGTAGGGGA
*
34916387 GAAACTACTTAAAGATATGAACCT
1 GAAACTACTTAAAGAGATGAACCT
34916411 GAAACTACTTAAAGAGATGAACCT
1 GAAACTACTTAAAGAGATGAACCT
34916435 TTCAACGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.46, C:0.17, G:0.15, T:0.23
Consensus pattern (24 bp):
GAAACTACTTAAAGAGATGAACCT
Found at i:34918261 original size:22 final size:21
Alignment explanation
Indices: 34918232--34918272 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
34918222 ATAATTTTAG
34918232 TAAATAAAAA-ATATATAAAAT
1 TAAATAAAAATA-ATATAAAAT
34918253 TAAATTAAAAATAATATAAA
1 TAAA-TAAAAATAATATAAA
34918273 TATGTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.22
22 13 0.72
23 1 0.06
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAATAAAAATAATATAAAAT
Found at i:34918262 original size:21 final size:22
Alignment explanation
Indices: 34918232--34918272 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
34918222 ATAATTTTAG
34918232 TAAATAAAAAAT-ATATAAAAT
1 TAAATAAAAAATAATATAAAAT
*
34918253 TAAATTAAAAATAATATAAA
1 TAAATAAAAAATAATATAAA
34918273 TATGTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAATAAAAAATAATATAAAAT
Found at i:34921168 original size:23 final size:23
Alignment explanation
Indices: 34921141--34921188 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
34921131 AAATATTATA
34921141 ATTTTTTTTATTTACCAAAATAT
1 ATTTTTTTTATTTACCAAAATAT
*
34921164 ATTTTTTTTATTTATCAAAATAT
1 ATTTTTTTTATTTACCAAAATAT
34921187 AT
1 AT
34921189 CAAAAAAATC
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:0.35, C:0.06, G:0.00, T:0.58
Consensus pattern (23 bp):
ATTTTTTTTATTTACCAAAATAT
Found at i:34921276 original size:27 final size:26
Alignment explanation
Indices: 34921238--34921296 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 26
34921228 GCTTGATCAG
*
34921238 GCCAATTAAATTGGCGGCACCAAAGGT
1 GCCAAATAAATTGGCGGCACC-AAGGT
* *
34921265 GCCAAATAAATTGGTGGCACCATGGT
1 GCCAAATAAATTGGCGGCACCAAGGT
34921291 GCCAAA
1 GCCAAA
34921297 GGAAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 10 0.34
27 19 0.66
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (26 bp):
GCCAAATAAATTGGCGGCACCAAGGT
Found at i:34921398 original size:19 final size:19
Alignment explanation
Indices: 34921371--34921440 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
34921361 TCAACTCATT
*
34921371 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
34921390 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
34921408 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
34921427 TTTTAATTTAATAA
1 TTTTAATTTAATAA
34921441 ACTATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:34921421 original size:37 final size:37
Alignment explanation
Indices: 34921376--34921446 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
34921366 TCATTTTTTT
34921376 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
34921413 ATTTAATAACTCTATTTTAATTTAATAAACTATT
1 ATTTAATAACTCTATTTTAATTTAATAAACTATT
34921447 AAGTAATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:34921680 original size:19 final size:19
Alignment explanation
Indices: 34921653--34921722 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
34921643 TCAACTCATT
*
34921653 TTTTTATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
*
34921672 TTTTAATTTAATAA-ACTA
1 TTTTAATTTAATAACTCTA
* *
34921690 TTCTCATTTAATAACTCTA
1 TTTTAATTTAATAACTCTA
34921709 TTTTAATTTAATAA
1 TTTTAATTTAATAA
34921723 AATATTAAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 15 0.35
19 28 0.65
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAATTTAATAACTCTA
Found at i:34921703 original size:37 final size:37
Alignment explanation
Indices: 34921658--34921728 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
34921648 TCATTTTTTT
*
34921658 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
34921695 ATTTAATAACTCTATTTTAATTTAATAAAATATT
1 ATTTAATAACTCTATTTTAATTTAATAAAATATT
34921729 AAGTAATACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.41, C:0.10, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAAATATTCTC
Found at i:34934207 original size:320 final size:320
Alignment explanation
Indices: 34933580--34934733 Score: 2036
Period size: 320 Copynumber: 3.6 Consensus size: 320
34933570 NNNNNNNNNN
*
34933580 AAAGGGCAGGAATAATG-G--T-TTTTTAAACTAAATTAATTTAAGAAAACACACTAAATCCCTA
1 AAAGGGCAGGAATAA-GAGTTTCTTTTTACACTAAATTAATTTAA-AAAACACACTAAATCCCTA
*
34933641 AATTTCAAACATAATGCAGTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTA
64 AATTTCAAACATAATGCATTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTA
34933706 AAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTT
129 AAGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTT
*
34933771 TTTTAAAAATTCGGAAATAATTAATACAAAAATTTTAAACAAAATGTACTGAAATAATATAAAAT
194 TTTTAAAAATTCGGAAATAATTAATACAAAAATTTCAAACAAAATGTACTGAAATAATATAAAAT
34933836 AATAAAATACGAAAATAATATATTTTTTTGGAAGTAATAAAATTCGGGAAAATAATACGAGC
259 AATAAAATACGAAAATAATATATTTTTTTGGAAGTAATAAAATTCGGGAAAATAATACGAGC
* *
34933898 AAATGGCAGGAATAAAAGTTTCTTATTTACACTAAATTAATTTAAAAAACACACTAAATCCCTAA
1 AAAGGGCAGGAATAAGAGTTTCTT-TTTACACTAAATTAATTTAAAAAACACACTAAATCCCTAA
*
34933963 ATTTCAAACATAATGCGTTGAAATAATGTAAAATTATAAAATTAGAAATTATGATA-TTTTTTAA
65 ATTTCAAACATAATGCATTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAA
* *
34934027 AGTAATAAAATGCGGAGAAAAAAATACAAACAAATGGCC-AATTTAAAGAGTGTTTTACTAACTT
130 AGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAA-GTAAAGAGTGTTTTACTAACTT
* *
34934091 TTTTTAAAATTCGGGAATAATTAATACAAAAATTTCAAACAAAATGTACTGAAATAATATAAAAT
194 TTTTAAAAATTCGGAAATAATTAATACAAAAATTTCAAACAAAATGTACTGAAATAATATAAAAT
*
34934156 AATAAAATACGAAAATAATATATTTTTTTGGAAGTAATAAAATTTGGGAAAATAATACGAGC
259 AATAAAATACGAAAATAATATATTTTTTTGGAAGTAATAAAATTCGGGAAAATAATACGAGC
*
34934218 AAAGGGCAGGAATAAGTGTTTCTTTTTTACACTAAATTAATTTAAAAAACACACTAAATCCCTAA
1 AAAGGGCAGGAATAAGAGTTTC-TTTTTACACTAAATTAATTTAAAAAACACACTAAATCCCTAA
*
34934283 ATTTCAAACATAATGTATTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAA
65 ATTTCAAACATAATGCATTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAA
*
34934348 AGTAATAAAACGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTT
130 AGTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTT
34934413 TTTAAAAATTCGGAAATAATTAATACAAAAATTTCAAACAAAATGTACTGAAATAATATAAAATA
195 TTTAAAAATTCGGAAATAATTAATACAAAAATTTCAAACAAAATGTACTGAAATAATATAAAATA
34934478 ATAAAATACGAAAATAATATATTTTTTTGGAAGTAATAAAATTCGGGAAAATAATACGAGC
260 ATAAAATACGAAAATAATATATTTTTTTGGAAGTAATAAAATTCGGGAAAATAATACGAGC
* *
34934539 AAAGGGCAGGGATAAGGGTTT-TTTTTACACTAAATTAATTTAAAAAACACACTAAATCCCTAAA
1 AAAGGGCAGGAATAAGAGTTTCTTTTTACACTAAATTAATTTAAAAAACACACTAAATCCCTAAA
*
34934603 TTTCAAACATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATA-TTTTTTAAA
66 TTTCAAACATAATGCATTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAAA
* *
34934667 GTAATAAAATGCGGAGAAAAAAATTCGAACAAATGGCCGAAGAAAAGAGTGTTTTACTAACTTTT
131 GTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTT
34934732 TT
196 TT
34934734 TTTCAACTTG
Statistics
Matches: 798, Mismatches: 29, Indels: 18
0.94 0.03 0.02
Matches are distributed among these distances:
318 88 0.11
319 98 0.12
320 304 0.38
321 287 0.36
322 21 0.03
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (320 bp):
AAAGGGCAGGAATAAGAGTTTCTTTTTACACTAAATTAATTTAAAAAACACACTAAATCCCTAAA
TTTCAAACATAATGCATTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTTTTTTAAA
GTAATAAAATGCGGAGAAAAAAATACGAACAAATGGCCGAAGTAAAGAGTGTTTTACTAACTTTT
TTAAAAATTCGGAAATAATTAATACAAAAATTTCAAACAAAATGTACTGAAATAATATAAAATAA
TAAAATACGAAAATAATATATTTTTTTGGAAGTAATAAAATTCGGGAAAATAATACGAGC
Found at i:34939963 original size:40 final size:41
Alignment explanation
Indices: 34939896--34939995 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 41
34939886 AATAGTTTTA
* * * *
34939896 TACTCAAAATAATAGTAA-C-TAACAATAATAAATAGGGTTT
1 TACTAAAAATAATACTAACCATAATAATAAT-ACTAGGGTTT
**
34939936 TACTAAAAATAATAACTAACCATAATAATAATACTAGTTTTT
1 TACTAAAAATAAT-ACTAACCATAATAATAATACTAGGGTTT
*
34939978 TACTAACAATAATACTAA
1 TACTAAAAATAATACTAA
34939996 TCGGTGTGCT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
40 12 0.24
41 9 0.18
42 20 0.40
43 9 0.18
ACGTcount: A:0.51, C:0.12, G:0.05, T:0.32
Consensus pattern (41 bp):
TACTAAAAATAATACTAACCATAATAATAATACTAGGGTTT
Found at i:34942324 original size:147 final size:147
Alignment explanation
Indices: 34942057--34942351 Score: 563
Period size: 147 Copynumber: 2.0 Consensus size: 147
34942047 ATGGCTTAGA
34942057 ATGGTTGCCTTATTAGTTAGAATAATTAAATTCATAATTTTTTAATTCATTTTAATACTAGTGAC
1 ATGGTTGCCTTATTAGTTAGAATAATTAAATTCATAATTTTTTAATTCATTTTAATACTAGTGAC
*
34942122 AAATTGTATAAATTGTTTATGCCATTGTTAGAATTAAGCCTCCCCATTCTTAATGTTGCCGATAA
66 AAACTGTATAAATTGTTTATGCCATTGTTAGAATTAAGCCTCCCCATTCTTAATGTTGCCGATAA
* *
34942187 ATTAAACCTTGAGTGTT
131 ATTAAACCTAGAGCGTT
34942204 ATGGTTGCCTTATTAGTTAGAATAATTAAATTCATAATTTTTTAATTCATTTTAATACTAGTGAC
1 ATGGTTGCCTTATTAGTTAGAATAATTAAATTCATAATTTTTTAATTCATTTTAATACTAGTGAC
34942269 AAACTGTATAAATTGTTTATGCCATTGTTAGAATTAAGCCTCCCCATTCTTAATGTTGCCGATAA
66 AAACTGTATAAATTGTTTATGCCATTGTTAGAATTAAGCCTCCCCATTCTTAATGTTGCCGATAA
34942334 ATTAAACCTAGAGCGTT
131 ATTAAACCTAGAGCGTT
34942351 A
1 A
34942352 AGTTATAAGA
Statistics
Matches: 145, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
147 145 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.41
Consensus pattern (147 bp):
ATGGTTGCCTTATTAGTTAGAATAATTAAATTCATAATTTTTTAATTCATTTTAATACTAGTGAC
AAACTGTATAAATTGTTTATGCCATTGTTAGAATTAAGCCTCCCCATTCTTAATGTTGCCGATAA
ATTAAACCTAGAGCGTT
Found at i:34943827 original size:20 final size:20
Alignment explanation
Indices: 34943802--34943846 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
34943792 AATTATATTT
*
34943802 TAAAATAATAATTTTATAAA
1 TAAAATAATAATCTTATAAA
**
34943822 TAAAATGTTAATCTTATAAA
1 TAAAATAATAATCTTATAAA
34943842 TAAAA
1 TAAAA
34943847 CAATTTAAGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (20 bp):
TAAAATAATAATCTTATAAA
Found at i:34945000 original size:27 final size:28
Alignment explanation
Indices: 34944969--34945029 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
34944959 AATTTTTAAT
*
34944969 TATTTA-TAATGATAATAATTGAAAAATA
1 TATTTATTAAT-ATAACAATTGAAAAATA
* *
34944997 -ATTTATTAATTTAACAATTTAAAAATA
1 TATTTATTAATATAACAATTGAAAAATA
34945024 TATTTA
1 TATTTA
34945030 CAATTTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
27 19 0.68
28 9 0.32
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (28 bp):
TATTTATTAATATAACAATTGAAAAATA
Found at i:34945034 original size:19 final size:20
Alignment explanation
Indices: 34945005--34945043 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
34944995 TAATTTATTA
34945005 ATTTAACAATTTAAAAATAT
1 ATTTAACAATTTAAAAATAT
34945025 ATTT-ACAATTTAAAAATAT
1 ATTTAACAATTTAAAAATAT
34945044 TATAACTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (20 bp):
ATTTAACAATTTAAAAATAT
Found at i:34945034 original size:27 final size:27
Alignment explanation
Indices: 34944985--34945037 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
34944975 TAATGATAAT
*
34944985 AATTGAAAAATAATTTATTAATTTAAC
1 AATTGAAAAATAATTTATCAATTTAAC
*
34945012 AATTTAAAAATATATTTA-CAATTTAA
1 AATTGAAAAATA-ATTTATCAATTTAA
34945038 AAATATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 18 0.78
28 5 0.22
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.42
Consensus pattern (27 bp):
AATTGAAAAATAATTTATCAATTTAAC
Found at i:34945373 original size:2 final size:2
Alignment explanation
Indices: 34945366--34945399 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
34945356 ATAATGCTTT
34945366 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
34945400 TCTTCATGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:34952933 original size:9 final size:9
Alignment explanation
Indices: 34952919--34952955 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
34952909 TATAGTTTGA
34952919 TATTCGAAT
1 TATTCGAAT
34952928 TATTCGAAT
1 TATTCGAAT
*
34952937 TATTCGAGT
1 TATTCGAAT
34952946 TATTCGAAT
1 TATTCGAAT
34952955 T
1 T
34952956 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:34953026 original size:9 final size:9
Alignment explanation
Indices: 34953009--34953039 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
34952999 TCGAGTTGAT
34953009 TCGAATAAC
1 TCGAATAAC
*
34953018 TCGATTAAC
1 TCGAATAAC
34953027 TCGAATAAC
1 TCGAATAAC
34953036 TCGA
1 TCGA
34953040 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:34960630 original size:15 final size:15
Alignment explanation
Indices: 34960610--34960640 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
34960600 AAAACAACAT
34960610 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
34960625 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
34960640 A
1 A
34960641 CTTACATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:34964004 original size:15 final size:15
Alignment explanation
Indices: 34963994--34964023 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
34963984 TCCCTTCTTG
34963994 ACCACGACCTTTTCC
1 ACCACGACCTTTTCC
*
34964009 ACCACGACCATTTCC
1 ACCACGACCTTTTCC
34964024 TCGATCTCCA
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:0.23, C:0.47, G:0.07, T:0.23
Consensus pattern (15 bp):
ACCACGACCTTTTCC
Found at i:34964792 original size:15 final size:15
Alignment explanation
Indices: 34964772--34964800 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
34964762 TAAATAACAT
34964772 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
34964787 AACTCTTGACCTTT
1 AACTCTTGACCTTT
34964801 AAATATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.31, G:0.07, T:0.41
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:34964921 original size:15 final size:15
Alignment explanation
Indices: 34964898--34964928 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34964888 AAAACAACAT
*
34964898 AACTGTTGACCTTTC
1 AACTCTTGACCTTTC
34964913 AACTCTTGACCTTTC
1 AACTCTTGACCTTTC
34964928 A
1 A
34964929 CTTACATAAT
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:0.23, C:0.29, G:0.10, T:0.39
Consensus pattern (15 bp):
AACTCTTGACCTTTC
Found at i:34965732 original size:148 final size:146
Alignment explanation
Indices: 34965461--34965918 Score: 447
Period size: 158 Copynumber: 3.0 Consensus size: 146
34965451 GTTATGGATT
** * * * *
34965461 TTACTCTTTATTTTCAATTTTTTTTATTGTTCCATTTAGTTTGATTATAATTTTACGAGGGGATC
1 TTACTCTTTATTTTC-ATTTTTTTTATTGTT-CATTTAGTTTGATTATAAGCTTATGAAGGAATT
* * * * * *
34965526 AGGCGAGTTGGGTTAGCATTTTAGGTTATATATTCTAATGCTTAATTTCGTAATTCTTATGCTGA
64 AAGCGATTTGAGTTAGCATTTTA-GTT-GATATCCCAATGCTTAATTTCGTAATTCTTATGCTGA
*
34965591 ATTATTTGTGATTTAATGGA
127 ATTATTTGTGGTTTAATGGA
* *
34965611 TTACTCTTTATTTTCATTTTTTTTCTCGTTCAATTTAGTTTGATTATAAGCTTATGAAGGAATTA
1 TTACTCTTTATTTTCATTTTTTTTATTGTTC-ATTTAGTTTGATTATAAGCTTATGAAGGAATTA
* *
34965676 AACGATTTCGCAG-TAGCATTTTAGTTGATATCCCAATGCTTAATTTCGTCATTCTTATGCTGAA
65 AGCGATTT-G-AGTTAGCATTTTAGTTGATATCCCAATGCTTAATTTCGTAATTCTTATGCTGAA
*
34965740 TTATTTGCGGTTTAATGGA
128 TTATTTGTGGTTTAATGGA
* *
34965759 TTTTACTCTCTATTCAATGCTAATTTTTGTGTTTATTGTTGCATTTAGTTTGATTATAAGCTTAT
1 --TTACTCTTTATT---T--TCA-TTTT-T-TTTATTGTT-CATTTAGTTTGATTATAAGCTTAT
* ** * * *
34965824 GATGGAA-TAAGGGCGATTTGAGTTTTCAGTTTAGGTGATATCCTGAA-GCTTAATTAT-GTAAT
55 GAAGGAATTAA--GCGATTTGAGTTAGCATTTTAGTTGATATCC-CAATGCTTAATT-TCGTAAT
*
34965886 TCTTATGCTGAATGATTTGTGGTTTAATGGA
116 TCTTATGCTGAATTATTTGTGGTTTAATGGA
34965917 TT
1 TT
34965919 TTATAGGTGA
Statistics
Matches: 257, Mismatches: 32, Indels: 32
0.80 0.10 0.10
Matches are distributed among these distances:
148 52 0.20
149 48 0.19
150 37 0.14
151 1 0.00
153 1 0.00
155 2 0.01
156 6 0.02
157 6 0.02
158 94 0.37
159 10 0.04
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.48
Consensus pattern (146 bp):
TTACTCTTTATTTTCATTTTTTTTATTGTTCATTTAGTTTGATTATAAGCTTATGAAGGAATTAA
GCGATTTGAGTTAGCATTTTAGTTGATATCCCAATGCTTAATTTCGTAATTCTTATGCTGAATTA
TTTGTGGTTTAATGGA
Found at i:34967435 original size:7 final size:7
Alignment explanation
Indices: 34967360--34967434 Score: 62
Period size: 7 Copynumber: 10.7 Consensus size: 7
34967350 AAATTATCCC
34967360 TAAATCT
1 TAAATCT
* * *
34967367 TATACCC
1 TAAATCT
*
34967374 TAAATCA
1 TAAATCT
*
34967381 TAAATAT
1 TAAATCT
34967388 TAAATCT
1 TAAATCT
34967395 TAAATCT
1 TAAATCT
*
34967402 TAAACCT
1 TAAATCT
34967409 TAAATAC-
1 TAAAT-CT
*
34967416 TAAATTT
1 TAAATCT
*
34967423 TAAATTT
1 TAAATCT
34967430 TAAAT
1 TAAAT
34967435 TCTAACATTA
Statistics
Matches: 54, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
7 53 0.98
8 1 0.02
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (7 bp):
TAAATCT
Found at i:34969730 original size:16 final size:15
Alignment explanation
Indices: 34969683--34969734 Score: 59
Period size: 16 Copynumber: 3.3 Consensus size: 15
34969673 TCGAAGAGTG
34969683 AGCCTGTCAAAATGCA
1 AGCCTGTCAAAA-GCA
* *
34969699 AGCATGTTAAAGAGCA
1 AGCCTGTCAAA-AGCA
34969715 AGCCTGTCGAAAAGCA
1 AGCCTGTC-AAAAGCA
34969731 AGCC
1 AGCC
34969735 AAAAATGCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
16 26 0.87
17 4 0.13
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.15
Consensus pattern (15 bp):
AGCCTGTCAAAAGCA
Found at i:34969794 original size:28 final size:28
Alignment explanation
Indices: 34969759--34969823 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
34969749 AAGTTGGTGA
* *
34969759 AAGCCAAAGTGGCGAACAATCTAAGTGC
1 AAGCCAAAGTGACGAACAATCCAAGTGC
* * *
34969787 AAGCCAAAATGATGGACAATCCAAGTGC
1 AAGCCAAAGTGACGAACAATCCAAGTGC
34969815 AAGCCAAAG
1 AAGCCAAAG
34969824 CGGCAGGTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (28 bp):
AAGCCAAAGTGACGAACAATCCAAGTGC
Found at i:34969853 original size:101 final size:101
Alignment explanation
Indices: 34969737--34970122 Score: 367
Period size: 101 Copynumber: 3.9 Consensus size: 101
34969727 AGCAAGCCAA
* * * *
34969737 AAATGCAAGCC-AAAGTTGGTGAAAGCCAAAGTGGCGAACAATCTAAGTGCAAGCCAAAATGATG
1 AAATGCAAGCCAAAAGTGGGTGCAAGCCAAAATGGCGAACAATCCAAGTGCAAGCCAAAATGATG
*
34969801 GACAATCCAAGTGCAAGCCAAAGCGGCAGG-TAATCT
66 GACAATCCAAGTGCAAGCCAAAGCGGC-GGACAATCT
* * * * * * * *
34969837 AAATACAAGCCAAAAGTGGGTGCAAGCTAAAATGGTGGACAGTCCAAGTACAAGCTAAAATGGCT
1 AAATGCAAGCCAAAAGTGGGTGCAAGCCAAAATGGCGAACAATCCAAGTGCAAGCCAAAAT-GAT
* * *
34969902 -GACAATCCAAGTGTAAGTCAAAGCGGCGGACAACCT
65 GGACAATCCAAGTGCAAGCCAAAGCGGCGGACAATCT
* * * * * *
34969938 AAATGCAAGCCAAATGTGGGTGTAAGCCAAAGTGGTGGACAATCCAAGT---ACCCAAAATGA-G
1 AAATGCAAGCCAAAAGTGGGTGCAAGCCAAAATGGCGAACAATCCAAGTGCAAGCCAAAATGATG
* * *
34969999 AGACAGTTCAAGTGCAAGCCAAAGTGGCGGACAATCT
66 -GACAATCCAAGTGCAAGCCAAAGCGGCGGACAATCT
* * * * *
34970036 AAATGTAAGCCAAAAGTGAGTGCAAGCTAAAATGGC-AGACAA-CTCAAGTGCAAGCCAAAGTGG
1 AAATGCAAGCCAAAAGTGGGTGCAAGCCAAAATGGCGA-ACAATC-CAAGTGCAAGCCAAAATGA
* * *
34970099 CGGACAATCTAAATGCAAGCCAAA
64 TGGACAATCCAAGTGCAAGCCAAA
34970123 AGTAGGTGTA
Statistics
Matches: 229, Mismatches: 46, Indels: 21
0.77 0.16 0.07
Matches are distributed among these distances:
97 2 0.01
98 75 0.33
100 12 0.05
101 137 0.60
102 3 0.01
ACGTcount: A:0.40, C:0.20, G:0.25, T:0.15
Consensus pattern (101 bp):
AAATGCAAGCCAAAAGTGGGTGCAAGCCAAAATGGCGAACAATCCAAGTGCAAGCCAAAATGATG
GACAATCCAAGTGCAAGCCAAAGCGGCGGACAATCT
Found at i:34969890 original size:28 final size:28
Alignment explanation
Indices: 34969859--34969913 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
34969849 AAAGTGGGTG
*
34969859 CAAGCTAAAATGG-TGGACAGTCCAAGTA
1 CAAGCTAAAATGGCT-GACAATCCAAGTA
34969887 CAAGCTAAAATGGCTGACAATCCAAGT
1 CAAGCTAAAATGGCTGACAATCCAAGT
34969914 GTAAGTCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (28 bp):
CAAGCTAAAATGGCTGACAATCCAAGTA
Found at i:34970058 original size:45 final size:45
Alignment explanation
Indices: 34970009--34970094 Score: 111
Period size: 45 Copynumber: 1.9 Consensus size: 45
34969999 AGACAGTTCA
* * *
34970009 AGTGCAAGCCAAAGTGGCGGACAA-TCTAAATGTAAGCCAAAAGTG
1 AGTGCAAGCCAAAATGGCAGACAACTC-AAATGCAAGCCAAAAGTG
* *
34970054 AGTGCAAGCTAAAATGGCAGACAACTCAAGTGCAAGCCAAA
1 AGTGCAAGCCAAAATGGCAGACAACTCAAATGCAAGCCAAA
34970095 GTGGCGGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
45 33 0.94
46 2 0.06
ACGTcount: A:0.42, C:0.20, G:0.24, T:0.14
Consensus pattern (45 bp):
AGTGCAAGCCAAAATGGCAGACAACTCAAATGCAAGCCAAAAGTG
Found at i:34970085 original size:28 final size:28
Alignment explanation
Indices: 34970054--34970123 Score: 88
Period size: 28 Copynumber: 2.5 Consensus size: 28
34970044 GCCAAAAGTG
*
34970054 AGTGCAAGCTAAAATGGCAGACAA-CTCA
1 AGTGCAAGCCAAAATGGCAGACAATCT-A
* *
34970082 AGTGCAAGCCAAAGTGGCGGACAATCTA
1 AGTGCAAGCCAAAATGGCAGACAATCTA
*
34970110 AATGCAAGCCAAAA
1 AGTGCAAGCCAAAA
34970124 GTAGGTGTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
28 34 0.94
29 2 0.06
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.13
Consensus pattern (28 bp):
AGTGCAAGCCAAAATGGCAGACAATCTA
Found at i:34970163 original size:73 final size:73
Alignment explanation
Indices: 34969989--34970172 Score: 246
Period size: 73 Copynumber: 2.5 Consensus size: 73
34969979 ATCCAAGTAC
*
34969989 CCAAAATGAG-AGACAGTTCAAGTGCAAGCCAAAGTGGCGGACAATCTAAATGTAAGCCAAAAGT
1 CCAAAATG-GCAGACAGTTCAAGTGCAAGCCAAAGTGGCGGACAATCTAAATGCAAGCCAAAAGT
34970053 GAGTGCAAG
65 GAGTGCAAG
* **
34970062 CTAAAATGGCAGACAACTCAAGTGCAAGCCAAAGTGGCGGACAATCTAAATGCAAGCCAAAAGT-
1 CCAAAATGGCAGACAGTTCAAGTGCAAGCCAAAGTGGCGGACAATCTAAATGCAAGCCAAAAGTG
*
34970126 AGGTGTAAG
66 A-GTGCAAG
* * * *
34970135 CCAAAGTGGCAGACAGTTTAAATACAAGCCAAAAGTGG
1 CCAAAATGGCAGACAGTTCAAGTGCAAGCC-AAAGTGG
34970173 GTGCAAGCCA
Statistics
Matches: 96, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
72 2 0.02
73 87 0.91
74 7 0.07
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.15
Consensus pattern (73 bp):
CCAAAATGGCAGACAGTTCAAGTGCAAGCCAAAGTGGCGGACAATCTAAATGCAAGCCAAAAGTG
AGTGCAAG
Found at i:34970195 original size:45 final size:45
Alignment explanation
Indices: 34970083--34970195 Score: 163
Period size: 45 Copynumber: 2.5 Consensus size: 45
34970073 GACAACTCAA
* * *
34970083 GTGCAAGCCAAAGTGGCGGACAATCTAAATGCAAGCCAAAAGTAG
1 GTGCAAGCCAAAGTGGCAGACAGTCTAAATACAAGCCAAAAGTAG
* * *
34970128 GTGTAAGCCAAAGTGGCAGACAGTTTAAATACAAGCCAAAAGTGG
1 GTGCAAGCCAAAGTGGCAGACAGTCTAAATACAAGCCAAAAGTAG
*
34970173 GTGCAAGCCAAAATGGCAGACAG
1 GTGCAAGCCAAAGTGGCAGACAG
34970196 CCCAAGTGAA
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.40, C:0.19, G:0.27, T:0.14
Consensus pattern (45 bp):
GTGCAAGCCAAAGTGGCAGACAGTCTAAATACAAGCCAAAAGTAG
Found at i:34970228 original size:118 final size:118
Alignment explanation
Indices: 34970014--34970240 Score: 303
Period size: 118 Copynumber: 1.9 Consensus size: 118
34970004 GTTCAAGTGC
* ** *
34970014 AAGCCAAAGTGGCGGACAATCTAAATGTAAGCCAAAAGTGAGTGCAAGCTAAAATGGCAGACAAC
1 AAGCCAAAGTGGCAGACAATCTAAATACAAGCCAAAAGTGAGTGCAAGCCAAAATGGCAGACAAC
* * * ***
34970079 TCAAGTGCAAGCCAAAGTGGCGGACAATCTAAATGCAAGCCAAAAGTAGGTGT
66 CCAAGTGAAAGACAAAGCAACGGACAATCTAAATGCAAGCCAAAAGTAGGTGT
* * * *
34970132 AAGCCAAAGTGGCAGACAGTTTAAATACAAGCCAAAAGTGGGTGCAAGCCAAAATGGCAGACAGC
1 AAGCCAAAGTGGCAGACAATCTAAATACAAGCCAAAAGTGAGTGCAAGCCAAAATGGCAGACAAC
*
34970197 CCAAGTGAAAGACAAAGCAACAGG-CAGTCTAAATGCAAGCCAAA
66 CCAAGTGAAAGACAAAGCAAC-GGACAATCTAAATGCAAGCCAAA
34970241 GTTGGTGCCA
Statistics
Matches: 93, Mismatches: 15, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
118 91 0.98
119 2 0.02
ACGTcount: A:0.42, C:0.20, G:0.25, T:0.13
Consensus pattern (118 bp):
AAGCCAAAGTGGCAGACAATCTAAATACAAGCCAAAAGTGAGTGCAAGCCAAAATGGCAGACAAC
CCAAGTGAAAGACAAAGCAACGGACAATCTAAATGCAAGCCAAAAGTAGGTGT
Found at i:34972612 original size:28 final size:28
Alignment explanation
Indices: 34972571--34972632 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
34972561 ATAGTCTAAA
*
34972571 TGCAAGCCAAAGTGGCGGACAATCCAAG
1 TGCAAGCCAAAGTGGCAGACAATCCAAG
* * * *
34972599 TGCAAGGCAGAGTGGCAGACAGTCGAAG
1 TGCAAGCCAAAGTGGCAGACAATCCAAG
34972627 TGCAAG
1 TGCAAG
34972633 ACACCCCATA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.34, C:0.21, G:0.34, T:0.11
Consensus pattern (28 bp):
TGCAAGCCAAAGTGGCAGACAATCCAAG
Found at i:34974776 original size:39 final size:39
Alignment explanation
Indices: 34974685--34974776 Score: 91
Period size: 39 Copynumber: 2.4 Consensus size: 39
34974675 CCATTAGCTT
* * *
34974685 CCAAAA-TTTAAATAGATATCAAAATTTATAACTAAATA
1 CCAAAATTTTTAATGGATACCAAAATTTATAACTAAATA
* * *
34974723 CTAAAATCTCTAATGGATACCAAAATCTT-TAAC-ATAATA
1 CCAAAATTTTTAATGGATACCAAAAT-TTATAACTA-AATA
34974762 CCAAAATTTTTAATG
1 CCAAAATTTTTAATG
34974777 AATTACAGTT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
38 6 0.14
39 34 0.81
40 2 0.05
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (39 bp):
CCAAAATTTTTAATGGATACCAAAATTTATAACTAAATA
Found at i:34976048 original size:19 final size:19
Alignment explanation
Indices: 34975986--34976057 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 19
34975976 ACCCACCCTT
*
34975986 AGTTAGGAAATTTTGGTATCC
1 AGTTA-GAAATTTTGATAT-C
* *
34976007 A-TTAGAGATTTTGATATT
1 AGTTAGAAATTTTGATATC
*
34976025 TGTTAGAAATTTTGATATC
1 AGTTAGAAATTTTGATATC
34976044 AGTTA-AATATTTTG
1 AGTTAGAA-ATTTTG
34976058 GTACCCCTTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
18 2 0.05
19 36 0.86
20 3 0.07
21 1 0.02
ACGTcount: A:0.32, C:0.04, G:0.18, T:0.46
Consensus pattern (19 bp):
AGTTAGAAATTTTGATATC
Found at i:34976206 original size:23 final size:23
Alignment explanation
Indices: 34976145--34976206 Score: 56
Period size: 23 Copynumber: 2.6 Consensus size: 23
34976135 TTTTTTGCCA
*
34976145 TAAAATATATAATTAATAAAAATAC
1 TAAAATATAT--TAAATAAAAATAC
*
34976170 TAAAATGT-TGTAAATAAAATATAC
1 TAAAATATAT-TAAATAAAA-ATAC
34976194 -AAAATATATTAAA
1 TAAAATATATTAAA
34976207 AATACACAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 18 0.58
24 6 0.19
25 7 0.23
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.32
Consensus pattern (23 bp):
TAAAATATATTAAATAAAAATAC
Found at i:34976279 original size:20 final size:20
Alignment explanation
Indices: 34976239--34976347 Score: 91
Period size: 19 Copynumber: 5.6 Consensus size: 20
34976229 AAATTAAACA
* *
34976239 AAATTTTGATA-TCTTTTAG
1 AAATTTTGGTATTCTATTAG
*
34976258 AAATTTTGGTATTCAATTAG
1 AAATTTTGGTATTCTATTAG
* *
34976278 AAATATTGGTA-TCTATTAA
1 AAATTTTGGTATTCTATTAG
* *
34976297 AAATATTGGTATT-TGGTTAG
1 AAATTTTGGTATTCT-ATTAG
* *
34976317 AGATTTTGATATT-TATTAG
1 AAATTTTGGTATTCTATTAG
*
34976336 AAATTTTAGTAT
1 AAATTTTGGTAT
34976348 ATTATTGGTC
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
19 41 0.57
20 31 0.43
ACGTcount: A:0.35, C:0.03, G:0.15, T:0.48
Consensus pattern (20 bp):
AAATTTTGGTATTCTATTAG
Found at i:34976334 original size:39 final size:39
Alignment explanation
Indices: 34976239--34976339 Score: 105
Period size: 39 Copynumber: 2.6 Consensus size: 39
34976229 AAATTAAACA
*
34976239 AAATTTTGATATCTT-TTAGAAATTTTGGTATTCAATTAG
1 AAATTTTGATAT-TTATTAGAAATATTGGTATTCAATTAG
* * * * ***
34976278 AAATATTGGTATCTATTAAAAATATTGGTATTTGGTTAG
1 AAATTTTGATATTTATTAGAAATATTGGTATTCAATTAG
*
34976317 AGATTTTGATATTTATTAGAAAT
1 AAATTTTGATATTTATTAGAAAT
34976340 TTTAGTATAT
Statistics
Matches: 48, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
38 1 0.02
39 47 0.98
ACGTcount: A:0.36, C:0.03, G:0.15, T:0.47
Consensus pattern (39 bp):
AAATTTTGATATTTATTAGAAATATTGGTATTCAATTAG
Found at i:34976438 original size:20 final size:21
Alignment explanation
Indices: 34976402--34976458 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 21
34976392 TTGATACCAT
* *
34976402 GATTA-AAATATTGGTATTTA
1 GATTAGAAATTTTAGTATTTA
*
34976422 G-TTATAAATTTTAGTA-TTA
1 GATTAGAAATTTTAGTATTTA
*
34976441 GATTAGAAATTTTCGTAT
1 GATTAGAAATTTTAGTAT
34976459 CCCAAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.23
20 23 0.77
ACGTcount: A:0.37, C:0.02, G:0.14, T:0.47
Consensus pattern (21 bp):
GATTAGAAATTTTAGTATTTA
Found at i:34984640 original size:23 final size:23
Alignment explanation
Indices: 34984611--34984686 Score: 107
Period size: 23 Copynumber: 3.3 Consensus size: 23
34984601 ATAAGTGCCA
*
34984611 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
34984634 CATTGATATGTAGTCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
34984657 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
34984680 CACTGAT
1 CACTGAT
34984687 CAATAACACT
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:34984938 original size:18 final size:17
Alignment explanation
Indices: 34984912--34984950 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
34984902 ATTTTCCTTC
34984912 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
34984929 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
34984947 CACA
1 CACA
34984951 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:34985918 original size:108 final size:109
Alignment explanation
Indices: 34985672--34986076 Score: 573
Period size: 109 Copynumber: 3.7 Consensus size: 109
34985662 AAATTTGGCA
* * ** *
34985672 ATTTGGTTAAACGTGAAATCGAAACCCAGCACCTTAGGGCACGTTTTTCGAATTTCTAAACGCAA
1 ATTTGGTCAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAA
* *
34985737 AACATTGTCTTATTTTTGAAAAGCTTTTAAAAGGATATTTAGCT
66 AACATTGCCTTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCT
*
34985781 ATTTGGTCAAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAA
1 ATTTGGTCAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAA
* * *
34985846 AATATTGCCTT-GTTTTGAAAA-TTTTTGAAAAGGATATTAAG-T
66 AACATTGCCTTATTTTTGAAAAGTTTTT-AAAAGGATATTTAGCT
** *
34985888 CATTTGGTGGAACGAGAAATCGAAACCCAGTACCTTAGGGCACGTTCCTCGAATTTCCAAACGCA
1 -ATTTGGTCAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCA
34985953 AAACATTGCCTTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCT
65 AAACATTGCCTTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCT
* * * * *
34985998 ATTTGGTCGAACGAGAAAAATCGACACTCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACG
1 ATTTGGTCAAACGAG--AAATCGAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTTCCAAACG
34986063 CAAAACATTGCCTT
63 CAAAACATTGCCTT
34986077 TATTATTTTT
Statistics
Matches: 266, Mismatches: 22, Indels: 13
0.88 0.07 0.04
Matches are distributed among these distances:
107 5 0.02
108 95 0.36
109 104 0.39
110 6 0.02
111 24 0.09
112 32 0.12
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (109 bp):
ATTTGGTCAAACGAGAAATCGAAACCCAGCACCTTAGGGCACGTTCCTCGAATTTCCAAACGCAA
AACATTGCCTTATTTTTGAAAAGTTTTTAAAAGGATATTTAGCT
Found at i:34986759 original size:8 final size:8
Alignment explanation
Indices: 34986746--34986790 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
34986736 CAATGAGAAA
34986746 ATATATAT
1 ATATATAT
34986754 ATATATAT
1 ATATATAT
*
34986762 AGATATAT
1 ATATATAT
*
34986770 ATAGATAT
1 ATATATAT
*
34986778 ATAGATAT
1 ATATATAT
*
34986786 GTATA
1 ATATA
34986791 AAAAAAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (8 bp):
ATATATAT
Found at i:34986769 original size:18 final size:18
Alignment explanation
Indices: 34986746--34986790 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
34986736 CAATGAGAAA
*
34986746 ATATATATATATATATAG
1 ATATATATAGATATATAG
34986764 ATATATATAGATATATAG
1 ATATATATAGATATATAG
*
34986782 ATATGTATA
1 ATATATATA
34986791 AAAAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (18 bp):
ATATATATAGATATATAG
Found at i:34986790 original size:10 final size:10
Alignment explanation
Indices: 34986746--34986780 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
34986736 CAATGAGAAA
*
34986746 ATATATATAT
1 ATATATAGAT
34986756 ATATATAGAT
1 ATATATAGAT
34986766 ATATATAGAT
1 ATATATAGAT
34986776 ATATA
1 ATATA
34986781 GATATGTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.06, T:0.43
Consensus pattern (10 bp):
ATATATAGAT
Found at i:34987023 original size:12 final size:12
Alignment explanation
Indices: 34986996--34987035 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
34986986 AAATAAAAAC
*
34986996 TAATAATAATTAA
1 TAATAGTAA-TAA
34987009 TAATAGTAATAA
1 TAATAGTAATAA
*
34987021 TAATAGCAATAA
1 TAATAGTAATAA
34987033 TAA
1 TAA
34987036 GGTTAAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 17 0.68
13 8 0.32
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.33
Consensus pattern (12 bp):
TAATAGTAATAA
Found at i:34988009 original size:17 final size:17
Alignment explanation
Indices: 34987987--34988025 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
34987977 GACGTGCGGC
*
34987987 GCGGCGTCAGAACGGTG
1 GCGGCGACAGAACGGTG
*
34988004 GCGGCGACAGAATGGTG
1 GCGGCGACAGAACGGTG
34988021 GCGGC
1 GCGGC
34988026 ACCGGGCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.18, C:0.23, G:0.49, T:0.10
Consensus pattern (17 bp):
GCGGCGACAGAACGGTG
Found at i:34993548 original size:9 final size:9
Alignment explanation
Indices: 34993534--34993586 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
34993524 GTTCAGACTC
*
34993534 AAAAAAAAT
1 AAAAAATAT
34993543 AAAAAATAT
1 AAAAAATAT
*
34993552 CAAAAATAT
1 AAAAAATAT
*
34993561 CAAAAATAT
1 AAAAAATAT
*
34993570 CAAAAAAAAT
1 -AAAAAATAT
*
34993580 CAAAAAT
1 AAAAAAT
34993587 CAAAAATCGA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
9 30 0.81
10 7 0.19
ACGTcount: A:0.75, C:0.08, G:0.00, T:0.17
Consensus pattern (9 bp):
AAAAAATAT
Found at i:34993565 original size:18 final size:19
Alignment explanation
Indices: 34993532--34993586 Score: 85
Period size: 18 Copynumber: 2.9 Consensus size: 19
34993522 GAGTTCAGAC
*
34993532 TCAAAAAAAATAAAAAATA
1 TCAAAAAAAATCAAAAATA
*
34993551 TC-AAAAATATCAAAAATA
1 TCAAAAAAAATCAAAAATA
34993569 TCAAAAAAAATCAAAAAT
1 TCAAAAAAAATCAAAAAT
34993587 CAAAAATCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
18 16 0.50
19 16 0.50
ACGTcount: A:0.73, C:0.09, G:0.00, T:0.18
Consensus pattern (19 bp):
TCAAAAAAAATCAAAAATA
Found at i:34993629 original size:13 final size:13
Alignment explanation
Indices: 34993613--34993645 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
34993603 AAAAAAGGGG
34993613 AGAAAAAA-AAAGA
1 AGAAAAAAGAAA-A
34993626 AGAAAAAAGAAAA
1 AGAAAAAAGAAAA
34993639 AGAAAAA
1 AGAAAAA
34993646 GGAGAGGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 16 0.84
14 3 0.16
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AGAAAAAAGAAAA
Found at i:34995765 original size:46 final size:46
Alignment explanation
Indices: 34995703--34996074 Score: 500
Period size: 46 Copynumber: 8.1 Consensus size: 46
34995693 ACAGATCAAT
* ***
34995703 GAAGATAGCAGATCTTATCTTCTTGTACCCGGCAGCGAAGGAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGAAGGAGATC
*
34995749 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGAAGGAGATC
*
34995795 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGGAGGAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGAAGGAGATC
* * *
34995841 GAAGATAGCAGATCTTATCTTCCTATATTTAGCAGCGGAGGAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGAAGGAGATC
*
34995887 GAAGATAGCAGATCTTATCTTCCTGTATTTAGCAGC-AGAGGAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGA-AGGAGATC
* * * *
34995933 GAGGATAGCAGATCTTGTCTTCCTGTAATTGGCAG-TAGAGG-GATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGA-AGGAGATC
*
34995978 GAAGATAGCAGATCTTGTCTTCCTGTATTTGGCAGC-AGAGGAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGA-AGGAGATC
* ** * * *
34996024 GAAGATAACAGATCTTATCTTTTTGTACTTGACAGCGAAGCAGATC
1 GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGAAGGAGATC
34996070 GAAGA
1 GAAGA
34996075 CACAAACCTC
Statistics
Matches: 299, Mismatches: 22, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
45 42 0.14
46 256 0.86
47 1 0.00
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (46 bp):
GAAGATAGCAGATCTTATCTTCCTGTATTTGGCAGCGAAGGAGATC
Found at i:34997653 original size:132 final size:132
Alignment explanation
Indices: 34996083--34997631 Score: 2720
Period size: 132 Copynumber: 11.7 Consensus size: 132
34996073 GACACAAACC
* *
34996083 TCACCCTAAGCAGTAGTGGAGTAGGTTGAAGATTACAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
34996148 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
34996213 TA
131 TA
*
34996215 TCACCCTAAGTAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
*
34996280 CAGATCGAAGATGGTGAATCTTATCTTCCTAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
34996345 TA
131 TA
* *
34996347 TAACCCTAAACAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
34996412 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
*
34996477 AA
131 TA
*
34996479 TCTCCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
34996544 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
34996609 TA
131 TA
* * *
34996611 TCACCCTAAACAATAGTGGAGTAGGTCGAATATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
34996676 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
*
34996741 AA
131 TA
* *
34996743 TCTCCCTAAGCAGTAGTGGAGTAGGTCGAACATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
* *
34996808 CAAATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCATATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
34996873 TA
131 TA
* * *
34996875 TCACCCTAAACAGTAGTGGAATAGGTCGAAGATTGCAGATTCTGTAACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
34996940 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
34997005 TA
131 TA
* * *
34997007 TCACCCTAAACAGTAGTGGAATAGGTCGAAGATTGTAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
34997072 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
*
34997137 AA
131 TA
* *
34997139 TCTCCCTAAGCAGTAATGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
*
34997204 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGGCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
34997269 TA
131 TA
* * *
34997271 TCACCCTAAGCAGTAGTGGAGTCGGTCGAAGATTACAGATTCTGCCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
34997336 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
*
34997401 AA
131 TA
* *
34997403 TCTCCCTAAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
* * *
34997468 CAGATCGAATATGGTGAATCTTATCTTCTCAATACAGTGGAGAAGCAAATTTAAGCCATTAGTCC
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
34997533 TA
131 TA
* * * *
34997535 TCTCCCTAAGAAGTAGTGGAGTAGGTTGAAGATTACAGATTCTGTCACCCTAAGCAGTAGTGGAG
1 TCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
* * *
34997600 CAGATCAAAGACGGTGAATCTTATATTCCCAA
66 CAGATCGAAGATGGTGAATCTTATCTTCCCAA
34997632 GATAGTAGGG
Statistics
Matches: 1352, Mismatches: 65, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 1352 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (132 bp):
TCACCCTAAGCAGTAGTGGAGTAGGTCGAAGATTGCAGATTCTGTCACCCTAAGCAGTAGTGGAG
CAGATCGAAGATGGTGAATCTTATCTTCCCAATACAGTGGAGAAGCAGATTTAAGCCATTAGTCC
TA
Found at i:35001718 original size:73 final size:74
Alignment explanation
Indices: 35001537--35001776 Score: 220
Period size: 73 Copynumber: 3.3 Consensus size: 74
35001527 ATGCCAAAAT
* * ** * *
35001537 ACAAAGCCAAATGGATTATAATGCCAAAATCCGAACCTTATGCCTTGCTTTCTCTTGTTTCCCCC
1 ACAAAGCCAAATGGATTATAAAGCCAAAATCCAAAGATTATGCCTTGCTGTCTCTTGTTTCCCCA
35001602 ATCAACCAA
66 ATCAACCAA
* * * * *
35001611 ACAAAGCCGAAT-GACTTATAAAGCCAGAACCCAAAGATTTTG-CTTCGGTGTCTCTTGTTT-CC
1 ACAAAGCCAAATGGA-TTATAAAGCCAAAATCCAAAGATTATGCCTT-GCTGTCTCTTGTTTCCC
35001673 CAATCAACCAA
64 CAATCAACCAA
* * * * * * **
35001684 ACAAAGCCAAATGGATTATGACGCCAAAATCCAAAGCTT-TCGCCTTGCTTTCACTTATTTTTCC
1 ACAAAGCCAAATGGATTATAAAGCCAAAATCCAAAGATTAT-GCCTTGCTGTCTCTTGTTTCCCC
**
35001748 -ATCAGGCAA
65 AATCAACCAA
*
35001757 ACAAAGCCAAATGAATTATA
1 ACAAAGCCAAATGGATTATA
35001777 GAAGTACATT
Statistics
Matches: 134, Mismatches: 26, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
72 1 0.01
73 83 0.62
74 50 0.37
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.27
Consensus pattern (74 bp):
ACAAAGCCAAATGGATTATAAAGCCAAAATCCAAAGATTATGCCTTGCTGTCTCTTGTTTCCCCA
ATCAACCAA
Found at i:35007929 original size:21 final size:21
Alignment explanation
Indices: 35007905--35007944 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
35007895 AAATAGATGG
35007905 AGAAAAG-AAGAAAAAAAATGA
1 AGAAAAGTAA-AAAAAAAATGA
*
35007926 AGAAATGTAAAAAAAAAAT
1 AGAAAAGTAAAAAAAAAAT
35007945 AGGGTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.75, C:0.00, G:0.15, T:0.10
Consensus pattern (21 bp):
AGAAAAGTAAAAAAAAAATGA
Found at i:35013011 original size:15 final size:15
Alignment explanation
Indices: 35012991--35013020 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
35012981 ATCAACACCT
35012991 TACTACGACTAACCA
1 TACTACGACTAACCA
35013006 TACTACGACTAACCA
1 TACTACGACTAACCA
35013021 GTTGGTCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.33, G:0.07, T:0.20
Consensus pattern (15 bp):
TACTACGACTAACCA
Found at i:35015701 original size:23 final size:20
Alignment explanation
Indices: 35015673--35015724 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
35015663 CGGCCTATTT
*
35015673 TTTTAATAAACACCAAAAAATTA
1 TTTTAA-AAACA--AAAAAAGTA
*
35015696 TTTTAAAAATAAAAAAAGTA
1 TTTTAAAAACAAAAAAAGTA
35015716 TTTTAAAAA
1 TTTTAAAAA
35015725 TATTTGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 17 0.63
22 4 0.15
23 6 0.22
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.33
Consensus pattern (20 bp):
TTTTAAAAACAAAAAAAGTA
Found at i:35015711 original size:19 final size:20
Alignment explanation
Indices: 35015687--35015726 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
35015677 AATAAACACC
*
35015687 AAAAAATTATTTTAAAAATA
1 AAAAAAGTATTTTAAAAATA
35015707 AAAAAAGTATTTTAAAAATA
1 AAAAAAGTATTTTAAAAATA
35015727 TTTGAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (20 bp):
AAAAAAGTATTTTAAAAATA
Found at i:35022409 original size:207 final size:207
Alignment explanation
Indices: 35022038--35022452 Score: 678
Period size: 207 Copynumber: 2.0 Consensus size: 207
35022028 ATCCTCGGGT
* *
35022038 CAATAGACTTTGGTGCAAGTGCTGTATGCTTTTCTTAAAAAGAGAAAGAACGAAAGTTTTGTTTG
1 CAATAGACTTTGGTGCAAGTGCTGTATGCTTTTCTTAAAAAGAAAAAGAAAGAAAGTTTTGTTTG
35022103 TATACCACAAAAGGCTCTTCATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCAC
66 TATACCACAAAAGGC-CTTCATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCAC
35022168 CCTTTGATCCTTCCAGGAAGCATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCAT
130 CCTTTGATCCTTCCAGGAAGCATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCAT
35022233 TTGGTATTTGTCC
195 TTGGTATTTGTCC
35022246 CAATAGACTTT-GT-CAAAGTGCTGTATGCTTTTCTTAAAAAGCGAAAAAGAATAG-AAGTTTTG
1 CAATAGACTTTGGTGC-AAGTGCTGTATGCTTTTCTTAAAAA--GAAAAAGAA-AGAAAGTTTTG
* *
35022308 TTTGTATACCACAAAAGG-C-TCGTCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCTGGTTCT
62 TTTGTATACCACAAAAGGCCTTCATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCT
* *
35022371 CACCCTTTTGATCCTTCCGGGAAGCATCAGAATCTGGTGATACACTTCTTGCATTGCTAGGATCA
127 CACCC-TTTGATCCTTCCAGGAAGCATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCA
*
35022436 GCGTTTGGTATTTGTCC
191 GCATTTGGTATTTGTCC
35022453 GGTAGATTTT
Statistics
Matches: 195, Mismatches: 7, Indels: 11
0.92 0.03 0.05
Matches are distributed among these distances:
206 48 0.25
207 101 0.52
208 11 0.06
209 34 0.17
210 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.33
Consensus pattern (207 bp):
CAATAGACTTTGGTGCAAGTGCTGTATGCTTTTCTTAAAAAGAAAAAGAAAGAAAGTTTTGTTTG
TATACCACAAAAGGCCTTCATCATCTTTTGGCATCTTGAGAAGGTCCTCCAATCCGGTTCTCACC
CTTTGATCCTTCCAGGAAGCATCAGAATCTGGTGACACACTTCTTGCATTGCTAGGATCAGCATT
TGGTATTTGTCC
Found at i:35025617 original size:17 final size:17
Alignment explanation
Indices: 35025579--35025618 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
35025569 TTAAAAAAAA
35025579 CTGA-ACATACCCGTGT
1 CTGACACATACCCGTGT
**
35025595 AGGACACATACCCGTGT
1 CTGACACATACCCGTGT
35025612 CTGACAC
1 CTGACAC
35025619 GCAACCATGT
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 2 0.11
17 17 0.89
ACGTcount: A:0.28, C:0.33, G:0.20, T:0.20
Consensus pattern (17 bp):
CTGACACATACCCGTGT
Found at i:35043402 original size:17 final size:19
Alignment explanation
Indices: 35043380--35043423 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
35043370 GATAACTAAG
*
35043380 ATAAATAAA-A-TAGAATA
1 ATAAATAAATATTAGAACA
35043397 ATAAATCAAATATTAGAACA
1 ATAAAT-AAATATTAGAACA
35043417 ATAAATA
1 ATAAATA
35043424 CGAAAGTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 6 0.26
18 3 0.13
19 2 0.09
20 12 0.52
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.25
Consensus pattern (19 bp):
ATAAATAAATATTAGAACA
Found at i:35043407 original size:22 final size:22
Alignment explanation
Indices: 35043351--35043408 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
35043341 ATCCAAGTCA
* *
35043351 AATAAAACAATTAAAACTAGAT
1 AATAAATCAAATAAAACTAGAT
35043373 AACTAAGAT-AAATAAAA-TAGAAT
1 AA-TAA-ATCAAATAAAACTAG-AT
35043396 AATAAATCAAATA
1 AATAAATCAAATA
35043409 TTAGAACAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
21 2 0.07
22 13 0.43
23 14 0.47
24 1 0.03
ACGTcount: A:0.66, C:0.07, G:0.05, T:0.22
Consensus pattern (22 bp):
AATAAATCAAATAAAACTAGAT
Found at i:35043863 original size:21 final size:20
Alignment explanation
Indices: 35043826--35043865 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
35043816 TCCTTTAACT
*
35043826 TAACAGAAAACTTAAACCAAA
1 TAACA-AAAACTAAAACCAAA
35043847 TAACAAAAACCTAAAACCA
1 TAACAAAAA-CTAAAACCA
35043866 GAAACAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.62, C:0.23, G:0.03, T:0.12
Consensus pattern (20 bp):
TAACAAAAACTAAAACCAAA
Found at i:35051043 original size:45 final size:46
Alignment explanation
Indices: 35050948--35051045 Score: 162
Period size: 46 Copynumber: 2.2 Consensus size: 46
35050938 TGTGTATATC
* * *
35050948 TATTTTCTTTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAA
1 TATTTTGTTTTAACTAGGAGATTAGATGCTAAAGTTTAAGAGATAA
35050994 TATTTTGTTTTAACTAGGAGATTAGATGCT-AAGTTTAAGAGATAA
1 TATTTTGTTTTAACTAGGAGATTAGATGCTAAAGTTTAAGAGATAA
35051039 TATTTTG
1 TATTTTG
35051046 GTTTCTATCT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 21 0.43
46 28 0.57
ACGTcount: A:0.34, C:0.04, G:0.19, T:0.43
Consensus pattern (46 bp):
TATTTTGTTTTAACTAGGAGATTAGATGCTAAAGTTTAAGAGATAA
Found at i:35055693 original size:45 final size:46
Alignment explanation
Indices: 35055598--35055695 Score: 171
Period size: 46 Copynumber: 2.2 Consensus size: 46
35055588 TGTGTATATC
* *
35055598 TATTTTCTTTTAATTAGGAGATTAGATGCTAAAGTTTAGGAGATAA
1 TATTTTGTTTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAA
35055644 TATTTTGTTTTAATTAGGAGATTAGATGCT-AAGTTTAAGAGATAA
1 TATTTTGTTTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAA
35055689 TATTTTG
1 TATTTTG
35055696 GTTTCTATCT
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 21 0.42
46 29 0.58
ACGTcount: A:0.34, C:0.03, G:0.19, T:0.44
Consensus pattern (46 bp):
TATTTTGTTTTAATTAGGAGATTAGATGCTAAAGTTTAAGAGATAA
Found at i:35056515 original size:21 final size:21
Alignment explanation
Indices: 35056489--35056528 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35056479 AAATTTTAAA
*
35056489 TTTTAAAAAATTTAAAAATAT
1 TTTTAAAAAAATTAAAAATAT
35056510 TTTTAAAAAAATTAAAAAT
1 TTTTAAAAAAATTAAAAAT
35056529 CATTAAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTTAAAAAAATTAAAAATAT
Found at i:35066983 original size:24 final size:24
Alignment explanation
Indices: 35066950--35066997 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
35066940 GCAAGTATCC
*
35066950 CTTAGGTTGGTAGATCGAGTTCCT
1 CTTAGATTGGTAGATCGAGTTCCT
*
35066974 CTTAGATTGGTAGTTCGAGTTCCT
1 CTTAGATTGGTAGATCGAGTTCCT
35066998 TACATGTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.17, C:0.17, G:0.27, T:0.40
Consensus pattern (24 bp):
CTTAGATTGGTAGATCGAGTTCCT
Found at i:35067805 original size:9 final size:9
Alignment explanation
Indices: 35067788--35067824 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
35067778 TGAGTTTTCG
35067788 AATTCGAAT
1 AATTCGAAT
*
35067797 AACTCGAAT
1 AATTCGAAT
35067806 AATTCGAAT
1 AATTCGAAT
35067815 AATTCGAAT
1 AATTCGAAT
35067824 A
1 A
35067825 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:35068008 original size:30 final size:30
Alignment explanation
Indices: 35067972--35068044 Score: 128
Period size: 30 Copynumber: 2.4 Consensus size: 30
35067962 CATTTCCCAC
*
35067972 CAAAATTTTACTTTCACATTTACTTTTTCT
1 CAAAATTTTACTCTCACATTTACTTTTTCT
*
35068002 CAAAATTTTACTCTCCCATTTACTTTTTCT
1 CAAAATTTTACTCTCACATTTACTTTTTCT
35068032 CAAAATTTTACTC
1 CAAAATTTTACTC
35068045 CCAAAACCCT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.27, C:0.23, G:0.00, T:0.49
Consensus pattern (30 bp):
CAAAATTTTACTCTCACATTTACTTTTTCT
Found at i:35068624 original size:44 final size:44
Alignment explanation
Indices: 35068561--35068650 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
35068551 ACATAGTGAC
*
35068561 AAGAATTTGAAGATAATTGAAACAACTAAGCAAGCAAAGAAGCT
1 AAGAATCTGAAGATAATTGAAACAACTAAGCAAGCAAAGAAGCT
*
35068605 AAGAATCTGAAGATAATTGAAATAACTAAGCAAGCAAAGAAGCT
1 AAGAATCTGAAGATAATTGAAACAACTAAGCAAGCAAAGAAGCT
35068649 AA
1 AA
35068651 CCAGTATAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.53, C:0.11, G:0.18, T:0.18
Consensus pattern (44 bp):
AAGAATCTGAAGATAATTGAAACAACTAAGCAAGCAAAGAAGCT
Found at i:35071758 original size:7 final size:7
Alignment explanation
Indices: 35071746--35071771 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
35071736 TCACTTTAAA
35071746 AATTTAT
1 AATTTAT
35071753 AATTTAT
1 AATTTAT
35071760 AATTTAT
1 AATTTAT
35071767 AATTT
1 AATTT
35071772 TTCGTCAGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTAT
Found at i:35076869 original size:21 final size:21
Alignment explanation
Indices: 35076836--35076905 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
35076826 TTGAGCTTCA
* *
35076836 GTTTAACCATTATGGGTTTTC
1 GTTTAGCCCTTATGGGTTTTC
** * * *
35076857 GTTTAGCTTTTATGAGCTTCC
1 GTTTAGCCCTTATGGGTTTTC
* *
35076878 GTTCAACCCTTATGGGTTTTC
1 GTTTAGCCCTTATGGGTTTTC
35076899 GTTTAGC
1 GTTTAGC
35076906 ACTTGTGTAC
Statistics
Matches: 34, Mismatches: 15, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.16, C:0.19, G:0.20, T:0.46
Consensus pattern (21 bp):
GTTTAGCCCTTATGGGTTTTC
Found at i:35076898 original size:42 final size:43
Alignment explanation
Indices: 35076783--35076905 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 43
35076773 AGTTAACTCA
* * * * ** *
35076783 TATGAGTTTCTGTTTAACCCTAATAGGTTTTAATTCAGCTCTT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTTCGTTTAGCTCTT
*
35076826 T-TGAGCTTCAGTTTAACCATTATGGGTTTTCGTTTAGCT-TT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTTCGTTTAGCTCTT
* *
35076867 TATGAGCTTCCGTTCAACCCTTATGGGTTTTCGTTTAGC
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTTCGTTTAGC
35076906 ACTTGTGTAC
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 3 0.04
42 64 0.94
43 1 0.01
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.46
Consensus pattern (43 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTTCGTTTAGCTCTT
Found at i:35087885 original size:2 final size:2
Alignment explanation
Indices: 35087878--35087908 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
35087868 TTAACTTTAT
35087878 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
35087909 TAAATTTAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:35089333 original size:3 final size:3
Alignment explanation
Indices: 35089327--35089353 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
35089317 GCCGCCGCCG
35089327 CCA CCA CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA
35089354 TCAGCTCTCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.67, G:0.00, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:35090595 original size:20 final size:20
Alignment explanation
Indices: 35090566--35090604 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
35090556 ATCATCTACC
*
35090566 TTTATTTATTTGTAATTATT
1 TTTATCTATTTGTAATTATT
*
35090586 TTTATCTATTTTTAATTAT
1 TTTATCTATTTGTAATTAT
35090605 AAATTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (20 bp):
TTTATCTATTTGTAATTATT
Found at i:35098267 original size:5 final size:6
Alignment explanation
Indices: 35098251--35098277 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
35098241 AAAATGAAAA
35098251 ATTTTT ATTTTT ATTTTT ATTTTT ATT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATT
35098278 CAAAACAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (6 bp):
ATTTTT
Found at i:35100627 original size:107 final size:105
Alignment explanation
Indices: 35100427--35100634 Score: 317
Period size: 107 Copynumber: 2.0 Consensus size: 105
35100417 ATAATATTGA
* * * *
35100427 TTGAAAGTTAAGAAGATATTTAGCTATTTGATCGAACGAGAAATGGAAACCCAGCACGTTAGGGT
1 TTGAAAGTTAAAAAGATATTTAGCTATTTGATCAAACGAGAAATCGAAACCCAGCACGTTAGGGC
35100492 ACGTTCTCTCGAATTTCCAAACGCAAAATATTGCCTCGTT
66 ACGTTCTCTCGAATTTCCAAACGCAAAATATTGCCTCGTT
* *
35100532 TTGAAAGTTTAAAAAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGG
1 TTGAAAG-TTAAAAA-GATATTTAGCTATTTGATCAAACGAGAAATCGAAACCCAGCACGTTAGG
* * *
35100597 GCACGTTTTCTCGATTTTTCAAACGCAAAATATTGCCT
64 GCACGTTCTCTCGAATTTCCAAACGCAAAATATTGCCT
35100635 TATTTAGAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
105 7 0.08
106 6 0.07
107 79 0.86
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (105 bp):
TTGAAAGTTAAAAAGATATTTAGCTATTTGATCAAACGAGAAATCGAAACCCAGCACGTTAGGGC
ACGTTCTCTCGAATTTCCAAACGCAAAATATTGCCTCGTT
Found at i:35103023 original size:44 final size:44
Alignment explanation
Indices: 35102919--35103685 Score: 710
Period size: 44 Copynumber: 17.7 Consensus size: 44
35102909 GTTTCTTCTG
**
35102919 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGATGC---GA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCAT-CTTTGA
*
35102959 TCTGCTCCACTACTGCTTAGGGAGATAAGATATACCATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
* * *
35103003 CCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
* *
35103047 CCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
* * * *
35103091 CCTGCTCCACTACTGCTTAGAGAGATAGGATCTACCATCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
35103135 -CTTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
1 TC-TGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
* * * *
35103179 CCTGCTTCACTACTGCTTAGGGAGATATGATCTACCATCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
* * ***** **
35103223 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
** * * * *
35103266 TCTGCTTTACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCATCTTTGA
*
35103310 TCTACTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
* * * ****
35103354 CCTGCTCCACTACTGCTTAGGGAAATAGGAT-TGGTTTCTTCTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTT-TGA
* **
35103397 TCTACTCCACTACTGCTTAGGGAGATAAGA-CT-TGATGC---GA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCAT-CTTTGA
* ***** **
35103437 TCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
* * * * *
35103480 TCTGCTTCACTACTGCCTAGGAAGATAAGAT-TCGCCGTCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCATCTTTGA
35103524 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
* * ***** * **
35103568 CCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCCTAAA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
* * *
35103611 TCTGCTTCACTACTGCTTAGGAAGATAAGAT-TCACCGTCTTCT-A
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCATCTT-TGA
35103655 TCTGCTCCACTACTGCTTAGGGAGATAAGAT
1 TCTGCTCCACTACTGCTTAGGGAGATAAGAT
35103686 TCGCCGTCTT
Statistics
Matches: 603, Mismatches: 100, Indels: 44
0.81 0.13 0.06
Matches are distributed among these distances:
39 1 0.00
40 61 0.10
41 2 0.00
42 3 0.00
43 126 0.21
44 407 0.67
45 3 0.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGA
Found at i:35103409 original size:131 final size:130
Alignment explanation
Indices: 35102920--35103685 Score: 696
Period size: 131 Copynumber: 5.9 Consensus size: 130
35102910 TTTCTTCTGT
** *
35102920 CTGCTCCACTACTGCTTAGGGAGATAAGACT-TGATGC---GATCTGCTCCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTACCAT-CTTAGACCTGCTCCACTACTGCTTAGGG
* * * *
35102981 AGATAAGATATACCATCTT-TGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTC
65 AAATAAGAT-TACCGTCTTCTG-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTC
35103045 GAC
128 GAC
* *
35103048 CTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGAG
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CTACCATCTTAGACCTGCTCCACTACTGCTTAGGG
* * * * *
35103113 AGATAGGATCTACCATCTTC-GACTTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTT
65 AAATAAGAT-TACCGTCTTCTGTC-TGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTC
35103177 GAC
128 GAC
* * *
35103180 CTGCTTCACTACTGCTTAGGGAGATATGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CTACCATCTTAGACCTGCTCCACTACTGCTTAGGG
* * * *** * *** ** * * *
35103245 AGATAGGACTGGTGGCTTAAATCTGCTTTACTACTGCTTAGGAAGATAAGAT-TCGCCGTCTTCG
65 AAATAAGATTACCGTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGATCT-ACCATCTTCG
*
35103309 AT
129 AC
* *
35103311 CTACTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTCCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAAGA-CTACCATCTTAGACCTGCTCCACTACTGCTTAGGG
* **** * ** *
35103376 AAATAGGATTGGTTTCTTCTGTCTACTCCACTACTGCTTAGGGAGATAAGA-CT-TGA--TGCGA
65 AAATAAGATTACCGTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGA
*
35103437 T
130 C
* ***** * * * *
35103438 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCACTACTGCCTA-GGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTACCATCTTAGACCTGCTCCACTACTGCTTAGGGA
* *
35103502 AGATAAGATTCGCCGTCTT-TGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTT
66 A-ATAAGATT-ACCGTCTTCTG-TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTC
35103566 GAC
128 GAC
* ***** * * * *
35103569 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCCTAAATCTGCTTCACTACTGCTTA-GGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTACCATCTTAGACCTGCTCCACTACTGCTTAGGGA
*
35103633 AGATAAGATTCACCGTCTTCTATCTGCTCCACTACTGCTTAGGGAGATAAGAT
66 A-ATAAGATT-ACCGTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGAT
35103686 TCGCCGTCTT
Statistics
Matches: 547, Mismatches: 73, Indels: 33
0.84 0.11 0.05
Matches are distributed among these distances:
125 4 0.01
126 31 0.06
127 66 0.12
128 31 0.06
129 4 0.01
130 3 0.01
131 255 0.47
132 153 0.28
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (130 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGACTACCATCTTAGACCTGCTCCACTACTGCTTAGGGA
AATAAGATTACCGTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTCGAC
Found at i:35103491 original size:83 final size:85
Alignment explanation
Indices: 35103309--35103550 Score: 240
Period size: 83 Copynumber: 2.8 Consensus size: 85
35103299 GCCGTCTTCG
* * * * *
35103309 ATCTACTCCACTACTGCTTAGGGAGATAAGATCTACCATC-TTTGACCTGCTCCACTACTGCTTA
1 ATCTACTCCACTACTGCCTAGGAAGATAAGAT-T-CGA-CGTCTGATCTGCTCCACTACTGCTTA
* * ** **
35103373 GGGAAATAGGATTGGTTTCTTCT
63 GGGAGATAGGACTGGTGGCTTAA
* * * *
35103396 GTCTACTCCACTACTGCTTAGGGAGATAAGACTT-GATG-C-GATCTGCTCCACTACTGCTTAGG
1 ATCTACTCCACTACTGCCTAGGAAGATAAGA-TTCGACGTCTGATCTGCTCCACTACTGCTTAGG
35103458 GAGATAGGACTGGTGGCTTAA
65 GAGATAGGACTGGTGGCTTAA
* * *
35103479 ATCTGCTTCACTACTGCCTAGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAG
1 ATCTACTCCACTACTGCCTAGGAAGATAAGATTCGACGTC--TGATCTGCTCCACTACTGCTTAG
35103544 GGAGATA
64 GGAGATA
35103551 AGATCTACCA
Statistics
Matches: 130, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
82 2 0.02
83 65 0.50
84 1 0.01
85 1 0.01
87 60 0.46
88 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (85 bp):
ATCTACTCCACTACTGCCTAGGAAGATAAGATTCGACGTCTGATCTGCTCCACTACTGCTTAGGG
AGATAGGACTGGTGGCTTAA
Found at i:35103505 original size:214 final size:217
Alignment explanation
Indices: 35102920--35103681 Score: 862
Period size: 214 Copynumber: 3.5 Consensus size: 217
35102910 TTTCTTCTGT
* * *
35102920 CTGCTCCACTACTGCTTAGGGAGATAAGACTT-G-ATGC---GATCTGCTCCACTACTGCTTAGG
1 CTGCTCCACTACTGCTTAGGGAGATAGGA-TTGGTAT-CTTTGACCTACTCCACTACTGCTTAGG
* ** ***** *
35102980 GAGATAAGATATACCATCTTTGACCTGCTCCACTACTGCTTAGGGAGATAGGATCTACCATCTTC
64 GAGATAAGATCTACCA-CTGCGACCTGCTCCACTACTGCTTAGGGAGATAGGA-CTGGTGGCTTA
* * * * * * *
35103045 GACCTGCTCCACTACTGCTTAGGGAGATAAGA-TCTACCATCTTCGACCTGCTCCACTACTGCTT
127 AATCTGCTTCACTACTGCTTAGGAAGATAAGATTC-GCCGTCTTCGATCTGCTCCACTACTGCTT
* * *
35103109 AGAGAGATAGGATCTACCATCTTCGAC
191 AGGGAGATAAGATCTACCATCTTTGAC
* * *** * *
35103136 TTGCTCCACTACTGCTTAGGGAGATAAGATCTACCATCTTTGACCTGCTTCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAGGAT-TGGTATCTTTGACCTACTCCACTACTGCTTAGGG
* *
35103201 AGATATGATCTACCATCTTCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAA
65 AGATAAGATCTACCA-CTGCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAA
* *
35103266 TCTGCTTTACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTACTCCACTACTGCTTAGG
129 TCTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGG
35103331 GAGATAAGATCTACCATCTTTGAC
194 GAGATAAGATCTACCATCTTTGAC
* * *
35103355 CTGCTCCACTACTGCTTAGGGAAATAGGATTGGTTTCTTCTG-TCTACTCCACTACTGCTTAGGG
1 CTGCTCCACTACTGCTTAGGGAGATAGGATTGGTATCTT-TGACCTACTCCACTACTGCTTAGGG
** *
35103419 AGATAAGA-CT-TGA-TGCGATCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAAT
65 AGATAAGATCTACCACTGCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAAT
* *
35103481 CTGCTTCACTACTGCCTAGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGG
130 CTGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGG
35103546 AGATAAGATCTACCATCTTTGAC
195 AGATAAGATCTACCATCTTTGAC
* ** * ** * * * *
35103569 CTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCCTAAATCTGCTTCACTACTGCTTAGGAA
1 CTGCTCCACTACTGCTTAGGGAGATAGGATTGGTATCTTTGACCTACTCCACTACTGCTTAGGGA
* * * *
35103634 GATAAGAT-TCACCGTCTTCTATCTGCTCCACTACTGCTTAGGGAGATA
66 GATAAGATCT-ACC-ACTGCGACCTGCTCCACTACTGCTTAGGGAGATA
35103682 AGATTCGCCG
Statistics
Matches: 473, Mismatches: 59, Indels: 26
0.85 0.11 0.05
Matches are distributed among these distances:
214 193 0.41
215 1 0.00
216 30 0.06
217 3 0.01
218 63 0.13
219 110 0.23
220 73 0.15
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (217 bp):
CTGCTCCACTACTGCTTAGGGAGATAGGATTGGTATCTTTGACCTACTCCACTACTGCTTAGGGA
GATAAGATCTACCACTGCGACCTGCTCCACTACTGCTTAGGGAGATAGGACTGGTGGCTTAAATC
TGCTTCACTACTGCTTAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGA
GATAAGATCTACCATCTTTGAC
Found at i:35104957 original size:13 final size:13
Alignment explanation
Indices: 35104941--35104967 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35104931 TCCATTTTAC
35104941 TTTTCATTTTTCA
1 TTTTCATTTTTCA
35104954 TTTTCATTTTTCA
1 TTTTCATTTTTCA
35104967 T
1 T
35104968 CTCTCTCTTT
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:0.15, G:0.00, T:0.70
Consensus pattern (13 bp):
TTTTCATTTTTCA
Found at i:35106009 original size:19 final size:19
Alignment explanation
Indices: 35105985--35106024 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
35105975 AGAGGCATTC
35105985 ACGTCATTGATATCTGAGG
1 ACGTCATTGATATCTGAGG
35106004 ACGTCATTGATATCTGAGG
1 ACGTCATTGATATCTGAGG
35106023 AC
1 AC
35106025 CCATAATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (19 bp):
ACGTCATTGATATCTGAGG
Found at i:35108795 original size:107 final size:105
Alignment explanation
Indices: 35108590--35108797 Score: 317
Period size: 107 Copynumber: 2.0 Consensus size: 105
35108580 ATAATATTGA
* * * *
35108590 TTGAAAGTTAAGAAGATATTTAGCTATTTGGTCGAACGAGAAATGGAAACCCAGCACGTTAGGGT
1 TTGAAAGTTAAAAAGATATTTAGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGC
35108655 ACGTTCTCTCGAATTTCCAAACGCAAAACATTGCCTCGTT
66 ACGTTCTCTCGAATTTCCAAACGCAAAACATTGCCTCGTT
*
35108695 TTGAAAGTTTAAAAAGGATATTTGGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGG
1 TTGAAAG-TTAAAAA-GATATTTAGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGG
* * * *
35108760 GCACGTTTTCTCGATTTTTCAAACGCAAAATATTGCCT
64 GCACGTTCTCTCGAATTTCCAAACGCAAAACATTGCCT
35108798 TATTTAGAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
105 7 0.08
106 6 0.07
107 79 0.86
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (105 bp):
TTGAAAGTTAAAAAGATATTTAGCTATTTGGTCAAACGAGAAATCGAAACCCAGCACGTTAGGGC
ACGTTCTCTCGAATTTCCAAACGCAAAACATTGCCTCGTT
Found at i:35110224 original size:2 final size:2
Alignment explanation
Indices: 35110219--35110245 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
35110209 TATATATATA
35110219 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
35110246 ATACATGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:35112752 original size:120 final size:120
Alignment explanation
Indices: 35112625--35112907 Score: 491
Period size: 117 Copynumber: 2.4 Consensus size: 120
35112615 ACGTGGGGGG
*
35112625 AATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTATAGTATAAT
1 AATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTAAAGTATAAT
*
35112690 ATATTATGATTTTAGTAAATTCATATAAGAATATTTAATTTTAAGAATTTTATTA
66 ATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTA
*
35112745 AATTATATATTTTTATTAAATTATA-TT--TAATAATTATTTTAAATTATATTTTAAAGTATTAT
1 AATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTAAAGTATAAT
*
35112807 ATATTATGATTTTAGTAAATTCATATAAGAATATTTGATATTAAGAATTTTATTA
66 ATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTA
* *
35112862 AATTATATATTTTTATTAAATTATATTTAATAATAATAATGTTAAA
1 AATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAA
35112908 ATATGATTAA
Statistics
Matches: 154, Mismatches: 6, Indels: 6
0.93 0.04 0.04
Matches are distributed among these distances:
117 111 0.72
118 2 0.01
119 2 0.01
120 39 0.25
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (120 bp):
AATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTTAAAGTATAAT
ATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTA
Found at i:35112867 original size:61 final size:61
Alignment explanation
Indices: 35112688--35112872 Score: 195
Period size: 61 Copynumber: 3.1 Consensus size: 61
35112678 TTATAGTATA
*
35112688 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATTTTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATT
* * ** * * * ** *
35112749 ATATATTTTTATTAAATTATATTTA-ATAATTAT-TTTAA-ATT-A-TATTTTA--AAGTATT
1 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA--ATT
*
35112805 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTGATATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATT
35112866 ATATATT
1 ATATATT
35112873 TTTATTAAAT
Statistics
Matches: 93, Mismatches: 22, Indels: 18
0.70 0.17 0.14
Matches are distributed among these distances:
54 2 0.02
56 27 0.29
57 7 0.08
58 6 0.06
59 8 0.09
60 7 0.08
61 34 0.37
63 2 0.02
ACGTcount: A:0.42, C:0.01, G:0.05, T:0.51
Consensus pattern (61 bp):
ATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATT
Found at i:35113143 original size:16 final size:16
Alignment explanation
Indices: 35113118--35113155 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
35113108 TTGAATTACT
*
35113118 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
35113134 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
35113150 ATTACA
1 ATTACA
35113156 GCGAACCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.26, C:0.34, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:35113603 original size:25 final size:26
Alignment explanation
Indices: 35113575--35113642 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
35113565 AAATTTTTGG
35113575 ATTTTCTAATATTTTTAGTTTTTT-T
1 ATTTTCTAATATTTTTAGTTTTTTAT
* *
35113600 ATTTTATTGAAT-TTTTTATTTTTTTAT
1 ATTTT-CT-AATATTTTTAGTTTTTTAT
* *
35113627 ATTTTGTATTATTTTT
1 ATTTTCTAATATTTTT
35113643 TACTTTTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
25 7 0.20
26 19 0.54
27 9 0.26
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.74
Consensus pattern (26 bp):
ATTTTCTAATATTTTTAGTTTTTTAT
Found at i:35113626 original size:8 final size:8
Alignment explanation
Indices: 35113586--35113670 Score: 53
Period size: 8 Copynumber: 10.0 Consensus size: 8
35113576 TTTTCTAATA
35113586 TTTTTAGTT
1 TTTTTA-TT
35113595 TTTTTATT
1 TTTTTATT
* *
35113603 TTATTGAAT
1 TT-TTTATT
35113612 TTTTTATT
1 TTTTTATT
35113620 TTTTTATAT
1 TTTTTAT-T
*
35113629 TTTGTATTAT
1 TTTTTA-T-T
*
35113639 TTTTTACT
1 TTTTTATT
*
35113647 TTTATATT
1 TTTTTATT
* *
35113655 GTTATATT
1 TTTTTATT
*
35113663 TTTATATT
1 TTTTTATT
35113671 ATTATATATC
Statistics
Matches: 62, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
8 36 0.58
9 18 0.29
10 8 0.13
ACGTcount: A:0.20, C:0.01, G:0.05, T:0.74
Consensus pattern (8 bp):
TTTTTATT
Found at i:35113630 original size:17 final size:17
Alignment explanation
Indices: 35113594--35113670 Score: 61
Period size: 17 Copynumber: 4.5 Consensus size: 17
35113584 TATTTTTAGT
*
35113594 TTTTTTATTTTATTGA-A
1 TTTTTTATTTT-TTTATA
35113611 TTTTTTATTTTTTTATA
1 TTTTTTATTTTTTTATA
*
35113628 TTTTGTATTATTTTT-TA
1 TTTTTTATT-TTTTTATA
* * *
35113645 -CTTTTATATTGTTATA
1 TTTTTTATTTTTTTATA
35113661 TTTTTATATT
1 TTTTT-TATT
35113671 ATTATATATC
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
15 4 0.09
16 10 0.21
17 25 0.53
18 8 0.17
ACGTcount: A:0.21, C:0.01, G:0.04, T:0.74
Consensus pattern (17 bp):
TTTTTTATTTTTTTATA
Found at i:35113631 original size:16 final size:16
Alignment explanation
Indices: 35113612--35113677 Score: 71
Period size: 16 Copynumber: 4.1 Consensus size: 16
35113602 TTTATTGAAT
*
35113612 TTTTTATTTTTTTATA
1 TTTTTATATTTTTATA
35113628 TTTTGTATTATTTTT-TA
1 TTTT-TA-TATTTTTATA
* *
35113645 CTTTTATATTGTTATA
1 TTTTTATATTTTTATA
*
35113661 TTTTTATATTATTATA
1 TTTTTATATTTTTATA
35113677 T
1 T
35113678 ATCTTTAAAG
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
15 6 0.14
16 23 0.55
17 7 0.17
18 6 0.14
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTTTATATTTTTATA
Found at i:35113640 original size:27 final size:25
Alignment explanation
Indices: 35113581--35113649 Score: 68
Period size: 27 Copynumber: 2.6 Consensus size: 25
35113571 TTGGATTTTC
*
35113581 TAATATTTTTAGTTTTTTTATTTTAT
1 TAAT-TTTTTACTTTTTTTATTTTAT
*
35113607 TGAATTTTTTATTTTTTTATATTTTGTAT
1 T-AATTTTTTACTTTTTT-TA-TTT-TAT
35113636 T-ATTTTTTACTTTT
1 TAATTTTTTACTTTT
35113650 ATATTGTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
26 13 0.35
27 17 0.46
28 3 0.08
29 4 0.11
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.74
Consensus pattern (25 bp):
TAATTTTTTACTTTTTTTATTTTAT
Found at i:35119192 original size:17 final size:16
Alignment explanation
Indices: 35119147--35119203 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 16
35119137 ATCAAAGTTG
* *
35119147 TAAAAATAATATAGTAT
1 TAAAAATAATAAAAT-T
*
35119164 TAAAAAT-TTAAAATCT
1 TAAAAATAATAAAAT-T
35119180 TAAAAATAATAAAATT
1 TAAAAATAATAAAATT
35119196 ATAAAAAT
1 -TAAAAAT
35119204 TCAAAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 13 0.39
17 20 0.61
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
TAAAAATAATAAAATT
Found at i:35119201 original size:33 final size:33
Alignment explanation
Indices: 35119147--35119209 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
35119137 ATCAAAGTTG
* *
35119147 TAAAAATAATATAGTATTAAAAATTTAAAATCT
1 TAAAAATAATAAAGTATTAAAAATTCAAAATCT
*
35119180 TAAAAATAATAAAAT-TATAAAAATTCAAAA
1 TAAAAATAATAAAGTAT-TAAAAATTCAAAA
35119210 ATAATGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 1 0.04
33 25 0.96
ACGTcount: A:0.63, C:0.03, G:0.02, T:0.32
Consensus pattern (33 bp):
TAAAAATAATAAAGTATTAAAAATTCAAAATCT
Found at i:35122411 original size:13 final size:13
Alignment explanation
Indices: 35122386--35122433 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
35122376 TTTTTTAAAA
35122386 TTTAAAAATATATT
1 TTTAAAAA-ATATT
35122400 TTTAAAAAATATT
1 TTTAAAAAATATT
35122413 TTT--AAAAT-TT
1 TTTAAAAAATATT
35122423 TTTAAAAAATA
1 TTTAAAAAATA
35122434 ATAATTAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
10 5 0.16
11 5 0.16
12 5 0.16
13 8 0.26
14 8 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTAAAAAATATT
Done.