Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 32 of 279
Found at i:10709560 original size:40 final size:40
Alignment explanation
Indices: 10708641--10709546 Score: 1692
Period size: 40 Copynumber: 22.6 Consensus size: 40
10708631 TTGAATGATG
* * * *
10708641 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
**
10708681 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
10708721 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10708761 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10708801 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10708841 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10708881 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10708921 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10708961 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10709001 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10709041 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10709081 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10709121 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10709161 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10709201 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10709241 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10709281 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10709321 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10709361 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10709401 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10709441 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
10709481 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
10709522 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
10709547 AACGAGGAGC
Statistics
Matches: 854, Mismatches: 8, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
39 1 0.00
40 843 0.99
41 10 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:10717401 original size:40 final size:39
Alignment explanation
Indices: 10717356--10717501 Score: 177
Period size: 40 Copynumber: 3.7 Consensus size: 39
10717346 AAGTGACCAT
* *
10717356 ATCCGGACTAAGATCTGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGGCTAAG-TCTGAAGGCATTTGTGCGAGTTACTAA
* * *
10717396 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCTGAAGGCATTTGTGCGAGTTACTAA
*
10717435 ATCCGGGTTAAGTCTCGAAGGCATTTGTGCGAGTTACTATA
1 ATCCGGGCTAAGTCT-GAAGGCATTTGTGCGAGTTACTA-A
* *
10717476 A-CCGGGCTATGTCACGAAGGCATTTG
1 ATCCGGGCTAAGTC-TGAAGGCATTTG
10717502 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
39 35 0.38
40 54 0.59
41 2 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (39 bp):
ATCCGGGCTAAGTCTGAAGGCATTTGTGCGAGTTACTAA
Found at i:10717455 original size:79 final size:81
Alignment explanation
Indices: 10717317--10717501 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 81
10717307 TTGAATGATG
* *
10717317 TCCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCATATCCGGACTAAGATCTGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCTGAAGGCATT
10717381 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
10717396 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCTCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCT-GAAGGCA
*
10717458 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* * *
10717476 ACCGGGCTATGTCACGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
10717502 AACGAGGAGC
Statistics
Matches: 90, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
78 3 0.03
79 56 0.62
80 31 0.34
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCTGAAGGCATT
TGTGCGAGATACTATA
Found at i:10717555 original size:66 final size:66
Alignment explanation
Indices: 10717449--10717580 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
10717439 GGGTTAAGTC
10717449 TCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCACGAAGGCATTTGAACGAGGAGCTA
1 TCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCACGAAGGCATTTGAACGAGGAGCTA
10717514 T
66 T
10717515 TCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCACGAAGGCATTTGAACGAGGAGCTA
1 TCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCACGAAGGCATTTGAACGAGGAGCTA
10717580 T
66 T
10717581 ATCCGGTTAA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (66 bp):
TCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCACGAAGGCATTTGAACGAGGAGCTA
T
Found at i:10721810 original size:24 final size:24
Alignment explanation
Indices: 10721775--10721820 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
10721765 TTCCACTTCA
*
10721775 GAGAGTGCCGAATGAAGAGCGGCG
1 GAGAGTGCCGAATAAAGAGCGGCG
*
10721799 GAGAGTGTCGAATAAAGAGCGG
1 GAGAGTGCCGAATAAAGAGCGG
10721821 TGCGTGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.33, C:0.13, G:0.43, T:0.11
Consensus pattern (24 bp):
GAGAGTGCCGAATAAAGAGCGGCG
Found at i:10722172 original size:15 final size:15
Alignment explanation
Indices: 10722152--10722188 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
10722142 ATAAAATTGG
10722152 TGTCTATCATGAACA
1 TGTCTATCATGAACA
*
10722167 TGTCTAGCATGAACA
1 TGTCTATCATGAACA
10722182 TGTCTAT
1 TGTCTAT
10722189 AGAACCTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.30, C:0.19, G:0.16, T:0.35
Consensus pattern (15 bp):
TGTCTATCATGAACA
Found at i:10726224 original size:49 final size:49
Alignment explanation
Indices: 10726165--10726439 Score: 374
Period size: 49 Copynumber: 5.5 Consensus size: 49
10726155 CTGGTACGCA
10726165 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACG
* * * * * *
10726214 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-TAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCT-GATACACG
10726265 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACG
* * * * * *
10726314 TAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAT-TAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCT-GATACACG
10726365 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACG
10726414 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
10726440 CGTGACCTCA
Statistics
Matches: 194, Mismatches: 24, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
49 102 0.53
50 16 0.08
51 76 0.39
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACG
Found at i:10726319 original size:100 final size:100
Alignment explanation
Indices: 10726157--10726444 Score: 576
Period size: 100 Copynumber: 2.9 Consensus size: 100
10726147 GAAGCTATCT
10726157 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACGTAGTAGCC
10726222 TGCACTTAGTACTACACACGTGATCGAAGTTATTA
66 TGCACTTAGTACTACACACGTGATCGAAGTTATTA
10726257 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACGTAGTAGCC
10726322 TGCACTTAGTACTACACACGTGATCGAAGTTATTA
66 TGCACTTAGTACTACACACGTGATCGAAGTTATTA
10726357 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACGTAGTAGCC
10726422 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
10726445 CCTCACAATA
Statistics
Matches: 188, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 188 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGATACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCGAAGTTATTA
Found at i:10727126 original size:29 final size:30
Alignment explanation
Indices: 10727093--10727152 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
10727083 CCTTTAATAC
10727093 AAACTTTAGCA-AATTACCA-TTTTGCCCCT
1 AAACTTTAGCATAATT-CCACTTTTGCCCCT
* *
10727122 AAACTTTTGCATAATTTCACTTTTGCCCCT
1 AAACTTTAGCATAATTCCACTTTTGCCCCT
10727152 A
1 A
10727153 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.28, C:0.27, G:0.07, T:0.38
Consensus pattern (30 bp):
AAACTTTAGCATAATTCCACTTTTGCCCCT
Found at i:10727983 original size:53 final size:54
Alignment explanation
Indices: 10727911--10728012 Score: 179
Period size: 53 Copynumber: 1.9 Consensus size: 54
10727901 TATATCTCAG
*
10727911 ATTTGTGGTCACAAAACCACTATTCCGGTTAGGCCCTAATTC-GGATATATTAA
1 ATTTGTGGTCACAAAACCACTATTCCGATTAGGCCCTAATTCGGGATATATTAA
*
10727964 ATTTGTGGTCACGAAACCACTATTCCGATTAGGCCCTAATTCGGGATAT
1 ATTTGTGGTCACAAAACCACTATTCCGATTAGGCCCTAATTCGGGATAT
10728013 TACAACTCTC
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
53 40 0.87
54 6 0.13
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (54 bp):
ATTTGTGGTCACAAAACCACTATTCCGATTAGGCCCTAATTCGGGATATATTAA
Found at i:10732053 original size:49 final size:49
Alignment explanation
Indices: 10731981--10732900 Score: 1822
Period size: 49 Copynumber: 18.8 Consensus size: 49
10731971 AGCCGAAGCT
* *
10731981 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
10732030 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
10732079 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
10732128 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
10732177 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
10732226 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
10732275 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
10732324 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
10732373 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
10732422 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
10732471 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
10732520 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
10732569 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
10732618 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
10732667 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
10732716 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
10732765 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
10732814 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
10732863 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
10732901 CGTGACCTCA
Statistics
Matches: 869, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 869 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACTAACA
Found at i:10738071 original size:46 final size:46
Alignment explanation
Indices: 10737995--10738110 Score: 187
Period size: 46 Copynumber: 2.5 Consensus size: 46
10737985 GTAACCCGCC
* * *
10737995 CGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACT
1 CGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACT
*
10738041 CGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAATT
1 CGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACT
*
10738087 CAGACTCAACTCAACGAGTTCGGA
1 CGGACTCAACTCAACGAGTTCGGA
10738111 TGCTCAACCA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 65 1.00
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
CGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACT
Found at i:10739641 original size:30 final size:30
Alignment explanation
Indices: 10739607--10739667 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
10739597 TCCTTAACTC
*
10739607 AAACTTTGGTAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
10739637 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
10739667 A
1 A
10739668 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:10744527 original size:30 final size:30
Alignment explanation
Indices: 10744469--10744529 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
10744459 TTCCCGAGCC
*
10744469 TAGGGGCAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATACAAAAGTT
* * * *
10744499 TAGGGGCAAAATTGTAATTTTACCAAAGTT
1 TAGGGGCAAAAGTGTAAATATACAAAAGTT
10744529 T
1 T
10744530 GAGTTAATGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATACAAAAGTT
Found at i:10745342 original size:64 final size:64
Alignment explanation
Indices: 10745238--10745445 Score: 197
Period size: 67 Copynumber: 3.2 Consensus size: 64
10745228 CATCATGTGT
*
10745238 ACAAGAGAGCTACAAGACATTATTATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TA-TATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
10745303 TAG
62 TAG
* * * * * * *
10745306 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGCTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGT
10745371 AG
63 AG
* * * * *
10745373 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACT-ATGTGTACACCATGTAG
10745435 TACAAGAGAGC
1 -ACAAGAGAGC
10745446 CGAACTCTAT
Statistics
Matches: 116, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 22 0.19
65 9 0.08
66 20 0.17
67 32 0.28
68 13 0.11
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:10755490 original size:56 final size:56
Alignment explanation
Indices: 10755423--10755535 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
10755413 CTATGTTGGA
*
10755423 ACGGCAAGAGTTGGTGTTGGTTTTAAACTCTGGTGATGGAGGGATCCCACATCGGG
1 ACGGCAAGAGTTGGTGTTGGTTTTAAACTCTGATGATGGAGGGATCCCACATCGGG
10755479 ACGGCAAGAGTTGGTGTTGGTTTTAAACTCTGATGATGGAGGGATCCCACATCGGG
1 ACGGCAAGAGTTGGTGTTGGTTTTAAACTCTGATGATGGAGGGATCCCACATCGGG
10755535 A
1 A
10755536 AGCTAATGTA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.27
Consensus pattern (56 bp):
ACGGCAAGAGTTGGTGTTGGTTTTAAACTCTGATGATGGAGGGATCCCACATCGGG
Found at i:10756537 original size:27 final size:26
Alignment explanation
Indices: 10756493--10756544 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
10756483 CCTCGCTGCA
*
10756493 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
10756520 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
10756545 GTAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:10763497 original size:43 final size:43
Alignment explanation
Indices: 10763436--10763613 Score: 302
Period size: 43 Copynumber: 4.1 Consensus size: 43
10763426 GTTAAATCCC
10763436 GCAGGCTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTA
* *
10763479 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCTTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTA
*
10763522 GCAGGCTTCGTGCCGGTGATGTATATTCGGGCCTTCATGCCTA
1 GCAGGCTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTA
* * *
10763565 GTAGGCTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTA
10763608 GCAGGC
1 GCAGGC
10763614 GTAATACCGG
Statistics
Matches: 125, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 125 1.00
ACGTcount: A:0.12, C:0.25, G:0.33, T:0.30
Consensus pattern (43 bp):
GCAGGCTTCGTGCCGGTGATGTATATTCGGGCCTTCGTGCCTA
Found at i:10768872 original size:16 final size:17
Alignment explanation
Indices: 10768851--10768882 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10768841 GGAAAATATG
10768851 ATTGTAT-TGAATGGTA
1 ATTGTATATGAATGGTA
10768867 ATTGTATATGAATGGT
1 ATTGTATATGAATGGT
10768883 TAAATGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (17 bp):
ATTGTATATGAATGGTA
Found at i:10774209 original size:43 final size:43
Alignment explanation
Indices: 10774179--10774261 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
10774169 ATTCATAAGA
*
10774179 CAATGCCAATGTCCCAGAAATGGTATTACATGTAATCACAATG
1 CAATGCCAATGTCCCAGAAATAGTATTACATGTAATCACAATG
* *
10774222 CAATGCCAATGTCCCAGACATAGTCTTACATGTAATCACA
1 CAATGCCAATGTCCCAGAAATAGTATTACATGTAATCACA
10774262 TCTCGATAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.36, C:0.24, G:0.14, T:0.25
Consensus pattern (43 bp):
CAATGCCAATGTCCCAGAAATAGTATTACATGTAATCACAATG
Found at i:10787513 original size:40 final size:40
Alignment explanation
Indices: 10787458--10787679 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
10787448 TATTCGAATG
10787458 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
10787498 ATATCCGGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
10787538 ATATCCGGGCTAAGTCCCAAAGACATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
10787578 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* * *
10787618 ATATCCGGGCTTAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
* *
10787658 ATATCC-GGCTAAATTCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
10787680 TACTTGGGTT
Statistics
Matches: 170, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 12 0.07
40 156 0.92
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:10795631 original size:40 final size:40
Alignment explanation
Indices: 10795574--10795745 Score: 285
Period size: 40 Copynumber: 4.3 Consensus size: 40
10795564 TATTCGAATG
*
10795574 ATATCCGGGCTATGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
10795614 ATATCCGGGCTAAGTCCCGAAGACATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
10795654 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
10795694 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
10795734 ATATCC-GGCTAA
1 ATATCCGGGCTAA
10795746 ATTCCAAAGG
Statistics
Matches: 126, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
39 6 0.05
40 118 0.94
41 2 0.02
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:10799488 original size:29 final size:29
Alignment explanation
Indices: 10799428--10799502 Score: 109
Period size: 29 Copynumber: 2.6 Consensus size: 29
10799418 CATACACGCT
*
10799428 TATGGCCCACTAGGCCC-AATCTCATTCA
1 TATGGCCCACTAGGCCCAAATCACATTCA
*
10799456 TATGGCCCATTAGGCCCAAATCACA-TCTA
1 TATGGCCCACTAGGCCCAAATCACATTC-A
10799485 TATGGCCCACTAGGCCCA
1 TATGGCCCACTAGGCCCA
10799503 CTCACTTTTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
28 18 0.43
29 24 0.57
ACGTcount: A:0.27, C:0.35, G:0.16, T:0.23
Consensus pattern (29 bp):
TATGGCCCACTAGGCCCAAATCACATTCA
Found at i:10801323 original size:16 final size:15
Alignment explanation
Indices: 10801304--10801342 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
10801294 CGGCAAATCC
*
10801304 CGAAAAGTCGAAATGT
1 CGAAAAGT-AAAATGT
10801320 CGAAAAGGTAAAATGT
1 CGAAAA-GTAAAATGT
10801336 CGAAAAG
1 CGAAAAG
10801343 ATGAAAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 18 0.86
17 2 0.10
ACGTcount: A:0.49, C:0.10, G:0.26, T:0.15
Consensus pattern (15 bp):
CGAAAAGTAAAATGT
Found at i:10801575 original size:28 final size:28
Alignment explanation
Indices: 10801542--10801628 Score: 104
Period size: 28 Copynumber: 3.1 Consensus size: 28
10801532 GAGTATAAAA
*
10801542 GTGATTGGGCCTAGTGGGTCATAT-AGAT
1 GTGATTGGGCCTAGTGGGCCATATGA-AT
* *
10801570 GTGATTTGGGCGTAATGGGCCATATGAAT
1 GTGA-TTGGGCCTAGTGGGCCATATGAAT
* *
10801599 GAGATTGGGCCTAGTGGGCCATAAGAAT
1 GTGATTGGGCCTAGTGGGCCATATGAAT
10801627 GT
1 GT
10801629 ATGTGGACTT
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
28 26 0.53
29 22 0.45
30 1 0.02
ACGTcount: A:0.24, C:0.11, G:0.36, T:0.29
Consensus pattern (28 bp):
GTGATTGGGCCTAGTGGGCCATATGAAT
Found at i:10802313 original size:11 final size:11
Alignment explanation
Indices: 10802297--10802322 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10802287 ATTGCACGTA
10802297 TGATATTATTG
1 TGATATTATTG
10802308 TGATATTATTG
1 TGATATTATTG
10802319 TGAT
1 TGAT
10802323 GTGGGCTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.19, T:0.54
Consensus pattern (11 bp):
TGATATTATTG
Found at i:10803981 original size:13 final size:13
Alignment explanation
Indices: 10803963--10803988 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10803953 CTAACCACAC
10803963 GCCCGTGTACCCA
1 GCCCGTGTACCCA
10803976 GCCCGTGTACCCA
1 GCCCGTGTACCCA
10803989 TCGAAATGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.46, G:0.23, T:0.15
Consensus pattern (13 bp):
GCCCGTGTACCCA
Found at i:10805246 original size:42 final size:43
Alignment explanation
Indices: 10805182--10805281 Score: 141
Period size: 42 Copynumber: 2.3 Consensus size: 43
10805172 GATTCGAGAT
*
10805182 TTACGTGTAAGACCATGCCTGGGATA-TCGGCATC-ATATTTGA
1 TTACATGTAAGACCATGCCTGGGATAGT-GGCATCGATATTTGA
* * *
10805224 TTTCATGTAAGACCCTGTCTGGGATAGTGGCATCGATATTTGA
1 TTACATGTAAGACCATGCCTGGGATAGTGGCATCGATATTTGA
10805267 TTACATGTAAGACCA
1 TTACATGTAAGACCA
10805282 CGTTTGGGAC
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
42 28 0.56
43 22 0.44
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (43 bp):
TTACATGTAAGACCATGCCTGGGATAGTGGCATCGATATTTGA
Found at i:10805290 original size:43 final size:42
Alignment explanation
Indices: 10805182--10805290 Score: 132
Period size: 43 Copynumber: 2.6 Consensus size: 42
10805172 GATTCGAGAT
* * *
10805182 TTACGTGTAAGACCATGCCTGGGATATCGGCATCATATTTGA
1 TTACATGTAAGACCACGTCTGGGATATCGGCATCATATTTGA
*
10805224 TTTCATGTAAGACC-CTGTCTGGGATAGT-GGCATCGATATTTGA
1 TTACATGTAAGACCAC-GTCTGGGATA-TCGGCATC-ATATTTGA
*
10805267 TTACATGTAAGACCACGTTTGGGA
1 TTACATGTAAGACCACGTCTGGGA
10805291 CGTTGGCATT
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
42 27 0.47
43 29 0.51
44 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (42 bp):
TTACATGTAAGACCACGTCTGGGATATCGGCATCATATTTGA
Found at i:10812588 original size:15 final size:14
Alignment explanation
Indices: 10812564--10812632 Score: 57
Period size: 15 Copynumber: 4.7 Consensus size: 14
10812554 TTCTCTATCC
*
10812564 TGGATCTCTTTATT
1 TGGATTTCTTTATT
10812578 ATGGATTTCTTTATT
1 -TGGATTTCTTTATT
* * *
10812593 CCGGGTTTCTCTATCT
1 -TGGATTTCTTTAT-T
10812609 TGGATTTCTTTATT
1 TGGATTTCTTTATT
* *
10812623 CGGTTTTCTT
1 TGGATTTCTT
10812633 GTTATCTTTG
Statistics
Matches: 43, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
14 9 0.21
15 33 0.77
16 1 0.02
ACGTcount: A:0.12, C:0.16, G:0.16, T:0.57
Consensus pattern (14 bp):
TGGATTTCTTTATT
Found at i:10821355 original size:41 final size:41
Alignment explanation
Indices: 10821243--10821402 Score: 115
Period size: 43 Copynumber: 3.7 Consensus size: 41
10821233 CACACATATC
* * *
10821243 ATACAATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAC
1 ATACAATGCC-ACGTCCCAGACATGGTCTTAAATGTAATCAA
* * * *
10821285 ATATCGATGCCACTATCCCAGATAGGGTCTTAAATG-AATCAA
1 ATA-CAATGCCAC-GTCCCAGACATGGTCTTAAATGTAATCAA
* * * *
10821327 ATACAATGCCGAGGTCCCAGACATGGTCTTACACGTAAGCATA
1 ATACAATGCC-ACGTCCCAGACATGGTCTTAAATGTAATCA-A
* **
10821370 TATATCGATGCCAACGTCCCAGATGTGGTCTTA
1 -ATA-CAATGCC-ACGTCCCAGACATGGTCTTA
10821403 CACGAGAACA
Statistics
Matches: 91, Mismatches: 20, Indels: 11
0.75 0.16 0.09
Matches are distributed among these distances:
41 23 0.25
42 18 0.20
43 24 0.26
44 3 0.03
45 23 0.25
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (41 bp):
ATACAATGCCACGTCCCAGACATGGTCTTAAATGTAATCAA
Found at i:10827746 original size:21 final size:21
Alignment explanation
Indices: 10827722--10827763 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10827712 TGATATTCTC
*
10827722 AACTTAGTCATTTAGCATTCA
1 AACTTAGTCATCTAGCATTCA
10827743 AACTTAGTCATCTAGCATTCA
1 AACTTAGTCATCTAGCATTCA
10827764 TAGTCATGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.36
Consensus pattern (21 bp):
AACTTAGTCATCTAGCATTCA
Found at i:10829561 original size:104 final size:104
Alignment explanation
Indices: 10829381--10829588 Score: 312
Period size: 104 Copynumber: 2.0 Consensus size: 104
10829371 CATGTCCCAG
10829381 ACATGGTCTTACACTAGCACACATATCATCCCCGATGCCATGTCCCAGACATGGTCTTACACTGG
1 ACATGGTCTTACACTAGCACACATATCATCCCCGATGCCATGTCCCAGACATGGTCTTACACTGG
10829446 CACACATATCAACCCCGATGCCATGTC-CTAGACATGGTC
66 CACACATATCAACCCCGATGCCATGTCGC-AGACATGGTC
* * ** * * *
10829485 ACATGGTCTTACATTGGCACACATATCAAT-GTCGATGTCATGTCCTAGACATGGTCTTACATTG
1 ACATGGTCTTACACTAGCACACATATC-ATCCCCGATGCCATGTCCCAGACATGGTCTTACACTG
*
10829549 GCACACATATCAACGCCGATGCCATGTCGCAGACATGGTC
65 GCACACATATCAACCCCGATGCCATGTCGCAGACATGGTC
10829589 TTACACTGGC
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
104 91 0.97
105 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (104 bp):
ACATGGTCTTACACTAGCACACATATCATCCCCGATGCCATGTCCCAGACATGGTCTTACACTGG
CACACATATCAACCCCGATGCCATGTCGCAGACATGGTC
Found at i:10829635 original size:49 final size:48
Alignment explanation
Indices: 10829354--10829643 Score: 314
Period size: 48 Copynumber: 5.9 Consensus size: 48
10829344 CACGAAGTCT
* * *
10829354 CATATCAGTGCCGATGCCATGTCCCAGACATGGTCTTACACTAGCACA
1 CATATCAATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACA
* *
10829402 CATATC-ATCCCCGATGCCATGTCCCAGACATGGTCTTACACTGGCACA
1 CATATCAAT-GCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACA
** *
10829450 CATATCAACCCCGATGCCATGTCCTAGACATGGTCACATGGTCTTACATTGGCACA
1 CATATCAATGCCGATGCCATGTCCT----A--G--ACATGGTCTTACACTGGCACA
* * *
10829506 CATATCAATGTCGATGTCATGTCCTAGACATGGTCTTACATTGGCACA
1 CATATCAATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACA
* * *
10829554 CATATCAACGCCGATGCCATGTCGC-AGACATGGTCTTACACTGGCTCT
1 CATATCAATGCCGATGCCATGTC-CTAGACATGGTCTTACACTGGCACA
* * *
10829602 CATCTCGGATGCCGATGCCATGTCCTAGTCATGGTCTTACAC
1 CATATC-AATGCCGATGCCATGTCCTAGACATGGTCTTACAC
10829644 AGGATCTCAT
Statistics
Matches: 209, Mismatches: 20, Indels: 25
0.82 0.08 0.10
Matches are distributed among these distances:
47 1 0.00
48 131 0.63
49 32 0.15
50 1 0.00
52 2 0.01
54 1 0.00
56 41 0.20
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (48 bp):
CATATCAATGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCACA
Found at i:10832286 original size:40 final size:40
Alignment explanation
Indices: 10832074--10832279 Score: 371
Period size: 40 Copynumber: 5.2 Consensus size: 40
10832064 AACCCAAGTA
* *
10832074 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
10832113 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
10832153 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
10832193 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
10832233 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
10832273 CCTTCGG
1 CCTTCGG
10832280 ATCTTAGTCC
Statistics
Matches: 163, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
39 13 0.08
40 149 0.91
41 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:10853365 original size:44 final size:42
Alignment explanation
Indices: 10853298--10853462 Score: 133
Period size: 43 Copynumber: 3.9 Consensus size: 42
10853288 TTTCGATATG
* * *
10853298 TGATTT-CATGTAAGACAAAGTCTGGGACGTTGGCATCGATT
1 TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCATCGATT
* * *
10853339 TGAGATTTACGTGTAAGACCATGTCTGGGACATCGACATCGTATT
1 T--GATTTACGTGTAAGACCATGTCTGGGACGTTGGCATCG-ATT
* * *
10853384 TGATTT-CGTGTAAGACCTTGTGTAGGACAG-TGGCA-CTGATAGT
1 TGATTTACGTGTAAGACCATGTCTGGGAC-GTTGGCATC-GAT--T
* *
10853427 TGA-TTACATGTAAGACCATGTTTGGGACGTTGGCAT
1 TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCAT
10853463 TGTATGAGCT
Statistics
Matches: 97, Mismatches: 16, Indels: 19
0.73 0.12 0.14
Matches are distributed among these distances:
41 4 0.04
42 26 0.27
43 37 0.38
44 26 0.27
45 4 0.04
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.32
Consensus pattern (42 bp):
TGATTTACGTGTAAGACCATGTCTGGGACGTTGGCATCGATT
Found at i:10862621 original size:80 final size:79
Alignment explanation
Indices: 10862524--10863025 Score: 344
Period size: 80 Copynumber: 6.3 Consensus size: 79
10862514 TTACCCTACA
* *
10862524 GGGGTATTTTC-GTAATTTTACACCAGAAGGGTATTTCAATAATTTTACAAATTAGGGGTATTTT
1 GGGGTA-TTTCAGTAATTTTACA-CAGAGGGGTATTTCAGTAATTTTACAAATTAGGGGTATTTT
*
10862588 GGTAATTTTACAAATT
64 GATAATTTTACAAATT
** * * * * **
10862604 GGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTAC-AGTCCGGGGCTATTTT
1 GGGGTATTTCAGTAATTTTACACA-GAGGGGTATTTCAGTAATTTTACAAATTAGGGG-TATTTT
*
10862668 GATAATTTTTA-AATTT
64 GATAA-TTTTACAAATT
* ** * * *
10862684 AAGGGTATTTTGGTAATTTTACAAATAGGGGTATTTCAATAATTTTAC-AATTAGGGGGTATTTT
1 -GGGGTATTTCAGTAATTTTACACAGAGGGGTATTTCAGTAATTTTACAAATTA-GGGGTATTTT
* **
10862748 GATAATTTTACATTACA
64 GATAATTTTACA-AATT
* * * * * * * **
10862765 AGCGTATTTCAGTAATTTTACAAATAGGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAA
1 GGGGTATTTCAGTAATTTTACACAGAGGGGTATTTCAGTAATTTTACAAATTAGGGGTATTTTGA
*
10862830 TAATTTTACAAATCG
66 TAATTTTACAAAT-T
* ** * * *
10862845 GGGGTATTTCAATAATTTTACA-ATCG-GGGGTATTTTGGTAATTTTA-AAAATCGAGGTATTTT
1 GGGGTATTTCAGTAATTTTACACA--GAGGGGTATTTCAGTAATTTTACAAATTAGGGGTATTTT
10862907 -AGTAATTTTACAAATT
64 GA-TAATTTTACAAATT
* * * * * *
10862923 GGGGGTATTTCAATAATTTTACA-ATTTGA-AGGTATTTCGGTAATTTTGCAAA-TCGAGAGTAT
1 -GGGGTATTTCAGTAATTTTACACA---GAGGGGTATTTCAGTAATTTTACAAATTAG-GGGTAT
* *
10862985 TTCGATAATTTTACAAACCT
61 TTTGATAATTTTACAAA-TT
*
10863005 GGGG-ATTTCGGTAATTTTACA
1 GGGGTATTTCAGTAATTTTACA
10863026 AACCGGGGCC
Statistics
Matches: 346, Mismatches: 56, Indels: 40
0.78 0.13 0.09
Matches are distributed among these distances:
78 1 0.00
79 63 0.18
80 219 0.63
81 61 0.18
82 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (79 bp):
GGGGTATTTCAGTAATTTTACACAGAGGGGTATTTCAGTAATTTTACAAATTAGGGGTATTTTGA
TAATTTTACAAATT
Found at i:10862634 original size:53 final size:53
Alignment explanation
Indices: 10862522--10863027 Score: 407
Period size: 53 Copynumber: 9.5 Consensus size: 53
10862512 TTTTACCCTA
* * * *
10862522 CAGGGGTATTTTCGTAATTTTACACCAGAAGGGTATTTCAATAATTTTACAAAT
1 CAGGGGTATTTTGGTAATTTTACA-AATAGGGGTATTTCAATAATTTTACAAAT
* * *** *
10862576 TAGGGGTATTTTGGTAATTTTACAAATTGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAATAGGGGTATTTCAATAATTTTACAAAT
* * * ** *
10862629 CAGGGGTATTTTAGTAATTTTAC-AGTCCGGGGCTATTTTGATAATTTTTA-AATT
1 CAGGGGTATTTTGGTAATTTTACAAAT-AGGGG-TATTTCAATAA-TTTTACAAAT
* *
10862683 TAAGGGTATTTTGGTAATTTTACAAATAGGGGTATTTCAATAATTTTAC-AAT
1 CAGGGGTATTTTGGTAATTTTACAAATAGGGGTATTTCAATAATTTTACAAAT
* * * * * * *
10862735 TAGGGGGTATTTTGATAATTTTACATTACAAGCGTATTTCAGTAATTTTACAAAT
1 CA-GGGGTATTTTGGTAATTTTACA-AATAGGGGTATTTCAATAATTTTACAAAT
* *
10862790 -AGGGGTATTTCGGTAATTTTACAAATCAAGGGTATTTCAATAATTTTACAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAT-AGGGGTATTTCAATAATTTTACAAAT
* *** * *** *
10862843 CGGGGGTATTTCAATAATTTTAC-AATCGGGGGTATTTTGGTAATTTTAAAAAT
1 CAGGGGTATTTTGGTAATTTTACAAAT-AGGGGTATTTCAATAATTTTACAAAT
* * *
10862896 C-GAGGTATTTTAGTAATTTTACAAATTGGGGGTATTTCAATAATTTTAC-AAT
1 CAGGGGTATTTTGGTAATTTTACAAA-TAGGGGTATTTCAATAATTTTACAAAT
** * * * * * * *
10862948 TTGAAGGTATTTCGGTAATTTTGCAAATCGAGAGTATTTCGATAATTTTACAAAC
1 CAG-GGGTATTTTGGTAATTTTACAAATAG-GGGTATTTCAATAATTTTACAAAT
* *
10863003 CTGGGG-ATTTCGGTAATTTTACAAA
1 CAGGGGTATTTTGGTAATTTTACAAA
10863028 CCGGGGCCTT
Statistics
Matches: 371, Mismatches: 65, Indels: 33
0.79 0.14 0.07
Matches are distributed among these distances:
52 33 0.09
53 185 0.50
54 139 0.37
55 14 0.04
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (53 bp):
CAGGGGTATTTTGGTAATTTTACAAATAGGGGTATTTCAATAATTTTACAAAT
Found at i:10862956 original size:27 final size:27
Alignment explanation
Indices: 10862553--10863027 Score: 262
Period size: 27 Copynumber: 17.8 Consensus size: 27
10862543 ACACCAGAAG
*
10862553 GGTATTTCAATAATTTTACAAATTAGG-
1 GGTATTTCAATAATTTTACAAA-TCGGA
*** *
10862580 GGTATTTTGGTAATTTTACAAATTGG-
1 GGTATTTCAATAATTTTACAAATCGGA
*** *
10862606 GGTATTTTGGTAATTTTACAAACCAGG-
1 GGTATTTCAATAATTTTACAAATC-GGA
* * *
10862633 GGTATTTTAGTAATTTTAC-AGTCCGG-
1 GGTATTTCAATAATTTTACAAAT-CGGA
** * ***
10862659 GGCTATTTTGATAATTTT-TAAATTTAA
1 GG-TATTTCAATAATTTTACAAATCGGA
*** *
10862686 GGGTATTTTGGTAATTTTACAAATAGG-
1 -GGTATTTCAATAATTTTACAAATCGGA
* * *
10862713 GGTATTTCAATAATTTTACAATTAGGG
1 GGTATTTCAATAATTTTACAAATCGGA
** * *
10862740 GGTATTTTGATAATTTTAC-ATTAC-AA
1 GGTATTTCAATAATTTTACAAAT-CGGA
* *
10862766 GCGTATTTCAGTAATTTTACAAATAGG-
1 G-GTATTTCAATAATTTTACAAATCGGA
** *
10862793 GGTATTTCGGTAATTTTACAAATC-AA
1 GGTATTTCAATAATTTTACAAATCGGA
*
10862819 GGGTATTTCAATAATTTTACAAATCGGG
1 -GGTATTTCAATAATTTTACAAATCGGA
*
10862847 GGTATTTCAATAATTTTAC-AATCGGG
1 GGTATTTCAATAATTTTACAAATCGGA
*** *
10862873 GGTATTTTGGTAATTTTAAAAATC-GA
1 GGTATTTCAATAATTTTACAAATCGGA
* * * *
10862899 GGTATTTTAGTAATTTTACAAATTGGG
1 GGTATTTCAATAATTTTACAAATCGGA
* * *
10862926 GGTATTTCAATAATTTTACAATTTGAA
1 GGTATTTCAATAATTTTACAAATCGGA
** *
10862953 GGTATTTCGGTAATTTTGCAAATC-GA
1 GGTATTTCAATAATTTTACAAATCGGA
* *
10862979 GAGTATTTCGATAATTTTACAAACCTGG-
1 G-GTATTTCAATAATTTTACAAATC-GGA
**
10863007 GG-ATTTCGGTAATTTTACAAA
1 GGTATTTCAATAATTTTACAAA
10863028 CCGGGGCCTT
Statistics
Matches: 361, Mismatches: 67, Indels: 41
0.77 0.14 0.09
Matches are distributed among these distances:
26 141 0.39
27 210 0.58
28 9 0.02
29 1 0.00
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (27 bp):
GGTATTTCAATAATTTTACAAATCGGA
Found at i:10864585 original size:24 final size:24
Alignment explanation
Indices: 10864558--10864603 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10864548 CCTAAAATCC
*
10864558 CTCCATGATTTCCTCCCTAATCTT
1 CTCCATGATTTCCTCCATAATCTT
* *
10864582 CTCCTTGATTTTCTCCATAATC
1 CTCCATGATTTCCTCCATAATC
10864604 CATTCCTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.35, G:0.04, T:0.43
Consensus pattern (24 bp):
CTCCATGATTTCCTCCATAATCTT
Found at i:10867017 original size:43 final size:42
Alignment explanation
Indices: 10866954--10867110 Score: 140
Period size: 43 Copynumber: 3.7 Consensus size: 42
10866944 TCGTACAATG
* * * * *
10866954 CCAACGTCCTAGACGTGGTCTTACATGTAATCAAATATCGATG
1 CCAACATCCCAGACGTGGTCTTACACGAAATCAAATA-CGATA
10866997 CC-ACTATCCCAGACAG-GGTCTTACACGAAATCAAATACGATA
1 CCAAC-ATCCCAGAC-GTGGTCTTACACGAAATCAAATACGATA
* * * *
10867039 CCAACATCCTAGACGTGGTCTTACGCGTAAATTATAAGT-CGATG
1 CCAACATCCCAGACGTGGTCTTACACG-AAATCA-AA-TACGATA
* *
10867083 CCAACGTCCCAGATGTGGTCTTACACGA
1 CCAACATCCCAGACGTGGTCTTACACGA
10867111 TAACACATAT
Statistics
Matches: 94, Mismatches: 13, Indels: 14
0.78 0.11 0.12
Matches are distributed among these distances:
41 1 0.01
42 26 0.28
43 36 0.38
44 30 0.32
45 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (42 bp):
CCAACATCCCAGACGTGGTCTTACACGAAATCAAATACGATA
Found at i:10874754 original size:42 final size:43
Alignment explanation
Indices: 10874695--10874800 Score: 144
Period size: 42 Copynumber: 2.5 Consensus size: 43
10874685 TGAGATTTAT
* **
10874695 GTGTAAGACCATCTCTGGGACATCGGCATCG-TATCTGAA-TTC
1 GTGTAAGACCATGTCTGGGACAGAGGCATCGATA-CTGAATTTC
*
10874737 GTGTAAGACCCTGTCTGGGACAGAGGCATCGATACTGAATTTC
1 GTGTAAGACCATGTCTGGGACAGAGGCATCGATACTGAATTTC
*
10874780 ATGTAAGACCATGTCTGGGAC
1 GTGTAAGACCATGTCTGGGAC
10874801 GTCGACATTA
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
42 32 0.57
43 24 0.43
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.26
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACAGAGGCATCGATACTGAATTTC
Found at i:10899179 original size:24 final size:24
Alignment explanation
Indices: 10899134--10899179 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
10899124 ATCTCTATGT
* * *
10899134 TAGTGGTTACATCAGCTTTTATAC
1 TAGTGGCTACATCAACTATTATAC
10899158 TAGTGGCTACATCAACTATTAT
1 TAGTGGCTACATCAACTATTAT
10899180 GGTTCTTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.39
Consensus pattern (24 bp):
TAGTGGCTACATCAACTATTATAC
Found at i:10901586 original size:60 final size:60
Alignment explanation
Indices: 10901508--10901647 Score: 169
Period size: 60 Copynumber: 2.3 Consensus size: 60
10901498 CAGTGTTAAC
*
10901508 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCC-CTTAC-AGT-ATCAGAGTATAT
1 TGGGCC-TAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACGAGTCA--AGA-TATAT
* ***
10901569 TGGGCCTAGCCCATATCAGTATTAATCTGGGTTGTAGCCCTATTACGAGTCAAGATATAT
1 TGGGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACGAGTCAAGATATAT
*
10901629 TGGGCCTTGCCCATATCAA
1 TGGGCCTAGCCCATATCAA
10901648 CATAGTTGGG
Statistics
Matches: 69, Mismatches: 7, Indels: 7
0.83 0.08 0.08
Matches are distributed among these distances:
60 52 0.75
61 13 0.19
62 3 0.04
63 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (60 bp):
TGGGCCTAGCCCATATCAATATTAATCTGGGCCATAGCCCTATTACGAGTCAAGATATAT
Found at i:10901674 original size:20 final size:20
Alignment explanation
Indices: 10901637--10901676 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
10901627 ATTGGGCCTT
*
10901637 GCCCATATCAACATAGTTGG
1 GCCCATATCAACACAGTTGG
* *
10901657 GCCCATTTCAATACAGTTGG
1 GCCCATATCAACACAGTTGG
10901677 CCGATAACAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (20 bp):
GCCCATATCAACACAGTTGG
Found at i:10910138 original size:47 final size:47
Alignment explanation
Indices: 10910062--10910215 Score: 209
Period size: 47 Copynumber: 3.3 Consensus size: 47
10910052 CTTCGGGACT
* * * * *
10910062 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* * *
10910109 TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
* **
10910156 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCGT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
10910203 TATCACATATATA
1 TATCACATATATA
10910216 TATACACTTT
Statistics
Matches: 97, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 97 1.00
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.32
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCACTAGGCCC
Found at i:10911231 original size:33 final size:33
Alignment explanation
Indices: 10911194--10911261 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
10911184 TGTTATCGAA
*
10911194 TTATCACGAATCGACTATTCAGCTAC-TTCCTCT
1 TTATCACGAATCGACTATTAAGCTACATT-CTCT
10911227 TTATCACGAATCGACTATTAAGCTACATTCTCT
1 TTATCACGAATCGACTATTAAGCTACATTCTCT
10911260 TT
1 TT
10911262 CCCTTATCCG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
33 31 0.94
34 2 0.06
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.38
Consensus pattern (33 bp):
TTATCACGAATCGACTATTAAGCTACATTCTCT
Found at i:10914771 original size:39 final size:40
Alignment explanation
Indices: 10914727--10914893 Score: 225
Period size: 40 Copynumber: 4.2 Consensus size: 40
10914717 CCTTCAAAAT
*
10914727 TTAG-CCGGATATAGCT-ACTTGCTCAAATGCCTTCGGGAC
1 TTAGCCCGGATATAG-TAACTTGCACAAATGCCTTCGGGAC
* * *
10914766 TTAGCCCGGTTATAGTAACTCGCACAAGTGCCTTCGGGAC
1 TTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGAC
*
10914806 TTAGCCCGGATATAGTAACTTGCACAAATGCCTTCAGG-C
1 TTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGAC
* *
10914845 TTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGAC
1 TTAGCCCGGATA-TAGTAACTTGCACAAATGCCTTCGGGAC
10914885 TTAGCCCGG
1 TTAGCCCGG
10914894 TTATCATCCG
Statistics
Matches: 113, Mismatches: 11, Indels: 7
0.86 0.08 0.05
Matches are distributed among these distances:
38 1 0.01
39 39 0.35
40 73 0.65
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTAACTTGCACAAATGCCTTCGGGAC
Found at i:10914870 original size:79 final size:80
Alignment explanation
Indices: 10914727--10914893 Score: 234
Period size: 79 Copynumber: 2.1 Consensus size: 80
10914717 CCTTCAAAAT
* * * *
10914727 TTAG-CCGGATATAGCTACTTGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCAC
1 TTAGCCCGGATATAGCTACTTGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTAGCAC
*
10914791 AAGTGCCTTCGGGAC
66 AAATGCCTTCGGGAC
*
10914806 TTAGCCCGGATATAG-TAACTTGCACAAATGCCTTCAGG-CTTAGCCCGGA-ATTAGTCACTAGC
1 TTAGCCCGGATATAGCT-ACTTGCACAAATGCCTTCAGGACTTAGCCCGGATA-TAGTAACTAGC
10914868 ACAAATGCCTTCGGGAC
64 ACAAATGCCTTCGGGAC
10914885 TTAGCCCGG
1 TTAGCCCGG
10914894 TTATCATCCG
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
78 1 0.01
79 49 0.62
80 29 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
TTAGCCCGGATATAGCTACTTGCACAAATGCCTTCAGGACTTAGCCCGGATATAGTAACTAGCAC
AAATGCCTTCGGGAC
Found at i:10938515 original size:315 final size:315
Alignment explanation
Indices: 10937943--10938573 Score: 1262
Period size: 315 Copynumber: 2.0 Consensus size: 315
10937933 TTAAAGTATT
10937943 TCTAGTCACAAAATACCGAGATAGCTCGTTGATAGTGTGAGGCGATCTCCGACGTATTTACGATT
1 TCTAGTCACAAAATACCGAGATAGCTCGTTGATAGTGTGAGGCGATCTCCGACGTATTTACGATT
10938008 TTTCGAGTTGGCTTTGTAATACTATAAAAAAGAGAGAAAAGAAAGGGAGTAAGCATAAAGCTTAG
66 TTTCGAGTTGGCTTTGTAATACTATAAAAAAGAGAGAAAAGAAAGGGAGTAAGCATAAAGCTTAG
10938073 TAAGTTTGCTTGTAAATAAATAACAACATTCTAAATGAATTATCAAGATAACTTGAACCTTTTGA
131 TAAGTTTGCTTGTAAATAAATAACAACATTCTAAATGAATTATCAAGATAACTTGAACCTTTTGA
10938138 ATATGGACTTATCTTACCTTCCTTTTGGCACACAGTTTAAATTTTTTGTTGAACCACTTGGAATA
196 ATATGGACTTATCTTACCTTCCTTTTGGCACACAGTTTAAATTTTTTGTTGAACCACTTGGAATA
10938203 CTAAGGATACACGAGTACCTTTCCTTTTTAAACTTACCATTGTCATGTCTTGACC
261 CTAAGGATACACGAGTACCTTTCCTTTTTAAACTTACCATTGTCATGTCTTGACC
10938258 TCTAGTCACAAAATACCGAGATAGCTCGTTGATAGTGTGAGGCGATCTCCGACGTATTTACGATT
1 TCTAGTCACAAAATACCGAGATAGCTCGTTGATAGTGTGAGGCGATCTCCGACGTATTTACGATT
10938323 TTTCGAGTTGGCTTTGTAATACTATAAAAAAGAGAGAAAAGAAAGGGAGTAAGCATAAAGCTTAG
66 TTTCGAGTTGGCTTTGTAATACTATAAAAAAGAGAGAAAAGAAAGGGAGTAAGCATAAAGCTTAG
10938388 TAAGTTTGCTTGTAAATAAATAACAACATTCTAAATGAATTATCAAGATAACTTGAACCTTTTGA
131 TAAGTTTGCTTGTAAATAAATAACAACATTCTAAATGAATTATCAAGATAACTTGAACCTTTTGA
10938453 ATATGGACTTATCTTACCTTCCTTTTGGCACACAGTTTAAATTTTTTGTTGAACCACTTGGAATA
196 ATATGGACTTATCTTACCTTCCTTTTGGCACACAGTTTAAATTTTTTGTTGAACCACTTGGAATA
10938518 CTAAGGATACACGAGTACCTTTCCTTTTTAAACTTACCATTGTCATGTCTTGACC
261 CTAAGGATACACGAGTACCTTTCCTTTTTAAACTTACCATTGTCATGTCTTGACC
10938573 T
1 T
10938574 GGTCTTACGT
Statistics
Matches: 316, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
315 316 1.00
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (315 bp):
TCTAGTCACAAAATACCGAGATAGCTCGTTGATAGTGTGAGGCGATCTCCGACGTATTTACGATT
TTTCGAGTTGGCTTTGTAATACTATAAAAAAGAGAGAAAAGAAAGGGAGTAAGCATAAAGCTTAG
TAAGTTTGCTTGTAAATAAATAACAACATTCTAAATGAATTATCAAGATAACTTGAACCTTTTGA
ATATGGACTTATCTTACCTTCCTTTTGGCACACAGTTTAAATTTTTTGTTGAACCACTTGGAATA
CTAAGGATACACGAGTACCTTTCCTTTTTAAACTTACCATTGTCATGTCTTGACC
Found at i:10940926 original size:21 final size:21
Alignment explanation
Indices: 10940898--10940949 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
10940888 TTTTGCCTAA
*
10940898 GATG-TAAATTGGACTGAATT
1 GATGTTAAATTGGACTAAATT
*
10940918 GA-GTTTAAATTGTACTAAATT
1 GATG-TTAAATTGGACTAAATT
10940939 GATGTTAAATT
1 GATGTTAAATT
10940950 TACTTGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 1 0.04
20 2 0.07
21 23 0.85
22 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (21 bp):
GATGTTAAATTGGACTAAATT
Found at i:10943598 original size:18 final size:19
Alignment explanation
Indices: 10943557--10943598 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
10943547 GGTTAGTAAA
*
10943557 GATAGGAAATTGGCGGAAT
1 GATAGGAAATGGGCGGAAT
*
10943576 G-TAGG-AATGGGCGGATT
1 GATAGGAAATGGGCGGAAT
10943593 GATAGG
1 GATAGG
10943599 GGATACATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 11 0.55
18 8 0.40
19 1 0.05
ACGTcount: A:0.31, C:0.05, G:0.43, T:0.21
Consensus pattern (19 bp):
GATAGGAAATGGGCGGAAT
Found at i:10943692 original size:38 final size:38
Alignment explanation
Indices: 10943633--10943706 Score: 87
Period size: 38 Copynumber: 1.9 Consensus size: 38
10943623 TGGGGGGCGA
* * *
10943633 TTATCTATTAGTCATTTGAGGCGATACCCTGTTGACAG
1 TTATCTATTAGTCATTCGAGGCAAAACCCTGTTGACAG
* *
10943671 TTATCTACTT-GTCCTTCGAGGCAAAACCTTGTTGAC
1 TTATCTA-TTAGTCATTCGAGGCAAAACCCTGTTGAC
10943707 GATATATAAG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 28 0.93
39 2 0.07
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (38 bp):
TTATCTATTAGTCATTCGAGGCAAAACCCTGTTGACAG
Found at i:10946058 original size:15 final size:15
Alignment explanation
Indices: 10946040--10946069 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10946030 GGACTTAGTA
10946040 TATGATGATATTATT
1 TATGATGATATTATT
10946055 TATGATGATATTATT
1 TATGATGATATTATT
10946070 GAAAGATATG
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:0.33, C:0.00, G:0.13, T:0.53
Consensus pattern (15 bp):
TATGATGATATTATT
Found at i:10952708 original size:27 final size:27
Alignment explanation
Indices: 10952678--10952855 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
10952668 ATATTGAGTC
* * * *
10952678 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
10952705 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
10952732 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
10952760 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
10952787 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
10952814 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
10952841 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
10952856 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:10952817 original size:82 final size:81
Alignment explanation
Indices: 10952699--10952854 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
10952689 TGCTATATAA
* *
10952699 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
10952764 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
10952781 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
10952845 CACTTAGTGC
65 CACTTAGTGC
10952855 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:10960898 original size:27 final size:27
Alignment explanation
Indices: 10960868--10961045 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
10960858 ATATTGAGCC
* * * *
10960868 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
10960895 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
10960922 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
10960950 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
10960977 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
10961004 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
10961031 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
10961046 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:10961007 original size:82 final size:81
Alignment explanation
Indices: 10960889--10961044 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
10960879 TGCTATATAA
* *
10960889 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
10960954 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
10960971 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
10961035 CACTTAGTGC
65 CACTTAGTGC
10961045 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:10965271 original size:64 final size:64
Alignment explanation
Indices: 10965161--10965295 Score: 236
Period size: 64 Copynumber: 2.1 Consensus size: 64
10965151 CCCCCACACT
* *
10965161 TAAGAT-GTACATTGCCCTTAATGTACAAAGATAGATATATTAAAAAATATAGATAAATAATCA
1 TAAGATAGTACATTGCCCTCAATGTACAAAGATAGATATATTAAAAAATATAGAAAAATAATCA
*
10965224 TAAGATAGTACATTGCCCTCAATGTACAAAGATAGATATATTGAAAAATATAGAAAAATAATCA
1 TAAGATAGTACATTGCCCTCAATGTACAAAGATAGATATATTAAAAAATATAGAAAAATAATCA
10965288 TAAGATAG
1 TAAGATAG
10965296 GGAAAGAAGT
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
63 6 0.09
64 62 0.91
ACGTcount: A:0.50, C:0.10, G:0.13, T:0.28
Consensus pattern (64 bp):
TAAGATAGTACATTGCCCTCAATGTACAAAGATAGATATATTAAAAAATATAGAAAAATAATCA
Found at i:10965723 original size:13 final size:13
Alignment explanation
Indices: 10965705--10965734 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
10965695 GATAAAAGTG
10965705 AAAATAATAAATA
1 AAAATAATAAATA
10965718 AAAATAATAAATA
1 AAAATAATAAATA
10965731 AAAA
1 AAAA
10965735 GTTTTTAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATAATAAATA
Found at i:10976777 original size:50 final size:50
Alignment explanation
Indices: 10976712--10977100 Score: 298
Period size: 50 Copynumber: 7.7 Consensus size: 50
10976702 ACTGAAGCTC
* * *
10976712 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAACCA
* * *
10976762 TCTGGTACACGTAGTAGCCTACACTTAGTACAACACACATGACCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAACCA
* * * * * *
10976812 TC-GAATACACATAGTAGCCTGCACTTAGCACTACACACGTGATCGAAGCTA
1 TCTG-GTACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAA-CCA
* * * * *** *
10976863 TCGGGTACGCATAGTCGCCTGCACTTAGTACTACATATGCGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAACCA
* * * * * * *
10976913 TCTGGTACACGTGGTAGCCTACACTTAGTACTAAACACATGATCGAAGCTA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAA-CCA
** ** **
10976964 T-TGGGTATGCATAGTAGCCTGCACTTAGTACTACACATGTGACCTAATAA
1 TCT-GGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAACCA
* ** * * *
10977014 TCTAGTACATGTAGTAGTCTGGACTTCGTACTACACACGA-GACCTAAAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACAC-ATGACCT--AACCA
* *** *
10977066 TTTTAAACACATAGTAGCCTGCACATAGTACTACA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACA
10977101 AATGTATTCT
Statistics
Matches: 257, Mismatches: 73, Indels: 16
0.74 0.21 0.05
Matches are distributed among these distances:
49 1 0.00
50 151 0.59
51 76 0.30
52 29 0.11
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGACCTAACCA
Found at i:10976922 original size:101 final size:101
Alignment explanation
Indices: 10976712--10977051 Score: 360
Period size: 101 Copynumber: 3.4 Consensus size: 101
10976702 ACTGAAGCTC
* * * * * * * * *
10976712 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTAA-CCATCTGGTACACGTAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGATCGAAGCTATCGGGTACGCATAG
* * ** *
10976776 TAGCCTACACTTAGTACAACACACATGACCTAACCA
66 TAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * *
10976812 TC-GAATACACATAGTAGCCTGCACTTAGCACTACACACGTGATCGAAGCTATCGGGTACGCATA
1 TCTG-GTACACATAGTAGCCTGCACTTAGTACTACACACATGATCGAAGCTATCGGGTACGCATA
* * *
10976876 GTCGCCTGCACTTAGTACTACATATGCGACCTAACAA
65 GTAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* * * * * *
10976913 TCTGGTACACGTGGTAGCCTACACTTAGTACTAAACACATGATCGAAGCTATTGGGTATGCATAG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGATCGAAGCTATCGGGTACGCATAG
*
10976978 TAGCCTGCACTTAGTACTACACATGTGACCTAATAA
66 TAGCCTGCACTTAGTACTACACATGTGACCTAACAA
* ** * * *
10977014 TCTAGTACATGTAGTAGTCTGGACTTCGTACTACACAC
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACAC
10977052 GAGACCTAAA
Statistics
Matches: 196, Mismatches: 41, Indels: 5
0.81 0.17 0.02
Matches are distributed among these distances:
99 1 0.01
100 37 0.19
101 157 0.80
102 1 0.01
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACATGATCGAAGCTATCGGGTACGCATAG
TAGCCTGCACTTAGTACTACACATGTGACCTAACAA
Found at i:10976951 original size:151 final size:152
Alignment explanation
Indices: 10976705--10977005 Score: 426
Period size: 151 Copynumber: 2.0 Consensus size: 152
10976695 CCTTGTAACT
* * *
10976705 GAAGCTCTCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTAACCATCTGGTAC
1 GAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGGTAC
*
10976770 ACGTAGTAGCCTACACTTAGTACAACACACATGACCTAA-CCATCGAATACACATAGTAGCCTGC
66 ACGTAGTAGCCTACACTTAGTACAACACACATGACCGAAGCCATCGAATACACATAGTAGCCTGC
10976834 ACTTAGCACTACACACGTGATC
131 ACTTAGCACTACACACGTGATC
* * *
10976856 GAAGCTATCGGGTACGCATAGTCGCCTGCACTTAGTACTACATATGCGACCTAACAATCTGGTAC
1 GAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGGTAC
* * * * ** **
10976921 ACGTGGTAGCCTACACTTAGTACTAA-ACACATGATCGAAGCTATTGGGTATGCATAGTAGCCTG
66 ACGTAGTAGCCTACACTTAGTAC-AACACACATGACCGAAGCCATCGAATACACATAGTAGCCTG
* *
10976985 CACTTAGTACTACACATGTGA
130 CACTTAGCACTACACACGTGA
10977006 CCTAATAATC
Statistics
Matches: 131, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
151 92 0.70
152 39 0.30
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.24
Consensus pattern (152 bp):
GAAGCTATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGGTAC
ACGTAGTAGCCTACACTTAGTACAACACACATGACCGAAGCCATCGAATACACATAGTAGCCTGC
ACTTAGCACTACACACGTGATC
Found at i:10977045 original size:151 final size:150
Alignment explanation
Indices: 10976716--10977050 Score: 386
Period size: 151 Copynumber: 2.2 Consensus size: 150
10976706 AAGCTCTCTG
* *
10976716 GTACGCATAGTAGCCTGCACTTAGTACTACACATACGACCTAACCATCTGGTACACGTAGTAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGGTACACGTAGTAGCC
*
10976781 TACACTTAGTACAACACACATGACCTAACCATCGAATACACATAGTAGCCTGCACTTAGCACTAC
66 TACACTTAGTACAACACACATGACCGAACCATCGAATACACATAGTAGCCTGCACTTAGCACTAC
* *
10976846 ACACGTGATCGAAGCTATCGG
131 ACACGTGACCGAA-CTATCGA
* * * * *
10976867 GTACGCATAGTCGCCTGCACTTAGTACTACATATGCGACCTAACAATCTGGTACACGTGGTAGCC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGGTACACGTAGTAGCC
* * * ** ** *
10976932 TACACTTAGTACTAA-ACACATGATCGAAGCTATTGGGTATGCATAGTAGCCTGCACTTAGTACT
66 TACACTTAGTAC-AACACACATGACCGAA-CCATCGAATACACATAGTAGCCTGCACTTAGCACT
* * *
10976996 ACACATGTGACCTAA-TAATCTA
129 ACACACGTGACCGAACT-ATCGA
** * * *
10977018 GTACATGTAGTAGTCTGGACTTCGTACTACACA
1 GTACACATAGTAGCCTGCACTTAGTACTACACA
10977051 CGAGACCTAA
Statistics
Matches: 154, Mismatches: 27, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
150 1 0.01
151 111 0.72
152 42 0.27
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (150 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATACGACCTAACAATCTGGTACACGTAGTAGCC
TACACTTAGTACAACACACATGACCGAACCATCGAATACACATAGTAGCCTGCACTTAGCACTAC
ACACGTGACCGAACTATCGA
Found at i:10977564 original size:39 final size:39
Alignment explanation
Indices: 10977510--10977587 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
10977500 ATTAAATCAT
10977510 GCCATTCGTGCAATAATAATATAGAATTTTCAATTCAAA
1 GCCATTCGTGCAATAATAATATAGAATTTTCAATTCAAA
10977549 GCCATTCGTGCAATAATAATATAGAATTTTCAATTCAAA
1 GCCATTCGTGCAATAATAATATAGAATTTTCAATTCAAA
10977588 CATAGCATCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.33
Consensus pattern (39 bp):
GCCATTCGTGCAATAATAATATAGAATTTTCAATTCAAA
Found at i:10980134 original size:15 final size:15
Alignment explanation
Indices: 10980100--10980159 Score: 75
Period size: 15 Copynumber: 4.0 Consensus size: 15
10980090 TATAAATAAC
* * *
10980100 AAGAAAACCAGGATT
1 AAGAAATCCAAGATA
*
10980115 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
*
10980130 GAGAAATCCAAGATA
1 AAGAAATCCAAGATA
10980145 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
10980160 CAATATCATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 38 1.00
ACGTcount: A:0.55, C:0.13, G:0.18, T:0.13
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:10983970 original size:50 final size:50
Alignment explanation
Indices: 10983906--10984202 Score: 308
Period size: 50 Copynumber: 5.9 Consensus size: 50
10983896 CCAAAGCTCA
* * *
10983906 CTGGTACGTATAGTAGCCTGCACTTAGAACTACACATGCGACCTAACAAT
1 CTGGTACATGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAAT
* ** * *
10983956 CTGGTACATGTAGTAGCCTGCACTTAGTACAACACATGTAACCTCACCAT
1 CTGGTACATGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAAT
*
10984006 C-GGATACATGTAGTAGCCTGCACTTAGTACTACACATGCGATCTAACAAT
1 CTGG-TACATGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAAT
* * * ** * * * * *
10984056 CTGGTACACGTAGTAGCTTGCAATTAGTACTGTACACGTGATCGAAGCTAT
1 CTGGTACATGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAA-CAAT
* *** * *
10984107 CAGGTACGCATAATAGCTTGCACTTAGTACTACACATGCGACCTAACAAT
1 CTGGTACATGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAAT
* * * *
10984157 CTGGTACATGTAGTAGCCTACACATAGTACTACACACGTGACCTAA
1 CTGGTACATGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAA
10984203 AACCATTTTA
Statistics
Matches: 199, Mismatches: 45, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
49 2 0.01
50 157 0.79
51 40 0.20
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (50 bp):
CTGGTACATGTAGTAGCCTGCACTTAGTACTACACATGCGACCTAACAAT
Found at i:10984243 original size:151 final size:150
Alignment explanation
Indices: 10983969--10984246 Score: 330
Period size: 151 Copynumber: 1.8 Consensus size: 150
10983959 GTACATGTAG
* * * * *
10983969 TAGCCTGCACTTAGTACAACACATGTAACCTCACCATCGGATACATGTAGTAGCCTGCACTTAGT
1 TAGCCTGCACTTAGTACAACACATGCAACCTAACAATCGGATACATGTAGTAGCCTACACATAGT
* * * * *
10984034 ACTACACATGCGATCTAACAATCTGGTACACGTAGTAGCTTGCAATTAGTACTGTACACGTGATC
66 ACTACACACGCGACCTAACAACCTGGTACACATAGTAGCCTGCAATTAGTAC-GTACACGTGATC
10984099 GAAGCTATCAGGTACGCATAA
130 GAAGCTATCAGGTACGCATAA
* * *
10984120 TAGCTTGCACTTAGTACTACACATGCGACCTAACAATCTGG-TACATGTAGTAGCCTACACATAG
1 TAGCCTGCACTTAGTACAACACATGCAACCTAACAATC-GGATACATGTAGTAGCCTACACATAG
* **
10984184 TACTACACACGTGACCTAA-AACCATTTTAAACACATAGTAGCCTGCACA-TAGTAC-TACACGT
65 TACTACACACGCGACCTAACAACC-TGGT--ACACATAGTAGCCTGCA-ATTAGTACGTACACGT
10984246 G
126 G
10984247 TGTTCTCACA
Statistics
Matches: 106, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
150 3 0.03
151 79 0.75
152 2 0.02
153 21 0.20
154 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (150 bp):
TAGCCTGCACTTAGTACAACACATGCAACCTAACAATCGGATACATGTAGTAGCCTACACATAGT
ACTACACACGCGACCTAACAACCTGGTACACATAGTAGCCTGCAATTAGTACGTACACGTGATCG
AAGCTATCAGGTACGCATAA
Found at i:10984713 original size:39 final size:39
Alignment explanation
Indices: 10984655--10984729 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
10984645 TACATCATGT
*
10984655 CATTCGTGCAATAACAATATAGAATTTTCAATTCAAAGC
1 CATTCATGCAATAACAATATAGAATTTTCAATTCAAAGC
*
10984694 CATTCATGCAATAATAATATAGAATTTTCAATTCAA
1 CATTCATGCAATAACAATATAGAATTTTCAATTCAA
10984730 GCATAGCATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.43, C:0.16, G:0.08, T:0.33
Consensus pattern (39 bp):
CATTCATGCAATAACAATATAGAATTTTCAATTCAAAGC
Found at i:10984743 original size:39 final size:39
Alignment explanation
Indices: 10984661--10984745 Score: 120
Period size: 39 Copynumber: 2.2 Consensus size: 39
10984651 ATGTCATTCG
*
10984661 TGCAATAACAATATAGAATTTTCAATTCAAAGCCATTCA
1 TGCAATAACAATATAGAATTTTCAATTCAAAGCCATGCA
*
10984700 TGCAATAATAATATAGAATTTTCAATTC-AAG-CATAGCA
1 TGCAATAACAATATAGAATTTTCAATTCAAAGCCAT-GCA
10984738 TTGCAATA
1 -TGCAATA
10984746 TTATTAACAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
37 3 0.07
38 5 0.12
39 34 0.81
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (39 bp):
TGCAATAACAATATAGAATTTTCAATTCAAAGCCATGCA
Found at i:10986859 original size:31 final size:31
Alignment explanation
Indices: 10986824--10986887 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
10986814 CCTTTTCATG
10986824 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
10986855 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
10986886 TT
1 TT
10986888 ACTATAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:10987149 original size:31 final size:31
Alignment explanation
Indices: 10987114--10987177 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
10987104 CCTTTTCATG
10987114 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
10987145 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
10987176 TT
1 TT
10987178 ACTATAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:10987159 original size:290 final size:290
Alignment explanation
Indices: 10986639--10987220 Score: 1164
Period size: 290 Copynumber: 2.0 Consensus size: 290
10986629 ACGATCACTG
10986639 TGACCACTCTAAATCCCCTCCGGCTCCAAGTCCCCAAATCAAGGCTCACCTGCAAGGTTAAGGAA
1 TGACCACTCTAAATCCCCTCCGGCTCCAAGTCCCCAAATCAAGGCTCACCTGCAAGGTTAAGGAA
10986704 AGGGGGTGAGTTTGGAAACTCAATGTGCAACAAGCCCCTTTCAGAGCCCAAAACAATATCAGTCT
66 AGGGGGTGAGTTTGGAAACTCAATGTGCAACAAGCCCCTTTCAGAGCCCAAAACAATATCAGTCT
10986769 GCTGGGCCTAAGCCAAATTCAAATTCAGCATATACTGGGCCGAAGCCTTTTCATGTTTCATATTT
131 GCTGGGCCTAAGCCAAATTCAAATTCAGCATATACTGGGCCGAAGCCTTTTCATGTTTCATATTT
10986834 CATAACACTGGGCCGAAGCCTTTTCATATTTCATATTACTGGGCCGAAGCCTTTACTATAAATGA
196 CATAACACTGGGCCGAAGCCTTTTCATATTTCATATTACTGGGCCGAAGCCTTTACTATAAATGA
10986899 TATGGCCCATAGGCCCATTTCGATATCACA
261 TATGGCCCATAGGCCCATTTCGATATCACA
10986929 TGACCACTCTAAATCCCCTCCGGCTCCAAGTCCCCAAATCAAGGCTCACCTGCAAGGTTAAGGAA
1 TGACCACTCTAAATCCCCTCCGGCTCCAAGTCCCCAAATCAAGGCTCACCTGCAAGGTTAAGGAA
10986994 AGGGGGTGAGTTTGGAAACTCAATGTGCAACAAGCCCCTTTCAGAGCCCAAAACAATATCAGTCT
66 AGGGGGTGAGTTTGGAAACTCAATGTGCAACAAGCCCCTTTCAGAGCCCAAAACAATATCAGTCT
10987059 GCTGGGCCTAAGCCAAATTCAAATTCAGCATATACTGGGCCGAAGCCTTTTCATGTTTCATATTT
131 GCTGGGCCTAAGCCAAATTCAAATTCAGCATATACTGGGCCGAAGCCTTTTCATGTTTCATATTT
10987124 CATAACACTGGGCCGAAGCCTTTTCATATTTCATATTACTGGGCCGAAGCCTTTACTATAAATGA
196 CATAACACTGGGCCGAAGCCTTTTCATATTTCATATTACTGGGCCGAAGCCTTTACTATAAATGA
10987189 TATGGCCCATAGGCCCATTTCGATATCACA
261 TATGGCCCATAGGCCCATTTCGATATCACA
10987219 TG
1 TG
10987221 TAATATCAAT
Statistics
Matches: 292, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
290 292 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (290 bp):
TGACCACTCTAAATCCCCTCCGGCTCCAAGTCCCCAAATCAAGGCTCACCTGCAAGGTTAAGGAA
AGGGGGTGAGTTTGGAAACTCAATGTGCAACAAGCCCCTTTCAGAGCCCAAAACAATATCAGTCT
GCTGGGCCTAAGCCAAATTCAAATTCAGCATATACTGGGCCGAAGCCTTTTCATGTTTCATATTT
CATAACACTGGGCCGAAGCCTTTTCATATTTCATATTACTGGGCCGAAGCCTTTACTATAAATGA
TATGGCCCATAGGCCCATTTCGATATCACA
Found at i:10987448 original size:25 final size:24
Alignment explanation
Indices: 10987386--10987493 Score: 128
Period size: 25 Copynumber: 4.4 Consensus size: 24
10987376 CTGGAGGCCT
10987386 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTAATAAACTGGGGCAA
*
10987410 AGCCCTTTTGATAAACTGGGGCAA
1 AGCCCTTTTAATAAACTGGGGCAA
*
10987434 GAGCCCTTTTAATAAACTAGGGCAAA
1 -AGCCCTTTTAATAAACTGGGGC-AA
** *
10987460 AGCCCTTTTCGGTAAACTGGGGCAT
1 AGCCCTTTT-AATAAACTGGGGCAA
10987485 AGCCCTTTT
1 AGCCCTTTT
10987494 TACACATCCT
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.10
24 15 0.21
25 39 0.53
26 12 0.16
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTAATAAACTGGGGCAA
Found at i:10987489 original size:50 final size:47
Alignment explanation
Indices: 10987374--10987493 Score: 150
Period size: 50 Copynumber: 2.4 Consensus size: 47
10987364 TTTATCATAT
* *
10987374 AACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTGATA
1 AACTGG-GGCATAGCC-CTTTTAATAACTAGGGCAAAGCCCTTTTGATA
* *
10987423 AACTGGGGCAAGAGCCCTTTTAATAAACTAGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-ATAGCCCTTTTAAT-AACTAGGGC-AAAGCCCTTTT-GATA
10987474 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCATAGCCCTTTT
10987494 TACACATCCT
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
48 11 0.18
49 18 0.29
50 21 0.34
51 12 0.19
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (47 bp):
AACTGGGGCATAGCCCTTTTAATAACTAGGGCAAAGCCCTTTTGATA
Found at i:10987564 original size:20 final size:20
Alignment explanation
Indices: 10987541--10987587 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
10987531 TTATGAATAC
10987541 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
10987560 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
10987581 ATCATGT
1 ATCATGT
10987588 AAATCAAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:10994812 original size:31 final size:31
Alignment explanation
Indices: 10994774--10994837 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
10994764 CCTTTTCATG
10994774 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
10994805 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
10994836 TT
1 TT
10994838 ATTGTAAACG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.16, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:10995149 original size:50 final size:47
Alignment explanation
Indices: 10995034--10995153 Score: 150
Period size: 50 Copynumber: 2.4 Consensus size: 47
10995024 TTTATCATAT
* *
10995034 AACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTGATA
1 AACTGG-GGCATAGCC-CTTTTAATAACTAGGGCAAAGCCCTTTTGATA
* *
10995083 AACTGGGGCAAAAGCCCTTTTAATAAACTAGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-ATAGCCCTTTTAAT-AACTAGGGC-AAAGCCCTTTT-GATA
10995134 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCATAGCCCTTTT
10995154 TGCACTTCCT
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
48 11 0.18
49 18 0.29
50 21 0.34
51 12 0.19
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (47 bp):
AACTGGGGCATAGCCCTTTTAATAACTAGGGCAAAGCCCTTTTGATA
Found at i:10995154 original size:26 final size:25
Alignment explanation
Indices: 10995046--10995153 Score: 132
Period size: 25 Copynumber: 4.4 Consensus size: 25
10995036 CTGGAGGCCT
*
10995046 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
10995070 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* *
10995095 AGCCCTTTTAATAAACTAGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* *
10995120 AGCCCTTTTCGGTAAACTGGGGC-AT
1 AGCCCTTTT-GATAAACTGGGGCAAA
10995145 AGCCCTTTT
1 AGCCCTTTT
10995154 TGCACTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
23 7 0.09
24 13 0.18
25 44 0.59
26 10 0.14
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.28
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:10995265 original size:20 final size:20
Alignment explanation
Indices: 10995211--10995257 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
10995201 ATTATGTGTG
*
10995211 TATCATACATGTCATGTGCA
1 TATCATACATATCATGTGCA
10995231 TATCATACATATCATGTGCA
1 TATCATACATATCATGTGCA
10995251 TATCATA
1 TATCATA
10995258 TCAATCATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
TATCATACATATCATGTGCA
Found at i:10995266 original size:25 final size:24
Alignment explanation
Indices: 10995212--10995267 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
10995202 TTATGTGTGT
*
10995212 ATCATA-CATGTCATGTGCATATC
1 ATCATATCATGTCATATGCATATC
10995235 ATACATATCATGTGCATAT-CATATC
1 AT-CATATCATGT-CATATGCATATC
10995260 AATCATAT
1 -ATCATAT
10995268 ATATCAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
23 2 0.07
24 4 0.14
25 16 0.57
26 6 0.21
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (24 bp):
ATCATATCATGTCATATGCATATC
Found at i:10997553 original size:28 final size:28
Alignment explanation
Indices: 10997511--10997568 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
10997501 TTCAAAGTCT
10997511 CCCCTATTTCGCTGTTTGACAGTTTCGA
1 CCCCTATTTCGCTGTTTGACAGTTTCGA
* * * *
10997539 CCCCTGTTTCTCTGTTTGATAGTTTGGA
1 CCCCTATTTCGCTGTTTGACAGTTTCGA
10997567 CC
1 CC
10997569 TTTCTTCACT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.12, C:0.28, G:0.19, T:0.41
Consensus pattern (28 bp):
CCCCTATTTCGCTGTTTGACAGTTTCGA
Found at i:11001204 original size:39 final size:39
Alignment explanation
Indices: 11001119--11001303 Score: 201
Period size: 40 Copynumber: 4.7 Consensus size: 39
11001109 GCCACTAGCT
* * * *
11001119 CAAATGCGTTTGGGACATAGCCCGGTTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TATAGTAACTCGCA
*
11001159 CAAATGCCTTCGGGACTTAGCCCGGTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
* *
11001198 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
* ** ** * *
11001238 CAAATGCCTTCGGGACTTGGCCCGAAATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGGTA-TAGTAACTCGCA
11001278 CAAATG-CTCTCGGGACTTAGCCCGGT
1 CAAATGCCT-TCGGGACTTAGCCCGGT
11001304 TATCATCCGA
Statistics
Matches: 125, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 40 0.32
40 85 0.68
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTTAGCCCGGTATAGTAACTCGCA
Found at i:11001219 original size:79 final size:80
Alignment explanation
Indices: 11001112--11001306 Score: 216
Period size: 79 Copynumber: 2.5 Consensus size: 80
11001102 GGATATAGCC
* * * * *
11001112 ACTAGCTCAAATGCGTTTGGGACATAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
** *
11001177 AGCCCGGTA-TAATA
66 AGCCCGAAATTAACA
* * *
11001191 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG-AATTAGTAGCTCGCACAAATGCCTTCGGGACT
1 ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATGCCTTCGGGACT
* * *
11001255 TGGCCCGAAATTAGCC
65 TAGCCCGAAATTAACA
*
11001271 ACTAGCTCAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 ACTAGCACAAATGCCT-TCGGGACTTAGCCCGGTTAT
11001307 CATCCGAACA
Statistics
Matches: 95, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
78 1 0.01
79 63 0.66
80 30 0.32
81 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (80 bp):
ACTAGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTT
AGCCCGAAATTAACA
Found at i:11009220 original size:40 final size:38
Alignment explanation
Indices: 11009190--11009417 Score: 223
Period size: 40 Copynumber: 5.8 Consensus size: 38
11009180 GCCACTAGCT
* *
11009190 CAAATGCGTTCGGGACTTAGCCCGATTATAGTAACTTGCA
1 CAAATGCCTTCGGGACTTAGCCCGATTATAG--ACTCGCA
*
11009230 CAAATGCCTTCGGGACTTAGCCCGGTATAATA-ACTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-G-ATTATAGACTCGCA
11009269 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAG-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-G-ATTA-TAGACTCGCA
*
11009309 CAAATGCCTTCGAGACTTAGCCCAGAATTAGTAG-CTCGCA
1 CAAATGCCTTCGGGACTTAGCCC-G-ATTA-TAGACTCGCA
* * *
11009349 CAAATGCCTTCGGGACTTAGCCCGA-AATTAGCCACTAGCT
1 CAAATGCCTTCGGGACTTAGCCCGATTA-TAG--ACTCGCA
*
11009389 CAAATG-CTCTCGGGACTTAGCCCGGTTAT
1 CAAATGCCT-TCGGGACTTAGCCCGATTAT
11009418 CATCCGAACA
Statistics
Matches: 165, Mismatches: 14, Indels: 18
0.84 0.07 0.09
Matches are distributed among these distances:
37 4 0.02
38 1 0.01
39 37 0.22
40 116 0.70
41 2 0.01
42 5 0.03
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (38 bp):
CAAATGCCTTCGGGACTTAGCCCGATTATAGACTCGCA
Found at i:11009290 original size:79 final size:79
Alignment explanation
Indices: 11009190--11009414 Score: 267
Period size: 80 Copynumber: 2.8 Consensus size: 79
11009180 GCCACTAGCT
* *
11009190 CAAATGCGTTCGGGACTTAGCCCGATTATAGTAACTTGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGA-TATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
11009255 TA-TAATAACTCGCA
65 TATTAATAACTCGCA
* * * *
11009269 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTAGCTCGCACAAATGCCTTCGAGACTTAGCCCA
1 CAAATGCCTTCGGGACTTAGCCC-GATA-TAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCG
* * *
11009333 GAATTAGTAGCTCGCA
64 GTATTAATAACTCGCA
* ** *
11009349 CAAATGCCTTCGGGACTTAGCCCGAAATTAGCCACTAGCTCAAATG-CTCTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAGCCCGATA-TAGTAACTAGCACAAATGCCT-TCGGGACTTAGCCCG
11009413 GT
64 GT
11009415 TATCATCCGA
Statistics
Matches: 125, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 60 0.48
80 64 0.51
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGATATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCGGT
ATTAATAACTCGCA
Found at i:11016926 original size:40 final size:40
Alignment explanation
Indices: 11016871--11016953 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
11016861 TATAGTTAAG
*
11016871 ATAGTTGCAAAAATATTATAAGATTTAAAAAGATGGTAAC
1 ATAGTCGCAAAAATATTATAAGATTTAAAAAGATGGTAAC
11016911 ATAGTCGCAAAAATATTATAAGATTTAAAAAGATGGTAAC
1 ATAGTCGCAAAAATATTATAAGATTTAAAAAGATGGTAAC
11016951 ATA
1 ATA
11016954 CCTTATTATG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.51, C:0.06, G:0.14, T:0.29
Consensus pattern (40 bp):
ATAGTCGCAAAAATATTATAAGATTTAAAAAGATGGTAAC
Found at i:11019589 original size:43 final size:44
Alignment explanation
Indices: 11019484--11019597 Score: 135
Period size: 44 Copynumber: 2.6 Consensus size: 44
11019474 TGTGACTTCG
* *
11019484 TGTAAGACCATGTCTGGGACGCTGGCATTGATTTGAGATTTACG
1 TGTAAGACCATGTCTGGGACGCTGGCATTAATTTGAGATTTACA
* * *
11019528 TGTAAGATCGTGTCTGGGACAG-TGGCATTAATATT-TGA-TTACA
1 TGTAAGACCATGTCTGGGAC-GCTGGCATTAAT-TTGAGATTTACA
*
11019571 TGTAAGACCATGTCTGGGACGTTGGCA
1 TGTAAGACCATGTCTGGGACGCTGGCA
11019598 CTGTACGAGC
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
42 1 0.02
43 27 0.45
44 29 0.48
45 3 0.05
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.32
Consensus pattern (44 bp):
TGTAAGACCATGTCTGGGACGCTGGCATTAATTTGAGATTTACA
Found at i:11021075 original size:25 final size:25
Alignment explanation
Indices: 11021047--11021098 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
11021037 GAGTTTGTCT
11021047 CAATCTGA-AGTTTCTATCATTTTCA
1 CAATCT-ATAGTTTCTATCATTTTCA
**
11021072 CAATCTATAGTTTCTATTGTTTTCA
1 CAATCTATAGTTTCTATCATTTTCA
11021097 CA
1 CA
11021099 TATAAAGATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 23 0.96
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (25 bp):
CAATCTATAGTTTCTATCATTTTCA
Found at i:11022013 original size:22 final size:22
Alignment explanation
Indices: 11021985--11022035 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
11021975 TTCGAAACAC
11021985 CATTTGTTGACATGCCACCACT
1 CATTTGTTGACATGCCACCACT
11022007 CATTTGTTGACATGCCACCACT
1 CATTTGTTGACATGCCACCACT
*
11022029 AATTTGT
1 CATTTGT
11022036 GGATAAACTC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.24, C:0.27, G:0.14, T:0.35
Consensus pattern (22 bp):
CATTTGTTGACATGCCACCACT
Found at i:11023480 original size:44 final size:42
Alignment explanation
Indices: 11023432--11023526 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 42
11023422 TGTGATTTTT
* * *
11023432 TGTAAGACCATGTCTGGGACATTGGCATC-AACTTATGATTTACG
1 TGTAAGACCATGTCTAGGACATCGACATCGAA-TT-TGATTT-CG
* *
11023476 TGTAAGACGATGTCTAGGACATCGACATCGTATTTGATTTCG
1 TGTAAGACCATGTCTAGGACATCGACATCGAATTTGATTTCG
11023518 TGTAAGACC
1 TGTAAGACC
11023527 CTATTTGGGA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
42 10 0.23
43 6 0.14
44 27 0.61
45 1 0.02
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (42 bp):
TGTAAGACCATGTCTAGGACATCGACATCGAATTTGATTTCG
Found at i:11029607 original size:27 final size:28
Alignment explanation
Indices: 11029539--11029609 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 28
11029529 TGAAGCTAGA
* * *
11029539 ACATATTAAAAATATGTAGTAGAGTAAG
1 ACATATTAAAAACATGTACTAGACTAAG
* * *
11029567 ACAAATTAATAACATGTACTA-ACTATG
1 ACATATTAAAAACATGTACTAGACTAAG
11029594 ACATATTAAAAACATG
1 ACATATTAAAAACATG
11029610 CATAAAAATA
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
27 18 0.51
28 17 0.49
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.28
Consensus pattern (28 bp):
ACATATTAAAAACATGTACTAGACTAAG
Found at i:11031708 original size:41 final size:41
Alignment explanation
Indices: 11031621--11031739 Score: 168
Period size: 41 Copynumber: 2.9 Consensus size: 41
11031611 GATTCAAATA
* * ** *
11031621 TATATATGGCACTTAGTATGCGATTC-GAAATAGCTTCGAC
1 TATATATGGCACTTAGTGTGTGAGACTGAGATAGCTTCGAC
*
11031661 TATATATGGCACTTAGTGTGTGAGACTGAGATAGCTTCGGC
1 TATATATGGCACTTAGTGTGTGAGACTGAGATAGCTTCGAC
*
11031702 TGTATATGGCACTTAGTGTGTGAGACTGAGATAGCTTC
1 TATATATGGCACTTAGTGTGTGAGACTGAGATAGCTTC
11031740 ATGGCACTTA
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 22 0.31
41 49 0.69
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (41 bp):
TATATATGGCACTTAGTGTGTGAGACTGAGATAGCTTCGAC
Found at i:11031819 original size:43 final size:43
Alignment explanation
Indices: 11031771--11031867 Score: 140
Period size: 43 Copynumber: 2.3 Consensus size: 43
11031761 TATAATACGT
* * * *
11031771 GTAAGACCATAGCTGGGTTACTGGCATCGATATGAGATTTCGC
1 GTAAGACCATAGCTGGGCTACTGGCATCGATATGAAATTACAC
* *
11031814 GTAAGACCATAGCTGGGCTATTGGCATCGATATGAAATTACAT
1 GTAAGACCATAGCTGGGCTACTGGCATCGATATGAAATTACAC
11031857 GTAAGACCATA
1 GTAAGACCATA
11031868 TTTGGGATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (43 bp):
GTAAGACCATAGCTGGGCTACTGGCATCGATATGAAATTACAC
Found at i:11035618 original size:27 final size:27
Alignment explanation
Indices: 11035588--11035813 Score: 247
Period size: 27 Copynumber: 8.4 Consensus size: 27
11035578 GGGCATAATC
* **
11035588 GTCATTTTACCATACAGGGGTGTTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
11035615 GTCATTTTACCCTATAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * * * *
11035642 GTCTTTTTATCCT-TAGGGGCATTGCA
1 GTCATTTTACCCTACAGGGGCATTACG
* *
11035668 GTCATTTTACCCTATAGAGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* *
11035695 GTCATTTTACCCTACATGGGCATTACA
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
11035722 ATCAATTTACCCTACAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
* * *
11035749 GTCATTTCACCCTATAAGGGCATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
11035776 GTCATTTTACCCTACAGGGACATTACG
1 GTCATTTTACCCTACAGGGGCATTACG
*
11035803 GACATTTTACC
1 GTCATTTTACC
11035814 TATTTTGTGG
Statistics
Matches: 166, Mismatches: 32, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 21 0.13
27 145 0.87
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGCATTACG
Found at i:11039717 original size:26 final size:27
Alignment explanation
Indices: 11039684--11039790 Score: 76
Period size: 27 Copynumber: 4.0 Consensus size: 27
11039674 TCATACGAAA
11039684 CATA-AGGGCATAAT-C-ATCATTTTAC
1 CATACAGGG-ATAATACAATCATTTTAC
* *
11039709 CATACAGGGGTATTACAATCATTTTAC
1 CATACAGGGATAATACAATCATTTTAC
* * * **
11039736 CCTACAGGGGTATTACGGTCATTTTAC
1 CATACAGGGATAATACAATCATTTTAC
* ** * *
11039763 CCTACAGGGGCATTACGATCATTTTAC
1 CATACAGGGATAATACAATCATTTTAC
11039790 C
1 C
11039791 CTATAGGGGC
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
25 7 0.10
26 5 0.07
27 60 0.83
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (27 bp):
CATACAGGGATAATACAATCATTTTAC
Found at i:11039845 original size:27 final size:27
Alignment explanation
Indices: 11039700--11039844 Score: 191
Period size: 27 Copynumber: 5.4 Consensus size: 27
11039690 GGCATAATCA
* * **
11039700 TCATTTTACCATACAGGGGTATTACAA
1 TCATTTTACCCTACAGGGGCATTACGG
*
11039727 TCATTTTACCCTACAGGGGTATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
*
11039754 TCATTTTACCCTACAGGGGCATTACGA
1 TCATTTTACCCTACAGGGGCATTACGG
*
11039781 TCATTTTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGCATTACGG
* * * *
11039808 TCATTTTACCTTATAGGGTCATTATGG
1 TCATTTTACCCTACAGGGGCATTACGG
11039835 TCATTTTACC
1 TCATTTTACC
11039845 TACTTTGGGG
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 108 1.00
ACGTcount: A:0.25, C:0.21, G:0.18, T:0.36
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGCATTACGG
Found at i:11039896 original size:29 final size:29
Alignment explanation
Indices: 11039856--11039917 Score: 124
Period size: 29 Copynumber: 2.1 Consensus size: 29
11039846 ACTTTGGGGT
11039856 TTTAGCTCAGATAACGACCTCTCTAAAGG
1 TTTAGCTCAGATAACGACCTCTCTAAAGG
11039885 TTTAGCTCAGATAACGACCTCTCTAAAGG
1 TTTAGCTCAGATAACGACCTCTCTAAAGG
11039914 TTTA
1 TTTA
11039918 CAAATGCTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (29 bp):
TTTAGCTCAGATAACGACCTCTCTAAAGG
Found at i:11042053 original size:27 final size:27
Alignment explanation
Indices: 11042016--11042125 Score: 168
Period size: 27 Copynumber: 4.1 Consensus size: 27
11042006 GTAATTTCAT
11042016 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
11042043 AA-CTGAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAATGGTAATTTTGTA
** * *
11042070 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTTTGTA
11042097 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATGGTAATTTTGTA
11042124 AA
1 AA
11042126 NNNNNNNNNN
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
26 1 0.01
27 71 0.97
28 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.24, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTTTGTA
Found at i:11043660 original size:20 final size:20
Alignment explanation
Indices: 11043632--11043686 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
11043622 GGCGTGTGCT
*
11043632 ACCACACGGGCGTGTCCCGA
1 ACCATACGGGCGTGTCCCGA
11043652 ACCATACGGGCGTGTCCCGA
1 ACCATACGGGCGTGTCCCGA
11043672 ACCATACGGGCGTGT
1 ACCATACGGGCGTGT
11043687 AACCCTTGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.20, C:0.35, G:0.31, T:0.15
Consensus pattern (20 bp):
ACCATACGGGCGTGTCCCGA
Found at i:11045724 original size:3 final size:3
Alignment explanation
Indices: 11045716--11045740 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
11045706 AGATAACAAA
11045716 AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT A
11045741 CACACAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11053274 original size:13 final size:13
Alignment explanation
Indices: 11053256--11053283 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11053246 TAAGGACTAT
11053256 AAGGGTGTTGTTC
1 AAGGGTGTTGTTC
11053269 AAGGGTGTTGTTC
1 AAGGGTGTTGTTC
11053282 AA
1 AA
11053284 TTCAAAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.36, T:0.36
Consensus pattern (13 bp):
AAGGGTGTTGTTC
Found at i:11056043 original size:93 final size:93
Alignment explanation
Indices: 11055892--11056088 Score: 227
Period size: 93 Copynumber: 2.1 Consensus size: 93
11055882 TTTAATTGCT
* *
11055892 AGATCAGATAATGGTACGTAACATAGCTAACGTACGTATGATACAATGCGGTGCGGTAAAACTGC
1 AGATCAGATAATGGTACGTAACATAACTAACGTACGTATGATACAATGCGATGCGGTAAAACTGC
** *
11055957 TATATTGGTA-ATTTACAGATCAACTGCC
66 TATACCGGTATA-TTACAGATAAACTGCC
* * * * * * *
11055985 AGATCAGATAATGGTACGTAGCATAACTAACGTATGTGTTG-TATAGTGCGATGTGGTAAAATTG
1 AGATCAGATAATGGTACGTAACATAACTAACGTACGT-ATGATACAATGCGATGCGGTAAAACTG
* *
11056049 CTATACCGGTATATTACAGTTAAACTGTC
65 CTATACCGGTATATTACAGATAAACTGCC
*
11056078 AGATCAAATAA
1 AGATCAGATAA
11056089 ATATAAGCAG
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
93 84 0.97
94 3 0.03
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (93 bp):
AGATCAGATAATGGTACGTAACATAACTAACGTACGTATGATACAATGCGATGCGGTAAAACTGC
TATACCGGTATATTACAGATAAACTGCC
Found at i:11057994 original size:21 final size:21
Alignment explanation
Indices: 11057955--11057994 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11057945 TGTCAAATTG
* *
11057955 AGGTATCGGTAACATTTATCA
1 AGGTATCGGTAAAAGTTATCA
*
11057976 AGGTATCTGTAAAAGTTAT
1 AGGTATCGGTAAAAGTTAT
11057995 AGAGTATCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (21 bp):
AGGTATCGGTAAAAGTTATCA
Found at i:11060672 original size:55 final size:54
Alignment explanation
Indices: 11060585--11060780 Score: 236
Period size: 55 Copynumber: 3.6 Consensus size: 54
11060575 ATTAGGGTTT
*
11060585 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGC-ATTGGTAAGGTTTCTAAGGC
* * * * *
11060640 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGATAAGATACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGT-TTCTAAGGC
* * *
11060695 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTCA-G-TTCATAAGGC
1 -AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTTTC-TAAGGC
* *
11060748 AAGGATACCATGTAAGACCATGTCGAGACATGG
1 AAGGATACCATGTAAGACCATGCCAAGACATGG
11060781 AAATGGTATC
Statistics
Matches: 119, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
52 5 0.04
53 30 0.25
54 9 0.08
55 71 0.60
56 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.26, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCATTGGTAAGGTTTCTAAGGC
Found at i:11062402 original size:43 final size:43
Alignment explanation
Indices: 11062341--11062451 Score: 107
Period size: 43 Copynumber: 2.6 Consensus size: 43
11062331 ACCGGCACGA
* * *
11062341 AGCCTGCTAGACTTGAAGCCCGATATCAT-TTCACCGGTATTAT
1 AGCCTGCTAGGCTCGAAGCCCGATATCATCTT-ACCGGCATTAT
* ** * *
11062384 AGCCTACTAGGCTCGAAGCTTGATATTATCTTACTGGCATTAT
1 AGCCTGCTAGGCTCGAAGCCCGATATCATCTTACCGGCATTAT
* * *
11062427 AACTTGCTAGGCCCGAAGCCCGATA
1 AGCCTGCTAGGCTCGAAGCCCGATA
11062452 ATATTATTCA
Statistics
Matches: 53, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
43 51 0.96
44 2 0.04
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (43 bp):
AGCCTGCTAGGCTCGAAGCCCGATATCATCTTACCGGCATTAT
Found at i:11078614 original size:22 final size:22
Alignment explanation
Indices: 11078589--11078654 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
11078579 TCGTCCTACC
*
11078589 TACGGCGTTGAGCCATCCTGTT
1 TACGGCGTTGAGCCGTCCTGTT
* * * * *
11078611 TACGGTGTTAAGTCGTCTTGTC
1 TACGGCGTTGAGCCGTCCTGTT
11078633 TACGGCGTTGAGCCGTCCTGTT
1 TACGGCGTTGAGCCGTCCTGTT
11078655 GACTTAGTGC
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.12, C:0.24, G:0.29, T:0.35
Consensus pattern (22 bp):
TACGGCGTTGAGCCGTCCTGTT
Found at i:11078614 original size:44 final size:44
Alignment explanation
Indices: 11078565--11078654 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
11078555 TGCTGCGATA
*
11078565 TTTACGGCCTTTAGTCGTCCTACCTACGGCGTTGAGCCATCCTG
1 TTTACGGCCTTAAGTCGTCCTACCTACGGCGTTGAGCCATCCTG
** * ** *
11078609 TTTACGGTGTTAAGTCGTCTTGTCTACGGCGTTGAGCCGTCCTG
1 TTTACGGCCTTAAGTCGTCCTACCTACGGCGTTGAGCCATCCTG
11078653 TT
1 TT
11078655 GACTTAGTGC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.12, C:0.27, G:0.26, T:0.36
Consensus pattern (44 bp):
TTTACGGCCTTAAGTCGTCCTACCTACGGCGTTGAGCCATCCTG
Found at i:11078841 original size:27 final size:27
Alignment explanation
Indices: 11078794--11078846 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
11078784 GCATCTAATA
*
11078794 CTGATTCTGTACTGGACTTAGGCCCAC
1 CTGATTCTGTAATGGACTTAGGCCCAC
*
11078821 CTGATTCTGTTAATGG-GTTAGGCCCA
1 CTGATTCTG-TAATGGACTTAGGCCCA
11078847 ACTGTTACTG
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:0.19, C:0.25, G:0.25, T:0.32
Consensus pattern (27 bp):
CTGATTCTGTAATGGACTTAGGCCCAC
Found at i:11079638 original size:62 final size:62
Alignment explanation
Indices: 11079567--11079763 Score: 376
Period size: 62 Copynumber: 3.1 Consensus size: 62
11079557 AGATTGACTA
11079567 TCAATACCATGTCAACACAAACTAATAGTATTAGTTTAAGTAACAACTAGGTCCAAAAAAAG
1 TCAATACCATGTCAACACAAACTAATAGTATTAGTTTAAGTAACAACTAGGTCCAAAAAAAG
11079629 TCAATACCATGTCAACACAAACTAATAGTATTAGTTTAAGTAACAACTAGGTCCAAAAAAAG
1 TCAATACCATGTCAACACAAACTAATAGTATTAGTTTAAGTAACAACTAGGTCCAAAAAAAG
11079691 TCAATACCATGTCAACACAAACTAATAGTATTAGTTTAAGTAACAACTAGGTCCAAAAAAAG
1 TCAATACCATGTCAACACAAACTAATAGTATTAGTTTAAGTAACAACTAGGTCCAAAAAAAG
11079753 TTCAAGTACCA
1 -TCAA-TACCA
11079764 CATACGTACT
Statistics
Matches: 133, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
62 124 0.93
63 4 0.03
64 5 0.04
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.24
Consensus pattern (62 bp):
TCAATACCATGTCAACACAAACTAATAGTATTAGTTTAAGTAACAACTAGGTCCAAAAAAAG
Found at i:11089274 original size:21 final size:22
Alignment explanation
Indices: 11089248--11089289 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11089238 CACTTAACAC
*
11089248 AGGGGC-ACACGCCCGTGTGAG
1 AGGGGCAACACACCCGTGTGAG
*
11089269 AGGGGCAACACATCCGTGTGA
1 AGGGGCAACACACCCGTGTGA
11089290 CCATTTAGGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.24, C:0.26, G:0.38, T:0.12
Consensus pattern (22 bp):
AGGGGCAACACACCCGTGTGAG
Found at i:11099063 original size:16 final size:16
Alignment explanation
Indices: 11099042--11099084 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 16
11099032 TAATCAAATT
11099042 ACAAGAATATTTAATA
1 ACAAGAATATTTAATA
11099058 ACAAG-A-ATTTAATA
1 ACAAGAATATTTAATA
*
11099072 ATAA-AATATTTAA
1 ACAAGAATATTTAA
11099085 ACATCTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 12 0.50
15 7 0.29
16 5 0.21
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (16 bp):
ACAAGAATATTTAATA
Found at i:11099433 original size:7 final size:7
Alignment explanation
Indices: 11099400--11099452 Score: 63
Period size: 7 Copynumber: 7.7 Consensus size: 7
11099390 TTATAAAATA
11099400 AAAG-AC
1 AAAGAAC
*
11099406 AAAGAAT
1 AAAGAAC
*
11099413 AAAGAAT
1 AAAGAAC
11099420 AAAGAAC
1 AAAGAAC
11099427 AAAGAAC
1 AAAGAAC
*
11099434 AACGAAC
1 AAAGAAC
*
11099441 AAAAAAC
1 AAAGAAC
11099448 AAAGA
1 AAAGA
11099453 GAATGAGAGA
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
6 4 0.10
7 36 0.90
ACGTcount: A:0.72, C:0.11, G:0.13, T:0.04
Consensus pattern (7 bp):
AAAGAAC
Found at i:11102855 original size:20 final size:20
Alignment explanation
Indices: 11102832--11102881 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
11102822 TTAAATTCCA
*
11102832 AAAGATAAATACAA-ATAATT
1 AAAGATAAATA-AAGATAAAT
*
11102852 AAAGACAAATAAAGATAAAT
1 AAAGATAAATAAAGATAAAT
*
11102872 AAAAATAAAT
1 AAAGATAAAT
11102882 CCTAAAATTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.08
20 23 0.92
ACGTcount: A:0.70, C:0.04, G:0.06, T:0.20
Consensus pattern (20 bp):
AAAGATAAATAAAGATAAAT
Found at i:11107165 original size:40 final size:40
Alignment explanation
Indices: 11107067--11107329 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
11107057 TCCTCGTTCA
* * * * *
11107067 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
11107106 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
11107146 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
11107186 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
11107226 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
11107266 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
11107306 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
11107330 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:11115118 original size:40 final size:40
Alignment explanation
Indices: 11115020--11115282 Score: 325
Period size: 40 Copynumber: 6.6 Consensus size: 40
11115010 TCCTCGTTCA
* * * * *
11115020 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
11115059 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
11115099 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
11115139 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
11115179 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
11115219 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
11115259 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
11115283 CAGCATTCAA
Statistics
Matches: 200, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 37 0.19
40 155 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:11123542 original size:7 final size:7
Alignment explanation
Indices: 11123530--11123554 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11123520 AAACAACTAC
11123530 TATCTCA
1 TATCTCA
11123537 TATCTCA
1 TATCTCA
11123544 TATCTCA
1 TATCTCA
11123551 TATC
1 TATC
11123555 AGTGCGCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (7 bp):
TATCTCA
Found at i:11135958 original size:6 final size:6
Alignment explanation
Indices: 11135947--11135985 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
11135937 GGATTGCAAG
* **
11135947 TTTCCA TTTCCA TTTCCA TTTTCA TTTTTA TTTCCA TTT
1 TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTTCCA TTT
11135986 ATATTTTTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.15, C:0.23, G:0.00, T:0.62
Consensus pattern (6 bp):
TTTCCA
Found at i:11142883 original size:21 final size:21
Alignment explanation
Indices: 11142844--11142884 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11142834 CATGCCTTTG
* *
11142844 GCTAAAATACATGATCGTGTT
1 GCTAAAACACATGACCGTGTT
*
11142865 GCTAAAACACATGCCCGTGT
1 GCTAAAACACATGACCGTGT
11142885 GATTGAGGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (21 bp):
GCTAAAACACATGACCGTGTT
Found at i:11144408 original size:57 final size:58
Alignment explanation
Indices: 11144259--11144419 Score: 164
Period size: 57 Copynumber: 2.8 Consensus size: 58
11144249 ATAATGGTGC
* * * * *
11144259 ATATGTTGCAGATAGAATTTAGCCTGGACGGGTAATTCTAATGTAAGCCCTCTTGAGC
1 ATATGTTACAGATAGGATTTAGCCTGGACGGGTAATCCTAATGTAAGCCCTCTAGAGA
* * * * * * * *
11144317 TTAGGTTATAAATTGGATTTAACCCGGACGGGTAATCC-ATAT-TAAGCTCTCTAGAGA
1 ATATGTTACAGATAGGATTTAGCCTGGACGGGTAATCCTA-ATGTAAGCCCTCTAGAGA
* *
11144374 ATATGTTACAGATAGGATTTAGCCTGGACTGGTAATCCTACTGTAA
1 ATATGTTACAGATAGGATTTAGCCTGGACGGGTAATCCTAATGTAA
11144420 AATGTACGAC
Statistics
Matches: 78, Mismatches: 22, Indels: 6
0.74 0.21 0.06
Matches are distributed among these distances:
57 44 0.56
58 34 0.44
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (58 bp):
ATATGTTACAGATAGGATTTAGCCTGGACGGGTAATCCTAATGTAAGCCCTCTAGAGA
Done.