Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 65 of 91
Found at i:14670828 original size:26 final size:28
Alignment explanation
Indices: 14670791--14670842 Score: 81
Period size: 26 Copynumber: 1.9 Consensus size: 28
14670781 AACAACTTGC
14670791 TTTTTTGAAACAGTG-ATTT-TTTTCTT
1 TTTTTTGAAACAGTGAATTTGTTTTCTT
*
14670817 TTTTTTGCAACAGTGAATTTGTTTTC
1 TTTTTTGAAACAGTGAATTTGTTTTC
14670843 GTGGAACAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 14 0.61
27 4 0.17
28 5 0.22
ACGTcount: A:0.19, C:0.10, G:0.13, T:0.58
Consensus pattern (28 bp):
TTTTTTGAAACAGTGAATTTGTTTTCTT
Found at i:14671843 original size:28 final size:28
Alignment explanation
Indices: 14671811--14671939 Score: 70
Period size: 28 Copynumber: 4.7 Consensus size: 28
14671801 ATGCTATGTA
14671811 TTTTTCTGCACTGTTCGAACCAAATCAG
1 TTTTTCTGCACTGTTCGAACCAAATCAG
** * ** *
14671839 TTTTTTCTATACTTTTCTG-TTCGAA-C--
1 -TTTTTCTGCACTGTTC-GAACCAAATCAG
** * **
14671865 -TTTTCTGCAAAGTTCGAACCAAGTCTT
1 TTTTTCTGCACTGTTCGAACCAAATCAG
* *
14671892 TTTTTTTGCATTGTTCGAACCAAATCAG
1 TTTTTCTGCACTGTTCGAACCAAATCAG
* *
14671920 TTTTTATGCACTGTCCGAAC
1 TTTTTCTGCACTGTTCGAAC
14671940 TGTGTATTTC
Statistics
Matches: 70, Mismatches: 24, Indels: 13
0.65 0.22 0.12
Matches are distributed among these distances:
23 1 0.01
24 12 0.17
25 1 0.01
28 39 0.56
29 16 0.23
30 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.43
Consensus pattern (28 bp):
TTTTTCTGCACTGTTCGAACCAAATCAG
Found at i:14675260 original size:24 final size:24
Alignment explanation
Indices: 14675232--14675289 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
14675222 TTATTTAAAG
*
14675232 AAATAAAAGATAGAGATTAAAAAT
1 AAATAAAAGATAAAGATTAAAAAT
*
14675256 AAATAAAATATAAAGATTAAAAAT
1 AAATAAAAGATAAAGATTAAAAAT
14675280 AAATAAAAGA
1 AAATAAAAGA
14675290 GATAGGGATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (24 bp):
AAATAAAAGATAAAGATTAAAAAT
Found at i:14681833 original size:23 final size:23
Alignment explanation
Indices: 14681807--14681851 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14681797 GAGAAATCAT
14681807 AGTT-TGTTTAAAAAGTAATTTTA
1 AGTTATGTTTAAAAA-TAATTTTA
* *
14681830 AGTTATTTTTTAAAATAATTTT
1 AGTTATGTTTAAAAATAATTTT
14681852 TTTTTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.38, C:0.00, G:0.09, T:0.53
Consensus pattern (23 bp):
AGTTATGTTTAAAAATAATTTTA
Found at i:14683343 original size:21 final size:21
Alignment explanation
Indices: 14683319--14683361 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
14683309 GGAGGCGGTC
*
14683319 GCGGTGGAGGATATGGAGGGG
1 GCGGAGGAGGATATGGAGGGG
14683340 GCGGAGGAGGATATGGAGGGG
1 GCGGAGGAGGATATGGAGGGG
14683361 G
1 G
14683362 TCGTGGTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.21, C:0.05, G:0.63, T:0.12
Consensus pattern (21 bp):
GCGGAGGAGGATATGGAGGGG
Found at i:14686835 original size:3 final size:3
Alignment explanation
Indices: 14686827--14686860 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
14686817 GTCTGCAAAG
* *
14686827 ATA ATA ATA ATA ATA AGA ATA CTA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
14686861 CGGGTATCCA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:14687546 original size:133 final size:133
Alignment explanation
Indices: 14686954--14687968 Score: 1234
Period size: 133 Copynumber: 7.6 Consensus size: 133
14686944 TCGATGAGAG
* * * * *
14686954 ATATGTTCCACTACTCTTTAGGGGAGATCA-AATCGAG-AAACGTTGATTCATTTCACTGTTCTT
1 ATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAAC-TTGATTCACTTCGCTGCTCTT
* * * * * * *
14687017 CAGTGATGATTAAATCA-AATTTGATTTGCTTCATTTCTCTCCAGGAAGACTAAATCTGAAAGAA
65 CAGGGAAGATTGAATCAGAA-TTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAA
14687081 -AACGA
129 GAA-GA
* * ** * * * *
14687086 ATCTGCTCCACTACACTTTAGGGGAGATCAGACTCGAGGAAATTTTAATCCACTTCCCTTCTCTT
1 ATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGA-GAAAACTTGATTCACTTCGCTGCTCTT
* * * * * *
14687151 CAGGGAAGATTAAATCGGACTTGATTTACTTCACTGCTCTTTAGGAAGACCAAATCTGAAAGAAT
65 CAGGGAAGATTGAATCAGAATTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAG
14687216 AAGA
130 AAGA
* * * * * *
14687220 ATCTGCTCCACTACTCTTTATGGGAGATCAAACTCGAGAAAAAAATCTGATCCACTTCGTTGCTC
1 ATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAG--AAAACT-TGATTCACTTCGCTGCTC
* * * * * *
14687285 TTTAGGGAAGATTGAATC-GAACATGATTTGCTTCGCTGCCCTTCAGAAAGACCAAATCTAAAAG
63 TTCAGGGAAGATTGAATCAGAA-TTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAG
* *
14687349 AAAAAAAA
127 -AAGAAGA
* * *
14687357 ATATGCTCTACTACTCTTTAGGGGAGATCAGACTCGAGAAAATTTGATTCACTTCGCTACTCTTC
1 ATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTGATTCACTTCGCTGCTCTTC
* * *
14687422 AGGGAAGATTGAATCAGAATCGATTTGCTTTC-TTGCTCTCCAGGAAGACCAAATCTGAAAGAAG
66 AGGGAAGATTGAATCAGAATTGATTTGC-TTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAG
14687486 AAGA
130 AAGA
* *
14687490 ATATGCTCCACTACTCTTTAGGGGAGAGCAGACTTGAGAAAACTTGATTCACTTCGCTGCTCTTC
1 ATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTGATTCACTTCGCTGCTCTTC
* * *
14687555 AGGGATGATTGAATCAAAATTGATTTGCTTCACTACTCTTCAGGAAGACCAAATCTGAAAGAAGA
66 AGGGAAGATTGAATCAGAATTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGA
*
14687620 ATA
131 AGA
* * * *
14687623 ATATGATCCACTACTCTTTAGGGGAGATCAGACTCAAGAAAACTTGATTCACTTCGTTTCTCTTC
1 ATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTGATTCACTTCGCTGCTCTTC
* * *
14687688 AGGGAAGATTGAGTCAGAATTGATTTGTTTCACTGCTCTTCAGGAATACCAAATCTGAAAGAAGA
66 AGGGAAGATTGAATCAGAATTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGA
14687753 AGA
131 AGA
* * * ***
14687756 ATCTGCTCTACTACT-TTTAGGGGAGATCAAACTCGAGAAAACTTGATTCACTTTATTGCTCTTC
1 ATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTGATTCACTTCGCTGCTCTTC
* * *
14687820 AGGGAAGATTGAATCATAATTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATTTGAAAGAACA
66 AGGGAAGATTGAATCAGAATTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGA
14687885 AGA
131 AGA
* * * *
14687888 ATCTGCTCCACTACTCTTTAGGGGAGGTCAGACTCGAGAAAACTTTGATCCACTTCACTGCTCTT
1 ATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAAC-TTGATTCACTTCGCTGCTCTT
14687953 CAGGGAAGATTGAATC
65 CAGGGAAGATTGAATC
14687969 TGAAAATCAA
Statistics
Matches: 762, Mismatches: 106, Indels: 28
0.85 0.12 0.03
Matches are distributed among these distances:
132 150 0.20
133 285 0.37
134 201 0.26
135 22 0.03
136 65 0.09
137 39 0.05
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.29
Consensus pattern (133 bp):
ATATGCTCCACTACTCTTTAGGGGAGATCAGACTCGAGAAAACTTGATTCACTTCGCTGCTCTTC
AGGGAAGATTGAATCAGAATTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGA
AGA
Found at i:14688601 original size:45 final size:45
Alignment explanation
Indices: 14688545--14688745 Score: 179
Period size: 45 Copynumber: 4.5 Consensus size: 45
14688535 GGTTGACTCT
* * * * **
14688545 TCTTCGTGAGAAAGTAAAAAAGGACAATACTAAAAGATTGAATTA
1 TCTTCATGAGAAAGTCAAGAAGGACAACACTAAAAGATTGAATCC
* * * *
14688590 TCTTCATGAGAAAGTCAATAAGGACAACACTAGAATATTGACTCC
1 TCTTCATGAGAAAGTCAAGAAGGACAACACTAAAAGATTGAATCC
* ** *
14688635 TTTTCGCGAGAAAGTCAAGAAGGACAACACTAAAATATT-AACTCC
1 TCTTCATGAGAAAGTCAAGAAGGACAACACTAAAAGATTGAA-TCC
** * * * * * *
14688680 TCTTCATGAGAAAGTCAAGAATAACAATACTGAGAGATTTACTTC
1 TCTTCATGAGAAAGTCAAGAAGGACAACACTAAAAGATTGAATCC
*
14688725 TCTTCACGAGAAAGTCAAGAA
1 TCTTCATGAGAAAGTCAAGAA
14688746 TAACAAAGAT
Statistics
Matches: 127, Mismatches: 27, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
44 1 0.01
45 125 0.98
46 1 0.01
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.24
Consensus pattern (45 bp):
TCTTCATGAGAAAGTCAAGAAGGACAACACTAAAAGATTGAATCC
Found at i:14688658 original size:90 final size:90
Alignment explanation
Indices: 14688537--14688745 Score: 228
Period size: 90 Copynumber: 2.3 Consensus size: 90
14688527 TATTTAAAGG
* * * * *
14688537 TTGACTCTTCTTCGTGAGAAAGTAAAAAAGGACAATACTAAAAGATTGAA-TTATCTTCATGAGA
1 TTGACTCTT-TTCGCGAGAAAGTCAAGAAGGACAACACTAAAAGATT-AACTCATCTTCATGAGA
* *
14688601 AAGTCAATAAGGACAACACT-AGA-AT
64 AAGTCAAGAAGAACAACACTGAGAGAT
* *
14688626 ATTGACTCCTTTTCGCGAGAAAGTCAAGAAGGACAACACTAAAATATTAACTCCTCTTCATGAGA
1 -TTGACT-CTTTTCGCGAGAAAGTCAAGAAGGACAACACTAAAAGATTAACTCATCTTCATGAGA
* *
14688691 AAGTCAAGAATAACAATACTGAGAGAT
64 AAGTCAAGAAGAACAACACTGAGAGAT
* *
14688718 TT-ACTTCTCTTCACGAGAAAGTCAAGAA
1 TTGAC-TCTTTTCGCGAGAAAGTCAAGAA
14688746 TAACAAAGAT
Statistics
Matches: 101, Mismatches: 13, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
89 2 0.02
90 88 0.87
91 9 0.09
92 2 0.02
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (90 bp):
TTGACTCTTTTCGCGAGAAAGTCAAGAAGGACAACACTAAAAGATTAACTCATCTTCATGAGAAA
GTCAAGAAGAACAACACTGAGAGAT
Found at i:14688765 original size:38 final size:38
Alignment explanation
Indices: 14688714--14689095 Score: 374
Period size: 38 Copynumber: 9.9 Consensus size: 38
14688704 CAATACTGAG
* *
14688714 AGATTTACTTCTCTTCACGAGAAAGTCAAGAATAACAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
* *
14688752 AGATTGACTTCTC-TCACGATGAATTCAATG-ATAACAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAA-GAATAACAA
* * * *
14688789 ATATTGACTTCTTTTCACGACGAATTCAAGAATAACAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
* * * *
14688827 AGATTAACTTCTCTTTACGAGGACGTCAATAATAACATTGAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAAC----AA
* * *
14688869 AGATTAAATTTTCTTCACGAGGAAGTCAAGAATAACAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
* *
14688907 AGATT-AGCTTATCTTCACGAGGAAGTCATGAATAACATTGAA
1 AGATTGA-CTTCTCTTCACGAGGAAGTCAAGAATAAC----AA
* * * ** * *
14688949 AGATTAATTTCTCTTCATGTTGAAGTGAAGAATAAAAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
* * *
14688987 AGATCGATTTCTATTCACGAGGAAGTCAAGAATAACAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
*
14689025 AGATCGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
* **
14689063 AAATTGACTTCTCTTCGTGAGGAAGTCAAGAAT
1 AGATTGACTTCTCTTCACGAGGAAGTCAAGAAT
14689096 GACATTGCAA
Statistics
Matches: 286, Mismatches: 45, Indels: 26
0.80 0.13 0.07
Matches are distributed among these distances:
37 32 0.11
38 192 0.67
42 61 0.21
43 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (38 bp):
AGATTGACTTCTCTTCACGAGGAAGTCAAGAATAACAA
Found at i:14688889 original size:42 final size:42
Alignment explanation
Indices: 14688825--14688965 Score: 150
Period size: 42 Copynumber: 3.5 Consensus size: 42
14688815 CAAGAATAAC
* * * *
14688825 AAAGATTAACTTCTCTTTACGAGGACGTCAATAATAACATTG
1 AAAGATTAAATTTTCTTCACGAGGAAGTCAATAATAACATTG
*
14688867 AAAGATTAAATTTTCTTCACGAGGAAGTCAAGAATAAC----
1 AAAGATTAAATTTTCTTCACGAGGAAGTCAATAATAACATTG
** *
14688905 AAAGATTAGCTTATCTTCACGAGGAAGTC-ATGAATAACATTG
1 AAAGATTAAATTTTCTTCACGAGGAAGTCAAT-AATAACATTG
14688947 AAAGATT-AATTTCTCTTCA
1 AAAGATTAAATTT-TCTTCA
14688966 TGTTGAAGTG
Statistics
Matches: 81, Mismatches: 12, Indels: 12
0.77 0.11 0.11
Matches are distributed among these distances:
37 1 0.01
38 32 0.40
41 2 0.02
42 46 0.57
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (42 bp):
AAAGATTAAATTTTCTTCACGAGGAAGTCAATAATAACATTG
Found at i:14688906 original size:80 final size:80
Alignment explanation
Indices: 14688679--14689111 Score: 370
Period size: 80 Copynumber: 5.5 Consensus size: 80
14688669 ATATTAACTC
* * * * * * * *
14688679 CTCTTCATGAGAAAGTCAAGAATAACAATACTGAGAGATTTACTTCTCTTCACGAGAAAGTCAAG
1 CTCTTCACGAGGAAGTCAATAATAAC-AT--TGAAAGATTGAATTTTCTTCACGAGGAAGTCAAG
14688744 AATAACAAAGATTGACTT
63 AATAACAAAGATTGACTT
* * * * * * *
14688762 CTC-TCACGATGAATTCAATGATAAC----AAATATTGACTTCTT-TTCACGACGAATTCAAGAA
1 CTCTTCACGAGGAAGTCAATAATAACATTGAAAGATTGAATT-TTCTTCACGAGGAAGTCAAGAA
*
14688821 TAACAAAGATTAACTT
65 TAACAAAGATTGACTT
* * *
14688837 CTCTTTACGAGGACGTCAATAATAACATTGAAAGATTAAATTTTCTTCACGAGGAAGTCAAGAAT
1 CTCTTCACGAGGAAGTCAATAATAACATTGAAAGATTGAATTTTCTTCACGAGGAAGTCAAGAAT
14688902 AACAAAGATT-AGCTT
66 AACAAAGATTGA-CTT
* * ** *
14688917 ATCTTCACGAGGAAGTC-ATGAATAACATTGAAAGATT-AATTTCTCTTCATGTTGAAGTGAAGA
1 CTCTTCACGAGGAAGTCAAT-AATAACATTGAAAGATTGAATTT-TCTTCACGAGGAAGTCAAGA
* * *
14688980 ATAAAAAAGATCGATTT
64 ATAACAAAGATTGACTT
* * * * *
14688997 CTATTCACGAGGAAGTCAAGAATAAC----AAAGATCGACTTCTCTTCACGAGGAAGTCAAGAAT
1 CTCTTCACGAGGAAGTCAATAATAACATTGAAAGATTGAATTTTCTTCACGAGGAAGTCAAGAAT
*
14689058 AACAAAAATTGACTT
66 AACAAAGATTGACTT
** * * *
14689073 CTCTTCGTGAGGAAGTCAAGAATGACATTGCAAGATTGA
1 CTCTTCACGAGGAAGTCAATAATAACATTGAAAGATTGA
14689112 CTCCTCTTTA
Statistics
Matches: 279, Mismatches: 54, Indels: 37
0.75 0.15 0.10
Matches are distributed among these distances:
75 43 0.15
76 75 0.27
77 3 0.01
79 10 0.04
80 127 0.46
81 2 0.01
82 16 0.06
83 3 0.01
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (80 bp):
CTCTTCACGAGGAAGTCAATAATAACATTGAAAGATTGAATTTTCTTCACGAGGAAGTCAAGAAT
AACAAAGATTGACTT
Found at i:14689134 original size:118 final size:116
Alignment explanation
Indices: 14688720--14689111 Score: 359
Period size: 118 Copynumber: 3.4 Consensus size: 116
14688710 TGAGAGATTT
* * * * * *
14688720 ACTTCTCTTCACGAGAAAGTCAAGAATA-A--CAAAGATTGACTTCTC-TCACGATGAATTCAAT
1 ACTTCTCTTCATGAGGAAGTCAAGAATACATTGAAAGATTGAATTCTCTTCACGAGGAAGTCAA-
* * * * *
14688781 G-ATAACAAATATTGACTTCTTTTCACGACGAATTCAAGAATAACAAAGATTA
65 GAATAACAAAGA-TGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAAATTA
* * * * * *
14688833 ACTTCTCTTTACGAGGACGTCAATAATAACATTGAAAGATTAAATTTTCTTCACGAGGAAGTCAA
1 ACTTCTCTTCATGAGGAAGTCAAGAAT-ACATTGAAAGATTGAATTCTCTTCACGAGGAAGTCAA
* * *
14688898 GAATAACAAAGATTAGCTTATCTTCACGAGGAAGTCATGAATAACATTGAAAGATTA
65 GAATAACAAAGATGA-CTTCTCTTCACGAGGAAGTCAAGAATAACA---AAA-ATTA
* ** * * * * *
14688955 ATTTCTCTTCATGTTGAAGTGAAGAATA-A--AAAAGATCGATTTCTATTCACGAGGAAGTCAAG
1 ACTTCTCTTCATGAGGAAGTCAAGAATACATTGAAAGATTGAATTCTCTTCACGAGGAAGTCAAG
*
14689017 AATAACAAAGATCGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAAATTG
66 AATAACAAAGAT-GACTTCTCTTCACGAGGAAGTCAAGAATAACAAAAATTA
* *
14689069 ACTTCTCTTCGTGAGGAAGTCAAGAATGACATTGCAAGATTGA
1 ACTTCTCTTCATGAGGAAGTCAAGAAT-ACATTGAAAGATTGA
14689112 CTCCTCTTTA
Statistics
Matches: 219, Mismatches: 44, Indels: 27
0.76 0.15 0.09
Matches are distributed among these distances:
113 23 0.11
114 26 0.12
115 5 0.02
116 1 0.00
117 15 0.07
118 121 0.55
119 1 0.00
120 1 0.00
121 3 0.01
122 23 0.11
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.28
Consensus pattern (116 bp):
ACTTCTCTTCATGAGGAAGTCAAGAATACATTGAAAGATTGAATTCTCTTCACGAGGAAGTCAAG
AATAACAAAGATGACTTCTCTTCACGAGGAAGTCAAGAATAACAAAAATTA
Found at i:14689941 original size:45 final size:44
Alignment explanation
Indices: 14689877--14689966 Score: 135
Period size: 45 Copynumber: 2.0 Consensus size: 44
14689867 TACTCATGGG
14689877 TGATATGGGCCTTCAAAAATGCCCCAACATTTATCATTTCCCTGC
1 TGATATGGGCCTTCAAAAATGCCCCAACATTTATCATTT-CCTGC
* * * *
14689922 TGATATGGGCTTTCCAAAATTCCCCAACATTTATTATTTCCTGC
1 TGATATGGGCCTTCAAAAATGCCCCAACATTTATCATTTCCTGC
14689966 T
1 T
14689967 CCAGCACTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 6 0.15
45 35 0.85
ACGTcount: A:0.26, C:0.27, G:0.12, T:0.36
Consensus pattern (44 bp):
TGATATGGGCCTTCAAAAATGCCCCAACATTTATCATTTCCTGC
Found at i:14691103 original size:21 final size:22
Alignment explanation
Indices: 14691071--14691136 Score: 84
Period size: 22 Copynumber: 3.0 Consensus size: 22
14691061 ATTTTTCATC
14691071 TCTCTTTC-ATCTTTTT-TTTT
1 TCTCTTTCTATCTTTTTCTTTT
14691091 TCT-TATTCTATCTTTTTCTTTT
1 TCTCT-TTCTATCTTTTTCTTTT
*
14691113 TCTCTTTCTATCATTTCTCTTTT
1 TCTCTTTCTATC-TTTTTCTTTT
14691136 T
1 T
14691137 TTTCTTTTTA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 1 0.03
20 6 0.15
21 8 0.20
22 14 0.35
23 11 0.28
ACGTcount: A:0.08, C:0.21, G:0.00, T:0.71
Consensus pattern (22 bp):
TCTCTTTCTATCTTTTTCTTTT
Found at i:14691107 original size:22 final size:23
Alignment explanation
Indices: 14691062--14691143 Score: 71
Period size: 22 Copynumber: 3.5 Consensus size: 23
14691052 TTCTTTCTTA
* *
14691062 TTTTTCATCTCTCTTTCATCTTTTT
1 TTTTTC-TCTTTCTATCAT-TTTTT
*
14691087 TTTTTCT-TATTCTATC-TTTTTC
1 TTTTTCTCT-TTCTATCATTTTTT
14691109 TTTTTCTCTTTCTATCATTTCTCTT
1 TTTTTCTCTTTCTATCATTT-T-TT
14691134 TTTTT-TCTTT
1 TTTTTCTCTTT
14691144 TTATTCTTCT
Statistics
Matches: 48, Mismatches: 4, Indels: 11
0.76 0.06 0.17
Matches are distributed among these distances:
22 18 0.38
23 6 0.12
24 12 0.25
25 12 0.25
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTCTCTTTCTATCATTTTTT
Found at i:14691154 original size:38 final size:40
Alignment explanation
Indices: 14691101--14691180 Score: 110
Period size: 38 Copynumber: 2.0 Consensus size: 40
14691091 TCTTATTCTA
* *
14691101 TCTTTTTCTTTTTCTCTTTCTA-TCATTTCTCT-TTTTTT
1 TCTTTTTATTCTTCTCTTTCTATTCATTTCTCTCTTTTTT
* *
14691139 TCTTTTTATTCTTCTCTTTCTATTCTTTTTTCTCTTTTTT
1 TCTTTTTATTCTTCTCTTTCTATTCATTTCTCTCTTTTTT
14691179 TC
1 TC
14691181 CTTATTCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
38 20 0.56
39 8 0.22
40 8 0.22
ACGTcount: A:0.05, C:0.21, G:0.00, T:0.74
Consensus pattern (40 bp):
TCTTTTTATTCTTCTCTTTCTATTCATTTCTCTCTTTTTT
Found at i:14691186 original size:38 final size:37
Alignment explanation
Indices: 14691112--14691205 Score: 97
Period size: 38 Copynumber: 2.6 Consensus size: 37
14691102 CTTTTTCTTT
*
14691112 TTCTCTTTCTATCATTTCTCTTTTTTTTCTTTTTATTC
1 TTCTCTTTCTATCATTTCTCTTTTTTTTC-TCTTATTC
* *
14691150 TTCTCTTTCTATTCTTTTTTCTCTTTTTTTC-CTTATTC
1 TTCTCTTTCTA-TCATTTCTCT-TTTTTTTCTCTTATTC
*
14691188 -T-T-TTTCTATCTTTTCTCT
1 TTCTCTTTCTATCATTTCTCT
14691206 CTCTCTCTCT
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
34 9 0.18
35 6 0.12
36 1 0.02
37 1 0.02
38 17 0.34
39 8 0.16
40 8 0.16
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.71
Consensus pattern (37 bp):
TTCTCTTTCTATCATTTCTCTTTTTTTTCTCTTATTC
Found at i:14691201 original size:23 final size:22
Alignment explanation
Indices: 14691075--14691201 Score: 80
Period size: 23 Copynumber: 5.5 Consensus size: 22
14691065 TTCATCTCTC
14691075 TTTC-ATCTTTTT-TTTTTCTT
1 TTTCTATCTTTTTCTTTTTCTT
* *
14691095 ATTCTATCTTTTTCTTTTTCTC
1 TTTCTATCTTTTTCTTTTTCTT
* *
14691117 TTTCTATCATTTCTCTTTTTTTT
1 TTTCTATC-TTTTTCTTTTTCTT
* *
14691140 CTTTTTATTCTTCTCTT-TCTATTCTTT
1 -TTTCTA-TCTT-T-TTCT-TTTTC-TT
* * *
14691167 TTTCTCTTTTTTTCCTTATTCTT
1 TTTCTATCTTTTT-CTTTTTCTT
14691190 TTTCTATCTTTT
1 TTTCTATCTTTT
14691202 CTCTCTCTCT
Statistics
Matches: 81, Mismatches: 15, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
20 3 0.04
21 8 0.10
22 14 0.17
23 25 0.31
24 13 0.16
25 8 0.10
26 8 0.10
27 2 0.02
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (22 bp):
TTTCTATCTTTTTCTTTTTCTT
Found at i:14691202 original size:32 final size:32
Alignment explanation
Indices: 14691103--14691205 Score: 82
Period size: 32 Copynumber: 3.0 Consensus size: 32
14691093 TTATTCTATC
* * *
14691103 TTTTT-CTTTTTCTCTTTCTATCATTTCTCTTT
1 TTTTTCCTTATTCTTTTTCTATCTTTTCTC-TT
*
14691135 TTTTTCTTTTTATTCTTCTCTTTCTATTCTTTTTTCTCTT
1 TTTTTC--CTTATTC-T-T-TTTCTA-TC--TTTTCTCTT
14691175 TTTTTCCTTATTCTTTTTCTATCTTTTCTCT
1 TTTTTCCTTATTCTTTTTCTATCTTTTCTCT
14691206 CTCTCTCTCT
Statistics
Matches: 57, Mismatches: 5, Indels: 18
0.71 0.06 0.22
Matches are distributed among these distances:
32 13 0.23
34 2 0.04
35 11 0.19
36 2 0.04
37 1 0.02
38 12 0.21
39 2 0.04
40 8 0.14
41 6 0.11
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (32 bp):
TTTTTCCTTATTCTTTTTCTATCTTTTCTCTT
Found at i:14691228 original size:2 final size:2
Alignment explanation
Indices: 14691223--14691251 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14691213 TCTCTCTCTC
14691223 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14691252 GAATTTATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14692659 original size:14 final size:14
Alignment explanation
Indices: 14692628--14692664 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
14692618 TCTGTGATTA
14692628 ATGC-ATGT-TATG
1 ATGCAATGTATATG
*
14692640 ATGCAATGTATATT
1 ATGCAATGTATATG
14692654 ATGCAATGTAT
1 ATGCAATGTAT
14692665 GACTTATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 4 0.18
13 4 0.18
14 14 0.64
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (14 bp):
ATGCAATGTATATG
Found at i:14694763 original size:105 final size:105
Alignment explanation
Indices: 14694541--14694756 Score: 258
Period size: 105 Copynumber: 2.1 Consensus size: 105
14694531 GATTTTCCAT
* * * *
14694541 AAGGACCACATA-TAAATTCCTTAAGAACCATATACATATACCAAGGATCAAGTAAGTGTCTCAA
1 AAGGACCACGTAGAAAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCTCAA
14694605 AAGACCTCATACATGCTCCAAAGAATACATATACGTCCCG
66 AAGACCTCATACATGCTCCAAAGAATACATATACGTCCCG
* * * *
14694645 AAGGACCACGTAGAAAATTCCTTAAGAATCATATACATATGCTAAGGACCAAATATA-TGT-TGT
1 AAGGACCACGTAGAAAATTCCTTAAGAACCATATACATATACCAAGGACCAAATA-AGTGTCT-C
* * * * * * *
14694708 AAAGGACCTCATAGATGTTCCATAGGATACCTATATGTCCCG
64 AAAAGACCTCATACATGCTCCAAAGAATACATATACGTCCCG
14694750 AAGGACC
1 AAGGACC
14694757 GTGTAGACCC
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
104 12 0.13
105 81 0.86
106 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.15, T:0.24
Consensus pattern (105 bp):
AAGGACCACGTAGAAAATTCCTTAAGAACCATATACATATACCAAGGACCAAATAAGTGTCTCAA
AAGACCTCATACATGCTCCAAAGAATACATATACGTCCCG
Found at i:14699688 original size:23 final size:24
Alignment explanation
Indices: 14699661--14699709 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
14699651 ACCAAATTCG
*
14699661 ATTAAGCTAAAATAAT-AAAAATT
1 ATTAAACTAAAATAATCAAAAATT
* *
14699684 ATTAAATTAAAATAATCACAAATT
1 ATTAAACTAAAATAATCAAAAATT
14699708 AT
1 AT
14699710 AACACAAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.59, C:0.06, G:0.02, T:0.33
Consensus pattern (24 bp):
ATTAAACTAAAATAATCAAAAATT
Found at i:14701145 original size:24 final size:23
Alignment explanation
Indices: 14701112--14701156 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
14701102 GGCTTCGGGC
14701112 TTTGAGTTGTAATCTGCTGGGCTGA
1 TTTGAGTTGTAAT-TG-TGGGCTGA
14701137 TTTG-GTTGTAATTGTGGGCT
1 TTTGAGTTGTAATTGTGGGCT
14701157 TGAATCTCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 6 0.30
23 2 0.10
24 8 0.40
25 4 0.20
ACGTcount: A:0.13, C:0.09, G:0.33, T:0.44
Consensus pattern (23 bp):
TTTGAGTTGTAATTGTGGGCTGA
Found at i:14702047 original size:2 final size:2
Alignment explanation
Indices: 14702040--14702066 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14702030 ACATACATCG
14702040 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
14702067 AGGTAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14703970 original size:16 final size:19
Alignment explanation
Indices: 14703948--14703984 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
14703938 ATATTTTTAT
*
14703948 TAAAAATTTA-AATTATAA
1 TAAATATTTATAATTATAA
14703966 TAAATATTTATAATTATAA
1 TAAATATTTATAATTATAA
14703985 GTATAAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAATATTTATAATTATAA
Found at i:14705356 original size:7 final size:7
Alignment explanation
Indices: 14705344--14705369 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14705334 ATTGACTTTT
14705344 CTAACTC
1 CTAACTC
14705351 CTAACTC
1 CTAACTC
14705358 CTAACTC
1 CTAACTC
14705365 CTAAC
1 CTAAC
14705370 AACTAACCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.42, G:0.00, T:0.27
Consensus pattern (7 bp):
CTAACTC
Found at i:14707072 original size:20 final size:20
Alignment explanation
Indices: 14707047--14707097 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
14707037 TCATACAATG
**
14707047 GGTATCGATA-TTGTAGGTGT
1 GGTATCGATACTAATAGG-GT
14707067 GGTATCGATACTAATAGGGT
1 GGTATCGATACTAATAGGGT
14707087 GGTATCGATAC
1 GGTATCGATAC
14707098 CAAGTTCACT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 23 0.82
21 5 0.18
ACGTcount: A:0.25, C:0.10, G:0.31, T:0.33
Consensus pattern (20 bp):
GGTATCGATACTAATAGGGT
Found at i:14708922 original size:46 final size:46
Alignment explanation
Indices: 14708858--14709330 Score: 670
Period size: 46 Copynumber: 10.3 Consensus size: 46
14708848 GGTTAAATTT
* *
14708858 CATTTTATTTATGACATCCTTTCATGCCTTAATGCATCATTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* *
14708904 CATTTTATTTATGGCATCCTTTCATGCCTTAAAGCATCATTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* * * *
14708950 C--CTTA---A-AGCATCATTTCATGCATTTTATTTATGGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATGC--CTTA---AT-GCATCCTTTCATG
* * *
14708996 TATTCTATTTATGGTATCCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
*
14709042 CATTTTATTTATGGCATCCTTTCATGCCTTAAAGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* *
14709088 CGTTTTATTTATGGAATCCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* * *
14709134 CATTTTATTTATGGCATTCTTTCATGCCTTAATGTATCATTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
*
14709180 CATTTTATTTATGGCATCTTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
14709226 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
* *
14709272 CATTATATTTATGGCATCCTTTCATGCCTTAATGCATCCTTCCATG
1 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
14709318 CATTTTATTTATG
1 CATTTTATTTATG
14709331 TATTCGATTT
Statistics
Matches: 380, Mismatches: 35, Indels: 24
0.87 0.08 0.05
Matches are distributed among these distances:
40 13 0.03
41 1 0.00
42 3 0.01
44 3 0.01
45 1 0.00
46 339 0.89
47 2 0.01
48 2 0.01
50 3 0.01
51 1 0.00
52 12 0.03
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.46
Consensus pattern (46 bp):
CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATG
Found at i:14709894 original size:21 final size:21
Alignment explanation
Indices: 14709868--14709920 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
14709858 TACCTCGTTG
14709868 GTATCGATACTGATTCAATCA
1 GTATCGATACTGATTCAATCA
*
14709889 GTATCGATATTGATTCAATCA
1 GTATCGATACTGATTCAATCA
14709910 GTATCGATACT
1 GTATCGATACT
14709921 ACACAGCTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (21 bp):
GTATCGATACTGATTCAATCA
Found at i:14712027 original size:2 final size:2
Alignment explanation
Indices: 14712020--14712066 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
14712010 CCATAAAAGC
14712020 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14712062 TA TA T
1 TA TA T
14712067 TCCTTCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14712836 original size:154 final size:154
Alignment explanation
Indices: 14712556--14712864 Score: 618
Period size: 154 Copynumber: 2.0 Consensus size: 154
14712546 AACCATATTT
14712556 ACTCTTATAAACAGTTTAAACTTTTTAATAGATTCCTCCAATGCAAAAACATTGTTAAACGTTGG
1 ACTCTTATAAACAGTTTAAACTTTTTAATAGATTCCTCCAATGCAAAAACATTGTTAAACGTTGG
14712621 GGCATTCCTTCAACAGAATGGAGGAAAATCTCTACAGCTTCTACCATTCTATGGCATGATACTAA
66 GGCATTCCTTCAACAGAATGGAGGAAAATCTCTACAGCTTCTACCATTCTATGGCATGATACTAA
14712686 AATCATGTTGGATTATCTTGATTC
131 AATCATGTTGGATTATCTTGATTC
14712710 ACTCTTATAAACAGTTTAAACTTTTTAATAGATTCCTCCAATGCAAAAACATTGTTAAACGTTGG
1 ACTCTTATAAACAGTTTAAACTTTTTAATAGATTCCTCCAATGCAAAAACATTGTTAAACGTTGG
14712775 GGCATTCCTTCAACAGAATGGAGGAAAATCTCTACAGCTTCTACCATTCTATGGCATGATACTAA
66 GGCATTCCTTCAACAGAATGGAGGAAAATCTCTACAGCTTCTACCATTCTATGGCATGATACTAA
14712840 AATCATGTTGGATTATCTTGATTC
131 AATCATGTTGGATTATCTTGATTC
14712864 A
1 A
14712865 ATTTTGATCT
Statistics
Matches: 155, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
154 155 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (154 bp):
ACTCTTATAAACAGTTTAAACTTTTTAATAGATTCCTCCAATGCAAAAACATTGTTAAACGTTGG
GGCATTCCTTCAACAGAATGGAGGAAAATCTCTACAGCTTCTACCATTCTATGGCATGATACTAA
AATCATGTTGGATTATCTTGATTC
Found at i:14714374 original size:26 final size:26
Alignment explanation
Indices: 14714305--14714506 Score: 199
Period size: 26 Copynumber: 8.5 Consensus size: 26
14714295 CATTAAATTT
14714305 CATTTTATTTATGGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATG
*
14714331 C--CTTA---AT-GCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATG
14714351 CATTTTATTTATGGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATG
** *
14714377 CATTTTATTTATGGTGTCTTTTCATG
1 CATTTTATTTATGGCATCCTTTCATG
*
14714403 C---CTA---AT-GCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATG
14714422 CATTTTATTTATGGCATCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATG
*
14714448 CATTTTATTTATGGCTTCCTTTCATG
1 CATTTTATTTATGGCATCCTTTCATG
* *
14714474 C--CTTA---AT-GCATCATTTCATG
1 CATTTTATTTATGGCATCCTTTCATG
14714494 CATTTTATTTATG
1 CATTTTATTTATG
14714507 TATTAGGTTT
Statistics
Matches: 142, Mismatches: 15, Indels: 38
0.73 0.08 0.19
Matches are distributed among these distances:
19 11 0.08
20 28 0.20
21 4 0.03
22 8 0.06
23 2 0.01
24 6 0.04
25 6 0.04
26 77 0.54
ACGTcount: A:0.19, C:0.20, G:0.11, T:0.49
Consensus pattern (26 bp):
CATTTTATTTATGGCATCCTTTCATG
Found at i:14714428 original size:71 final size:71
Alignment explanation
Indices: 14714305--14714506 Score: 343
Period size: 71 Copynumber: 2.8 Consensus size: 71
14714295 CATTAAATTT
*
14714305 CATTTTATTTATGGCATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCC
1 CATTTTATTTATGG-TTCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCC
14714370 TTTCATG
65 TTTCATG
*
14714377 CATTTTATTTATGGTGTCTTTTCATGCC-TAATGCATCCTTTCATGCATTTTATTTATGGCATCC
1 CATTTTATTTATGGT-TCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCC
14714441 TTTCATG
65 TTTCATG
*
14714448 CATTTTATTTATGGCTTCCTTTCATGCCTTAATGCATCATTTCATGCATTTTATTTATG
1 CATTTTATTTATGG-TTCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATG
14714507 TATTAGGTTT
Statistics
Matches: 123, Mismatches: 4, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
71 68 0.55
72 55 0.45
ACGTcount: A:0.19, C:0.20, G:0.11, T:0.49
Consensus pattern (71 bp):
CATTTTATTTATGGTTCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATCCT
TTCATG
Found at i:14716647 original size:54 final size:54
Alignment explanation
Indices: 14716582--14717055 Score: 576
Period size: 54 Copynumber: 8.8 Consensus size: 54
14716572 GTATTTAACT
* * *
14716582 TATCGATACTATGTGTGTAACACACGTAATTCATAATGAGTTTGTGAATTACCG
1 TATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCG
*
14716636 TATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTATCG
1 TATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCG
* * * *
14716690 TAT-TAGCACTATGTGTGCAACCCACGTAATTAATAAAGAGTTTTTGAATTACCG
1 TATCGA-CACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCG
*** ** * *
14716744 TATTTTCACTATGTGTGCAACATAAGTAATTCATAATGAGTTTATGAATTACCG
1 TATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCG
* *
14716798 TATC-AGCACTATGTGTGCAACCCACGTAATTCATAATGAGTTTCTGAATTATCG
1 TATCGA-CACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCG
* * * * *
14716852 TATTGGC-TTATGTGTGCAACCTAAGTAATTCATAATGAGTTTGTGAATTACCG
1 TATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCG
* * *
14716905 TATCGGCACTATGTGTGCAACCCACGTGATTCATAATGAGTTTGTGAATTAGCG
1 TATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCG
* * * * * *
14716959 TATCAACACTATGTGTGTAACCTACGTAATTCACAATGAGTTTGTGAAGTACTG
1 TATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCG
* * * * *
14717013 TATCGGCACTATGTGTGAAAAACCACGGAATTTATAATGAGTT
1 TATCGACACTATGTGTG-CAACCCACGTAATTCATAATGAGTT
14717056 GTAATATTCA
Statistics
Matches: 361, Mismatches: 53, Indels: 11
0.85 0.12 0.03
Matches are distributed among these distances:
53 48 0.13
54 293 0.81
55 20 0.06
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (54 bp):
TATCGACACTATGTGTGCAACCCACGTAATTCATAATGAGTTTGTGAATTACCG
Found at i:14717422 original size:2 final size:2
Alignment explanation
Indices: 14717415--14717445 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
14717405 TATGTGTTTA
14717415 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
14717446 ATTGAAGAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14717670 original size:18 final size:18
Alignment explanation
Indices: 14717645--14717730 Score: 145
Period size: 18 Copynumber: 4.8 Consensus size: 18
14717635 AGCCAAATCT
*
14717645 AGTATCGATACTCAAGAA
1 AGTATCGATACTCAGGAA
*
14717663 AGTGTCGATACTCAGGAA
1 AGTATCGATACTCAGGAA
14717681 AGTATCGATACTCAGGAA
1 AGTATCGATACTCAGGAA
*
14717699 AGTATCGATATTCAGGAA
1 AGTATCGATACTCAGGAA
14717717 AGTATCGATACTCA
1 AGTATCGATACTCA
14717731 AGCTAGAATA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.24
Consensus pattern (18 bp):
AGTATCGATACTCAGGAA
Found at i:14718603 original size:46 final size:45
Alignment explanation
Indices: 14718536--14718699 Score: 256
Period size: 46 Copynumber: 3.6 Consensus size: 45
14718526 GTTAAATTTT
* *
14718536 ATTTTATTTATGGCATCCTTTCATGCTTTAATGCATCATTTCATGC
1 ATTTTATTTATGGAATCCTTTCATGC-TTAATGCATCCTTTCATGC
* *
14718582 ATTTTATTTATGGAATCCTTTCATGCCTTAATGCATCCTTTCGTGT
1 ATTTTATTTATGGAATCCTTTCATG-CTTAATGCATCCTTTCATGC
14718628 ATTTTATTTATGGAATCCTTTCATGACTTAATGCATCCTTTCATGC
1 ATTTTATTTATGGAATCCTTTCATG-CTTAATGCATCCTTTCATGC
*
14718674 ATTTTATTTATGGCATCCTTTCATGC
1 ATTTTATTTATGGAATCCTTTCATGC
14718700 ATTGTATTTA
Statistics
Matches: 109, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
45 1 0.01
46 107 0.98
47 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.48
Consensus pattern (45 bp):
ATTTTATTTATGGAATCCTTTCATGCTTAATGCATCCTTTCATGC
Found at i:14718776 original size:118 final size:118
Alignment explanation
Indices: 14718568--14718817 Score: 410
Period size: 118 Copynumber: 2.1 Consensus size: 118
14718558 ATGCTTTAAT
* * * * *
14718568 GCATCATTTCATGCATTTTATTTATGGAATCCTTTCATGCCTTAATGCATCCTTTCGTGTATTTT
1 GCATCCTTTCATGCATTGTATTTATGGAATCCTTTCATGCCTTAAAGCATCCTTTCATGCATTTT
14718633 ATTTATGGAATCCTTTCATGACTTAATGCATCCTTTCATGCATTTTATTTATG
66 ATTTATGGAATCCTTTCATGACTTAATGCATCCTTTCATGCATTTTATTTATG
* * *
14718686 GCATCCTTTCATGCATTGTATTTATGGCATCCTTTCATTCCTTAAAGCATCCTTTCATGCGTTTT
1 GCATCCTTTCATGCATTGTATTTATGGAATCCTTTCATGCCTTAAAGCATCCTTTCATGCATTTT
*
14718751 ATTTATGGAATCCTTTCATGCCTTAATGCATCCTTTCATGCATTTTATTTATG
66 ATTTATGGAATCCTTTCATGACTTAATGCATCCTTTCATGCATTTTATTTATG
*
14718804 GCATTCTTTCATGC
1 GCATCCTTTCATGC
14718818 CTTAATGTAT
Statistics
Matches: 122, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
118 122 1.00
ACGTcount: A:0.21, C:0.21, G:0.12, T:0.46
Consensus pattern (118 bp):
GCATCCTTTCATGCATTGTATTTATGGAATCCTTTCATGCCTTAAAGCATCCTTTCATGCATTTT
ATTTATGGAATCCTTTCATGACTTAATGCATCCTTTCATGCATTTTATTTATG
Found at i:14718815 original size:164 final size:164
Alignment explanation
Indices: 14718540--14718863 Score: 531
Period size: 164 Copynumber: 2.0 Consensus size: 164
14718530 AATTTTATTT
* *
14718540 TATTTATGGCATCCTTTCATGCTTTAATGCATCATTTCATGCATTTTATTTATGGAATCCTTTCA
1 TATTTATGGCATCCTTTCATGCCTTAAAGCATCATTTCATGCATTTTATTTATGGAATCCTTTCA
* * *
14718605 TGCCTTAATGCATCCTTTCGTGTATTTTATTTATGGAATCCTTTCATGACTTAATGCATCCTTTC
66 TGCCTTAATGCATCCTTTCATGCATTTTATTTATGGAATCCTTTCATGACTTAATGCATCATTTC
14718670 ATGCATTTTATTTATGGCATCCTTTCATGCATTG
131 ATGCATTTTATTTATGGCATCCTTTCATGCATTG
* * *
14718704 TATTTATGGCATCCTTTCATTCCTTAAAGCATCCTTTCATGCGTTTTATTTATGGAATCCTTTCA
1 TATTTATGGCATCCTTTCATGCCTTAAAGCATCATTTCATGCATTTTATTTATGGAATCCTTTCA
* * * *
14718769 TGCCTTAATGCATCCTTTCATGCATTTTATTTATGGCATTCTTTCATGCCTTAATGTATCATTTC
66 TGCCTTAATGCATCCTTTCATGCATTTTATTTATGGAATCCTTTCATGACTTAATGCATCATTTC
*
14718834 ATGCATTTTATTTATGGCATCTTTTCATGC
131 ATGCATTTTATTTATGGCATCCTTTCATGC
14718864 CTTAATGCAT
Statistics
Matches: 147, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
164 147 1.00
ACGTcount: A:0.21, C:0.20, G:0.12, T:0.47
Consensus pattern (164 bp):
TATTTATGGCATCCTTTCATGCCTTAAAGCATCATTTCATGCATTTTATTTATGGAATCCTTTCA
TGCCTTAATGCATCCTTTCATGCATTTTATTTATGGAATCCTTTCATGACTTAATGCATCATTTC
ATGCATTTTATTTATGGCATCCTTTCATGCATTG
Found at i:14718988 original size:46 final size:46
Alignment explanation
Indices: 14718686--14718987 Score: 496
Period size: 46 Copynumber: 6.6 Consensus size: 46
14718676 TTTATTTATG
* * *
14718686 GCATCCTTTCATGCATTGTATTTATGGCATCCTTTCATTCCTTAAA
1 GCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAAT
* *
14718732 GCATCCTTTCATGCGTTTTATTTATGGAATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAAT
*
14718778 GCATCCTTTCATGCATTTTATTTATGGCATTCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAAT
* * *
14718824 GTATCATTTCATGCATTTTATTTATGGCATCTTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAAT
14718870 GCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAAT
* *
14718916 GCATCCTTTCATCCATTTTATTTATGTCATCCTTTCATGCCTTAAT
1 GCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAAT
*
14718962 TCATCCTTTCATGCATTTTATTTATG
1 GCATCCTTTCATGCATTTTATTTATG
14718988 TATTCGGTTT
Statistics
Matches: 237, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 237 1.00
ACGTcount: A:0.20, C:0.22, G:0.10, T:0.47
Consensus pattern (46 bp):
GCATCCTTTCATGCATTTTATTTATGGCATCCTTTCATGCCTTAAT
Found at i:14720274 original size:20 final size:20
Alignment explanation
Indices: 14720246--14720287 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
14720236 AAACAGATTG
*
14720246 CTCAGAGGGTACTGATACCC
1 CTCAGAGGGTACCGATACCC
*
14720266 CTCATAGGGTACCGATACCC
1 CTCAGAGGGTACCGATACCC
14720286 CT
1 CT
14720288 ATACAAGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.33, G:0.21, T:0.21
Consensus pattern (20 bp):
CTCAGAGGGTACCGATACCC
Found at i:14720348 original size:20 final size:20
Alignment explanation
Indices: 14720323--14720360 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14720313 CATAATGCTC
*
14720323 TATAGGTATCGATACCCCCT
1 TATAGGTATCGAAACCCCCT
14720343 TATAGGTATCGAAACCCC
1 TATAGGTATCGAAACCCC
14720361 TAGTCAATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (20 bp):
TATAGGTATCGAAACCCCCT
Found at i:14720360 original size:74 final size:74
Alignment explanation
Indices: 14720225--14720362 Score: 165
Period size: 74 Copynumber: 1.9 Consensus size: 74
14720215 TAAATATAAG
* * *
14720225 GGCTTCGAGAAAAACAGATTGCTCAGAGGGTACTGATACCCCTCATAGGGTACCGATACCCCTAT
1 GGCTCCGAGAAAAACAGAATGCTCAGAGGGTACTGATACCCCTCATAGGGTACCGAAACCCCTAT
14720290 ACAAGTTTT
66 ACAAGTTTT
* * * *
14720299 GGCTCCGAGAAAAACATAATGCTCTATA-GGTA-TCGATACCCCCTTATA-GGTATCGAAACCCC
1 GGCTCCGAGAAAAACAGAATGCTC-AGAGGGTACT-GATA-CCCCTCATAGGGTACCGAAACCCC
14720361 TA
63 TA
14720363 GTCAATTAAC
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
73 1 0.02
74 43 0.80
75 10 0.19
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (74 bp):
GGCTCCGAGAAAAACAGAATGCTCAGAGGGTACTGATACCCCTCATAGGGTACCGAAACCCCTAT
ACAAGTTTT
Found at i:14729417 original size:18 final size:16
Alignment explanation
Indices: 14729394--14729438 Score: 54
Period size: 18 Copynumber: 2.7 Consensus size: 16
14729384 TGTTTCTGAG
14729394 GGAATTGGAATCTGTGAA
1 GGAATTGGAATCTGT--A
*
14729412 GGAATTGAAATCTGTA
1 GGAATTGGAATCTGTA
*
14729428 GGAATTTGAAT
1 GGAATTGGAAT
14729439 TTGAATCTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 10 0.42
18 14 0.58
ACGTcount: A:0.36, C:0.04, G:0.29, T:0.31
Consensus pattern (16 bp):
GGAATTGGAATCTGTA
Found at i:14729432 original size:16 final size:17
Alignment explanation
Indices: 14729394--14729433 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
14729384 TGTTTCTGAG
*
14729394 GGAATTGGAATCTGTGAA
1 GGAATTGAAATCTGT-AA
14729412 GGAATTGAAATCTGT-A
1 GGAATTGAAATCTGTAA
14729428 GGAATT
1 GGAATT
14729434 TGAATTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 7 0.33
18 14 0.67
ACGTcount: A:0.35, C:0.05, G:0.30, T:0.30
Consensus pattern (17 bp):
GGAATTGAAATCTGTAA
Found at i:14729993 original size:29 final size:30
Alignment explanation
Indices: 14729959--14730029 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 30
14729949 AAAACCCGAC
**
14729959 CCGACCCGAACCCGGAA-TTTAAAAAAAAT
1 CCGACCCGAACCCAAAATTTTAAAAAAAAT
* *
14729988 CCGACCCGATCCCAAAAGTTTTTTAAAAAAAT
1 CCGACCCGAACCCAAAA--TTTTAAAAAAAAT
14730020 CCGACCCGAA
1 CCGACCCGAA
14730030 TACCAAAAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 14 0.41
32 20 0.59
ACGTcount: A:0.41, C:0.30, G:0.13, T:0.17
Consensus pattern (30 bp):
CCGACCCGAACCCAAAATTTTAAAAAAAAT
Found at i:14730652 original size:15 final size:16
Alignment explanation
Indices: 14730634--14730666 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
14730624 GCTTAAGAAA
14730634 TTTA-TTTGTAATATG
1 TTTATTTTGTAATATG
14730649 TTTATTTTTGTAATATG
1 TTTA-TTTTGTAATATG
14730666 T
1 T
14730667 ATATATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
17 12 0.75
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (16 bp):
TTTATTTTGTAATATG
Found at i:14731243 original size:11 final size:11
Alignment explanation
Indices: 14731215--14731243 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
14731205 AATAATTTTT
14731215 AAAAAAA-TTA
1 AAAAAAATTTA
14731225 AAAAAAATTTA
1 AAAAAAATTTA
14731236 AAAAAAAT
1 AAAAAAAT
14731244 ATATAAATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (11 bp):
AAAAAAATTTA
Found at i:14737124 original size:28 final size:27
Alignment explanation
Indices: 14737079--14737142 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 27
14737069 TCCTAGGGTA
*
14737079 CTTCTTTGTCTTGTAAATTTTGAGTAG
1 CTTCTTTGTCTTGAAAATTTTGAGTAG
14737106 CATTCTTTGTCTTGAAAATTTTGAGTAG
1 C-TTCTTTGTCTTGAAAATTTTGAGTAG
14737134 CTTACTTTG
1 CTT-CTTTG
14737143 CAATAACTAC
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 3 0.09
28 31 0.91
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.50
Consensus pattern (27 bp):
CTTCTTTGTCTTGAAAATTTTGAGTAG
Found at i:14741872 original size:18 final size:18
Alignment explanation
Indices: 14741840--14741877 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
14741830 ATTTGACGGG
14741840 TAATTTTTAAGTATT-TT
1 TAATTTTTAAGTATTATT
*
14741857 TAATTTTTAAATTATTATT
1 TAATTTTT-AAGTATTATT
14741876 TA
1 TA
14741878 TGTTATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 6 0.33
19 4 0.22
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (18 bp):
TAATTTTTAAGTATTATT
Found at i:14742988 original size:22 final size:23
Alignment explanation
Indices: 14742963--14743020 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
14742953 ATAAAATGCA
14742963 CCGAAGTG-CCACAGAGAA-TGTC
1 CCGAAG-GACCACAGAGAATTGTC
*
14742985 CCGAAGGACCACATAGAATTGTC
1 CCGAAGGACCACAGAGAATTGTC
* *
14743008 CCGTATGACCACA
1 CCGAAGGACCACA
14743021 TATATGTTCC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 15 0.48
23 15 0.48
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (23 bp):
CCGAAGGACCACAGAGAATTGTC
Found at i:14743017 original size:23 final size:22
Alignment explanation
Indices: 14742963--14743101 Score: 76
Period size: 21 Copynumber: 6.5 Consensus size: 22
14742953 ATAAAATGCA
*
14742963 CCGAAGTG-CCACAGAGAATGTC
1 CCGAAG-GACCACATAGAATGTC
14742985 CCGAAGGACCACATAGAATTGTC
1 CCGAAGGACCACATAGAA-TGTC
* * * *
14743008 CCGTATGACCACATA-TATGTT
1 CCGAAGGACCACATAGAATGTC
* * *
14743029 CCAAAGGACCA-A-ACATATATC
1 CCGAAGGACCACATAGA-ATGTC
* *
14743050 CCGAAGGATCACATACAA-GTTC
1 CCGAAGGACCACATAGAATG-TC
* * *
14743072 CC-AAGGATCACATA-TATATC
1 CCGAAGGACCACATAGAATGTC
14743092 CCGAAGGACC
1 CCGAAGGACC
14743102 GCGTAAAACC
Statistics
Matches: 91, Mismatches: 17, Indels: 19
0.72 0.13 0.15
Matches are distributed among these distances:
19 1 0.01
20 6 0.07
21 42 0.46
22 22 0.24
23 20 0.22
ACGTcount: A:0.36, C:0.27, G:0.18, T:0.19
Consensus pattern (22 bp):
CCGAAGGACCACATAGAATGTC
Found at i:14743063 original size:42 final size:42
Alignment explanation
Indices: 14743017--14743099 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
14743007 CCCGTATGAC
* *
14743017 CACATATATGTTCCAAAGGACCAAACATATATCCCGAAGGAT
1 CACATACAAGTTCCAAAGGACCAAACATATATCCCGAAGGAT
* * * *
14743059 CACATACAAGTTCCCAAGGATCACATATATATCCCGAAGGA
1 CACATACAAGTTCCAAAGGACCAAACATATATCCCGAAGGA
14743100 CCGCGTAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.40, C:0.25, G:0.14, T:0.20
Consensus pattern (42 bp):
CACATACAAGTTCCAAAGGACCAAACATATATCCCGAAGGAT
Found at i:14744904 original size:25 final size:27
Alignment explanation
Indices: 14744865--14744922 Score: 77
Period size: 25 Copynumber: 2.2 Consensus size: 27
14744855 AGTGGAGAAT
*
14744865 TAAAGAACAAAAGGAAA-CAAAAACCAA
1 TAAA-AACAAAAGGAAACCAAAAAACAA
14744892 TAAAAAC-AAAGGAAACCAAAAAACAA
1 TAAAAACAAAAGGAAACCAAAAAACAA
14744918 -AAAAA
1 TAAAAA
14744923 GGTGAACCTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 13 0.45
26 12 0.41
27 4 0.14
ACGTcount: A:0.74, C:0.14, G:0.09, T:0.03
Consensus pattern (27 bp):
TAAAAACAAAAGGAAACCAAAAAACAA
Found at i:14746078 original size:17 final size:17
Alignment explanation
Indices: 14746056--14746096 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
14746046 AACATTTTTA
14746056 TTATATTGGTCGATAAT
1 TTATATTGGTCGATAAT
14746073 TTATATTGGTCGATAAT
1 TTATATTGGTCGATAAT
14746090 TTATATT
1 TTATATT
14746097 TGTTAATTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.29, C:0.05, G:0.15, T:0.51
Consensus pattern (17 bp):
TTATATTGGTCGATAAT
Found at i:14746584 original size:15 final size:15
Alignment explanation
Indices: 14746564--14746592 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
14746554 TTTTTATCTT
14746564 TTAAAATTATTTTTC
1 TTAAAATTATTTTTC
14746579 TTAAAATTATTTTT
1 TTAAAATTATTTTT
14746593 AAATGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (15 bp):
TTAAAATTATTTTTC
Found at i:14748509 original size:20 final size:21
Alignment explanation
Indices: 14748467--14748519 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
14748457 TCCTACAAAA
*
14748467 AATAA-AATAAAGAAATTATT
1 AATAATAATAAATAAATTATT
14748487 AATAATAATAAATAAATTA-T
1 AATAATAATAAATAAATTATT
14748507 AATAATAA-AAATA
1 AATAATAATAAATA
14748520 TAAATATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 5 0.16
20 14 0.45
21 12 0.39
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (21 bp):
AATAATAATAAATAAATTATT
Found at i:14748527 original size:20 final size:20
Alignment explanation
Indices: 14748467--14748528 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
14748457 TCCTACAAAA
* *
14748467 AATAA-AATAAAGAAATTATT
1 AATAATAATAAATAAAATA-T
*
14748487 AATAATAATAAATAAATTAT
1 AATAATAATAAATAAAATAT
14748507 AATAATAA-AAATATAAATAT
1 AATAATAATAAATA-AAATAT
14748527 AA
1 AA
14748529 AACCCGGTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.13
20 21 0.55
21 12 0.32
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AATAATAATAAATAAAATAT
Found at i:14749027 original size:34 final size:35
Alignment explanation
Indices: 14748953--14749056 Score: 165
Period size: 36 Copynumber: 3.0 Consensus size: 35
14748943 CAAAGATTGG
14748953 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-T
14748989 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA-
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT
* * *
14749023 TGTTTCAAGAGAAACCGTCTCAAGAGAGATAAAA
1 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
14749057 CTTAGTTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
34 31 0.48
36 34 0.52
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.22
Consensus pattern (35 bp):
TGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAAT
Found at i:14749032 original size:19 final size:19
Alignment explanation
Indices: 14748972--14749034 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
14748962 GGAAACTGTC
14748972 TCAAGAGAGACAAAATTTGTT
1 TCAAGAGAGACAAAA--TGTT
* *
14748993 TCAAG-G-G--AAACTGTC
1 TCAAGAGAGACAAAATGTT
14749008 TCAAGAGAGACAAAATGTT
1 TCAAGAGAGACAAAATGTT
14749027 TCAAGAGA
1 TCAAGAGA
14749035 AACCGTCTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
15 8 0.24
16 1 0.03
17 4 0.12
19 15 0.44
20 1 0.03
21 5 0.15
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (19 bp):
TCAAGAGAGACAAAATGTT
Found at i:14749367 original size:124 final size:124
Alignment explanation
Indices: 14749167--14749391 Score: 378
Period size: 124 Copynumber: 1.8 Consensus size: 124
14749157 TTACCGGTGG
* * * * *
14749167 GTACGATTCTCTTCGTCGTGAAGTTGAAACCATGGATGGTCCCTTCGTTGTGAAGTTGAGCCTTG
1 GTACGATTCCCTTCATCGTGAAGTTGAAACCATGGATGGCCCCTCCGTCGTGAAGTTGAGCCTTG
14749232 AATTGGATATCCTTCGTAGTGAAGTTGAAATCCAATATAAAGATGAATGCTGCTTGTGT
66 AATTGGATATCCTTCGTAGTGAAGTTGAAATCCAATATAAAGATGAATGCTGCTTGTGT
* *
14749291 GTACGATTCCCTTCATCGTGAAGTTGAAACCGTGGATGGCCCCTCCGTCGTGGAGTTGAGCCTTG
1 GTACGATTCCCTTCATCGTGAAGTTGAAACCATGGATGGCCCCTCCGTCGTGAAGTTGAGCCTTG
*
14749356 AATTGGATATCCTTCGTCGTGAAGTTGAAATCCAAT
66 AATTGGATATCCTTCGTAGTGAAGTTGAAATCCAAT
14749392 GAAAGTTGTG
Statistics
Matches: 93, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
124 93 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (124 bp):
GTACGATTCCCTTCATCGTGAAGTTGAAACCATGGATGGCCCCTCCGTCGTGAAGTTGAGCCTTG
AATTGGATATCCTTCGTAGTGAAGTTGAAATCCAATATAAAGATGAATGCTGCTTGTGT
Found at i:14749558 original size:12 final size:12
Alignment explanation
Indices: 14749541--14749573 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
14749531 ATTGTGAAGT
14749541 TGAAATTGGCTC
1 TGAAATTGGCTC
14749553 TGAAATTGGCTC
1 TGAAATTGGCTC
14749565 TGAAATTGG
1 TGAAATTGG
14749574 GAAATTGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.33
Consensus pattern (12 bp):
TGAAATTGGCTC
Found at i:14749826 original size:211 final size:211
Alignment explanation
Indices: 14749553--14750412 Score: 1301
Period size: 211 Copynumber: 4.1 Consensus size: 211
14749543 AAATTGGCTC
* *
14749553 TGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAACCGTCCCTTCGTTGTGAAGTTG
1 TGAAATTGGCTCTGAAATTGGGAAATTG-TTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTG
*
14749618 AACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGGAA
65 AACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
14749683 ATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAAT
130 ATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAAT
14749748 ATCCTTCGCTGTGAAGT
195 ATCCTTCGCTGTGAAGT
* * * *
14749765 TGAAATTGGCTCTGAAATTTGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGA
1 TGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGA
* * *
14749830 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
66 ACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA
* * * * * ** *
14749895 TTATTTATTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTCCGTTGTCTGGAGTCCAATA
131 TTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATA
14749960 TCCTTCGCTGTGAAGT
196 TCCTTCGCTGTGAAGT
* * * * *
14749976 TGAAATTTGCTCTGAAATTGGGAAGTTGTTATTGATAACCAGCGGTCCCTTCGTCGTGAAGTTGA
1 TGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGA
* * ** *
14750041 ACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG
66 ACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA
* * * *
14750106 TTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
131 TTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATA
14750170 TCCTTCGCTGTGAAGT
196 TCCTTCGCTGTGAAGT
* * * * *
14750186 TAAAATTGGCTATGAAATTGGGAAATTATTTGTTGAGAACCAGCCGTCCCTTCGTTGTGAAGTTG
1 TGAAATTGGCTCTGAAATTGGGAAATT-GTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTG
* * *
14750251 AACTTGTGTTGTCTCGAGTCCAA-ATCCTTCACTGTGAAGTTGAAATTGGCTATGAAATTGAGAA
65 AACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAA
* *
14750315 ATTATTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTTTCGAGTCCAAT
130 ATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAAT
14750380 ATCCTTCGCTGTGAAGT
195 ATCCTTCGCTGTGAAGT
*
14750397 TGAAATTGACTCTGAA
1 TGAAATTGGCTCTGAA
14750413 TGAAACTGAA
Statistics
Matches: 593, Mismatches: 53, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
210 137 0.23
211 430 0.73
212 26 0.04
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (211 bp):
TGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGA
ACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA
TTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAATA
TCCTTCGCTGTGAAGT
Found at i:14749870 original size:105 final size:105
Alignment explanation
Indices: 14749553--14750412 Score: 1281
Period size: 105 Copynumber: 8.2 Consensus size: 105
14749543 AAATTGGCTC
* *
14749553 TGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAACCAACCGTCCCTTCGTTGTGAAGTTG
1 TGAAATTGGCTCTGAAATTGGGAAATTG-TTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTG
*
14749618 AACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
65 AACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
* *
14749659 TGAAATTGGCTCCGAAATTGGGAAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTG
1 TGAAATTGGCTCTGAAATTGGGAAATTG-TTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTG
*
14749724 AACTTGTGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
65 AACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
* * * *
14749765 TGAAATTGGCTCTGAAATTTGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGA
1 TGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGA
*
14749830 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
66 ACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
* * * * *
14749870 TGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAACCAGCGGTCCCTTCATCGTGAAGTTG
1 TGAAATTGGCTCTGAAATTGGGAAATT-GTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTG
* *
14749935 AACTTCCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
65 AACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
* * * * *
14749976 TGAAATTTGCTCTGAAATTGGGAAGTTGTTATTGATAACCAGCGGTCCCTTCGTCGTGAAGTTGA
1 TGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGA
* **
14750041 ACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGAAGT
66 ACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
* *
14750081 TGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
1 TGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGA
*
14750146 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
66 ACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
* * * * *
14750186 TAAAATTGGCTATGAAATTGGGAAATTATTTGTTGAGAACCAGCCGTCCCTTCGTTGTGAAGTTG
1 TGAAATTGGCTCTGAAATTGGGAAATT-GTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTG
* *
14750251 AACTTGTGTTGTCTCGAGTCCAA-ATCCTTCACTGTGAAGT
65 AACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
* * * *
14750291 TGAAATTGGCTATGAAATTGAGAAATTATTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTG
1 TGAAATTGGCTCTGAAATTGGGAAATT-GTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTG
* *
14750356 AACTTGTGTTGTTTCGAGTCCAATATCCTTCGCTGTGAAGT
65 AACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
*
14750397 TGAAATTGACTCTGAA
1 TGAAATTGGCTCTGAA
14750413 TGAAACTGAA
Statistics
Matches: 708, Mismatches: 43, Indels: 6
0.94 0.06 0.01
Matches are distributed among these distances:
105 394 0.56
106 314 0.44
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (105 bp):
TGAAATTGGCTCTGAAATTGGGAAATTGTTGTTGACAACCAGCCGTCCCTTCGTCGTGAAGTTGA
ACTTGCGTTGTCTCGAGTCCAATATCCTTCGCTGTGAAGT
Found at i:14754175 original size:7 final size:7
Alignment explanation
Indices: 14754165--14754192 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
14754155 AATATTTTAT
14754165 TAAATAA
1 TAAATAA
14754172 TAAATAA
1 TAAATAA
14754179 TAAATAA
1 TAAATAA
14754186 TAAATAA
1 TAAATAA
14754193 ACATTAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
TAAATAA
Found at i:14755166 original size:20 final size:21
Alignment explanation
Indices: 14755124--14755176 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
14755114 TCCTACAAAA
*
14755124 AATAA-AATAAAGAAATTATT
1 AATAATAATAAATAAATTATT
14755144 AATAATAATAAATAAATTA-T
1 AATAATAATAAATAAATTATT
14755164 AATAATAA-AAATA
1 AATAATAATAAATA
14755177 TAAATATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 5 0.16
20 14 0.45
21 12 0.39
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (21 bp):
AATAATAATAAATAAATTATT
Found at i:14755184 original size:20 final size:20
Alignment explanation
Indices: 14755124--14755185 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
14755114 TCCTACAAAA
* *
14755124 AATAA-AATAAAGAAATTATT
1 AATAATAATAAATAAAATA-T
*
14755144 AATAATAATAAATAAATTAT
1 AATAATAATAAATAAAATAT
14755164 AATAATAA-AAATATAAATAT
1 AATAATAATAAATA-AAATAT
14755184 AA
1 AA
14755186 AACCCGGTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.13
20 21 0.55
21 12 0.32
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AATAATAATAAATAAAATAT
Found at i:14756929 original size:15 final size:15
Alignment explanation
Indices: 14756909--14756938 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14756899 ATCAAAAAAA
14756909 GGGGGAGATGACAAC
1 GGGGGAGATGACAAC
*
14756924 GGGGGAGATGGCAAC
1 GGGGGAGATGACAAC
14756939 AGTGGAGGGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.13, G:0.50, T:0.07
Consensus pattern (15 bp):
GGGGGAGATGACAAC
Found at i:14760288 original size:62 final size:62
Alignment explanation
Indices: 14760181--14760306 Score: 173
Period size: 62 Copynumber: 2.0 Consensus size: 62
14760171 TAAAGAAGAG
* * * * *
14760181 AAGGCCAATATATTCCCTCAAGAGATAGATACAATCATACTAAGGATGAGGATACCCTTCAC
1 AAGGCCAAGATATTCCCTCAAGAGATAAATACAATCATACCAAGGATGAGAAGACCCTTCAC
* *
14760243 AAGGTCAAGATATTCCCTCATG-GTATAAATACAATCATACCAAGGATGAGAAGACCCTTCAC
1 AAGGCCAAGATATTCCCTCAAGAG-ATAAATACAATCATACCAAGGATGAGAAGACCCTTCAC
14760305 AA
1 AA
14760307 AGACATGAAG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
61 1 0.02
62 55 0.98
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (62 bp):
AAGGCCAAGATATTCCCTCAAGAGATAAATACAATCATACCAAGGATGAGAAGACCCTTCAC
Found at i:14763263 original size:37 final size:37
Alignment explanation
Indices: 14763206--14763400 Score: 236
Period size: 36 Copynumber: 5.4 Consensus size: 37
14763196 GTTCGACCAA
* *
14763206 TGAAGC-AATC-ATTTTAAGCCTTCACGGAAGTGTAG
1 TGAAGCAAATCAATCTTAAGCCTTCACGGAAGAGTAG
** *
14763241 TGAAGCAAATCAATCTTAAGCCTTCATAGAAGTGTAG
1 TGAAGCAAATCAATCTTAAGCCTTCACGGAAGAGTAG
* * * *
14763278 TGAAGCAAAT-TACCTTAAGCCTTCACGAAAGGGTAG
1 TGAAGCAAATCAATCTTAAGCCTTCACGGAAGAGTAG
**
14763314 TGAAGCAAATCAATCTTAAGCCTTCATAGAAGAGTAG
1 TGAAGCAAATCAATCTTAAGCCTTCACGGAAGAGTAG
* * *
14763351 TGAAGTAAATC-ATCTTAAGCCTTAACGGAAGAGTAC
1 TGAAGCAAATCAATCTTAAGCCTTCACGGAAGAGTAG
14763387 TGAAGCAAATCAAT
1 TGAAGCAAATCAAT
14763401 TCCGAGTCTT
Statistics
Matches: 135, Mismatches: 21, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
35 6 0.04
36 65 0.48
37 64 0.47
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (37 bp):
TGAAGCAAATCAATCTTAAGCCTTCACGGAAGAGTAG
Found at i:14763303 original size:73 final size:73
Alignment explanation
Indices: 14763206--14763400 Score: 284
Period size: 73 Copynumber: 2.7 Consensus size: 73
14763196 GTTCGACCAA
** *
14763206 TGAAGC-AATCATTTTAAGCCTTCACGGAAGTGTAGTGAAGCAAATCAATCTTAAGCCTTCATAG
1 TGAAGCAAATCACCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCATAG
*
14763270 AAGTGTAG
66 AAGAGTAG
* * *
14763278 TGAAGCAAATTACCTTAAGCCTTCACGAAAGGGTAGTGAAGCAAATCAATCTTAAGCCTTCATAG
1 TGAAGCAAATCACCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCATAG
14763343 AAGAGTAG
66 AAGAGTAG
* * * *
14763351 TGAAGTAAATCATCTTAAGCCTTAACGGAAGAGTACTGAAGCAAATCAAT
1 TGAAGCAAATCACCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCAAT
14763401 TCCGAGTCTT
Statistics
Matches: 109, Mismatches: 13, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
72 6 0.06
73 103 0.94
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (73 bp):
TGAAGCAAATCACCTTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCAATCTTAAGCCTTCATAG
AAGAGTAG
Found at i:14764249 original size:55 final size:55
Alignment explanation
Indices: 14763448--14764369 Score: 1065
Period size: 55 Copynumber: 16.8 Consensus size: 55
14763438 TACATTTGTT
* * * * *
14763448 GAAGATCGTTCGAGTTCTATACTCCCCGAAGCAATAGGAAGTGAACCCATTTTCA
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTTCA
* * * * *
14763503 GAAGATTGTTCGATTTTTATACTCCCTGAAGTAATAGGGAGCGAACCCATTTTTA
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTTCA
* * *
14763558 GAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAAGGAGCGAACCTGTTCTCA
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTTCA
* * *
14763613 TAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGTGAACTCGTTTTCA
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTTCA
* * * * *
14763668 GAAGATTGTTCGAGTTCTATACTCCTTGAAGTAATAGGGAACGAACCCATTTTTA
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTTCA
* * * *
14763723 GAATATTGTTCGAGTTCTGTACTCCCTGAAGAAATAGGGAGCGAACCCGTTTTTA
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTTCA
* *
14763778 GAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCTGTTTTTA
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTTCA
*
14763833 GAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTTGA
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTTCA
* * * * ** *
14763888 GAAGAATTGTTTGAGTTCTATACTCTCTAAAGCAGTAGGGAATGAACCCGTTTTAA
1 GAAG-ATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTTCA
* * * *
14763944 GAAGATTGTTTGAGTTCTATACTCCCTGAAGCAATAGGGAACGAACCCATTTTTA
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTTCA
* * * *
14763999 GAAGATTGTTCAAGTTTTATACTCCCTGAAGCAATATGGAGCGAACCCATTTTCA
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTTCA
** * * *
14764054 GAAGATTGTTCGAGTTCTATACTATCTGAAGCAATAGAGAGCTAACCCATTTTCA
1 GAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTTCA
* *
14764109 GAAGATTGTTCGAGTTCTATACTCCCTGGAAG-AATAGAGAGCGAACCCATTTTCA
1 GAAGATTGTTCGAGTTCTATACTCCCT-GAAGCAATAGGGAGCGAACCCGTTTTCA
* * * *
14764164 GAAGAATATTTGAGTTCTATACTCCCTGAAAG-AAGAGGGAGCGAACCCGTTTTCA
1 GAAGATTGTTCGAGTTCTATACTCCCTG-AAGCAATAGGGAGCGAACCCGTTTTCA
* * * * * *
14764219 GAAGATTGTTTGAGTTCTGTACTCCCTGAAAG-AATAGAGAG-AAGACACGTTTGT-T
1 GAAGATTGTTCGAGTTCTATACTCCCTG-AAGCAATAGGGAGCGA-ACCCGTTT-TCA
* * * * * *
14764274 GAAGATTGTTTGAG-TCTTATACTCCTTAAAAG-AATAGGGAGC-AGA-CAGTTTGCT
1 GAAGATTGTTCGAGTTC-TATACTCCCT-GAAGCAATAGGGAGCGA-ACCCGTTTTCA
*
14764328 GAAGATCGTTCGAG-TCTAATACTCCCTGAAAG-AATAGGGAGC
1 GAAGATTGTTCGAGTTCT-ATACTCCCTG-AAGCAATAGGGAGC
14764370 AGACATGTTT
Statistics
Matches: 760, Mismatches: 96, Indels: 23
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.00
54 44 0.06
55 662 0.87
56 53 0.07
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (55 bp):
GAAGATTGTTCGAGTTCTATACTCCCTGAAGCAATAGGGAGCGAACCCGTTTTCA
Found at i:14769738 original size:40 final size:41
Alignment explanation
Indices: 14769694--14769771 Score: 113
Period size: 40 Copynumber: 1.9 Consensus size: 41
14769684 AGGAAACCAT
* * *
14769694 ATCGAGTGAGATGATGCTCATCTAACT-CTTATGTGATTGA
1 ATCGAGCGAAATGATGCTCATCCAACTCCTTATGTGATTGA
*
14769734 ATCGAGCGAAATGATGCTGATCCAACTCCTTATGTGAT
1 ATCGAGCGAAATGATGCTCATCCAACTCCTTATGTGAT
14769772 GGAAGAGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
40 23 0.70
41 10 0.30
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (41 bp):
ATCGAGCGAAATGATGCTCATCCAACTCCTTATGTGATTGA
Found at i:14771126 original size:14 final size:14
Alignment explanation
Indices: 14771107--14771153 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
14771097 ATGGATAAGA
14771107 TGATGTAATAATGG
1 TGATGTAATAATGG
**
14771121 TGATGTAAGCA---
1 TGATGTAATAATGG
14771132 TGATGTAATAATGG
1 TGATGTAATAATGG
14771146 TGATGTAA
1 TGATGTAA
14771154 GCATGATGTA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
11 9 0.35
14 17 0.65
ACGTcount: A:0.36, C:0.02, G:0.28, T:0.34
Consensus pattern (14 bp):
TGATGTAATAATGG
Found at i:14771135 original size:25 final size:25
Alignment explanation
Indices: 14771102--14771163 Score: 117
Period size: 25 Copynumber: 2.5 Consensus size: 25
14771092 TTTTTATGGA
14771102 TAAG-ATGATGTAATAATGGTGATG
1 TAAGCATGATGTAATAATGGTGATG
14771126 TAAGCATGATGTAATAATGGTGATG
1 TAAGCATGATGTAATAATGGTGATG
14771151 TAAGCATGATGTA
1 TAAGCATGATGTA
14771164 GCATGGCAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 4 0.11
25 33 0.89
ACGTcount: A:0.37, C:0.03, G:0.27, T:0.32
Consensus pattern (25 bp):
TAAGCATGATGTAATAATGGTGATG
Found at i:14775508 original size:360 final size:361
Alignment explanation
Indices: 14774834--14775556 Score: 1191
Period size: 360 Copynumber: 2.0 Consensus size: 361
14774824 TAAAAGCCAC
* *
14774834 AGGCTTCCTTTTAGCATGTCTGAAACACATTATGAATGTCTATTTCAGCTAGTCTTTACTGATCT
1 AGGCTTCCTTTTAGCATGTCTGAAACACAATATGAATGTCCATTTCAGCTAGTCTTTACTGATCT
* * * * *
14774899 AGGGGGTTTGGGGCATATTGTGTCGAATGGGTTCAGATACTATGTGTCATTTGTATAAGCGTGTT
66 AGAGGGTTCGGGGCATATTGTGTCAAATGGGTTCAGATACTATATGTCATTTGTAGAAGCGTGTT
14774964 CAAGGCACACCTGGGTGTATTTGCTGAAAGAAAAAAGGGCAGGCAGTCCGAGCGTTTGAGTTATT
131 CAAGGCACACCTGGGTGTATTTGCTGAAAGAAAAAAGGGCAGGCAGTCCGAGCGTTTGAGTTATT
* *
14775029 CCAGCAGCTAGTGCTTACACAGTTTGGTAAAGAGGTTAAGGCTGTGCAAAGTGATTGGGGAGGCG
196 CCAACAGCTAGTGCGTACACAGTTTGGTAAAGAGGTTAAGGCTGTGCAAAGTGATTGGGGAGGCG
*
14775094 AGTTTCGTTCTCTCTCAGCTGTGCTTGCTAGATGTGGAATTCAACACCAGGTGACATGTCCACAT
261 AGTTTCATTCTCTCTCAGCTGTGCTTGCTAGATGTGGAATTCAACACCAGGTGACATGTCCACAT
14775159 ACGTCCCAACAAAATGGTATTGTGGAAAGAAAACAT
326 ACGTCCCAACAAAATGGTATTGTGGAAAGAAAACAT
14775195 AGGCTTCCTTTTAGCATGTCTGAAACACAATATGAATGTCCATTTCAGCTAGTCTTTACTGATCT
1 AGGCTTCCTTTTAGCATGTCTGAAACACAATATGAATGTCCATTTCAGCTAGTCTTTACTGATCT
* * *
14775260 ATAGGGTTCGGGGCATATTGTGTCAAATGGGTTCAGATACTATATGTCGTTTGTAGACGCGTGTT
66 AGAGGGTTCGGGGCATATTGTGTCAAATGGGTTCAGATACTATATGTCATTTGTAGAAGCGTGTT
* * **
14775325 CAAGGCACACCTGGGTGTATTTTCTGAAAG-AGAAAGGGCAGGCAGTTTGAGCGTTTGAGTTATT
131 CAAGGCACACCTGGGTGTATTTGCTGAAAGAAAAAAGGGCAGGCAGTCCGAGCGTTTGAGTTATT
* *
14775389 CCAATAGCTAGTGCGTACACAGTTTGGTAAGGAGGTTAAGGCTGTGCAAAGTGACTT-GGGAGGC
196 CCAACAGCTAGTGCGTACACAGTTTGGTAAAGAGGTTAAGGCTGTGCAAAGTGA-TTGGGGAGGC
* * *
14775453 GAGTTTCATTCTCTCTTAGCTGTGCTAT-CTAGATGTGGAATTCAATACTAGGTGACATGTCCAC
260 GAGTTTCATTCTCTCTCAGCTGTGCT-TGCTAGATGTGGAATTCAACACCAGGTGACATGTCCAC
* *
14775517 ATACGTCCCAATAAAATGGTATTGTGGAAAGAAAGCAT
324 ATACGTCCCAACAAAATGGTATTGTGGAAAGAAAACAT
14775555 AG
1 AG
14775557 ACACGTGTTT
Statistics
Matches: 336, Mismatches: 24, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
360 184 0.55
361 152 0.45
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (361 bp):
AGGCTTCCTTTTAGCATGTCTGAAACACAATATGAATGTCCATTTCAGCTAGTCTTTACTGATCT
AGAGGGTTCGGGGCATATTGTGTCAAATGGGTTCAGATACTATATGTCATTTGTAGAAGCGTGTT
CAAGGCACACCTGGGTGTATTTGCTGAAAGAAAAAAGGGCAGGCAGTCCGAGCGTTTGAGTTATT
CCAACAGCTAGTGCGTACACAGTTTGGTAAAGAGGTTAAGGCTGTGCAAAGTGATTGGGGAGGCG
AGTTTCATTCTCTCTCAGCTGTGCTTGCTAGATGTGGAATTCAACACCAGGTGACATGTCCACAT
ACGTCCCAACAAAATGGTATTGTGGAAAGAAAACAT
Found at i:14779015 original size:27 final size:27
Alignment explanation
Indices: 14778983--14779039 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
14778973 GATAAAACAC
* *
14778983 AAAATATCATAATTACTTCAAAACATT
1 AAAATATCATAAATACTTCAAAACAAT
14779010 AAAATATCATAAATACTTCAAAACAAT
1 AAAATATCATAAATACTTCAAAACAAT
14779037 AAA
1 AAA
14779040 TGTAACTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.58, C:0.14, G:0.00, T:0.28
Consensus pattern (27 bp):
AAAATATCATAAATACTTCAAAACAAT
Found at i:14780188 original size:27 final size:27
Alignment explanation
Indices: 14780153--14780209 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
14780143 TTGAGTTACA
* *
14780153 TTTATTGTTTTGAAGTATTTATGATAT
1 TTTAATGTTTTGAAGTAATTATGATAT
14780180 TTTAATGTTTTGAAGTAATTATGATAT
1 TTTAATGTTTTGAAGTAATTATGATAT
14780207 TTT
1 TTT
14780210 GTGTTTTATC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.28, C:0.00, G:0.14, T:0.58
Consensus pattern (27 bp):
TTTAATGTTTTGAAGTAATTATGATAT
Found at i:14787129 original size:56 final size:56
Alignment explanation
Indices: 14787044--14787293 Score: 430
Period size: 56 Copynumber: 4.5 Consensus size: 56
14787034 AATCATATAG
*
14787044 TTTCTTAG-TTTTGCACATAAAGTGCCCATACGAAAATTCATAAACTCATTATGAA
1 TTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATGAA
*
14787099 TTTCTTAGTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTCATTATGAA
1 TTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATGAA
14787155 TTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATGAA
1 TTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATGAA
* * * *
14787211 TTTCTTAGTTTTTGTACACAAAGTGCCTATACGGATATTCATAAACTCATTATGAA
1 TTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATGAA
*
14787267 TTTCTTAGGTTTTGCACACAAAGTGCC
1 TTTCTTAGTTTTTGCACACAAAGTGCC
14787294 ATATGGTAAT
Statistics
Matches: 185, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
55 8 0.04
56 177 0.96
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (56 bp):
TTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTCATTATGAA
Found at i:14787648 original size:22 final size:21
Alignment explanation
Indices: 14787620--14787682 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 21
14787610 TCGATATCCC
14787620 TACTATGGTATCGATACTACTA
1 TACTATGGTATCGATACT-CTA
14787642 TACTATGGTATCGATACTCTA
1 TACTATGGTATCGATACTCTA
* *
14787663 T--TACGGTACCGATACTCTA
1 TACTATGGTATCGATACTCTA
14787682 T
1 T
14787683 TACGGTACCG
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
19 17 0.44
21 4 0.10
22 18 0.46
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.37
Consensus pattern (21 bp):
TACTATGGTATCGATACTCTA
Found at i:14787670 original size:19 final size:19
Alignment explanation
Indices: 14787648--14787696 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
14787638 ACTATACTAT
*
14787648 GGTATCGATACTCTATTAC
1 GGTACCGATACTCTATTAC
14787667 GGTACCGATACTCTATTAC
1 GGTACCGATACTCTATTAC
14787686 GGTACCGATAC
1 GGTACCGATAC
14787697 CATTTCTGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (19 bp):
GGTACCGATACTCTATTAC
Found at i:14793856 original size:56 final size:56
Alignment explanation
Indices: 14793772--14794037 Score: 410
Period size: 56 Copynumber: 4.8 Consensus size: 56
14793762 ACTACCAATA
* ** * * * *
14793772 CATAAATTCA-TAT-AATTTCTTAGTTTTTGTTCATAAAATGTCCATACAAAAATT
1 CATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATT
* *
14793826 CATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATATGGAAATT
1 CATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATT
* *
14793882 CATAAACTCATTATGAATTTCTTAGTTTTTGCACATAAAGTGCCCATACGGAAATT
1 CATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATT
14793938 CATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATT
1 CATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATT
*
14793994 CATAATCTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCC
1 CATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCC
14794038 ATATGGTAAT
Statistics
Matches: 196, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
54 9 0.05
55 3 0.02
56 184 0.94
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.37
Consensus pattern (56 bp):
CATAAACTCATTATGAATTTCTTAGTTTTTGCACACAAAGTGCCCATACGAAAATT
Found at i:14794379 original size:20 final size:21
Alignment explanation
Indices: 14794351--14794395 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
14794341 TGGTTCAATT
*
14794351 GTATTGATACCAC-TACTATG
1 GTATCGATACCACATACTATG
*
14794371 GTATCGATACTACTATACTATG
1 GTATCGATACCAC-ATACTATG
14794393 GTA
1 GTA
14794396 CTGATACTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
22 10 0.48
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (21 bp):
GTATCGATACCACATACTATG
Found at i:14794392 original size:22 final size:21
Alignment explanation
Indices: 14794364--14794407 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 21
14794354 TTGATACCAC
14794364 TACTATGGTA-TCGATACTACTA
1 TACTATGGTACT-GATACT-CTA
14794386 TACTATGGTACTGATACTCTA
1 TACTATGGTACTGATACTCTA
14794407 T
1 T
14794408 TACGGTACCG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 4 0.19
22 16 0.76
23 1 0.05
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (21 bp):
TACTATGGTACTGATACTCTA
Found at i:14795110 original size:13 final size:13
Alignment explanation
Indices: 14795092--14795116 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14795082 TTTACCAAAG
14795092 AAAATTCATTTTA
1 AAAATTCATTTTA
14795105 AAAATTCATTTT
1 AAAATTCATTTT
14795117 CCTTTAAAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
AAAATTCATTTTA
Found at i:14797506 original size:16 final size:16
Alignment explanation
Indices: 14797465--14797506 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
14797455 CAAGGCATGA
*
14797465 AAGGTGTTGCAGCCTG
1 AAGGTGTTGTAGCCTG
14797481 AAGGTGTTGTAGCCTG
1 AAGGTGTTGTAGCCTG
14797497 AAGGTGTTGT
1 AAGGTGTTGT
14797507 GAGTTTTAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.19, C:0.12, G:0.38, T:0.31
Consensus pattern (16 bp):
AAGGTGTTGTAGCCTG
Found at i:14798950 original size:16 final size:16
Alignment explanation
Indices: 14798925--14798959 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
14798915 CGTGTACCCT
*
14798925 AAATACAAAAAAATAA
1 AAATAAAAAAAAATAA
14798941 AAATAAAAAAAAATAA
1 AAATAAAAAAAAATAA
14798957 AAA
1 AAA
14798960 AATAACTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (16 bp):
AAATAAAAAAAAATAA
Found at i:14813603 original size:35 final size:35
Alignment explanation
Indices: 14813535--14813648 Score: 185
Period size: 35 Copynumber: 3.3 Consensus size: 35
14813525 ACCCATTCCT
* * *
14813535 ATTTTC-AACAAACATCTACCAAACTTTGAAAAAC
1 ATTTTCAAATAAACATTTACCAAACTTTGAAAACC
14813569 ATTTTTCAAATAAACATTTACCAAACTTTGAAAACC
1 A-TTTTCAAATAAACATTTACCAAACTTTGAAAACC
14813605 ATTTTCAAATAAACATTTACCAAACTTTGAAAACC
1 ATTTTCAAATAAACATTTACCAAACTTTGAAAACC
14813640 ATTTTCAAA
1 ATTTTCAAA
14813649 GTTGGTTGCC
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
34 1 0.01
35 48 0.64
36 26 0.35
ACGTcount: A:0.46, C:0.20, G:0.03, T:0.32
Consensus pattern (35 bp):
ATTTTCAAATAAACATTTACCAAACTTTGAAAACC
Found at i:14813607 original size:21 final size:21
Alignment explanation
Indices: 14813583--14813643 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
14813573 TTCAAATAAA
14813583 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
*
14813604 CATTT-TCAAA---T--AAA-
1 CATTTACCAAACTTTGAAAAC
14813618 CATTTACCAAACTTTGAAAAC
1 CATTTACCAAACTTTGAAAAC
14813639 CATTT
1 CATTT
14813644 TCAAAGTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 7 0.23
17 1 0.03
18 1 0.03
20 7 0.23
21 10 0.32
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (21 bp):
CATTTACCAAACTTTGAAAAC
Found at i:14817679 original size:15 final size:15
Alignment explanation
Indices: 14817655--14817684 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14817645 GAACACCTCC
*
14817655 GTCGATAAACTCGTA
1 GTCGACAAACTCGTA
14817670 GTCGACAAACTCGTA
1 GTCGACAAACTCGTA
14817685 TCACCGACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.23
Consensus pattern (15 bp):
GTCGACAAACTCGTA
Found at i:14818171 original size:21 final size:21
Alignment explanation
Indices: 14818147--14818207 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
14818137 ATATACCAAA
14818147 ATTTACCAAACTTTGAAAAAC
1 ATTTACCAAACTTTGAAAAAC
**
14818168 ATTTTTCAAA----G--AAAC
1 ATTTACCAAACTTTGAAAAAC
*
14818183 ATTTACCAAACTTTGAAAACC
1 ATTTACCAAACTTTGAAAAAC
14818204 ATTT
1 ATTT
14818208 TCAAAGAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 12
0.63 0.11 0.26
Matches are distributed among these distances:
15 12 0.41
17 1 0.03
19 1 0.03
21 15 0.52
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (21 bp):
ATTTACCAAACTTTGAAAAAC
Found at i:14818209 original size:35 final size:35
Alignment explanation
Indices: 14818147--14818248 Score: 177
Period size: 35 Copynumber: 2.9 Consensus size: 35
14818137 ATATACCAAA
*
14818147 ATTTACCAAACTTTGAAAAACATTTTTCAAAGAAAC
1 ATTTACCAAACTTTGAAAACCA-TTTTCAAAGAAAC
14818183 ATTTACCAAACTTTGAAAACCATTTTCAAAGAAAC
1 ATTTACCAAACTTTGAAAACCATTTTCAAAGAAAC
*
14818218 ATTTACCAAACTTTGACAACCATTTTCAAAG
1 ATTTACCAAACTTTGAAAACCATTTTCAAAG
14818249 TTGGTTGCCA
Statistics
Matches: 64, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
35 43 0.67
36 21 0.33
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.30
Consensus pattern (35 bp):
ATTTACCAAACTTTGAAAACCATTTTCAAAGAAAC
Found at i:14821338 original size:118 final size:120
Alignment explanation
Indices: 14821126--14821429 Score: 387
Period size: 118 Copynumber: 2.5 Consensus size: 120
14821116 TCTTATATCG
* * ** *
14821126 GTGTAAGTATTTACATCTCCTAATATCTTGGTACCTAAAAATAAATACATACTTATACAGGTATA
1 GTGTAAGTATGTACATCTCCTAATATCTTGGTACCTAAAAATAAACACATACTTATATTGGTGTA
* * * * *
14821191 AGTATGTACATCTCTCACTATCTTAGTACC-TATAA-AAATACATACTTACACTA
66 AGTATGTACATATCTCAATATCTTAGTACCAAAAAATAAACACATACTTACACTA
* *
14821244 GTGTAAGTATGTACATCTCTTAATATCTTGGTACCTAAAAATAAACACATACTTACATTGGTGTA
1 GTGTAAGTATGTACATCTCCTAATATCTTGGTACCTAAAAATAAACACATACTTATATTGGTGTA
* * * *
14821309 TGTATGTACATATTTCAATATCTTTGTACCAAAAAATAAACACATACTTACACTG
66 AGTATGTACATATCTCAATATCTTAGTACCAAAAAATAAACACATACTTACACTA
* * * * * * *
14821364 GTGCAAGTATGTGCATCTCCCAATATCTTGGTACATAAAAATAATCACATAATTATATTTGTGTA
1 GTGTAAGTATGTACATCTCCTAATATCTTGGTACCTAAAAATAAACACATACTTATATTGGTGTA
14821429 A
66 A
14821430 ATAATTTTCT
Statistics
Matches: 158, Mismatches: 26, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
118 83 0.53
119 3 0.02
120 72 0.46
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.35
Consensus pattern (120 bp):
GTGTAAGTATGTACATCTCCTAATATCTTGGTACCTAAAAATAAACACATACTTATATTGGTGTA
AGTATGTACATATCTCAATATCTTAGTACCAAAAAATAAACACATACTTACACTA
Found at i:14821413 original size:60 final size:60
Alignment explanation
Indices: 14821125--14821414 Score: 345
Period size: 60 Copynumber: 4.9 Consensus size: 60
14821115 TTCTTATATC
* * *
14821125 GGTGTAAGTATTTACATCTC-CTAATATCTTGGTACCTAAAAATAAAT-ACATACTTATACA
1 GGTGTAAGTATGTACATCTCTC-AATATCTTGGTACCTAAAAAT-AATCACATACTTACACT
* * * *
14821185 GGTATAAGTATGTACATCTCTCACTATCTTAGTACCTATAAA-AAT-ACATACTTACACT
1 GGTGTAAGTATGTACATCTCTCAATATCTTGGTACCTAAAAATAATCACATACTTACACT
* * * *
14821243 AGTGTAAGTATGTACATCTCTTAATATCTTGGTACCTAAAAATAAACACATACTTACATT
1 GGTGTAAGTATGTACATCTCTCAATATCTTGGTACCTAAAAATAATCACATACTTACACT
* * * * * *
14821303 GGTGTATGTATGTACATATTTCAATATCTTTGTACCAAAAAATAAACACATACTTACACT
1 GGTGTAAGTATGTACATCTCTCAATATCTTGGTACCTAAAAATAATCACATACTTACACT
* * * *
14821363 GGTGCAAGTATGTGCATCTCCCAATATCTTGGTACATAAAAATAATCACATA
1 GGTGTAAGTATGTACATCTCTCAATATCTTGGTACCTAAAAATAATCACATA
14821415 ATTATATTTG
Statistics
Matches: 194, Mismatches: 33, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
58 50 0.26
59 2 0.01
60 141 0.73
61 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.34
Consensus pattern (60 bp):
GGTGTAAGTATGTACATCTCTCAATATCTTGGTACCTAAAAATAATCACATACTTACACT
Found at i:14829791 original size:3 final size:3
Alignment explanation
Indices: 14829776--14829862 Score: 113
Period size: 3 Copynumber: 28.7 Consensus size: 3
14829766 TTTGGGCTTG
* * *
14829776 TAA TAA TAT TAA TAA TAAA TAA TAA TAT TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
14829822 TAA TAA TAA TTA TAA TAA TAA TAA TAA TAA T-A TAAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TA
14829863 TTTAAATGAA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
2 2 0.03
3 66 0.90
4 5 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:14830219 original size:124 final size:121
Alignment explanation
Indices: 14829996--14830280 Score: 357
Period size: 124 Copynumber: 2.4 Consensus size: 121
14829986 ATGTTGAATA
* * *
14829996 AATTCTTCTCT-TTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGTTGAC
1 AATTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGCTAAC
* * * *
14830060 CTATTTCCTTCTGTGATAGAGTCATTCAAAAGGTTGAATAAGCTCTTCTT-ATTATG
66 CTATCTCCTTCTGTGATAGAATCATACAAAAGGTTGAACAAGCTCTT-TTCATTATG
* * *
14830116 AACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTTATTATGAACTTT-CTCTGGAAAGGTTGATGC
1 AA-TTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGG---GGATGATGC
* * * *
14830180 TAATCTATCTGCTTCTGTGATAGAATTATACAAAAGGTTGAACAAGCTCTTTTCATTGTG
62 TAACCTATCTCCTTCTGTGATAGAATCATACAAAAGGTTGAACAAGCTCTTTTCATTATG
14830240 AA--CTTC-TTCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
1 AATTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTT
14830281 CTTCTTCTTC
Statistics
Matches: 144, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
120 36 0.25
121 17 0.12
122 32 0.22
123 2 0.01
124 57 0.40
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.42
Consensus pattern (121 bp):
AATTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCCGCTGGGGATGATGCTAAC
CTATCTCCTTCTGTGATAGAATCATACAAAAGGTTGAACAAGCTCTTTTCATTATG
Found at i:14830279 original size:36 final size:36
Alignment explanation
Indices: 14830227--14830355 Score: 231
Period size: 36 Copynumber: 3.6 Consensus size: 36
14830217 TTGAACAAGC
* *
14830227 TCTTTTCATTGTGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
14830263 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
14830299 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
1 TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
14830335 TCTTCTCATTATGAACATTCT
1 TCTTCTCATTATGAAC-TTCT
14830356 CTGGAAAAGC
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
36 86 0.96
37 4 0.04
ACGTcount: A:0.19, C:0.22, G:0.11, T:0.48
Consensus pattern (36 bp):
TCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGT
Found at i:14830284 original size:17 final size:17
Alignment explanation
Indices: 14830262--14830321 Score: 61
Period size: 17 Copynumber: 3.4 Consensus size: 17
14830252 TTCAGATGAG
14830262 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
*
14830279 TTCTTCTTC-TTCA-GATGAG
1 TTCTTC-TCATT-ATGA--AC
14830298 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
14830315 TTCTTCT
1 TTCTTCT
14830322 TCTTCAGATG
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
17 18 0.51
18 6 0.17
19 11 0.31
ACGTcount: A:0.18, C:0.23, G:0.08, T:0.50
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:14830287 original size:20 final size:20
Alignment explanation
Indices: 14830262--14830324 Score: 64
Period size: 20 Copynumber: 3.4 Consensus size: 20
14830252 TTCAGATGAG
14830262 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
* *
14830282 TTCTTCTTCA-GATG-A---G
1 TTCTTC-TCATTATGAACTTC
14830298 TTCTTCTCATTATGAACTTC
1 TTCTTCTCATTATGAACTTC
14830318 TTCTTCT
1 TTCTTCT
14830325 TCAGATGAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 12
0.67 0.08 0.24
Matches are distributed among these distances:
15 3 0.09
16 9 0.27
17 1 0.03
19 1 0.03
20 16 0.48
21 3 0.09
ACGTcount: A:0.17, C:0.24, G:0.08, T:0.51
Consensus pattern (20 bp):
TTCTTCTCATTATGAACTTC
Found at i:14830429 original size:17 final size:17
Alignment explanation
Indices: 14830407--14830495 Score: 60
Period size: 17 Copynumber: 5.1 Consensus size: 17
14830397 GTTGAACAAA
*
14830407 TTCTTCTCATTATGAAT
1 TTCTTCTCATTATGAAC
* *
14830424 TTCTTCTTTCA-GATG-AG
1 TTCTTC--TCATTATGAAC
14830441 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
*
14830458 TTCTTCTTC-TTCA-GATGAG
1 TTCTTC-TCATT-ATGA--AC
14830477 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
14830494 TT
1 TT
14830496 TCTCTCGAAA
Statistics
Matches: 56, Mismatches: 6, Indels: 20
0.68 0.07 0.24
Matches are distributed among these distances:
15 3 0.05
16 3 0.05
17 27 0.48
18 9 0.16
19 14 0.25
ACGTcount: A:0.20, C:0.20, G:0.10, T:0.49
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:14830450 original size:34 final size:36
Alignment explanation
Indices: 14830407--14830498 Score: 152
Period size: 36 Copynumber: 2.6 Consensus size: 36
14830397 GTTGAACAAA
14830407 TTCTTCTCATTATGAATTTCTTC-T-TTCAGATGAG
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAG
*
14830441 TTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAG
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAG
14830477 TTCTTCTCATTATGAACTTTCT
1 TTCTTCTCATTATGAA-TTTCT
14830499 CTCGAAAAGC
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
34 22 0.42
35 1 0.02
36 26 0.49
37 4 0.08
ACGTcount: A:0.20, C:0.21, G:0.10, T:0.50
Consensus pattern (36 bp):
TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAG
Found at i:14830459 original size:143 final size:145
Alignment explanation
Indices: 14830262--14830610 Score: 549
Period size: 143 Copynumber: 2.4 Consensus size: 145
14830252 TTCAGATGAG
*
14830262 TTCTTCTCATTATGAACTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCTTC
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCTTC
* * *
14830327 AGATGAGTTCTTCTCATTATGAACATTCTCTGGAAAAGCTGATCTATCAAGTGATGGATTTGAAC
66 AGATGAGTTCTTCTCATTATGAACATTCTCTCGAAAAGCTAATCCATCAAGTGATGGATTTGAAC
*
14830392 AAAAGGTTGAACAAA
131 AAAAAGTTGAACAAA
14830407 TTCTTCTCATTATGAATTTCTTC-T-TTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCTTC
1 TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCTTC
* *
14830470 AGATGAGTTCTTCTCATTATGAACTTTCTCTCGAAAAGCTAATCCATCAAGTGATGGTTTTGAAC
66 AGATGAGTTCTTCTCATTATGAACATTCTCTCGAAAAGCTAATCCATCAAGTGATGGATTTGAAC
*
14830535 AAAAAGTTGAACAAG
131 AAAAAGTTGAACAAA
14830550 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACT
1 TTCTTCTCATTATGAA--T-TTCTT-CTTCTTCAGAT---GAGTTCTTCTCATTATGAACT
14830611 CTACCTGGCA
Statistics
Matches: 187, Mismatches: 8, Indels: 11
0.91 0.04 0.05
Matches are distributed among these distances:
143 128 0.68
144 1 0.01
145 23 0.12
146 5 0.03
147 1 0.01
148 1 0.01
149 7 0.04
152 21 0.11
ACGTcount: A:0.26, C:0.20, G:0.13, T:0.41
Consensus pattern (145 bp):
TTCTTCTCATTATGAATTTCTTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTTCTTC
AGATGAGTTCTTCTCATTATGAACATTCTCTCGAAAAGCTAATCCATCAAGTGATGGATTTGAAC
AAAAAGTTGAACAAA
Found at i:14830722 original size:229 final size:226
Alignment explanation
Indices: 14830439--14831364 Score: 1264
Period size: 229 Copynumber: 4.1 Consensus size: 226
14830429 CTTTCAGATG
14830439 AGTTCTTCTCATTATGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * * *
14830500 TCGAAAAGCTAATCCATCAAGTGATGGTTTTGAACAAAAAGTTGAACAAGTTCTTCTCATTATGA
66 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGA
*
14830565 ACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGCAATGTTGATC
131 ACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATC
*
14830630 CATCAAATGATGAATTCAAACAAAAGGTTGAACA
193 CATCAAATGATGAATTCAAACAAAAAGTTGAACA
* **
14830664 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATTTGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * *
14830729 TGGAAAATCTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGA
66 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGA
* * ** *
14830794 ATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTATATGGCAATGTTGATC
131 ACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATC
*
14830859 CATCAAATGATGAATTCAAACAAAAATTTGAACA
193 CATCAAATGATGAATTCAAACAAAAAGTTGAACA
*
14830893 AGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * * *
14830958 TGGAAAAACCGATCCATCAAGTGATGGTTTTGAACAAAAAGTTGAACAAATTATTCTCATTATGA
66 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGA
* *
14831023 A--T-TTCTT-C-T-TTCAGATGAGTTCTTCTCATTATGAACTCGAACTGGAAATGTTGATCCAT
131 ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCAT
** * *
14831082 TGAATCATGAATTCAAGCAAAAAGTTGAACA
196 CAAATGATGAATTCAAACAAAAAGTTGAACA
* *
14831113 AGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTGAC-
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT-TCT
* * * * * ** *
14831177 CTGGTAATGCTGATCTATCAAATGATGAATTCAAACAAAAAGTTGAACAAGTTCTTCTCATTATG
65 CTGGAAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATG
* * *
14831242 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT-TTCTCTGGAAAAGCTGATCC
130 AACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTGGAAATGTTGATCC
* * ** *
14831306 ATCAAGTGATGGATTTGAGCAAAAAGTTGAACA
194 ATCAAATGATGAATTCAAACAAAAAGTTGAACA
*
14831339 AGTTCTTCTCATTATGAACTTTTTCT
1 AGTTCTTCTCATTATGAACTTCTTCT
14831365 GGAAAAGCTG
Statistics
Matches: 626, Mismatches: 63, Indels: 23
0.88 0.09 0.03
Matches are distributed among these distances:
220 179 0.29
221 1 0.00
222 1 0.00
223 12 0.02
224 2 0.00
225 19 0.03
226 98 0.16
227 1 0.00
228 6 0.01
229 307 0.49
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (226 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGAAAAGCTGATCCATCAAGTGATGGATTTGAACAAAAAGTTGAACAAATTCTTCTCATTATGA
ACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTACCTGGAAATGTTGATCCAT
CAAATGATGAATTCAAACAAAAAGTTGAACA
Found at i:14830767 original size:113 final size:113
Alignment explanation
Indices: 14830439--14831364 Score: 1133
Period size: 113 Copynumber: 8.2 Consensus size: 113
14830429 CTTTCAGATG
14830439 AGTTCTTCTCATTATGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * * ** **
14830500 TCGAAAAGCTAATCCATCAAGTGATGGTTTTGAACAAAAAGTTGAACA
66 TGGAAATGCTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACA
14830548 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACT-T
* * * * *
14830613 AC-CTGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACA
62 TCTCTGGAAATGCTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACA
* **
14830664 AATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATTTGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* ** * *
14830729 TGGAAAAT-CTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACA
66 TGG-AAATGCTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACA
* * * *
14830777 AATTCTTCTCATTATGAATTTCTTCTTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTT
* * * * * *
14830842 ATATGGCAATGTTGATCCATCAAATGATGAATTCAAACAAAAATTTGAACA
63 CTCTGGAAATGCTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACA
*
14830893 AGTTCTTCTCATTATGAACTTATTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
** * ** **
14830958 TGGAAAAACCGATCCATCAAGTGATGGTTTTGAACAAAAAGTTGAACA
66 TGGAAATGCTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACA
* * ****
14831006 AATTATTCTCATTATGAA--T-TTCTT-C-T-TTCAGATGAGTTCTTCTCATTATGAACTCGAAC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * * *
14831065 TGGAAATGTTGATCCATTGAA-TCATGAATTCAAGCAAAAAGTTGAACA
66 TGGAAATGCTGATCCA-TCAAGTGATGAATTCAAACAAAAAGTTGAACA
* *
14831113 AGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTTGAC-
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT-TCT
* * *
14831177 CTGGTAATGCTGATCTATCAAATGATGAATTCAAACAAAAAGTTGAACA
65 CTGGAAATGCTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACA
14831226 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
* * ** *
14831291 TGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAAGTTGAACA
66 TGGAAATGCTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACA
*
14831339 AGTTCTTCTCATTATGAACTTTTTCT
1 AGTTCTTCTCATTATGAACTTCTTCT
14831365 GGAAAAGCTG
Statistics
Matches: 696, Mismatches: 97, Indels: 44
0.83 0.12 0.05
Matches are distributed among these distances:
107 78 0.11
108 4 0.01
109 20 0.03
110 10 0.01
111 1 0.00
112 13 0.02
113 374 0.54
114 3 0.00
115 3 0.00
116 188 0.27
117 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
TGGAAATGCTGATCCATCAAGTGATGAATTCAAACAAAAAGTTGAACA
Found at i:14831876 original size:22 final size:22
Alignment explanation
Indices: 14831797--14831873 Score: 118
Period size: 22 Copynumber: 3.5 Consensus size: 22
14831787 CATAAAGCTT
14831797 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
* * *
14831819 TCATATTTAAAAAGAGAATTTA
1 TCATCTTTGAAAAGAGAATCTA
*
14831841 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
14831863 TCATCTTTGAA
1 TCATCTTTGAA
14831874 GAGTGTAGAT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:14832329 original size:50 final size:50
Alignment explanation
Indices: 14832229--14832357 Score: 145
Period size: 50 Copynumber: 2.5 Consensus size: 50
14832219 TAGCAGATTC
* * *
14832229 GTAAAACATTTGACAATACATTCATCTTTTCCTGTGTTATCTGTCGAGAT
1 GTAAAACATTTGACAACACATTCATATTTTCCTGTGCTATCTGTCGAGAT
* *
14832279 GTAAAACACTTGACAACACATTCATATTTTTCTGTGGCT-TCTGCTC-AGAT
1 GTAAAACATTTGACAACACATTCATATTTTCCTGT-GCTATCTG-TCGAGAT
14832329 GTTCATAAAACATTTGACAACACATTCAT
1 G----TAAAACATTTGACAACACATTCAT
14832358 CCTTTCTTGT
Statistics
Matches: 67, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
50 40 0.60
51 4 0.06
54 23 0.34
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.36
Consensus pattern (50 bp):
GTAAAACATTTGACAACACATTCATATTTTCCTGTGCTATCTGTCGAGAT
Found at i:14832353 original size:54 final size:53
Alignment explanation
Indices: 14832230--14832430 Score: 211
Period size: 54 Copynumber: 3.8 Consensus size: 53
14832220 AGCAGATTCG
*
14832230 TAAAACATTTGACAATACATTCAT-CTTTTCCTGT-GTTATCTG-TCGAGATG---
1 TAAAACATTTGACAACACATTCATCCTTTT-CTGTGGTT-TCTGCTC-AGATGTTC
* ** *
14832280 TAAAACACTTGACAACACATTCATATTTTTCTGTGGCTTCTGCTCAGATGTTC
1 TAAAACATTTGACAACACATTCATCCTTTTCTGTGGTTTCTGCTCAGATGTTC
* *
14832333 ATAAAACATTTGACAACACATTCATCC-TTTCTTGTGGTTTCTGCTTAGACGTTC
1 -TAAAACATTTGACAACACATTCATCCTTTTC-TGTGGTTTCTGCTCAGATGTTC
*
14832387 GTAAAGA-GTTTGACAACACATTCATCCTTTTCTGTGGTTTCTGC
1 -TAAA-ACATTTGACAACACATTCATCCTTTTCTGTGGTTTCTGC
14832431 CAAGATTTCT
Statistics
Matches: 129, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
50 35 0.27
51 8 0.06
53 4 0.03
54 77 0.60
55 5 0.04
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (53 bp):
TAAAACATTTGACAACACATTCATCCTTTTCTGTGGTTTCTGCTCAGATGTTC
Found at i:14834604 original size:114 final size:114
Alignment explanation
Indices: 14834404--14834623 Score: 345
Period size: 114 Copynumber: 1.9 Consensus size: 114
14834394 GATCATGCAG
* * *
14834404 TTCATCTTTCAATTTCAATAATTGGTTATGGGATTCCTACCTAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAATCTCAATAATTGGTTATGGGATTCATACCAAACCAGATCAGATAACTCAAAGA
* *
14834469 ACACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAACAAA
66 ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAACAAA
* *
14834518 TTCATCTTTCAAATCT-AATGATTGGTTTTAGGG-TTCATACCAAACCAGATCAGATAACTCAAA
1 TTCATCTTTC-AATCTCAATAATTGGTTAT-GGGATTCATACCAAACCAGATCAGATAACTCAAA
14834581 GAACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTA
64 GAACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTA
14834624 CGAGAATGTG
Statistics
Matches: 97, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
114 90 0.93
115 7 0.07
ACGTcount: A:0.32, C:0.20, G:0.14, T:0.34
Consensus pattern (114 bp):
TTCATCTTTCAATCTCAATAATTGGTTATGGGATTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATTGGGGCTCCTTATTTCTACTATGAACAAA
Found at i:14836882 original size:6 final size:6
Alignment explanation
Indices: 14836871--14836926 Score: 57
Period size: 6 Copynumber: 9.5 Consensus size: 6
14836861 TGATTCAATT
14836871 TTTTTC TTTTTC TTTTT- TGTTTT- TTTTT- TGTTTT- TTTTTC TTTTTC
1 TTTTTC TTTTTC TTTTTC T-TTTTC TTTTTC T-TTTTC TTTTTC TTTTTC
14836917 TTCTTTC TTT
1 TT-TTTC TTT
14836927 GCTAGATGAG
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
5 10 0.22
6 30 0.65
7 6 0.13
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.86
Consensus pattern (6 bp):
TTTTTC
Found at i:14836888 original size:13 final size:13
Alignment explanation
Indices: 14836870--14836926 Score: 53
Period size: 13 Copynumber: 4.2 Consensus size: 13
14836860 TTGATTCAAT
14836870 TTTTTTCTTTTTC
1 TTTTTTCTTTTTC
*
14836883 TTTTTTGTTTTT-
1 TTTTTTCTTTTTC
* *
14836895 TTTTTGTTTTTTTT
1 TTTTT-TCTTTTTC
14836909 TCTTTTTCTTCTTTC
1 T-TTTTTCTT-TTTC
14836924 TTT
1 TTT
14836927 GCTAGATGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
12 5 0.14
13 17 0.47
14 6 0.17
15 8 0.22
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.86
Consensus pattern (13 bp):
TTTTTTCTTTTTC
Found at i:14836897 original size:11 final size:11
Alignment explanation
Indices: 14836869--14836909 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
14836859 CTTGATTCAA
*
14836869 TTTTTTTCTT-
1 TTTTTTTTTTG
*
14836879 TTTCTTTTTTG
1 TTTTTTTTTTG
14836890 TTTTTTTTTTG
1 TTTTTTTTTTG
14836901 TTTTTTTTT
1 TTTTTTTTT
14836910 CTTTTTCTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.00, C:0.05, G:0.05, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:14841539 original size:13 final size:13
Alignment explanation
Indices: 14841523--14841571 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
14841513 TTAATTCTTG
14841523 AATATAATAAATA
1 AATATAATAAATA
*
14841536 AATAAAATAAA-A
1 AATATAATAAATA
*
14841548 AATAATAATATATA
1 AAT-ATAATAAATA
*
14841562 AAAATAATAA
1 AATATAATAA
14841572 GTAATAAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
12 4 0.14
13 22 0.76
14 3 0.10
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AATATAATAAATA
Found at i:14841550 original size:16 final size:15
Alignment explanation
Indices: 14841526--14841583 Score: 62
Period size: 16 Copynumber: 3.6 Consensus size: 15
14841516 ATTCTTGAAT
*
14841526 ATAATAAATAAATAAA
1 ATAAAAAAT-AATAAA
*
14841542 ATAAAAAATAATAAT
1 ATAAAAAATAATAAA
14841557 ATATAAAAATAATAAGTA
1 ATA-AAAAATAATAA--A
14841575 ATAAAAAAT
1 ATAAAAAAT
14841584 TTGAAAGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
15 8 0.22
16 19 0.53
17 6 0.17
18 3 0.08
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (15 bp):
ATAAAAAATAATAAA
Found at i:14841565 original size:23 final size:23
Alignment explanation
Indices: 14841526--14841583 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
14841516 ATTCTTGAAT
14841526 ATAATAAATAAATAAAATAAAAA
1 ATAATAAATAAATAAAATAAAAA
* *
14841549 ATAAT-AATATATAAAAATAATAA
1 ATAATAAATAAAT-AAAATAAAAA
*
14841572 GTAATAAA-AAAT
1 ATAATAAATAAAT
14841584 TTGAAAGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 6 0.21
23 21 0.72
24 2 0.07
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (23 bp):
ATAATAAATAAATAAAATAAAAA
Found at i:14843707 original size:3 final size:3
Alignment explanation
Indices: 14843691--14843790 Score: 112
Period size: 3 Copynumber: 32.7 Consensus size: 3
14843681 TTTGGGCTTG
* * *
14843691 TAA TAA TATT TAA TAA TAA TAT TAA TAA TAAA TAA TAA TAT TAA TAA
1 TAA TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
* * *
14843738 TAA TTA TTA TAA TAA TAA TAA TAA TTA TAA TAA TAA TAA TAA T-A TAAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA
14843786 TAA TA
1 TAA TA
14843791 TTTAAATAAA
Statistics
Matches: 83, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
2 2 0.02
3 74 0.89
4 7 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (3 bp):
TAA
Found at i:14863306 original size:12 final size:12
Alignment explanation
Indices: 14863229--14863320 Score: 62
Period size: 13 Copynumber: 6.9 Consensus size: 12
14863219 TAATTAATTA
14863229 TTTTATCTTTATC
1 TTTTAT-TTTATC
14863242 TTTTATTTCCTTATC
1 TTTTA-TT--TTATC
*
14863257 TTTTATTTATTTATT
1 TTTTA--T-TTTATC
14863272 TATTTATTTTATC
1 T-TTTATTTTATC
14863285 -TTTATCTTTATC
1 TTTTAT-TTTATC
14863297 TTTTATTTTATTC
1 TTTTATTTTA-TC
14863310 TATTT-TTTTAT
1 T-TTTATTTTAT
14863321 TTTAAAAACA
Statistics
Matches: 67, Mismatches: 2, Indels: 21
0.74 0.02 0.23
Matches are distributed among these distances:
11 5 0.07
12 11 0.16
13 24 0.36
14 5 0.07
15 15 0.22
16 6 0.09
17 1 0.01
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (12 bp):
TTTTATTTTATC
Found at i:14868005 original size:8 final size:8
Alignment explanation
Indices: 14867992--14868022 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
14867982 TATATGTTCT
14867992 TTATTTTA
1 TTATTTTA
14868000 TTATTTTA
1 TTATTTTA
*
14868008 TTATTTCA
1 TTATTTTA
14868016 TTATTTT
1 TTATTTT
14868023 TGTCATATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (8 bp):
TTATTTTA
Found at i:14868088 original size:13 final size:13
Alignment explanation
Indices: 14868070--14868104 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
14868060 AATACAATGC
14868070 AGAAAACACCAAG
1 AGAAAACACCAAG
*
14868083 AGAAAACATCAAG
1 AGAAAACACCAAG
14868096 AGAAAACAC
1 AGAAAACAC
14868105 AAAACAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.63, C:0.20, G:0.14, T:0.03
Consensus pattern (13 bp):
AGAAAACACCAAG
Done.