Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr3
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: 36364294
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2168405 characters in sequence are not A, C, G, or T
File 42 of 91
Found at i:14460905 original size:2 final size:2
Alignment explanation
Indices: 14460892--14460938 Score: 53
Period size: 2 Copynumber: 24.0 Consensus size: 2
14460882 ATATGAGATG
* *
14460892 AT AT AC AT AT AT AT AT AT AT AT AT A- ACT AT AT AA AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT
14460933 AT AT AT
1 AT AT AT
14460939 GTATTAATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
1 2 0.05
2 35 0.92
3 1 0.03
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:14463113 original size:2 final size:2
Alignment explanation
Indices: 14463106--14463134 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14463096 AGGCTAACAT
14463106 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
14463135 TACATATCAA
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:14464046 original size:73 final size:73
Alignment explanation
Indices: 14463927--14464103 Score: 275
Period size: 73 Copynumber: 2.4 Consensus size: 73
14463917 AACAGAAAAG
* *
14463927 ACTTAGTCAACCAAGGAATGAGTTAGTTGACTAAGAAGCTATTGCCAGAAATCTGGACTTCAAGA
1 ACTTAGTCAACCAAGGAATGAGTTAGTCGACTAAGAAGCTATTGCCACAAATCTGGACTTCAAGA
14463992 CAAAACCA
66 CAAAACCA
* *
14464000 ACTTAGTCAACCAAGGGATGGGTTAGTCGACTAAGAAGCTATTGCCACAAATCTGGACTTCAAGA
1 ACTTAGTCAACCAAGGAATGAGTTAGTCGACTAAGAAGCTATTGCCACAAATCTGGACTTCAAGA
14464065 CAAAACCA
66 CAAAACCA
** *
14464073 ACTTAGTTGACCAA-GAAGTAAGTTAGTCGAC
1 ACTTAGTCAACCAAGGAA-TGAGTTAGTCGAC
14464104 CAAGTGCTCA
Statistics
Matches: 94, Mismatches: 9, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
72 2 0.02
73 92 0.98
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (73 bp):
ACTTAGTCAACCAAGGAATGAGTTAGTCGACTAAGAAGCTATTGCCACAAATCTGGACTTCAAGA
CAAAACCA
Found at i:14473803 original size:20 final size:20
Alignment explanation
Indices: 14473786--14473823 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14473776 CCTCAAATCT
14473786 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
14473806 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
14473824 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:14482212 original size:21 final size:21
Alignment explanation
Indices: 14482172--14482213 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
14482162 AAAAGACAGT
** *
14482172 AGGCACTTAGTTGACTAAGAG
1 AGGCACTTAGTCAACCAAGAG
14482193 AGGCACTTAGTCAACCAAGAG
1 AGGCACTTAGTCAACCAAGAG
14482214 CATTCTGTCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.19, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGCACTTAGTCAACCAAGAG
Found at i:14486407 original size:60 final size:60
Alignment explanation
Indices: 14486171--14486399 Score: 336
Period size: 60 Copynumber: 3.9 Consensus size: 60
14486161 GACATCATCA
* * * * * *
14486171 CCTACTCGTGGGAACTGCCCACGCCACC--ATATGAATCGAGGCTTTAAGTCCCCCTTTA
1 CCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGAGGCTTCAGGTCCCCCTTTG
* *
14486229 CCTTCTCGTGGGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAGGTCCCCCTTTG
1 CCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGAGGCTTCAGGTCCCCCTTTG
* *
14486289 CCTACTCGTGGGAACTACCCACATCACCAAATATAAATCGAGACTTCAGGTCCCCCTTTG
1 CCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGAGGCTTCAGGTCCCCCTTTG
* *
14486349 CCTACTCGTGGGAATTACCCACGTCACCAAATATAAATCGGGGCTTCAGGT
1 CCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGAGGCTTCAGGT
14486400 TCGCCTTTAC
Statistics
Matches: 153, Mismatches: 16, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
58 25 0.16
60 128 0.84
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (60 bp):
CCTACTCGTGGGAACTACCCACGTCACCAAATATAAATCGAGGCTTCAGGTCCCCCTTTG
Found at i:14487046 original size:58 final size:57
Alignment explanation
Indices: 14486943--14487091 Score: 190
Period size: 58 Copynumber: 2.6 Consensus size: 57
14486933 TGCCACTACT
* * *
14486943 CTTCTCTTCTTTTTCTTTTTCTTATTTCTTCCCCCTCATCACCGTGCTCCCTCTCTC
1 CTTCTCTTTTTTTTCTTTCTCTTCTTTCTTCCCCCTCATCACCGTGCTCCCTCTCTC
* ** ** *
14487000 CTTCTCCTTTTTTTTCTTTCTCTTCTTTCTTCTCCCTTGTTGCCGTGCTCCCTCTCTT
1 CTTCT-CTTTTTTTTCTTTCTCTTCTTTCTTCCCCCTCATCACCGTGCTCCCTCTCTC
*
14487058 ATTCTCTTTCTTTTTCTTTCTCTTCTTTCTTCCC
1 CTTCTCTTT-TTTTTCTTTCTCTTCTTTCTTCCC
14487092 TCTATTTCTT
Statistics
Matches: 79, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
57 9 0.11
58 70 0.89
ACGTcount: A:0.03, C:0.37, G:0.04, T:0.56
Consensus pattern (57 bp):
CTTCTCTTTTTTTTCTTTCTCTTCTTTCTTCCCCCTCATCACCGTGCTCCCTCTCTC
Found at i:14487189 original size:12 final size:13
Alignment explanation
Indices: 14487174--14487212 Score: 55
Period size: 12 Copynumber: 3.1 Consensus size: 13
14487164 GTCGTGCTCT
14487174 TTCTCTC-CTTTC
1 TTCTCTCTCTTTC
14487186 TTCT-TCTCTTTC
1 TTCTCTCTCTTTC
14487198 TTCTCTCTCATTTC
1 TTCTCTCTC-TTTC
14487212 T
1 T
14487213 CTCCCTTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.08
12 13 0.54
13 4 0.17
14 5 0.21
ACGTcount: A:0.03, C:0.36, G:0.00, T:0.62
Consensus pattern (13 bp):
TTCTCTCTCTTTC
Found at i:14487262 original size:11 final size:12
Alignment explanation
Indices: 14487239--14487268 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
14487229 ACTCTCTTCA
14487239 TTCTCTTTCCTT
1 TTCTCTTTCCTT
14487251 TTCTCTTT-CTT
1 TTCTCTTTCCTT
14487262 TTCTCTT
1 TTCTCTT
14487269 CTCCCTTGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (12 bp):
TTCTCTTTCCTT
Found at i:14491263 original size:37 final size:37
Alignment explanation
Indices: 14491214--14491377 Score: 220
Period size: 37 Copynumber: 4.2 Consensus size: 37
14491204 TAATGTTATG
*
14491214 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGTACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
14491251 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
*
14491288 TGTTGATGTTGAAGTGTTGAAGTGTGAGAGTAGGGAGTGCACACA
1 ---TGA---TG-A-TGTTGAAGTGTGCGAGTAGGGAGTGCACACA
* *
14491333 TGATGATGTTGAAGTGTGCAAGTAGGGAGTGCACACT
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
14491370 TGATGATG
1 TGATGATG
14491378 ATATTGCATT
Statistics
Matches: 114, Mismatches: 5, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
37 72 0.63
38 1 0.01
39 2 0.02
40 3 0.03
42 3 0.03
43 2 0.02
44 1 0.01
45 30 0.26
ACGTcount: A:0.27, C:0.09, G:0.37, T:0.27
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:14491321 original size:45 final size:45
Alignment explanation
Indices: 14491257--14491349 Score: 168
Period size: 45 Copynumber: 2.1 Consensus size: 45
14491247 CACATGATGA
* *
14491257 TGTTGAAGTGTGCGAGTAGGGAGTGCACACATGTTGATGTTGAAG
1 TGTTGAAGTGTGAGAGTAGGGAGTGCACACATGATGATGTTGAAG
14491302 TGTTGAAGTGTGAGAGTAGGGAGTGCACACATGATGATGTTGAAG
1 TGTTGAAGTGTGAGAGTAGGGAGTGCACACATGATGATGTTGAAG
14491347 TGT
1 TGT
14491350 GCAAGTAGGG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.26, C:0.08, G:0.38, T:0.29
Consensus pattern (45 bp):
TGTTGAAGTGTGAGAGTAGGGAGTGCACACATGATGATGTTGAAG
Found at i:14491357 original size:82 final size:82
Alignment explanation
Indices: 14491220--14491377 Score: 271
Period size: 82 Copynumber: 1.9 Consensus size: 82
14491210 TATGTGATGA
* * *
14491220 TGTTGAAGTGTGCGAGTAGGGAGTGTACACATGATGATGTTGAAGTGTGCGAGTAGGGAGTGCAC
1 TGTTGAAGTGTGAGAGTAGGGAGTGCACACATGATGATGTTGAAGTGTGCAAGTAGGGAGTGCAC
*
14491285 ACATGTTGATGTTGAAG
66 ACATGATGATGTTGAAG
14491302 TGTTGAAGTGTGAGAGTAGGGAGTGCACACATGATGATGTTGAAGTGTGCAAGTAGGGAGTGCAC
1 TGTTGAAGTGTGAGAGTAGGGAGTGCACACATGATGATGTTGAAGTGTGCAAGTAGGGAGTGCAC
*
14491367 ACTTGATGATG
66 ACATGATGATG
14491378 ATATTGCATT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 71 1.00
ACGTcount: A:0.27, C:0.09, G:0.37, T:0.27
Consensus pattern (82 bp):
TGTTGAAGTGTGAGAGTAGGGAGTGCACACATGATGATGTTGAAGTGTGCAAGTAGGGAGTGCAC
ACATGATGATGTTGAAG
Found at i:14493933 original size:39 final size:39
Alignment explanation
Indices: 14493890--14493978 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 39
14493880 ACTAACTACT
* * **
14493890 TACCACAA-TCATCG-TCTAGTGTCGAAGCCACTGGTGGAA
1 TACCA-AAGTCATCGTTC-AGTGCCGAAGACACTAATGGAA
14493929 TACCAAAGTCATCGTTCAGTGCCGAAGACACTAATGGAA
1 TACCAAAGTCATCGTTCAGTGCCGAAGACACTAATGGAA
*
14493968 TATCAAAGTCA
1 TACCAAAGTCA
14493979 CAGGGTAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
38 2 0.05
39 39 0.91
40 2 0.05
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (39 bp):
TACCAAAGTCATCGTTCAGTGCCGAAGACACTAATGGAA
Found at i:14504962 original size:28 final size:27
Alignment explanation
Indices: 14504930--14504989 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 27
14504920 ATGTATAGAT
* *
14504930 ATATAAGTAATTAATATTTAACTAAATA
1 ATATAAGTAATTAATAATTAA-TAAACA
** *
14504958 ATATATTTAGTTAATAATTAATAAACA
1 ATATAAGTAATTAATAATTAATAAACA
14504985 ATATA
1 ATATA
14504990 TTATATAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 10 0.37
28 17 0.63
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (27 bp):
ATATAAGTAATTAATAATTAATAAACA
Found at i:14505000 original size:27 final size:28
Alignment explanation
Indices: 14504942--14505001 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
14504932 ATAAGTAATT
* * *
14504942 AATATTTAACTAAATAATATATTTAGTT
1 AATAATTAACTAAACAATATATTTAGTA
14504970 AATAATTAA-TAAACAATATATTATA-TA
1 AATAATTAACTAAACAATATATT-TAGTA
14504997 AATAA
1 AATAA
14505002 CAAAAAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 18 0.64
28 10 0.36
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (28 bp):
AATAATTAACTAAACAATATATTTAGTA
Found at i:14505517 original size:11 final size:11
Alignment explanation
Indices: 14505481--14505510 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
14505471 AATAATATTT
14505481 TATTAATAAAA
1 TATTAATAAAA
14505492 TATTAATAAAA
1 TATTAATAAAA
14505503 TATTAATA
1 TATTAATA
14505511 TTTTATTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TATTAATAAAA
Found at i:14514953 original size:18 final size:19
Alignment explanation
Indices: 14514912--14514953 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
14514902 TCTACGCCCT
* *
14514912 ACTCGCTGAGTCGATGATT
1 ACTCACTGAGTCGATGATG
14514931 A-TCACTGAGTCGATGA-G
1 ACTCACTGAGTCGATGATG
14514948 ACTCAC
1 ACTCAC
14514954 AACCCTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 1 0.05
18 18 0.90
19 1 0.05
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (19 bp):
ACTCACTGAGTCGATGATG
Found at i:14529647 original size:34 final size:35
Alignment explanation
Indices: 14529542--14529648 Score: 135
Period size: 35 Copynumber: 3.1 Consensus size: 35
14529532 CTTACTTAGC
* ***
14529542 TCATGTGCACTGCTTACACGCACAAGGCAATATCA
1 TCATGTGCACTCCTTACACGCACATTTCAATATCA
* **
14529577 TCATGTGCACTCCTTACATGCACATTTCAAGGTCA
1 TCATGTGCACTCCTTACACGCACATTTCAATATCA
*
14529612 TCATGTGCACTCCCTAC-CGCACATTTCAATATCA
1 TCATGTGCACTCCTTACACGCACATTTCAATATCA
14529646 TCA
1 TCA
14529649 CACGCACTCC
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
34 17 0.28
35 44 0.72
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (35 bp):
TCATGTGCACTCCTTACACGCACATTTCAATATCA
Found at i:14530799 original size:19 final size:20
Alignment explanation
Indices: 14530775--14530834 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
14530765 TGACAAGGTG
14530775 AAATGGC-ATGGGAGCATGA
1 AAATGGCGATGGGAGCATGA
* * *
14530794 AAATGGCGTTGGGTGGATGA
1 AAATGGCGATGGGAGCATGA
* * *
14530814 AAATGGTGTTGGGAGAATGA
1 AAATGGCGATGGGAGCATGA
14530834 A
1 A
14530835 GGTGGAGGAG
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
19 7 0.21
20 27 0.79
ACGTcount: A:0.33, C:0.05, G:0.40, T:0.22
Consensus pattern (20 bp):
AAATGGCGATGGGAGCATGA
Found at i:14530833 original size:20 final size:20
Alignment explanation
Indices: 14530783--14530834 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
14530773 TGAAATGGCA
*
14530783 TGGGAGCATGAAAATGGCGT
1 TGGGAGAATGAAAATGGCGT
* * *
14530803 TGGGTGGATGAAAATGGTGT
1 TGGGAGAATGAAAATGGCGT
14530823 TGGGAGAATGAA
1 TGGGAGAATGAA
14530835 GGTGGAGGAG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.04, G:0.42, T:0.23
Consensus pattern (20 bp):
TGGGAGAATGAAAATGGCGT
Found at i:14534821 original size:80 final size:79
Alignment explanation
Indices: 14534686--14534844 Score: 282
Period size: 80 Copynumber: 2.0 Consensus size: 79
14534676 TCGGCATAAT
* *
14534686 GGGTTTCAATGGGAGAAAATTATTTCTCTAGCTTATTTTTGCTATATTTCGATATAACCTAACTA
1 GGGTTTCAATGGGAGAAAATTATATCTCTAGCTTATTTTTGCTATATTTCAATATAACCTAACTA
14534751 AAATCACTTAATTC
66 AAATCACTTAATTC
*
14534765 NGGGTTTCAATGGGAGAAAATTATATCTCTAGCTTATTTTTGCTATATTTCAATATAACTTAACT
1 -GGGTTTCAATGGGAGAAAATTATATCTCTAGCTTATTTTTGCTATATTTCAATATAACCTAACT
14534830 AAAATCACTTAATTC
65 AAAATCACTTAATTC
14534845 AATTAAAATC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 76 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (79 bp):
GGGTTTCAATGGGAGAAAATTATATCTCTAGCTTATTTTTGCTATATTTCAATATAACCTAACTA
AAATCACTTAATTC
Found at i:14538085 original size:19 final size:19
Alignment explanation
Indices: 14538039--14538076 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
14538029 TATCAAGCTC
14538039 AAATATAGATCTCTATATG
1 AAATATAGATCTCTATATG
14538058 AAATATAGATCTCTATATG
1 AAATATAGATCTCTATATG
14538077 GCATTTAGAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (19 bp):
AAATATAGATCTCTATATG
Found at i:14539933 original size:35 final size:35
Alignment explanation
Indices: 14539780--14539922 Score: 196
Period size: 35 Copynumber: 4.1 Consensus size: 35
14539770 CTTACTCAAC
* * * ***
14539780 TCATGTGCACTCCTTACACGCATAAGGCAATATCA
1 TCATGTGCACTCCCTACATGCACATTTCAATATCA
*
14539815 TCATGTGCACTCCTTACATGCACATTTCAATATCA
1 TCATGTGCACTCCCTACATGCACATTTCAATATCA
* *
14539850 TCATGTTCACTCCCTACTTGCACATTTCAATATCA
1 TCATGTGCACTCCCTACATGCACATTTCAATATCA
*
14539885 TCATGTGCACTCCCTACACGCACATTTCAATATCA
1 TCATGTGCACTCCCTACATGCACATTTCAATATCA
14539920 TCA
1 TCA
14539923 CACGCACTCC
Statistics
Matches: 97, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 97 1.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.31
Consensus pattern (35 bp):
TCATGTGCACTCCCTACATGCACATTTCAATATCA
Found at i:14542978 original size:38 final size:40
Alignment explanation
Indices: 14542892--14542994 Score: 147
Period size: 38 Copynumber: 2.6 Consensus size: 40
14542882 ACCCGGCTCA
* *
14542892 TGTACATCCCCCCACATCGTGCACATAGCCGGCGCCATTG
1 TGTACATCCCCCCACATCGTGCACATAGCCAGCGCCATCG
* * *
14542932 TGTGCATCCCCCCACATCGTGCACA-A-TCAGTGCCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCCAGCGCCATCG
14542970 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
14542995 CGGGCACTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 32 0.56
39 1 0.02
40 24 0.42
ACGTcount: A:0.21, C:0.41, G:0.17, T:0.20
Consensus pattern (40 bp):
TGTACATCCCCCCACATCGTGCACATAGCCAGCGCCATCG
Found at i:14542987 original size:19 final size:19
Alignment explanation
Indices: 14542892--14542990 Score: 58
Period size: 19 Copynumber: 5.1 Consensus size: 19
14542882 ACCCGGCTCA
14542892 TGTACATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
* * * *
14542911 TGCACATAGCCGGCGC-CATTG
1 TGTACAT--CC-CCCCACATCG
*
14542932 TGTGCATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
* ****
14542951 TGCACAATCAGTGC-CATCG
1 TGTAC-ATCCCCCCACATCG
14542970 TGTACATCCCCCCACATCG
1 TGTACATCCCCCCACATCG
14542989 TG
1 TG
14542991 CACACGGGCA
Statistics
Matches: 54, Mismatches: 20, Indels: 12
0.63 0.23 0.14
Matches are distributed among these distances:
18 6 0.11
19 31 0.57
20 4 0.07
21 11 0.20
22 2 0.04
ACGTcount: A:0.20, C:0.40, G:0.18, T:0.21
Consensus pattern (19 bp):
TGTACATCCCCCCACATCG
Found at i:14545739 original size:31 final size:31
Alignment explanation
Indices: 14545704--14545849 Score: 238
Period size: 31 Copynumber: 4.7 Consensus size: 31
14545694 CAGCGTTGGT
*
14545704 GTGTTACAACATTTTATGTTATATGCATGGC
1 GTGTTACAACATTTTACGTTATATGCATGGC
*
14545735 GTGTTACACCATTTTACGTTATATGCATGGC
1 GTGTTACAACATTTTACGTTATATGCATGGC
*
14545766 GTGTTACAACATTGTACGTTATATGCATGGC
1 GTGTTACAACATTTTACGTTATATGCATGGC
* * *
14545797 ATGTTACAACATTTTACGTTATATGCAGGGT
1 GTGTTACAACATTTTACGTTATATGCATGGC
14545828 GTGTTACAACATTTTACGTTAT
1 GTGTTACAACATTTTACGTTAT
14545850 GCAATGTGTT
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.26, C:0.15, G:0.19, T:0.40
Consensus pattern (31 bp):
GTGTTACAACATTTTACGTTATATGCATGGC
Found at i:14549813 original size:2 final size:2
Alignment explanation
Indices: 14549806--14549842 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14549796 TATGACATAG
14549806 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14549843 CAACATTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14552594 original size:18 final size:17
Alignment explanation
Indices: 14552567--14552601 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
14552557 TTGTATTTTG
14552567 GAGTTTATGGATGTAAT
1 GAGTTTATGGATGTAAT
*
14552584 GAGTCTTATGGTTGTAAT
1 GAGT-TTATGGATGTAAT
14552602 TGATGTGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.43
Consensus pattern (17 bp):
GAGTTTATGGATGTAAT
Found at i:14554917 original size:86 final size:86
Alignment explanation
Indices: 14554772--14554929 Score: 244
Period size: 86 Copynumber: 1.8 Consensus size: 86
14554762 TGACATCTTG
* *
14554772 TGGTGACACACTGAGTGGAAGCAGATACTTGGCATGACACGCTAAGTGCATGCAGATTTCTGTGG
1 TGGTGACACACTGAGTGGAAGCAGATACTTGGCATGACACGCTAAGTGCATGCAAATTTCTATGG
14554837 TGACACGGCATGCCTCAATTA
66 TGACACGGCATGCCTCAATTA
** * * * *
14554858 TGGTGACACGTTGAGTGGAAGCAGATACTTGGCGTGACATGCTGAGTGCATGTAAATTTCTATGG
1 TGGTGACACACTGAGTGGAAGCAGATACTTGGCATGACACGCTAAGTGCATGCAAATTTCTATGG
14554923 TGACACG
66 TGACACG
14554930 CTGACTTCTT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
86 64 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.26
Consensus pattern (86 bp):
TGGTGACACACTGAGTGGAAGCAGATACTTGGCATGACACGCTAAGTGCATGCAAATTTCTATGG
TGACACGGCATGCCTCAATTA
Found at i:14555013 original size:31 final size:31
Alignment explanation
Indices: 14554972--14555032 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
14554962 CATGCCCTAT
* ** *
14554972 CTTGGGGTGACATGCTGAGTGGAAGCAGATA
1 CTTGGCGTGACACACTGAGTGCAAGCAGATA
*
14555003 CTTGGCGTGACACACTGAGTGCATGCAGAT
1 CTTGGCGTGACACACTGAGTGCAAGCAGAT
14555033 TTCTATAGTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.25, C:0.18, G:0.34, T:0.23
Consensus pattern (31 bp):
CTTGGCGTGACACACTGAGTGCAAGCAGATA
Found at i:14555013 original size:118 final size:118
Alignment explanation
Indices: 14554835--14555255 Score: 472
Period size: 118 Copynumber: 3.6 Consensus size: 118
14554825 AGATTTCTGT
* * *
14554835 GGTGACACGGCATG-CCTCA-ATTATGGTGACACGTTGAGTGGAAGCAGATACTTGGCGTGACAT
1 GGTGACACGGCATGCCCT-ATCTTGTGGTGACACGTTGAGTGGAAGCAGATACTTGGCGTGACAC
* * * *
14554898 GCTGAGTGCATGTAAATTTCTATGGTGACACGCTGACTTCTTACAGTATTGTGG
65 ACTGAGTGCATGCAGATTTCTATGGTGACACGTTGACTTCTTACAGTATTGTGG
* * *
14554952 GGTGACACGGCATGCCCTATCTTGGGGTGACATGCTGAGTGGAAGCAGATACTTGGCGTGACACA
1 GGTGACACGGCATGCCCTATCTTGTGGTGACACGTTGAGTGGAAGCAGATACTTGGCGTGACACA
* * *
14555017 CTGAGTGCATGCAGATTTCTATAGTGACACGTTGATTTCTTACAATATTGTGG
66 CTGAGTGCATGCAGATTTCTATGGTGACACGTTGACTTCTTACAGTATTGTGG
* * * * * * *
14555070 GGTGACACGGTAGGCCCCATCTTGTGCTGACACGTTGAGTGGAAACAGATACTTGACATGACACA
1 GGTGACACGGCATGCCCTATCTTGTGGTGACACGTTGAGTGGAAGCAGATACTTGGCGTGACACA
* * * ** * *
14555135 CTAAGTTCATGCAGATTT-TGGTGGTGACACGTTGACTTCTTGTAGCATTATGG
66 CTGAGTGCATGCAGATTTCT-ATGGTGACACGTTGACTTCTTACAGTATTGTGG
* * ** * * * * *
14555188 GGTGACATGGCACGTTCTA-ATTATGGTGACACATTGAGTGGAAGTAGATACTTGGCGTGACACG
1 GGTGACACGGCATGCCCTATCTTGTGGTGACACGTTGAGTGGAAGCAGATACTTGGCGTGACACA
14555252 CTGA
66 CTGA
14555256 CTTGTTCCAG
Statistics
Matches: 252, Mismatches: 49, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
117 55 0.22
118 197 0.78
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (118 bp):
GGTGACACGGCATGCCCTATCTTGTGGTGACACGTTGAGTGGAAGCAGATACTTGGCGTGACACA
CTGAGTGCATGCAGATTTCTATGGTGACACGTTGACTTCTTACAGTATTGTGG
Found at i:14557618 original size:145 final size:145
Alignment explanation
Indices: 14557447--14557710 Score: 341
Period size: 145 Copynumber: 1.8 Consensus size: 145
14557437 TTAATGGGTC
* * * * * * * * *
14557447 GTTAGCACTGTGCGTTTGAGGAGGACCTCTTAGTGGTTGA-GGAACTGTCGTCGCATGGTCCAAT
1 GTTAGCACTGTGAGTCTGAGAAGGACCTATCAGTGGTT-ATAGAACTATCGTCGCATGGTCAAAC
* * * *
14557511 TGCAAATACAAATATGTTTTTTGATAATCACATATGGGATTGTTGAACACAAATCATTATAACCA
65 TACAAACACAAATATGTTATTTGATAATCACATATGGAATTGTTGAACACAAATCATTATAACCA
14557576 TCCTTACCGGCTTGTT
130 TCCTTACCGGCTTGTT
* * * *
14557592 GTTAGCATTGTGAGTCTGAGAAGGACCTATCGGTGGTTATAGAGCTATCGTCGCATGTTCAAACT
1 GTTAGCACTGTGAGTCTGAGAAGGACCTATCAGTGGTTATAGAACTATCGTCGCATGGTCAAACT
* *
14557657 ATAAACACAGATATGTTATTTGATAATCACATATGGAATTGTTGAACACAAATC
66 ACAAACACAAATATGTTATTTGATAATCACATATGGAATTGTTGAACACAAATC
14557711 GTTAGCACCG
Statistics
Matches: 99, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
144 1 0.01
145 98 0.99
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (145 bp):
GTTAGCACTGTGAGTCTGAGAAGGACCTATCAGTGGTTATAGAACTATCGTCGCATGGTCAAACT
ACAAACACAAATATGTTATTTGATAATCACATATGGAATTGTTGAACACAAATCATTATAACCAT
CCTTACCGGCTTGTT
Found at i:14571880 original size:31 final size:31
Alignment explanation
Indices: 14571845--14571978 Score: 180
Period size: 31 Copynumber: 4.3 Consensus size: 31
14571835 CATAATATTG
*
14571845 TAACACACCATGCATATAACGTAAAATGTTA
1 TAACACGCCATGCATATAACGTAAAATGTTA
* *
14571876 TAACACGCCATGCATATAATGTAAAATGTTG
1 TAACACGCCATGCATATAACGTAAAATGTTA
14571907 TAACACGCCATGCATATAACGTAAAATGTTA
1 TAACACGCCATGCATATAACGTAAAATGTTA
* ** * *
14571938 AAACACGCCATGTGTATCAA-GTCAAATGTTG
1 TAACACGCCATGCATAT-AACGTAAAATGTTA
14571969 TAACACGCCA
1 TAACACGCCA
14571979 ACGCTGACAC
Statistics
Matches: 91, Mismatches: 11, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
31 89 0.98
32 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.14, T:0.25
Consensus pattern (31 bp):
TAACACGCCATGCATATAACGTAAAATGTTA
Found at i:14571919 original size:62 final size:62
Alignment explanation
Indices: 14571842--14571978 Score: 213
Period size: 62 Copynumber: 2.2 Consensus size: 62
14571832 ACTCATAATA
* *
14571842 TTGTAACACACCATGCATATAACGTAAAATGTTATAACACGCCATGCATAT-AATGTAAAATG
1 TTGTAACACGCCATGCATATAACGTAAAATGTTAAAACACGCCATGCATATCAA-GTAAAATG
** *
14571904 TTGTAACACGCCATGCATATAACGTAAAATGTTAAAACACGCCATGTGTATCAAGTCAAATG
1 TTGTAACACGCCATGCATATAACGTAAAATGTTAAAACACGCCATGCATATCAAGTAAAATG
14571966 TTGTAACACGCCA
1 TTGTAACACGCCA
14571979 ACGCTGACAC
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
62 67 0.97
63 2 0.03
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (62 bp):
TTGTAACACGCCATGCATATAACGTAAAATGTTAAAACACGCCATGCATATCAAGTAAAATG
Found at i:14572715 original size:23 final size:24
Alignment explanation
Indices: 14572688--14572768 Score: 89
Period size: 23 Copynumber: 3.5 Consensus size: 24
14572678 TGCACCTTGC
14572688 CGTGTCACAAATTCCCTCCATG-G
1 CGTGTCACAAATTCCCTCCATGTG
* *
14572711 CGTGTCACAAA--CTCTCAATGCTG
1 CGTGTCACAAATTCCCTCCATG-TG
*
14572734 CCGTGTCACAGATTCCCTCCATGTG
1 -CGTGTCACAAATTCCCTCCATGTG
14572759 -GTGTCACAAA
1 CGTGTCACAAA
14572769 CTCTAAACCC
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
21 7 0.15
23 21 0.45
24 10 0.21
25 2 0.04
26 7 0.15
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.26
Consensus pattern (24 bp):
CGTGTCACAAATTCCCTCCATGTG
Found at i:14572721 original size:47 final size:47
Alignment explanation
Indices: 14572614--14573012 Score: 425
Period size: 47 Copynumber: 8.6 Consensus size: 47
14572604 CCATAAATTG
* * * *
14572614 CCATGCCGTGTCACACACTCTAAACCCTTTCA-TGTCACAGA-T--CT
1 CCATGGCGTGTCACAAACTCTGAACCC-TGCAGTGTCACAGATTCCCT
* * * * * * *
14572658 CCATGGAGTCTGACAAACTCTGCACCTTGCCGTGTCACAAATTCCCT
1 CCATGGCGTGTCACAAACTCTGAACCCTGCAGTGTCACAGATTCCCT
* ** *
14572705 CCATGGCGTGTCACAAACTCTCAATGCTGCCGTGTCACAGATTCCCT
1 CCATGGCGTGTCACAAACTCTGAACCCTGCAGTGTCACAGATTCCCT
* **
14572752 CCATGTG-GTGTCACAAACTCTAAACCCTATAGTGTCACAGATTCCCT
1 CCATG-GCGTGTCACAAACTCTGAACCCTGCAGTGTCACAGATTCCCT
* *
14572799 CCAT-GCTGTGTCACAAACTCTGAACCCTGCAATGTCACAGATTCTCT
1 CCATGGC-GTGTCACAAACTCTGAACCCTGCAGTGTCACAGATTCCCT
* *
14572846 CCATGTCGTGTCACAAACTCTGAACCCTGCAATGTCACAGATTCCCT
1 CCATGGCGTGTCACAAACTCTGAACCCTGCAGTGTCACAGATTCCCT
* * * *
14572893 CCATGCCATGTCACAAACTCTGAACGCTGCCA-TGTCATAGATTCCCT
1 CCATGGCGTGTCACAAACTCTGAACCCTG-CAGTGTCACAGATTCCCT
* * * *
14572940 CCATGGTGTGTCACAAACTTTGAACCCTACTGTGTCACAGATTCCCT
1 CCATGGCGTGTCACAAACTCTGAACCCTGCAGTGTCACAGATTCCCT
* *
14572987 CCATGGTGTGTCACAAACTCTAAACC
1 CCATGGCGTGTCACAAACTCTGAACC
14573013 TTGTTGTGTC
Statistics
Matches: 298, Mismatches: 47, Indels: 17
0.82 0.13 0.05
Matches are distributed among these distances:
43 2 0.01
44 27 0.09
45 2 0.01
46 1 0.00
47 262 0.88
48 4 0.01
ACGTcount: A:0.25, C:0.33, G:0.16, T:0.27
Consensus pattern (47 bp):
CCATGGCGTGTCACAAACTCTGAACCCTGCAGTGTCACAGATTCCCT
Found at i:14572860 original size:23 final size:23
Alignment explanation
Indices: 14572688--14572862 Score: 79
Period size: 23 Copynumber: 7.5 Consensus size: 23
14572678 TGCACCTTGC
* *
14572688 CGTGTCACAAATTCCCTCCATGG
1 CGTGTCACAAATTCTCTCCATGT
*
14572711 CGTGTCACAAA--CTCTCAATGCT
1 CGTGTCACAAATTCTCTCCATG-T
* *
14572733 GCCGTGTCACAGATTCCCTCCATGT
1 --CGTGTCACAAATTCTCTCCATGT
* * ** * *
14572758 GGTGTCACAAACTCTAAACCCTAT
1 CGTGTCACAAATTCT-CTCCATGT
* * *
14572782 AGTGTCACAGATTCCCTCCATG-
1 CGTGTCACAAATTCTCTCCATGT
* ** *
14572804 CTGTGTCACAAACTCTGAACCCTG-
1 C-GTGTCACAAATTCT-CTCCATGT
* *
14572828 CAATGTCACAGATTCTCTCCATGT
1 C-GTGTCACAAATTCTCTCCATGT
14572852 CGTGTCACAAA
1 CGTGTCACAAA
14572863 CTCTGAACCC
Statistics
Matches: 105, Mismatches: 38, Indels: 18
0.65 0.24 0.11
Matches are distributed among these distances:
21 7 0.07
23 48 0.46
24 42 0.40
25 1 0.01
26 7 0.07
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (23 bp):
CGTGTCACAAATTCTCTCCATGT
Found at i:14572883 original size:24 final size:24
Alignment explanation
Indices: 14572807--14572929 Score: 81
Period size: 24 Copynumber: 5.2 Consensus size: 24
14572797 CTCCATGCTG
14572807 TGTCACAAACTCTGAACCCTGCAA
1 TGTCACAAACTCTGAACCCTGCAA
* * ** * *
14572831 TGTCACAGATTCT-CTCCATGTC-G
1 TGTCACAAACTCTGAACCCTG-CAA
14572854 TGTCACAAACTCTGAACCCTGCAA
1 TGTCACAAACTCTGAACCCTGCAA
* * *** * *
14572878 TGTCACAGATTC-CCTCCATGCCA
1 TGTCACAAACTCTGAACCCTGCAA
* *
14572901 TGTCACAAACTCTGAACGCTGCCA
1 TGTCACAAACTCTGAACCCTGCAA
14572925 TGTCA
1 TGTCA
14572930 TAGATTCCCT
Statistics
Matches: 69, Mismatches: 26, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
23 32 0.46
24 37 0.54
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.25
Consensus pattern (24 bp):
TGTCACAAACTCTGAACCCTGCAA
Found at i:14573000 original size:23 final size:23
Alignment explanation
Indices: 14572925--14573001 Score: 64
Period size: 23 Copynumber: 3.3 Consensus size: 23
14572915 AACGCTGCCA
*
14572925 TGTCATAGATTCCCTCCATGGTG
1 TGTCACAGATTCCCTCCATGGTG
* **** * **
14572948 TGTCACAAACTTTGAACCCTACTG
1 TGTCACAGA-TTCCCTCCATGGTG
14572972 TGTCACAGATTCCCTCCATGGTG
1 TGTCACAGATTCCCTCCATGGTG
14572995 TGTCACA
1 TGTCACA
14573002 AACTCTAAAC
Statistics
Matches: 36, Mismatches: 17, Indels: 2
0.65 0.31 0.04
Matches are distributed among these distances:
23 21 0.58
24 15 0.42
ACGTcount: A:0.22, C:0.29, G:0.18, T:0.31
Consensus pattern (23 bp):
TGTCACAGATTCCCTCCATGGTG
Found at i:14576777 original size:38 final size:40
Alignment explanation
Indices: 14576713--14576814 Score: 118
Period size: 38 Copynumber: 2.6 Consensus size: 40
14576703 TGCCTGTACC
* * * *
14576713 CACGATGTGGGGGCATATACACGATGGCA-CTGATA-GTG
1 CACGATGTGGGGGAATGTACATGATGGCACCGGATATGTG
* *
14576751 CACGATGTGGGGGAATGCACATGATGGCACCGGCTATGTG
1 CACGATGTGGGGGAATGTACATGATGGCACCGGATATGTG
* *
14576791 CATGATGTGGGGGGATGTACATGA
1 CACGATGTGGGGGAATGTACATGA
14576815 GCCGGGTGTG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 25 0.47
39 4 0.08
40 24 0.45
ACGTcount: A:0.25, C:0.17, G:0.37, T:0.22
Consensus pattern (40 bp):
CACGATGTGGGGGAATGTACATGATGGCACCGGATATGTG
Found at i:14585472 original size:19 final size:18
Alignment explanation
Indices: 14585436--14585478 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
14585426 AGGTGAGAAG
*
14585436 AATAATTTAGAATAAAAT
1 AATATTTTAGAATAAAAT
* *
14585454 ATTATTTTATGAATGAAAT
1 AATATTTTA-GAATAAAAT
14585473 AATATT
1 AATATT
14585479 AAAATATTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (18 bp):
AATATTTTAGAATAAAAT
Found at i:14585845 original size:2 final size:2
Alignment explanation
Indices: 14585838--14585878 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
14585828 AGTTAATAAA
*
14585838 AT AT AT AT AT AT AT AT AT A- AT AT AT A- AT A- AT AT AA AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14585877 AT
1 AT
14585879 GGGAAGAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
1 3 0.09
2 31 0.91
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:14585857 original size:21 final size:23
Alignment explanation
Indices: 14585833--14585878 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
14585823 ATTGAAGTTA
*
14585833 ATAAAATAT-AT-ATATATATAT
1 ATAAAATATAATAATATAAATAT
*
14585854 ATAATATATAATAATATAAATAT
1 ATAAAATATAATAATATAAATAT
14585877 AT
1 AT
14585879 GGGAAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 2 0.10
23 11 0.52
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
ATAAAATATAATAATATAAATAT
Found at i:14594657 original size:37 final size:37
Alignment explanation
Indices: 14594587--14594658 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 37
14594577 CTGCACTCCC
** *
14594587 TACTCGCACATGGCTCGGTCATCACCAGTTTATGCGG
1 TACTCGCACATAACTCGGTCATCACCAGCTTATGCGG
* * *
14594624 TACTCGCACATAACTGGGTCATCATCGGCTTATGC
1 TACTCGCACATAACTCGGTCATCACCAGCTTATGC
14594659 ACACTCCCTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.21, C:0.29, G:0.22, T:0.28
Consensus pattern (37 bp):
TACTCGCACATAACTCGGTCATCACCAGCTTATGCGG
Found at i:14600861 original size:43 final size:43
Alignment explanation
Indices: 14600785--14600903 Score: 150
Period size: 43 Copynumber: 2.8 Consensus size: 43
14600775 TCACCAGCTC
* * *** *
14600785 ATGCGCACTCCCTACTCGCACATGGCTGGGTCATCAC-CGGGTT
1 ATGCGCACTCTCTACTCGCACATAGCCAAGTCATC-CTCGGCTT
*
14600828 ATGCGCACTCTCTACTCGCACATAACCAAGTCATCCTCGGCTT
1 ATGCGCACTCTCTACTCGCACATAGCCAAGTCATCCTCGGCTT
*
14600871 ATGCGCACTCTCTACTCGTACATAGCCAAGTCA
1 ATGCGCACTCTCTACTCGCACATAGCCAAGTCA
14600904 ATGTCATTAG
Statistics
Matches: 66, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
42 1 0.02
43 65 0.98
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.24
Consensus pattern (43 bp):
ATGCGCACTCTCTACTCGCACATAGCCAAGTCATCCTCGGCTT
Found at i:14605494 original size:164 final size:164
Alignment explanation
Indices: 14605223--14605550 Score: 611
Period size: 164 Copynumber: 2.0 Consensus size: 164
14605213 ATCGTACGTC
14605223 CTCCTTATATTGACCTCAAATACAATCCATAGTCTCCAAAATTTTAATTTTAATTTTTTTTAATC
1 CTCCTTATATTGACCTCAAATACAATCCATAGTCTCCAAAATTTTAATTTTAATTTTTTTTAATC
*
14605288 ATGGGTTCAAATCATAATTCCATCAAATGAATAAACTATTACGGACTTAACAGTCTAGCTCCACC
66 ATGGGTTCAAATCATAATTCCACCAAATGAATAAACTATTACGGACTTAACAGTCTAGCTCCACC
*
14605353 TTCCTCTATCCTTAGTCGGAGGAATATATCATTA
131 TTCCTCTATCCTTAGTCGGAGAAATATATCATTA
14605387 CTCCTTATATTGACCTCAAATACAATCCATAGTCTCCAAAATTTTAATTTTAATTTTTTTTAATC
1 CTCCTTATATTGACCTCAAATACAATCCATAGTCTCCAAAATTTTAATTTTAATTTTTTTTAATC
*
14605452 ATGGGTTCAAATCATAATTCCACCAAATGAATAAACTATTACGGATTTAACAGTCTAGCTCCACC
66 ATGGGTTCAAATCATAATTCCACCAAATGAATAAACTATTACGGACTTAACAGTCTAGCTCCACC
* *
14605517 TTGCTCTATCCTTAGTTGGAGAAATATATCATTA
131 TTCCTCTATCCTTAGTCGGAGAAATATATCATTA
14605551 TATTGGCCTT
Statistics
Matches: 159, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
164 159 1.00
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (164 bp):
CTCCTTATATTGACCTCAAATACAATCCATAGTCTCCAAAATTTTAATTTTAATTTTTTTTAATC
ATGGGTTCAAATCATAATTCCACCAAATGAATAAACTATTACGGACTTAACAGTCTAGCTCCACC
TTCCTCTATCCTTAGTCGGAGAAATATATCATTA
Found at i:14607165 original size:43 final size:43
Alignment explanation
Indices: 14607117--14607248 Score: 156
Period size: 43 Copynumber: 3.1 Consensus size: 43
14607107 CACCATCCCA
* * * * *
14607117 TCATCATCAGCTCATGTGCACTCTCTACTCGCACATGGCTGGG
1 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAGCTGGG
* * * * **
14607160 TCATCATCGGTTTATGCGTACTCCCTACTCCCACATAACCAGG
1 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAGCTGGG
*
14607203 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAGCTGAG
1 TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAGCTGGG
14607246 TCA
1 TCA
14607249 ATATCATTAC
Statistics
Matches: 71, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 71 1.00
ACGTcount: A:0.21, C:0.34, G:0.17, T:0.27
Consensus pattern (43 bp):
TCATCATCGGCTTATGCGCACTCCCTACTCGCACATAGCTGGG
Found at i:14608437 original size:35 final size:35
Alignment explanation
Indices: 14608390--14608482 Score: 141
Period size: 35 Copynumber: 2.7 Consensus size: 35
14608380 GAGGAGTAGC
* **
14608390 TTTTGCTGCTGATTTTGAAGGCTCAAAAGTGTGGT
1 TTTTGCTACTGATTTTGAAGGCTCAAAAGTGCAGT
* *
14608425 TTTTGCTACTGATTTTGAAGGTTGAAAAGTGCAGT
1 TTTTGCTACTGATTTTGAAGGCTCAAAAGTGCAGT
14608460 TTTTGCTACTGATTTTGAAGGCT
1 TTTTGCTACTGATTTTGAAGGCT
14608483 GAACGATATG
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 52 1.00
ACGTcount: A:0.22, C:0.11, G:0.26, T:0.42
Consensus pattern (35 bp):
TTTTGCTACTGATTTTGAAGGCTCAAAAGTGCAGT
Found at i:14608497 original size:35 final size:33
Alignment explanation
Indices: 14608390--14608521 Score: 115
Period size: 35 Copynumber: 3.8 Consensus size: 33
14608380 GAGGAGTAGC
* * *
14608390 TTTTGCTGCTGATTTTGAAGGCTCAAAAGTGTGGT
1 TTTTGCTACTGATTTTGAAGGCT-GAAA-TATGGT
*
14608425 TTTTGCTACTGATTTTGAAGGTTGAAA-AGTGCAGT
1 TTTTGCTACTGATTTTGAAGGCTGAAATA-TG--GT
14608460 TTTTGCTACTGATTTTGAAGGCTGAACGATATGGT
1 TTTTGCTACTGATTTTGAAGGCTGAA--ATATGGT
* * *
14608495 TTTAGTTGCTGGA-TTTGAAGGCTGAAA
1 TTTTGCTACT-GATTTTGAAGGCTGAAA
14608522 GGTGCAATTT
Statistics
Matches: 82, Mismatches: 8, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
33 3 0.04
34 3 0.04
35 70 0.85
36 2 0.02
37 3 0.04
38 1 0.01
ACGTcount: A:0.23, C:0.10, G:0.27, T:0.39
Consensus pattern (33 bp):
TTTTGCTACTGATTTTGAAGGCTGAAATATGGT
Found at i:14608512 original size:70 final size:70
Alignment explanation
Indices: 14608390--14608532 Score: 164
Period size: 70 Copynumber: 2.0 Consensus size: 70
14608380 GAGGAGTAGC
* * * *
14608390 TTTTGCTGCTGATTTTGAAGGCTCAAAAGTGTGGTTTTTGCTACTGATTTTGAAGGTTGAAAAGT
1 TTTTGCTACTGATTTTGAAGGCTCAAAAGTATGGTTTTAGCTACTGATTTTGAAGGCTGAAAAGT
*
14608455 GCAGT
66 GCAAT
* * * * *
14608460 TTTTGCTACTGATTTTGAAGGCT-GAACGATATGGTTTTAGTTGCTGGA-TTTGAAGGCTGAAAG
1 TTTTGCTACTGATTTTGAAGGCTCAAAAG-TATGGTTTTAGCTACT-GATTTTGAAGGCTGAAAA
14608523 GTGCAAT
64 GTGCAAT
14608530 TTT
1 TTT
14608533 GGTTGTTAAT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
69 3 0.05
70 56 0.92
71 2 0.03
ACGTcount: A:0.23, C:0.10, G:0.27, T:0.40
Consensus pattern (70 bp):
TTTTGCTACTGATTTTGAAGGCTCAAAAGTATGGTTTTAGCTACTGATTTTGAAGGCTGAAAAGT
GCAAT
Found at i:14608628 original size:34 final size:34
Alignment explanation
Indices: 14608550--14608631 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 34
14608540 AATCTTTGTG
14608550 GCTTTGGCTGCTGATTTTTGAGGAGAAATAGAGCA
1 GCTTTGGCTGCTGATTTTTGA-GAGAAATAGAGCA
* *
14608585 GC-TTAGCTGCTGA-TTTTGA-AGTCAATATGAGCA
1 GCTTTGGCTGCTGATTTTTGAGAG-AAATA-GAGCA
14608618 GCTTTGGCTGCTGA
1 GCTTTGGCTGCTGA
14608632 AAAATTATTG
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
31 2 0.05
32 4 0.10
33 13 0.32
34 20 0.49
35 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.33
Consensus pattern (34 bp):
GCTTTGGCTGCTGATTTTTGAGAGAAATAGAGCA
Found at i:14608778 original size:5 final size:5
Alignment explanation
Indices: 14608760--14608800 Score: 50
Period size: 5 Copynumber: 8.6 Consensus size: 5
14608750 TTGGATGGTG
* *
14608760 AAAG- AAAG- AAAGA AAAGA AAAGG AAAGA AAAGA AATGA AAA
1 AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAA
14608801 AAGAGTGGGC
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
4 8 0.25
5 24 0.75
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:14611743 original size:19 final size:19
Alignment explanation
Indices: 14611702--14611743 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
14611692 GAAGAAGGAG
*
14611702 AAGAAGCTGCTGGAGAATG
1 AAGAAGCTGCTGGAGAATA
14611721 AAGAAGCTGCTGGAAGAA-A
1 AAGAAGCTGCTGG-AGAATA
14611740 AAGA
1 AAGA
14611744 TATCTATAGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.45, C:0.10, G:0.33, T:0.12
Consensus pattern (19 bp):
AAGAAGCTGCTGGAGAATA
Found at i:14612614 original size:32 final size:32
Alignment explanation
Indices: 14612540--14612614 Score: 80
Period size: 32 Copynumber: 2.3 Consensus size: 32
14612530 CATGATCACC
*
14612540 TTTGGAGACATTAAGGATGATGATATGCCCTGAT
1 TTTGGAG--ATTAAGGATAATGATATGCCCTGAT
* * *
14612574 ATTAGAGATTAAGGATAATGATATGCTCT-AT
1 TTTGGAGATTAAGGATAATGATATGCCCTGAT
14612605 GTTTGGAGAT
1 -TTTGGAGAT
14612615 GTTTGTTGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
31 2 0.06
32 27 0.79
34 5 0.15
ACGTcount: A:0.32, C:0.08, G:0.25, T:0.35
Consensus pattern (32 bp):
TTTGGAGATTAAGGATAATGATATGCCCTGAT
Found at i:14615835 original size:34 final size:35
Alignment explanation
Indices: 14615790--14615875 Score: 120
Period size: 34 Copynumber: 2.5 Consensus size: 35
14615780 GCAGCTTTAG
14615790 CTACTGATTTTGAAGGCTGAAAAGTGCAG-TTTTT
1 CTACTGATTTTGAAGGCTGAAAAGTGCAGATTTTT
* * *
14615824 CTACTGGTTTTGAAGGCTGAGAAGTGTAGATTTTT
1 CTACTGATTTTGAAGGCTGAAAAGTGCAGATTTTT
*
14615859 CCAGCTGATTTTGAAGG
1 CTA-CTGATTTTGAAGG
14615876 TTGTAAGGTG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
34 26 0.58
35 7 0.16
36 12 0.27
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (35 bp):
CTACTGATTTTGAAGGCTGAAAAGTGCAGATTTTT
Found at i:14616197 original size:5 final size:5
Alignment explanation
Indices: 14616176--14616210 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
14616166 GAGGAAGAGA
*
14616176 AAAAG AGAAAT AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG A-AAAG AAAAG AAAAG AAAAG AAAAG AAAA
14616211 ATATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.03
Consensus pattern (5 bp):
AAAAG
Found at i:14624528 original size:2 final size:2
Alignment explanation
Indices: 14624516--14624555 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
14624506 ATAATAATAG
*
14624516 TA TA TA AA 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
14624556 AAGATAGACC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:14625161 original size:34 final size:34
Alignment explanation
Indices: 14625091--14625208 Score: 184
Period size: 34 Copynumber: 3.4 Consensus size: 34
14625081 CTTTGTTGTT
* *
14625091 TTAGCTGCTGATTTTT-GGAGGGAAAATAGAGCAGC
1 TTAGCTGCTGATTTTTAAGA-AG-AAATAGAGCAGC
*
14625126 TTAGCTGCTGATTTTTAAGAAGAAATAGAGTAGC
1 TTAGCTGCTGATTTTTAAGAAGAAATAGAGCAGC
14625160 TTAGCTGCTGATTTTTAAGAAGAAATAGAGCAGC
1 TTAGCTGCTGATTTTTAAGAAGAAATAGAGCAGC
14625194 TTAGCTGCTGATTTT
1 TTAGCTGCTGATTTT
14625209 GAAGTCAATA
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
34 59 0.76
35 17 0.22
36 2 0.03
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (34 bp):
TTAGCTGCTGATTTTTAAGAAGAAATAGAGCAGC
Found at i:14625231 original size:34 final size:33
Alignment explanation
Indices: 14625091--14625234 Score: 148
Period size: 34 Copynumber: 4.2 Consensus size: 33
14625081 CTTTGTTGTT
* * *
14625091 TTAGCTGCTGATTTTTGGAGGGAAAATAGAGCAGC
1 TTAGCTGCTGATTTTTAGA-AG-AAATAGAGCACC
* *
14625126 TTAGCTGCTGATTTTTAAGAAGAAATAGAGTAGC
1 TTAGCTGCTGATTTTT-AGAAGAAATAGAGCACC
*
14625160 TTAGCTGCTGATTTTTAAGAAGAAATAGAGCAGC
1 TTAGCTGCTGATTTTT-AGAAGAAATAGAGCACC
*
14625194 TTAGCTGCTGA-TTTT-GAAGTCAATATGAGCAACC
1 TTAGCTGCTGATTTTTAGAAG-AAATA-GAGC-ACC
14625228 TTAGCTG
1 TTAGCTG
14625235 TTGAAAAATT
Statistics
Matches: 99, Mismatches: 6, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
31 4 0.04
32 4 0.04
33 8 0.08
34 64 0.65
35 17 0.17
36 2 0.02
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (33 bp):
TTAGCTGCTGATTTTTAGAAGAAATAGAGCACC
Found at i:14625231 original size:68 final size:68
Alignment explanation
Indices: 14625091--14625234 Score: 170
Period size: 68 Copynumber: 2.1 Consensus size: 68
14625081 CTTTGTTGTT
* *
14625091 TTAGCTGCTGATTTTTGGAGGGAAAATAGAGCAGCTTAGCTGCTGATTTTTAAGAAGAAATAGAG
1 TTAGCTGCTGATTTTTAGAGAGAAAATAGAGCAGCTTAGCTGCTGATTTTT-AGAAGAAATAGAG
* *
14625156 TAGC
65 AACC
*
14625160 TTAGCTGCTGATTTTTA-AGA-AGAAATAGAGCAGCTTAGCTGCTGA-TTTT-GAAGTCAATATG
1 TTAGCTGCTGATTTTTAGAGAGA-AAATAGAGCAGCTTAGCTGCTGATTTTTAGAAG-AAATA-G
14625221 AGCAACC
63 AG-AACC
14625228 TTAGCTG
1 TTAGCTG
14625235 TTGAAAAATT
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
65 4 0.06
66 4 0.06
67 8 0.12
68 34 0.52
69 16 0.24
ACGTcount: A:0.31, C:0.12, G:0.25, T:0.31
Consensus pattern (68 bp):
TTAGCTGCTGATTTTTAGAGAGAAAATAGAGCAGCTTAGCTGCTGATTTTTAGAAGAAATAGAGA
ACC
Found at i:14625404 original size:5 final size:5
Alignment explanation
Indices: 14625370--14625437 Score: 75
Period size: 5 Copynumber: 13.2 Consensus size: 5
14625360 TCGGTTGGAG
* *
14625370 AGAAA AGGAAG AGAAAA AGAGAA CGAAA AGAAA AGAAA AGAAA AGAAA
1 AGAAA A-GAAA AG-AAA AGA-AA AGAAA AGAAA AGAAA AGAAA AGAAA
*
14625418 AGAAG AGAAA AG-AA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA A
14625438 ATATATATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
4 4 0.08
5 37 0.70
6 12 0.23
ACGTcount: A:0.74, C:0.01, G:0.25, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:14628567 original size:68 final size:67
Alignment explanation
Indices: 14628414--14628578 Score: 163
Period size: 68 Copynumber: 2.4 Consensus size: 67
14628404 CAATTCATAG
* * * *
14628414 AGTATATGGAAAA-ATACATCATATTCATAATCTCATGTCTTTATCATGTCTTTTCAATCATTTT
1 AGTATAT--AAAATATACATCATATACATAATCTCATGCCTTCATCATGTCTTTTCAATCATCTT
14628478 AAAT
64 AAAT
* * *
14628482 AGTATATAAAATGTACATTATATACATAATTTCATGCCATTCATCATG-CTTTCTCAATCATCTT
1 AGTATATAAAATATACATCATATACATAATCTCATGCC-TTCATCATGTCTTT-TCAATCATCTT
**
14628546 ATGT
64 AAAT
*** *
14628550 AGTATATGGTATATACATCATACACATAA
1 AGTATATAAAATATACATCATATACATAA
14628579 CATAACATCT
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
66 4 0.05
67 25 0.32
68 50 0.63
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (67 bp):
AGTATATAAAATATACATCATATACATAATCTCATGCCTTCATCATGTCTTTTCAATCATCTTAA
AT
Found at i:14631474 original size:42 final size:42
Alignment explanation
Indices: 14631417--14631542 Score: 182
Period size: 43 Copynumber: 3.0 Consensus size: 42
14631407 TTGTGTTATA
14631417 ATGATGACCCAGCTATGTGCGTATGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGTATGGGAGTGCACATGAGCTG
* * *
14631459 ATGATGACCCAGCTATGTACGGTGTGGAAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGC-GTATGGGAGTGCACATGAGCTG
*
14631502 ATGATGACCCTGCTATGTGCG-AGTAGGGAGTGCACATGAGC
1 ATGATGACCCAGCTATGTGCGTA-T-GGGAGTGCACATGAGC
14631543 GGAGTGTGGT
Statistics
Matches: 74, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
42 21 0.28
43 53 0.72
ACGTcount: A:0.25, C:0.19, G:0.33, T:0.23
Consensus pattern (42 bp):
ATGATGACCCAGCTATGTGCGTATGGGAGTGCACATGAGCTG
Found at i:14632999 original size:38 final size:40
Alignment explanation
Indices: 14632910--14633012 Score: 147
Period size: 38 Copynumber: 2.6 Consensus size: 40
14632900 ACCAGGCTCA
* *
14632910 TGTACATCCCCCCACATCGTGCACATAGCCGGCACCATCG
1 TGTACATCCCCCCACATCGTGCACATAGCCAGCACCAACG
* **
14632950 TGTGCATCCCCCCACATCGTGCACA-A-CCAGTGCCAACG
1 TGTACATCCCCCCACATCGTGCACATAGCCAGCACCAACG
14632988 TGTACATCCCCCCACATCGTGCACA
1 TGTACATCCCCCCACATCGTGCACA
14633013 CGGGCACTAT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
38 32 0.56
39 1 0.02
40 24 0.42
ACGTcount: A:0.23, C:0.43, G:0.17, T:0.17
Consensus pattern (40 bp):
TGTACATCCCCCCACATCGTGCACATAGCCAGCACCAACG
Found at i:14636656 original size:53 final size:50
Alignment explanation
Indices: 14636557--14636656 Score: 119
Period size: 53 Copynumber: 1.9 Consensus size: 50
14636547 TTGAAAAGAA
* *
14636557 AGAATCCTTTATGGATTGTGTGGGTTACCACTTCATCCCTTAAAAAAACG
1 AGAATCCTTTATGGATCGTGTGGGTTACCACTTCATCCCATAAAAAAACG
* * * *
14636607 AGAATCTCTTTGTGGATCGTGTAAGGGTTATCACTTGATCCCATGAAAAA
1 AGAATC-CTTTATGGATCGTGT--GGGTTACCACTTCATCCCATAAAAAA
14636657 GCTATTGTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
50 6 0.15
51 13 0.32
53 22 0.54
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (50 bp):
AGAATCCTTTATGGATCGTGTGGGTTACCACTTCATCCCATAAAAAAACG
Found at i:14643303 original size:54 final size:54
Alignment explanation
Indices: 14643240--14643452 Score: 311
Period size: 54 Copynumber: 3.9 Consensus size: 54
14643230 ATGGTGATAC
* *
14643240 TGTCCGACTATGTGCACGATGTGGTGGGATGCACATGAGCTTGGTGAGATGGGA
1 TGTCTGACTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGA
* * * *
14643294 T-TTTCGACTATGTGCACGATGTGGTGGGATGCACATGAGCCGAGTGTGATGGGA
1 TGTCT-GACTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGA
* * * *
14643348 TGTCTGGCTATGTGCACAATGTGGTGGGATGCACATGAGCCGGGTGAGGTGGGA
1 TGTCTGACTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGA
*
14643402 TGTCTAACTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATG
1 TGTCTGACTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATG
14643453 CACATGATGA
Statistics
Matches: 140, Mismatches: 17, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
53 1 0.01
54 137 0.98
55 2 0.01
ACGTcount: A:0.20, C:0.15, G:0.39, T:0.26
Consensus pattern (54 bp):
TGTCTGACTATGTGCACGATGTGGTGGGATGCACATGAGCTGGGTGAGATGGGA
Found at i:14644318 original size:53 final size:50
Alignment explanation
Indices: 14644218--14644327 Score: 121
Period size: 53 Copynumber: 2.1 Consensus size: 50
14644208 CTTCCCATTT
* * * **
14644218 AAAAATCAAGAATCCTTTATGGATTGTGTGGGTTATTGCTTAATCCCATG
1 AAAAAGCAAGAATCCTTTATGGATTCTGTAGGTTATCACTTAATCCCATG
* *
14644268 AAAAAGCAAGAATGTCTTTATGGATTCTGTAAAGGTTATCACTTGATCCCATG
1 AAAAAGCAAGAAT-CCTTTATGGATTCTGT--AGGTTATCACTTAATCCCATG
*
14644321 AGAAAGC
1 AAAAAGC
14644328 TATTGTAAAG
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
50 12 0.24
51 14 0.29
53 23 0.47
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.32
Consensus pattern (50 bp):
AAAAAGCAAGAATCCTTTATGGATTCTGTAGGTTATCACTTAATCCCATG
Found at i:14644942 original size:69 final size:69
Alignment explanation
Indices: 14644853--14645000 Score: 199
Period size: 69 Copynumber: 2.1 Consensus size: 69
14644843 TTTATAAAGG
* * * *
14644853 AAAGATGGCAGGTTCATCAATCTTGACCCTGTGTTATTCTTACGCCCACA-TAGGGCTTTTATAA
1 AAAGATGGCAGGTACATCAATCTTGACCCTGTGGTATACTTACCCCCACACT-GGGCTTTTATAA
14644917 GGGGA
65 GGGGA
* * **
14644922 AAAGATGGCATGTACGTCAATCTTGACGTTGTGGTATACTTACCCCCACACTGGGCTTTTATAAG
1 AAAGATGGCAGGTACATCAATCTTGACCCTGTGGTATACTTACCCCCACACTGGGCTTTTATAAG
*
14644987 GGTA
66 GGGA
14644991 AAAGATGGCA
1 AAAGATGGCA
14645001 CATTCTCCGA
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
69 68 0.99
70 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.24, T:0.29
Consensus pattern (69 bp):
AAAGATGGCAGGTACATCAATCTTGACCCTGTGGTATACTTACCCCCACACTGGGCTTTTATAAG
GGGA
Found at i:14645014 original size:69 final size:69
Alignment explanation
Indices: 14644869--14645038 Score: 182
Period size: 69 Copynumber: 2.5 Consensus size: 69
14644859 GGCAGGTTCA
* * * **
14644869 TCAATCTTGACCCTGTGTTATTCTTACGCCCACATAGGGCTTTTATAAGGGGAAAAGATGGCATG
1 TCAATCTTGACCCTGTGGTATACTTACCCCCACATAGGGCTTTTATAAGGGGAAAAGATGGCACA
14644934 TACG
66 TACG
** *
14644938 TCAATCTTGACGTTGTGGTATACTTACCCCCACACT-GGGCTTTTATAAGGGTAAAAGATGGCAC
1 TCAATCTTGACCCTGTGGTATACTTACCCCCACA-TAGGGCTTTTATAAGGGGAAAAGATGGCAC
*
14645002 ATTC-
65 ATACG
* * * * *
14645006 TCCGATCTTGACCATATAGTATTCTTACCCCCA
1 T-CAATCTTGACCCTGTGGTATACTTACCCCCA
14645039 TATCAGGCTT
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
68 1 0.01
69 82 0.98
70 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (69 bp):
TCAATCTTGACCCTGTGGTATACTTACCCCCACATAGGGCTTTTATAAGGGGAAAAGATGGCACA
TACG
Found at i:14647443 original size:43 final size:42
Alignment explanation
Indices: 14647338--14647446 Score: 137
Period size: 42 Copynumber: 2.6 Consensus size: 42
14647328 TGTGTGAGTA
* * **
14647338 GGAGTGTACATAAGCCGATGATGACCCGGTTATGTGCAAGTG
1 GGAGTGCACATAAGCCGATGATGACCCAGCCATGTGCAAGTG
* *
14647380 AGAGTGCACATAAGCCGATGATGACCCAGCCATGTGCTAGTGG
1 GGAGTGCACATAAGCCGATGATGACCCAGCCATGTGCAAGT-G
* *
14647423 GGAGTGCACATGAGCTGATGATGA
1 GGAGTGCACATAAGCCGATGATGA
14647447 TGGGAGAGTG
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
42 35 0.61
43 22 0.39
ACGTcount: A:0.28, C:0.18, G:0.33, T:0.21
Consensus pattern (42 bp):
GGAGTGCACATAAGCCGATGATGACCCAGCCATGTGCAAGTG
Found at i:14647948 original size:19 final size:19
Alignment explanation
Indices: 14647924--14647960 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
14647914 AGGTTTGGTG
*
14647924 AGAAACCCTCGGCTAGTTA
1 AGAAACCCTCAGCTAGTTA
14647943 AGAAACCCTCAGCTAGTT
1 AGAAACCCTCAGCTAGTT
14647961 GATAATTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (19 bp):
AGAAACCCTCAGCTAGTTA
Found at i:14659493 original size:23 final size:23
Alignment explanation
Indices: 14659462--14659516 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
14659452 TATACATATA
*
14659462 CCCAACATCATCATACACACCAT
1 CCCATCATCATCATACACACCAT
*
14659485 CCCATCATCATCATGCACACCAT
1 CCCATCATCATCATACACACCAT
14659508 CCCATCATC
1 CCCATCATC
14659517 CCCAGCTCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.33, C:0.45, G:0.02, T:0.20
Consensus pattern (23 bp):
CCCATCATCATCATACACACCAT
Found at i:14659580 original size:43 final size:43
Alignment explanation
Indices: 14659525--14659634 Score: 141
Period size: 43 Copynumber: 2.6 Consensus size: 43
14659515 TCCCCAGCTC
* ** *
14659525 ATGCGCACTCCCTACTCGCACATGGCTAGG-TCATCATCGGGTT
1 ATGCACACTCCCTACTCGCACATAACT-GGATCATCATCGGCTT
*
14659568 ATGCACATTCCCTACTCGCACATAACTGGATCATCATCGGCTT
1 ATGCACACTCCCTACTCGCACATAACTGGATCATCATCGGCTT
* *
14659611 ATGCGCACTCCCTACTCTCACATA
1 ATGCACACTCCCTACTCGCACATA
14659635 GCCGAGTCAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 2 0.03
43 56 0.97
ACGTcount: A:0.23, C:0.35, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGCACACTCCCTACTCGCACATAACTGGATCATCATCGGCTT
Found at i:14662734 original size:2 final size:2
Alignment explanation
Indices: 14662722--14662778 Score: 87
Period size: 2 Copynumber: 28.0 Consensus size: 2
14662712 CTATCAATAC
* *
14662722 AT AT CAT AT AT AT TT AG AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14662765 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
14662779 CAACATAACA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 48 0.96
3 2 0.04
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14679145 original size:20 final size:20
Alignment explanation
Indices: 14679117--14679155 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14679107 CTTCAAGCAC
* *
14679117 TATTCTCAATTATCATCAAG
1 TATTATCAATCATCATCAAG
14679137 TATTATCAATCATCATCAA
1 TATTATCAATCATCATCAA
14679156 ACATTCATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (20 bp):
TATTATCAATCATCATCAAG
Found at i:14687030 original size:49 final size:49
Alignment explanation
Indices: 14686965--14687061 Score: 167
Period size: 49 Copynumber: 2.0 Consensus size: 49
14686955 CGTCATAGTC
* *
14686965 GGGTCATCATCATCATCTACTTATGCGCACTCCCTACTCGCACATAGCT
1 GGGTCATCATCATCATCGACTTATGCGCACTCCCTACTCACACATAGCT
*
14687014 GGGTCATCATCATCATCGGCTTATGCGCACTCCCTACTCACACATAGC
1 GGGTCATCATCATCATCGACTTATGCGCACTCCCTACTCACACATAGC
14687062 CAGGTCAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.23, C:0.35, G:0.15, T:0.27
Consensus pattern (49 bp):
GGGTCATCATCATCATCGACTTATGCGCACTCCCTACTCACACATAGCT
Found at i:14698813 original size:2 final size:2
Alignment explanation
Indices: 14698806--14698856 Score: 79
Period size: 2 Copynumber: 26.0 Consensus size: 2
14698796 TATGACATAG
14698806 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TCA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA
14698848 TA T- TA TA TA
1 TA TA TA TA TA
14698857 GAAACATATG
Statistics
Matches: 46, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.04
2 43 0.93
3 1 0.02
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:14700118 original size:35 final size:34
Alignment explanation
Indices: 14700075--14700144 Score: 86
Period size: 35 Copynumber: 2.0 Consensus size: 34
14700065 TTTCACCAAG
* *
14700075 CTTTACAATGGCTTTTACCAGACTCAGCCAAAAC
1 CTTTACAATGGCTTTTACCAGAATCAACCAAAAC
* * *
14700109 CTTTCACAATGGTTTTTATCGGAATCAACCAAAAC
1 CTTT-ACAATGGCTTTTACCAGAATCAACCAAAAC
14700144 C
1 C
14700145 CAACAACTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
34 4 0.13
35 26 0.87
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.29
Consensus pattern (34 bp):
CTTTACAATGGCTTTTACCAGAATCAACCAAAAC
Found at i:14700755 original size:73 final size:73
Alignment explanation
Indices: 14700607--14700766 Score: 189
Period size: 73 Copynumber: 2.2 Consensus size: 73
14700597 GCAGTGAGCA
* * * * * * * * *
14700607 CTTAGTTGACTAACTTTCTTCTTAGTCGATTAAGTTGTTTTTGTTTTGAAGTCTAGATTTCTAGT
1 CTTAGTCGACTAACTTACTTCTTAGTCAATTAAGTTGGTTCTGTCTTGAAGTCCAAATTTCTAGC
14700672 AGTATGCT
66 AGTATGCT
* *
14700680 CTTAGTCGACTAACTTACTTCTTGGTCAATTAAGTTGGTTCTGTCTTGAAGTCCAAATTT-TTGA
1 CTTAGTCGACTAACTTACTTCTTAGTCAATTAAGTTGGTTCTGTCTTGAAGTCCAAATTTCTAG-
14700744 CAGTA-GACT
65 CAGTATG-CT
14700753 CTTAGTCGACTAAC
1 CTTAGTCGACTAAC
14700767 CCATTTCTTG
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
72 3 0.04
73 71 0.96
ACGTcount: A:0.23, C:0.16, G:0.17, T:0.43
Consensus pattern (73 bp):
CTTAGTCGACTAACTTACTTCTTAGTCAATTAAGTTGGTTCTGTCTTGAAGTCCAAATTTCTAGC
AGTATGCT
Found at i:14702214 original size:42 final size:42
Alignment explanation
Indices: 14702155--14702329 Score: 226
Period size: 42 Copynumber: 4.1 Consensus size: 42
14702145 TTATGTAATA
* *
14702155 ATGATGACCCAGTTATGTGCGTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATATGCGTGTGGGAGTGCACATGAGCTG
* * **
14702197 ATGATGACCCAGCTATGTGTGTGTGAAAGTGCACATGAGCTG
1 ATGATGACCCAGCTATATGCGTGTGGGAGTGCACATGAGCTG
* * *
14702239 ATAATGACTCAACTATATGCG-GTGTGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATATGCGTGTG-GGAGTGCACATGAGCTG
* *
14702281 ATGATGACCCAGCTATATGCGAGTGGGGAATGCACATGAGCTG
1 ATGATGACCCAGCTATATGCGTGT-GGGAGTGCACATGAGCTG
14702324 ATGATG
1 ATGATG
14702330 GTAGCATGAT
Statistics
Matches: 115, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
41 3 0.03
42 87 0.76
43 24 0.21
44 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.32, T:0.25
Consensus pattern (42 bp):
ATGATGACCCAGCTATATGCGTGTGGGAGTGCACATGAGCTG
Found at i:14703950 original size:19 final size:21
Alignment explanation
Indices: 14703924--14703969 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
14703914 GGCCTATAAA
14703924 TATCTTG-AATTTCCAGCAGC
1 TATCTTGAAATTTCCAGCAGC
14703944 T-TCTTGAAATTTCCAGCAGC
1 TATCTTGAAATTTCCAGCAGC
14703964 TATCTT
1 TATCTT
14703970 CTTCTTCCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.21
20 15 0.62
21 4 0.17
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.39
Consensus pattern (21 bp):
TATCTTGAAATTTCCAGCAGC
Found at i:14704875 original size:43 final size:43
Alignment explanation
Indices: 14704756--14704877 Score: 129
Period size: 43 Copynumber: 2.8 Consensus size: 43
14704746 TGACTTGGCT
* * * **
14704756 ATGTACGAGTAGGGAGTGCGCATAAGTCGAG-GATGACCTAGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAG-CCAGTGATGACCCAGCC
* * * *
14704799 ATATGCGAGTAGGAAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCAGTGATGACCCAGCC
* *
14704842 ATGTGCGAGTAGGGAGTGCGCATGAGCTAGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCAGTGATGA
14704878 TGATGATGGG
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
42 2 0.03
43 61 0.97
ACGTcount: A:0.27, C:0.17, G:0.35, T:0.20
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCAGTGATGACCCAGCC
Found at i:14705396 original size:60 final size:60
Alignment explanation
Indices: 14705252--14705400 Score: 172
Period size: 60 Copynumber: 2.5 Consensus size: 60
14705242 CGAAATACAT
* * * * * **
14705252 TCTCGCTACAGAGAGAAACTTTATGTTTCTGGGTTGCAATTTCGCTGCAACGAGATTGAA
1 TCTCGCTGCAGAGAGAAACTTTCTGTTTTTGGGTTACAATTTCGCCGCAACGAGAAAGAA
* * * *
14705312 TTTCGCTGCAGCGAGAAACCTTCTGTTTTTGGGTTACAATTTTGCCGCAACGAGAAAGAA
1 TCTCGCTGCAGAGAGAAACTTTCTGTTTTTGGGTTACAATTTCGCCGCAACGAGAAAGAA
* * *
14705372 TCTCGCTGCAGTGAAAAATTTTCTGTTTT
1 TCTCGCTGCAGAGAGAAACTTTCTGTTTT
14705401 GGTCTCCTAT
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
60 73 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.34
Consensus pattern (60 bp):
TCTCGCTGCAGAGAGAAACTTTCTGTTTTTGGGTTACAATTTCGCCGCAACGAGAAAGAA
Found at i:14709774 original size:54 final size:54
Alignment explanation
Indices: 14709688--14709917 Score: 275
Period size: 54 Copynumber: 4.3 Consensus size: 54
14709678 TGTAATCGTG
* * *
14709688 CATGAGTTGGGTGAAATGTGGTGTCTGGCTATGTGCACGATGTGGTAGGATGCA
1 CATGAGTTGGGTGAGATGTGGTGTCTGGCTATGTGCACAATGTGGTGGGATGCA
* * * * * * * *
14709742 CATGAGCTGGGTGAGATGTTGTGTTTGACTATGTGCACGATGTTGTGGGACGTA
1 CATGAGTTGGGTGAGATGTGGTGTCTGGCTATGTGCACAATGTGGTGGGATGCA
* * *
14709796 CATGAGTTGGGTGTGATGTGTTGTCCT-GCTATGTGCACAATGTGGTGGGATCCA
1 CATGAGTTGGGTGAGATGTGGTGT-CTGGCTATGTGCACAATGTGGTGGGATGCA
* * *
14709850 CATGAGTTGGGTGAGATATGGTGTCCGGCTATGTGAACAATGTGGTGGGATGCA
1 CATGAGTTGGGTGAGATGTGGTGTCTGGCTATGTGCACAATGTGGTGGGATGCA
*
14709904 CATGAGCT-GGTGAG
1 CATGAGTTGGGTGAG
14709918 GTAAAATGTT
Statistics
Matches: 147, Mismatches: 27, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
53 7 0.05
54 139 0.95
55 1 0.01
ACGTcount: A:0.20, C:0.12, G:0.38, T:0.30
Consensus pattern (54 bp):
CATGAGTTGGGTGAGATGTGGTGTCTGGCTATGTGCACAATGTGGTGGGATGCA
Found at i:14719438 original size:2 final size:2
Alignment explanation
Indices: 14719431--14719467 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14719421 TATGATGTTG
14719431 AT AT AT 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 AT AT AT A
14719468 CTATGTCATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14722521 original size:43 final size:43
Alignment explanation
Indices: 14722458--14722569 Score: 145
Period size: 43 Copynumber: 2.6 Consensus size: 43
14722448 CATTGACTTG
* *
14722458 GCTATGTGCGAGTAAGGAGTGCGTATAACCCGGTGATGACCC-
1 GCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCA
* * *
14722500 GATTATGTGCGAGTAGGGAGTGTGCATAACTCGGTGATGACCCA
1 G-CTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCA
* *
14722544 GCCATGTGTGAGTAGGGAGTGCGCAT
1 GCTATGTGCGAGTAGGGAGTGCGCAT
14722570 GAGCTGGTGA
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
42 1 0.02
43 57 0.97
44 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.36, T:0.23
Consensus pattern (43 bp):
GCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCA
Found at i:14723035 original size:60 final size:59
Alignment explanation
Indices: 14722942--14723106 Score: 204
Period size: 60 Copynumber: 2.7 Consensus size: 59
14722932 ATAGCTTCTC
* * *
14722942 GCTGCAGTGAAATTCATTCTCGTTGCAGTGAGAAACTTTCTGTTTCTGGGTTACAATTTT
1 GCTGCAGAGAAATTCATTCTCGCTGCAGTGAGAAACTTT-TGTTTCTAGGTTACAATTTT
* *
14723002 GCTGCAGAGAAATTCATTCTCGCTGCAATGAGAAACCTTTTATTTCTAGGTTACAATTTT
1 GCTGCAGAGAAATTCATTCTCGCTGCAGTGAGAAA-CTTTTGTTTCTAGGTTACAATTTT
* * * * * *
14723062 GCTGCAGCGAGATTGAATCTCGCTGCAGCGAAAAACTTTATGTTT
1 GCTGCAGAGAAATTCATTCTCGCTGCAGTGAGAAACTTT-TGTTT
14723107 TGTCTCCTAT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
59 4 0.04
60 82 0.91
61 4 0.04
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (59 bp):
GCTGCAGAGAAATTCATTCTCGCTGCAGTGAGAAACTTTTGTTTCTAGGTTACAATTTT
Found at i:14747635 original size:43 final size:42
Alignment explanation
Indices: 14747507--14747639 Score: 223
Period size: 42 Copynumber: 3.1 Consensus size: 42
14747497 TTTTGTGATA
14747507 ATGATGACCCAGCTATGTGC-GTGTGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGGTG-GGGAGTGCACATGAGCTG
*
14747549 ATGATGACCCAGCTATGTGCGGTGTGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCGGTGGGGAGTGCACATGAGCTG
*
14747591 ATGATGACCCAGCTATGTGTGAGTGGGGAGTGCACATGAGCTG
1 ATGATGACCCAGCTATGTGCG-GTGGGGAGTGCACATGAGCTG
14747634 ATGATG
1 ATGATG
14747640 GTGGGATGAT
Statistics
Matches: 86, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
42 57 0.66
43 29 0.34
ACGTcount: A:0.23, C:0.17, G:0.36, T:0.24
Consensus pattern (42 bp):
ATGATGACCCAGCTATGTGCGGTGGGGAGTGCACATGAGCTG
Found at i:14749980 original size:16 final size:16
Alignment explanation
Indices: 14749959--14749990 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14749949 GCAAAATTTA
14749959 GATTTTGATTCTTTTG
1 GATTTTGATTCTTTTG
*
14749975 GATTTTGATTTTTTTG
1 GATTTTGATTCTTTTG
14749991 ATATTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.12, C:0.03, G:0.19, T:0.66
Consensus pattern (16 bp):
GATTTTGATTCTTTTG
Found at i:14751320 original size:42 final size:42
Alignment explanation
Indices: 14751168--14751313 Score: 139
Period size: 42 Copynumber: 3.4 Consensus size: 42
14751158 AACTATGAAT
* * * ** * *
14751168 GTGGATTGAGAAGGTCTCCACATTCCCGTGATGGATGTTGTGAT
1 GTGGATTGAGAAAGTCTCCAC-TTCTCATGAT-TTTGTTGTAAA
* * * *
14751212 GTGGATCGAGAAGGTATCCACATTCCCATGATTTTGTTGTAAA
1 GTGGATTGAGAAAGTCTCCAC-TTCTCATGATTTTGTTGTAAA
* * *
14751255 GTTGATTGAGTATGTCTCCACTTCTCATGATTTTGTTGTAAA
1 GTGGATTGAGAAAGTCTCCACTTCTCATGATTTTGTTGTAAA
14751297 GTGGATTGAGAAAGTCT
1 GTGGATTGAGAAAGTCT
14751314 TTACTTCCTA
Statistics
Matches: 86, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
42 34 0.40
43 23 0.27
44 29 0.34
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.36
Consensus pattern (42 bp):
GTGGATTGAGAAAGTCTCCACTTCTCATGATTTTGTTGTAAA
Found at i:14751329 original size:42 final size:42
Alignment explanation
Indices: 14751168--14751330 Score: 114
Period size: 42 Copynumber: 3.8 Consensus size: 42
14751158 AACTATGAAT
* * ** * *
14751168 GTGGATTGAGAAGGTCTCCACATTC-CCGTGATGGATGTTGTGAT
1 GTGGATTGAGAAAGTCTCCAC-TTCTCAG-GAT-TTTGTTGTAAA
* * * * *
14751212 GTGGATCGAGAAGGTATCCACATTCCCATGATTTTGTTGTAAA
1 GTGGATTGAGAAAGTCTCCAC-TTCTCAGGATTTTGTTGTAAA
* * * *
14751255 GTTGATTGAGTATGTCTCCACTTCTCATGATTTTGTTGTAAA
1 GTGGATTGAGAAAGTCTCCACTTCTCAGGATTTTGTTGTAAA
**
14751297 GTGGATTGAGAAAGTCTTTACTTC-CTAGGATTTT
1 GTGGATTGAGAAAGTCTCCACTTCTC-AGGATTTT
14751331 ATACATTGGC
Statistics
Matches: 97, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
41 1 0.01
42 46 0.47
43 23 0.24
44 26 0.27
45 1 0.01
ACGTcount: A:0.23, C:0.15, G:0.25, T:0.37
Consensus pattern (42 bp):
GTGGATTGAGAAAGTCTCCACTTCTCAGGATTTTGTTGTAAA
Found at i:14752196 original size:2 final size:2
Alignment explanation
Indices: 14752191--14752222 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
14752181 AAAAAAAATC
14752191 AT AT AT A- AT -T AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14752223 TGCACTCTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14752295 original size:33 final size:35
Alignment explanation
Indices: 14752252--14752332 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 35
14752242 CATAATCCCA
*
14752252 CAAACATCTCCAAACAT-AGGGCATATCATTATCC-
1 CAAA-ATCTCCAAACATGAGGGCATATCATCATCCT
**
14752286 CAAAATCTCC-AATGTGAGGGCATATCATCATCCT
1 CAAAATCTCCAAACATGAGGGCATATCATCATCCT
**
14752320 CAATGTCTCCAAA
1 CAAAATCTCCAAA
14752333 GATCATCACA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 3 0.08
33 22 0.56
34 12 0.31
35 2 0.05
ACGTcount: A:0.36, C:0.28, G:0.11, T:0.25
Consensus pattern (35 bp):
CAAAATCTCCAAACATGAGGGCATATCATCATCCT
Found at i:14755069 original size:43 final size:43
Alignment explanation
Indices: 14754999--14755117 Score: 177
Period size: 43 Copynumber: 2.8 Consensus size: 43
14754989 GTAATTATGT
* *
14754999 TGACTCGGCTATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCG-GTGA
*
14755042 TGACCCGGTTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
* *
14755085 TGACCCAGCCATGTGCGAGTAGGGAGTGCGCAT
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCAT
14755118 GAGCTGGTGA
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
42 1 0.01
43 68 0.99
ACGTcount: A:0.22, C:0.21, G:0.38, T:0.19
Consensus pattern (43 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGGTGA
Found at i:14755127 original size:43 final size:43
Alignment explanation
Indices: 14755009--14755130 Score: 174
Period size: 43 Copynumber: 2.8 Consensus size: 43
14754999 TGACTCGGCT
* **
14755009 ATGTGCGAGTAGGGAGTGCGCATAAGCCGAG-GATGACCCGGTT
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCG-GTGATGACCCAGCC
*
14755052 ATGTGCGAGTAGGGAGTGCGCATAACCCGGTGATGACCCAGCC
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
* *
14755095 ATGTGCGAGTAGGGAGTGCGCATGAGCTGGTGATGA
1 ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGA
14755131 TGATGATGAG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
42 1 0.01
43 70 0.99
ACGTcount: A:0.23, C:0.19, G:0.39, T:0.19
Consensus pattern (43 bp):
ATGTGCGAGTAGGGAGTGCGCATAAGCCGGTGATGACCCAGCC
Found at i:14755141 original size:20 final size:20
Alignment explanation
Indices: 14755116--14755178 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
14755106 GGGAGTGCGC
14755116 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
14755136 ATGAGCTGGTGATGATGATG
1 ATGAGCTGGTGATGATGATG
* *
14755156 ATGGGTTGGTGA-GATGATG
1 ATGAGCTGGTGATGATGATG
14755175 ATGA
1 ATGA
14755179 TGGGTATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 10 0.25
20 30 0.75
ACGTcount: A:0.25, C:0.03, G:0.41, T:0.30
Consensus pattern (20 bp):
ATGAGCTGGTGATGATGATG
Found at i:14755196 original size:2 final size:2
Alignment explanation
Indices: 14755191--14755225 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
14755181 GGTATATACG
*
14755191 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14755226 GTAAATATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:14757762 original size:20 final size:20
Alignment explanation
Indices: 14757727--14757764 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14757717 CTAAAAACAG
*
14757727 TGTCATCTATCGATAGATGT
1 TGTCATCTATCAATAGATGT
*
14757747 TGTCATCTATTAATAGAT
1 TGTCATCTATCAATAGAT
14757765 AACTTTTAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (20 bp):
TGTCATCTATCAATAGATGT
Found at i:14761101 original size:18 final size:19
Alignment explanation
Indices: 14761068--14761105 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
14761058 CTCCACTTAC
14761068 TCAATTTCCAAAACCAGAAT
1 TCAATTTCCAAAACCA-AAT
14761088 TCAATTT-C-AAACCAAAT
1 TCAATTTCCAAAACCAAAT
14761105 T
1 T
14761106 ATGAATCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.22
18 6 0.33
19 1 0.06
20 7 0.39
ACGTcount: A:0.45, C:0.24, G:0.03, T:0.29
Consensus pattern (19 bp):
TCAATTTCCAAAACCAAAT
Found at i:14763993 original size:2 final size:2
Alignment explanation
Indices: 14763986--14764023 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
14763976 CATACACAAC
*
14763986 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14764024 CCACATAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14768634 original size:43 final size:43
Alignment explanation
Indices: 14768571--14768678 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 43
14768561 TGTTGACTCG
** **
14768571 GCTATGTGCGAGTAGGGAGTGCGCATAAGTCGAGGATGACCTG
1 GCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGATGACCCC
* *
14768614 GTTATGTGCGAGTAGGGAGTGCGCATAACCCGATGATGACCCC
1 GCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGATGACCCC
* *
14768657 GCCATGTGCGAGTGGGGAGTGC
1 GCTATGTGCGAGTAGGGAGTGC
14768679 ACATGAGCTG
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.21, C:0.19, G:0.39, T:0.20
Consensus pattern (43 bp):
GCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGGATGACCCC
Found at i:14768745 original size:2 final size:2
Alignment explanation
Indices: 14768728--14768773 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
14768718 TGATGATGGG
* *
14768728 TA TA TA TG TA TG 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
14768770 TA TA
1 TA TA
14768774 CGTGTAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14769115 original size:21 final size:21
Alignment explanation
Indices: 14769072--14769117 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
14769062 ACACTGTAGC
*
14769072 TTCTCGCTGCAGCGAAATGCA
1 TTCTCGCTGCAGCGAAATACA
*
14769093 TTCTCGTTGCAGCGAGAA-ACA
1 TTCTCGCTGCAGCGA-AATACA
14769114 TTCT
1 TTCT
14769118 GTTTTTGGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.24, C:0.26, G:0.22, T:0.28
Consensus pattern (21 bp):
TTCTCGCTGCAGCGAAATACA
Found at i:14770541 original size:66 final size:67
Alignment explanation
Indices: 14770466--14770613 Score: 201
Period size: 66 Copynumber: 2.2 Consensus size: 67
14770456 TGCCTTATTT
* * * *
14770466 TAATGTATGTGATGTTGATTCCACATACCA-AGTGTATGAGAATAAGCA-ATGATGTAACATATG
1 TAATGTATGTGATGTTGATTCCACATACCACA-TGAATAAGAATAAACACATGATGTAACACATG
14770529 TTG
65 TTG
* * *
14770532 TAATGTATGTGATGTTGATTCCATATACCACATGAATAAGAATAAACACTTGATGTAAGACATGT
1 TAATGTATGTGATGTTGATTCCACATACCACATGAATAAGAATAAACACATGATGTAACACATGT
14770597 TG
66 TG
*
14770599 TAAGGTATGTGATGT
1 TAATGTATGTGATGT
14770614 AGCTTACACA
Statistics
Matches: 72, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
66 42 0.58
67 30 0.42
ACGTcount: A:0.35, C:0.10, G:0.21, T:0.34
Consensus pattern (67 bp):
TAATGTATGTGATGTTGATTCCACATACCACATGAATAAGAATAAACACATGATGTAACACATGT
TG
Found at i:14771630 original size:25 final size:25
Alignment explanation
Indices: 14771584--14771632 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
14771574 TCGAATTTCT
*
14771584 CAAGGAGCACTAGATCGGTGCTCCA
1 CAAGGAGCACTAGATCGATGCTCCA
* *
14771609 CAAGGAGCACTGGATCTATGCTCC
1 CAAGGAGCACTAGATCGATGCTCC
14771633 CTGTGGAGCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.18
Consensus pattern (25 bp):
CAAGGAGCACTAGATCGATGCTCCA
Found at i:14783295 original size:11 final size:11
Alignment explanation
Indices: 14783279--14783306 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
14783269 CACTGTAAAT
14783279 TTTAAAACAAC
1 TTTAAAACAAC
14783290 TTTAAAACAAC
1 TTTAAAACAAC
14783301 TTTAAA
1 TTTAAA
14783307 CTCAAAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (11 bp):
TTTAAAACAAC
Found at i:14789097 original size:12 final size:12
Alignment explanation
Indices: 14789080--14789110 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
14789070 GGGCTTGACA
14789080 ACTACTATTACT
1 ACTACTATTACT
*
14789092 ACTACTATTAGT
1 ACTACTATTACT
14789104 ACTACTA
1 ACTACTA
14789111 GAGATAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.35, C:0.23, G:0.03, T:0.39
Consensus pattern (12 bp):
ACTACTATTACT
Found at i:14790519 original size:12 final size:12
Alignment explanation
Indices: 14790504--14790535 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
14790494 TTAATTAATG
14790504 TAAATAATAAAA
1 TAAATAATAAAA
14790516 TAAATAAT-AAA
1 TAAATAATAAAA
14790527 TAAA-AATAA
1 TAAATAATAA
14790536 CTGAAAAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.16
11 8 0.42
12 8 0.42
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (12 bp):
TAAATAATAAAA
Found at i:14790523 original size:21 final size:21
Alignment explanation
Indices: 14790483--14790523 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14790473 TACAAAAAAC
* * *
14790483 TAAATAATTAATTAATTAATG
1 TAAATAATAAAATAAATAATG
14790504 TAAATAATAAAATAAATAAT
1 TAAATAATAAAATAAATAAT
14790524 AAATAAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
TAAATAATAAAATAAATAATG
Found at i:14790530 original size:16 final size:15
Alignment explanation
Indices: 14790504--14790555 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
14790494 TTAATTAATG
14790504 TAAATAATAAAATAAA
1 TAAA-AATAAAATAAA
*
14790520 TAATAAATAAAAATAAC
1 TAA-AAAT-AAAATAAA
* *
14790537 TGAAAAGAAAATAAA
1 TAAAAATAAAATAAA
14790552 TAAA
1 TAAA
14790556 GAAAAAAGTT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
15 10 0.34
16 9 0.31
17 10 0.34
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (15 bp):
TAAAAATAAAATAAA
Found at i:14790597 original size:16 final size:16
Alignment explanation
Indices: 14790576--14790615 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
14790566 TTTATTGGAT
14790576 AATGGGTAAATAGGTA
1 AATGGGTAAATAGGTA
*
14790592 AATGGGCT-AGTAGGTA
1 AATGGG-TAAATAGGTA
14790608 AATGGGTA
1 AATGGGTA
14790616 GTGAGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 1 0.05
16 19 0.90
17 1 0.05
ACGTcount: A:0.38, C:0.03, G:0.35, T:0.25
Consensus pattern (16 bp):
AATGGGTAAATAGGTA
Found at i:14790625 original size:15 final size:16
Alignment explanation
Indices: 14790586--14790617 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14790576 AATGGGTAAA
14790586 TAGGTAAATGGGCTAG
1 TAGGTAAATGGGCTAG
14790602 TAGGTAAATGGG-TAG
1 TAGGTAAATGGGCTAG
14790617 T
1 T
14790618 GAGTAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.38, T:0.28
Consensus pattern (16 bp):
TAGGTAAATGGGCTAG
Found at i:14790874 original size:13 final size:13
Alignment explanation
Indices: 14790858--14790975 Score: 68
Period size: 14 Copynumber: 8.8 Consensus size: 13
14790848 TTATTTTTTG
14790858 AATTTTTTTTGAA
1 AATTTTTTTTGAA
14790871 AATTATTTTTTG--
1 AATT-TTTTTTGAA
* **
14790883 AGTTTTTTTT-TC
1 AATTTTTTTTGAA
14790895 AA-TTTTTTT-AA
1 AATTTTTTTTGAA
*
14790906 AAATTTTTTTGAA
1 AATTTTTTTTGAA
14790919 ATATTTTTTTGACATGAAA
1 A-ATTTTTTT----TG-AA
14790938 AATATTTTTTTGAA
1 AAT-TTTTTTTGAA
14790952 AATTTTTTTT-AA
1 AATTTTTTTTGAA
14790964 ATATGTTTTTTT
1 A-AT-TTTTTTT
14790976 TGAATTTTTT
Statistics
Matches: 86, Mismatches: 5, Indels: 27
0.73 0.04 0.23
Matches are distributed among these distances:
11 15 0.17
12 14 0.16
13 16 0.19
14 26 0.30
15 2 0.02
18 4 0.05
19 9 0.10
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.62
Consensus pattern (13 bp):
AATTTTTTTTGAA
Found at i:14790910 original size:12 final size:13
Alignment explanation
Indices: 14790895--14790930 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
14790885 TTTTTTTTTC
14790895 AATTTTTTT-AAA
1 AATTTTTTTGAAA
14790907 AATTTTTTTGAAA
1 AATTTTTTTGAAA
*
14790920 TATTTTTTTGA
1 AATTTTTTTGA
14790931 CATGAAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 9 0.41
13 13 0.59
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (13 bp):
AATTTTTTTGAAA
Found at i:14790958 original size:12 final size:13
Alignment explanation
Indices: 14790937--14790974 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
14790927 TTGACATGAA
14790937 AAATATTTTTTTG
1 AAATATTTTTTTG
*
14790950 AAA-ATTTTTTTT
1 AAATATTTTTTTG
14790962 AAATATGTTTTTT
1 AAATAT-TTTTTT
14790975 TTGAATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 11 0.50
13 5 0.23
14 6 0.27
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (13 bp):
AAATATTTTTTTG
Found at i:14790983 original size:25 final size:22
Alignment explanation
Indices: 14790955--14791008 Score: 72
Period size: 25 Copynumber: 2.3 Consensus size: 22
14790945 TTTTGAAAAT
*
14790955 TTTTTTTAAATATGTTTTTTTTGAA
1 TTTTTTTAAA-A-GGTTTTTTT-AA
14790980 TTTTTTTAAAAGGTTTTTTTAA
1 TTTTTTTAAAAGGTTTTTTTAA
14791002 TTTTTTT
1 TTTTTTT
14791009 TACATGAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 9 0.32
23 8 0.29
24 1 0.04
25 10 0.36
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (22 bp):
TTTTTTTAAAAGGTTTTTTTAA
Found at i:14790996 original size:13 final size:12
Alignment explanation
Indices: 14790942--14791001 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 12
14790932 ATGAAAAATA
*
14790942 TTTTTTTGAAAAT
1 TTTTTTT-AAAAG
14790955 TTTTTTTAAATATG
1 TTTTTTTAAA-A-G
**
14790969 TTTTTTTTGAA-
1 TTTTTTTAAAAG
14790980 TTTTTTTAAAAGG
1 TTTTTTTAAAA-G
14790993 TTTTTTTAA
1 TTTTTTTAA
14791002 TTTTTTTTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
11 9 0.24
12 3 0.08
13 18 0.47
14 8 0.21
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (12 bp):
TTTTTTTAAAAG
Found at i:14792205 original size:12 final size:12
Alignment explanation
Indices: 14792188--14792221 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14792178 CAATAATATT
14792188 TTTTTCAACATC
1 TTTTTCAACATC
**
14792200 TTTTTCAATTTC
1 TTTTTCAACATC
14792212 TTTTTCAACA
1 TTTTTCAACA
14792222 AATTGAATTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTTCAACATC
Found at i:14792470 original size:21 final size:21
Alignment explanation
Indices: 14792444--14792532 Score: 106
Period size: 21 Copynumber: 4.2 Consensus size: 21
14792434 TTGAATGGAG
* *
14792444 GCATCAATCCTTATCATAAAT
1 GCATCAATCTTTGTCATAAAT
* * *
14792465 GCATCAGTCTTTGTTATGAAT
1 GCATCAATCTTTGTCATAAAT
* *
14792486 GCATCAGTCTTTGTCATGAAT
1 GCATCAATCTTTGTCATAAAT
14792507 GCATCAATCTTTGTCATAAATT
1 GCATCAATCTTTGTCATAAA-T
14792529 GCAT
1 GCAT
14792533 GAACATATCC
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
21 54 0.92
22 5 0.08
ACGTcount: A:0.29, C:0.19, G:0.13, T:0.38
Consensus pattern (21 bp):
GCATCAATCTTTGTCATAAAT
Found at i:14794261 original size:46 final size:46
Alignment explanation
Indices: 14794208--14794300 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
14794198 ACTATATGTC
*
14794208 TATACAAATTAAATTGAAAAAAGATTCATTAAGCTCGTGCTCTAAT
1 TATACAAATTAAATTGAAAAAAGATTCATTAAACTCGTGCTCTAAT
* *
14794254 TATACAAATTAAATTGAAGAAATATTCATTAAACTCGTGCTCTAAT
1 TATACAAATTAAATTGAAAAAAGATTCATTAAACTCGTGCTCTAAT
14794300 T
1 T
14794301 TTGGCTACGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.34
Consensus pattern (46 bp):
TATACAAATTAAATTGAAAAAAGATTCATTAAACTCGTGCTCTAAT
Done.