Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 54 of 433
Found at i:15059300 original size:81 final size:81
Alignment explanation
Indices: 15059003--15059350 Score: 366
Period size: 81 Copynumber: 4.3 Consensus size: 81
15058993 TTTGGTTTAC
* * * * * * *
15059003 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAGAATACCCTTGGTTTATAAAATCACCAA
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAA
*
15059068 AATACCCCTGGTTTGT
66 AATACCCCTAGTTTGT
* **
15059084 AAAATTACCAAAATA-CCCTTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTA-CT
1 AAAATTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATC-
* * *
15059147 AAAATACCCTTTGTTTAT
64 AAAATACCCCTAGTTTGT
15059165 -AAATTACCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCA
1 AAAATTACCAAAATACCCCTGA-TTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCA
15059228 AAATACCCCTAGTTTGT
65 AAATACCCCTAGTTTGT
* *** *** **
15059245 AAAATTACCAAAATACCCCTGATTTGTGAAATTATTGAAATA-CCCTCGACCTGTAAAATTATTG
1 AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCT-GGTTTGTAAAATTATCA
* *
15059309 AAATA-CCCTCGACTTGT
65 AAATACCCCTAG-TTTGT
* *
15059326 ATAATTACCAAAGTACCCCTGATTT
1 AAAATTACCAAAATACCCCTGATTT
15059351 ACAGAAGTAC
Statistics
Matches: 229, Mismatches: 30, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
80 82 0.36
81 146 0.64
82 1 0.00
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (81 bp):
AAAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTATCAA
AATACCCCTAGTTTGT
Found at i:15059415 original size:27 final size:27
Alignment explanation
Indices: 15059385--15059573 Score: 254
Period size: 27 Copynumber: 7.0 Consensus size: 27
15059375 TTTACAAAAT
15059385 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
15059412 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
15059439 TATCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * * *
15059466 TACTGAAATACCCCTGAAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
* *
15059493 TACTGAAATACCTTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* *
15059520 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
* *
15059547 TACCGAGATACCCTTGTGGGGTA-AAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
15059573 T
1 T
15059574 TACCATTTTA
Statistics
Matches: 144, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 3 0.02
27 141 0.98
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCTTGTAGGGTAGAAA
Found at i:15059569 original size:81 final size:81
Alignment explanation
Indices: 15059382--15059577 Score: 302
Period size: 81 Copynumber: 2.4 Consensus size: 81
15059372 CAATTTACAA
* *
15059382 AATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGTAGAAATATCGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
15059447 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * * * *
15059463 AATTACTGAAATACCCCTGAAGGGTAGAATTACTGAAATACCTTTGTAGGGTAGAAATACCGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
15059528 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * *
15059544 AATTACCGAGATACCCTTGTGGGGTAAAATTACC
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACC
15059578 ATTTTACCCC
Statistics
Matches: 101, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 101 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.24
Consensus pattern (81 bp):
AATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAAATACCGAAA
TACCCCTGTAGGGTAG
Found at i:15059866 original size:27 final size:26
Alignment explanation
Indices: 15059822--15059873 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
15059812 CTCGCTGCAA
*
15059822 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
15059849 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
15059874 GCAGCCTCAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:15060097 original size:6 final size:6
Alignment explanation
Indices: 15060088--15060255 Score: 130
Period size: 6 Copynumber: 27.3 Consensus size: 6
15060078 TTGCATTCAC
* * *
15060088 ATTCTG ATTCTG ATTCTG -TTACCTG ATACCG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * *
15060138 ATTCTG ATTCTG GTTCTG ATTCTG ATTCTG ATTCTG -TTACCTA ATTCTA
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * *
15060187 ATTCTG ATTCTG ATTTTG ATTCTG -TCACCTG ATTCTG ATTCTG ATTCTC
1 ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG
*
15060236 ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG A-TTCTG AT
15060256 AATGTTTCTT
Statistics
Matches: 130, Mismatches: 18, Indels: 28
0.74 0.10 0.16
Matches are distributed among these distances:
5 8 0.06
6 105 0.81
7 11 0.08
8 6 0.05
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:15060121 original size:25 final size:25
Alignment explanation
Indices: 15060091--15060198 Score: 106
Period size: 25 Copynumber: 4.6 Consensus size: 25
15060081 CATTCACATT
15060091 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTGATA
*
15060116 CCGATTCTGATTCTGTTACC---TA
1 CTGATTCTGATTCTGTTACCTGATA
*
15060138 ---ATTCTGATTCTGGTT--CTGATT
1 CTGATTCTGATTCT-GTTACCTGATA
* *
15060159 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTGATA
*
15060184 CTAATTCTGATTCTG
1 CTGATTCTGATTCTG
15060199 ATTTTGATTC
Statistics
Matches: 70, Mismatches: 4, Indels: 18
0.76 0.04 0.20
Matches are distributed among these distances:
18 1 0.01
19 11 0.16
20 3 0.04
21 1 0.01
22 2 0.03
23 3 0.04
24 11 0.16
25 38 0.54
ACGTcount: A:0.19, C:0.20, G:0.15, T:0.46
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTGATA
Found at i:15060159 original size:37 final size:37
Alignment explanation
Indices: 15060118--15060246 Score: 150
Period size: 37 Copynumber: 3.3 Consensus size: 37
15060108 ACCTGATACC
15060118 GATTCTGATTCTGTTACCTAATTCTGATTCTGGTTCTGATTCT
1 GATTCTGATTCTGTTACCTAATTCTGA------TTCTGATTCT
*
15060161 GATTCTGATTCTGTTACCTAATTCTAATTCTGATTCT
1 GATTCTGATTCTGTTACCTAATTCTGATTCTGATTCT
* * *
15060198 GATTTTGATTCTGTCACCTGATTCTGATTCTGATTCT
1 GATTCTGATTCTGTTACCTAATTCTGATTCTGATTCT
* *
15060235 CATTTTGATTCT
1 GATTCTGATTCT
15060247 AGTTCTGATA
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
37 54 0.68
43 26 0.32
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.50
Consensus pattern (37 bp):
GATTCTGATTCTGTTACCTAATTCTGATTCTGATTCT
Found at i:15060228 original size:43 final size:43
Alignment explanation
Indices: 15060091--15060246 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
15060081 CATTCACATT
* *
15060091 CTGATTCTGATTCTG-TTACCTGATACCGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATT--CTGATTCTGATTCTGATTCTGTTAC
* *
15060135 CTAATTCTGATTCTGGTTCTGATTCTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGATTCTGATTCTGATTCTGTTAC
* * *
15060178 CT-A-----ATTCTAATTCTGATTCTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTGATTCTGATTCTGATTCTGTTAC
* *
15060215 CTGATTCTGATTCTGATTCTCATTTTGATTCT
1 CTGATTCTGATTCTGATTCTGATTCTGATTCT
15060247 AGTTCTGATA
Statistics
Matches: 94, Mismatches: 11, Indels: 15
0.78 0.09 0.12
Matches are distributed among these distances:
37 32 0.34
38 1 0.01
42 1 0.01
43 44 0.47
44 14 0.15
45 2 0.02
ACGTcount: A:0.18, C:0.20, G:0.14, T:0.48
Consensus pattern (43 bp):
CTGATTCTGATTCTGATTCTGATTCTGATTCTGATTCTGTTAC
Found at i:15060253 original size:43 final size:43
Alignment explanation
Indices: 15060118--15060246 Score: 171
Period size: 43 Copynumber: 3.1 Consensus size: 43
15060108 ACCTGATACC
* *
15060118 GATTCTGATTCTGTTACCTAATTCTGATTCTGGTTCTGATTCT
1 GATTCTGATTCTGTTACCTAATTCTGATTCTGATTCTGATTTT
*
15060161 GATTCTGATTCTGTTACCTAATTCTAATTCTGATTCTGATTTT
1 GATTCTGATTCTGTTACCTAATTCTGATTCTGATTCTGATTTT
* *
15060204 GATTCTG--TC----ACCTGATTCTGATTCTGATTCTCATTTT
1 GATTCTGATTCTGTTACCTAATTCTGATTCTGATTCTGATTTT
15060241 GATTCT
1 GATTCT
15060247 AGTTCTGATA
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
37 31 0.39
41 2 0.03
43 47 0.59
ACGTcount: A:0.18, C:0.19, G:0.14, T:0.50
Consensus pattern (43 bp):
GATTCTGATTCTGTTACCTAATTCTGATTCTGATTCTGATTTT
Found at i:15063707 original size:20 final size:20
Alignment explanation
Indices: 15063679--15063722 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
15063669 TACCTACTTG
*
15063679 CAACTTACCATAATCTTTCA
1 CAACATACCATAATCTTTCA
* *
15063699 CAACATACCGTAGTCTTTCA
1 CAACATACCATAATCTTTCA
15063719 CAAC
1 CAAC
15063723 TTAAATATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.30
Consensus pattern (20 bp):
CAACATACCATAATCTTTCA
Found at i:15069549 original size:39 final size:39
Alignment explanation
Indices: 15069464--15069679 Score: 317
Period size: 39 Copynumber: 5.5 Consensus size: 39
15069454 ACAAAGCATG
* * *
15069464 CGGGACTTTAAGCCCGGATGTAATACCAGCAC-AAAGCCTT
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACGAATGCCTT
* * *
15069504 CAGGACTTAGCCCGAATATAACACTAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
* *
15069543 CGGGACTTAGCCCGGGTATAAAACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
15069582 CGGGACTTAGCCCGGATATAACACTAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
15069621 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
*
15069660 TGGGACTTAGCCCGGATATA
1 CGGGACTTAGCCCGGATATA
15069680 TATCTCACAC
Statistics
Matches: 159, Mismatches: 16, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
38 18 0.11
39 136 0.86
40 5 0.03
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACGAATGCCTT
Found at i:15069743 original size:2 final size:2
Alignment explanation
Indices: 15069736--15069769 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
15069726 TATCGTTCAC
15069736 AT AT AT AT 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
15069770 CATAATACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15075812 original size:38 final size:40
Alignment explanation
Indices: 15075729--15075815 Score: 97
Period size: 38 Copynumber: 2.2 Consensus size: 40
15075719 CAAATCCAAT
* * *
15075729 CACCACCACAAAGCATGCGGGACTTTAAGCCCAGATGTAA
1 CACCAGCACAAAGCATGCAGGACTTTAAGCCCAGATATAA
* * * *
15075769 TACCAGCACAAAGCCTTCAGGAC-TT-AGCCCGGATATAA
1 CACCAGCACAAAGCATGCAGGACTTTAAGCCCAGATATAA
15075807 CACCAGCAC
1 CACCAGCAC
15075816 TGTTGTAGGC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
38 19 0.49
39 2 0.05
40 18 0.46
ACGTcount: A:0.34, C:0.32, G:0.18, T:0.15
Consensus pattern (40 bp):
CACCAGCACAAAGCATGCAGGACTTTAAGCCCAGATATAA
Found at i:15076054 original size:18 final size:18
Alignment explanation
Indices: 15076031--15076084 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
15076021 CCACCACCAA
15076031 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
*
15076049 CT-C-C-A-CCAC-C-TA
1 CTCCACTAGCCACACTTG
15076061 CTCCACTAGCCACACTTG
1 CTCCACTAGCCACACTTG
15076079 CTCCAC
1 CTCCAC
15076085 CACCTACTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 3 0.11
13 2 0.07
14 5 0.18
15 2 0.07
16 5 0.18
17 2 0.07
18 9 0.32
ACGTcount: A:0.22, C:0.50, G:0.07, T:0.20
Consensus pattern (18 bp):
CTCCACTAGCCACACTTG
Found at i:15076057 original size:30 final size:30
Alignment explanation
Indices: 15076021--15076119 Score: 171
Period size: 30 Copynumber: 3.3 Consensus size: 30
15076011 CTAGCCTTTG
15076021 CCACCACCAACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
*
15076051 CCACCACCTACTCCACTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
* *
15076081 CCACCACCTACTCCATTAGCCACACTTGCT
1 CCACCACCAACTCCACTAGCCACACTTGCT
15076111 CCACCACCA
1 CCACCACCA
15076120 CTTGTACTTA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 66 1.00
ACGTcount: A:0.25, C:0.51, G:0.06, T:0.18
Consensus pattern (30 bp):
CCACCACCAACTCCACTAGCCACACTTGCT
Found at i:15076763 original size:29 final size:30
Alignment explanation
Indices: 15076686--15076769 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 30
15076676 ACGTATATAT
* * *
15076686 TATACTATTTTATGTATATATCTTTAATAC
1 TATATTATCTTATGTATATATTTTTAATAC
* * **
15076716 TATATTATTTATATATATATATTTTTTCTAC
1 TATATTATCT-TATGTATATATTTTTAATAC
*
15076747 -ATGTTATCTTATGTATATATTTT
1 TATATTATCTTATGTATATATTTT
15076770 AATTATTTAT
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
29 13 0.29
30 16 0.36
31 16 0.36
ACGTcount: A:0.31, C:0.07, G:0.04, T:0.58
Consensus pattern (30 bp):
TATATTATCTTATGTATATATTTTTAATAC
Found at i:15076779 original size:21 final size:22
Alignment explanation
Indices: 15076750--15076790 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
15076740 TTTCTACATG
15076750 TTATCTTATGTATATATTTTAA
1 TTATCTTATGTATATATTTTAA
*
15076772 TTAT-TTATGTATGTATTTT
1 TTATCTTATGTATATATTTT
15076791 TTACACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.63
Consensus pattern (22 bp):
TTATCTTATGTATATATTTTAA
Found at i:15081052 original size:40 final size:40
Alignment explanation
Indices: 15080916--15081069 Score: 148
Period size: 40 Copynumber: 3.9 Consensus size: 40
15080906 GTGTGCATGA
* *
15080916 GCAAATTGTGATATCCGGGCTAAGTCCCG-AGGACATTTAT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGG-CATTTGT
* * ** * * *
15080956 GCTAGTAATTATATCCGGGCTAAGACTCGAAGGCATTCGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * *
15080996 GCAAGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGT
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
* * * *
15081036 GCAAATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 GCAAATTGTGATATCCGGGCTAAGACCCGAAGGC
15081070 CTTGGTGCGG
Statistics
Matches: 91, Mismatches: 22, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
40 88 0.97
41 3 0.03
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
GCAAATTGTGATATCCGGGCTAAGACCCGAAGGCATTTGT
Found at i:15090060 original size:67 final size:70
Alignment explanation
Indices: 15089989--15090127 Score: 185
Period size: 71 Copynumber: 2.0 Consensus size: 70
15089979 ACACCCTGTA
* * * * *
15089989 GTAGCTAGGTCACATGTGTGA-T-ACGAGATGTA-TCCATGTAGACAAGAGAGCTACGTGAAAGA
1 GTAGCTAGGTCACATGCGTGATTCAAGAGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAGA
15090051 TAAAT
66 TAAAT
* *
15090056 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCACATGCGTGATT-CAAGAGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
15090121 ATAAAT
65 ATAAAT
15090127 G
1 G
15090128 GTTTGGTTGC
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
67 19 0.31
68 1 0.02
70 6 0.10
71 35 0.57
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.22
Consensus pattern (70 bp):
GTAGCTAGGTCACATGCGTGATTCAAGAGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:15099126 original size:41 final size:41
Alignment explanation
Indices: 15099081--15099198 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
15099071 TGAAAGATAA
15099081 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
15099122 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
15099152 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
15099193 ATGTAG
1 ATGTAG
15099199 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:15099138 original size:71 final size:71
Alignment explanation
Indices: 15099049--15099212 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
15099039 GAGATGTATC
*
15099049 CCATGTAGGCAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
15099114 AGGACA
66 AGGACA
15099120 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
15099185 AGGACA
66 AGGACA
15099191 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
15099213 AGACAAATCG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.35, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:15100915 original size:17 final size:18
Alignment explanation
Indices: 15100884--15100919 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
15100874 AATCAAATAT
15100884 ATGCATATTAATTTATTA
1 ATGCATATTAATTTATTA
*
15100902 ATGC-TATTACTTTATTA
1 ATGCATATTAATTTATTA
15100919 A
1 A
15100920 ACCAAGATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (18 bp):
ATGCATATTAATTTATTA
Found at i:15108044 original size:14 final size:14
Alignment explanation
Indices: 15108025--15108051 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15108015 TTATAAAATA
15108025 ATAATTAAGAACAC
1 ATAATTAAGAACAC
15108039 ATAATTAAGAACA
1 ATAATTAAGAACA
15108052 AGTTAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.11, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAATTAAGAACAC
Found at i:15114839 original size:40 final size:40
Alignment explanation
Indices: 15114795--15114978 Score: 173
Period size: 40 Copynumber: 4.7 Consensus size: 40
15114785 GCCACTCGTT
* * *
15114795 CAAATACCTTCGGGACATGGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATT-TAGTAACTCGCA
* *
15114835 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
* *
15114875 CAAATGCCTTC-GGATCTTAGTCC-GATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAACTCGCA
* * * * *
15114914 CAAATGCCTTC--GATCTTAGTCCAGATTTAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAGCCCGGATTTAGTAAC-TCGCA
*
15114954 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAGCCCGGA
15114979 CATCATTCGA
Statistics
Matches: 127, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
38 11 0.09
39 46 0.36
40 66 0.52
41 4 0.03
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAGCCCGGATTTAGTAACTCGCA
Found at i:15114913 original size:39 final size:40
Alignment explanation
Indices: 15114823--15114965 Score: 188
Period size: 39 Copynumber: 3.6 Consensus size: 40
15114813 GGCCCGGTTA
* *
15114823 TAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CCAGATT
15114863 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCC-GATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCAGATT
15114902 TAGTAACTCGCACAAATGCCTTC-GATCTTAGTCCAGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCAGATT
* *
15114941 TAGTCACTTAGCACAAA-GCCTTCGG
1 TAGTAAC-TCGCACAAATGCCTTCGG
15114966 GACTTAGCCC
Statistics
Matches: 95, Mismatches: 3, Indels: 10
0.88 0.03 0.09
Matches are distributed among these distances:
38 11 0.12
39 46 0.48
40 37 0.39
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.29
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCAGATT
Found at i:15125369 original size:68 final size:65
Alignment explanation
Indices: 15125252--15125504 Score: 194
Period size: 68 Copynumber: 3.8 Consensus size: 65
15125242 ATACAGATAG
* ** * * *
15125252 TATGTAGCTAGGTCACATGTATGGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGAA
1 TATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTAC-AGAA
15125315 ATTA
63 A-TA
* *
15125319 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACAG-GAT
1 T-ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACAGAAAT
15125383 A
65 A
* * * * * * * *
15125384 TATGTAGCTAGGTTGCATGTGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTA-TGAG
1 TATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACAGAA
15125448 ATA
63 ATA
* * * * *
15125451 AAT-TGGCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG-ACAAGAGAGC
15125505 CGAACTATAT
Statistics
Matches: 151, Mismatches: 27, Indels: 20
0.76 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.13
64 24 0.16
65 3 0.02
66 23 0.15
67 34 0.23
68 46 0.30
69 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (65 bp):
TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACAGAAATA
Found at i:15128256 original size:22 final size:22
Alignment explanation
Indices: 15128241--15128291 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
15128231 ATCAAGCTAT
* *
15128241 CATCAATGGAAAATCATGAATA
1 CATCAACGGAAAATCAAGAATA
*
15128263 CATCAACGGAAAATCATGAATA
1 CATCAACGGAAAATCAAGAATA
15128285 CATCAAC
1 CATCAAC
15128292 AAATTCAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.49, C:0.20, G:0.12, T:0.20
Consensus pattern (22 bp):
CATCAACGGAAAATCAAGAATA
Found at i:15137502 original size:21 final size:21
Alignment explanation
Indices: 15137476--15137518 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
15137466 ACACAAGAAC
15137476 ATTCACAATTCATTTCGAAAT
1 ATTCACAATTCATTTCGAAAT
15137497 ATTCACAATTCATTTCGAAAT
1 ATTCACAATTCATTTCGAAAT
15137518 A
1 A
15137519 GCCAAATCTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (21 bp):
ATTCACAATTCATTTCGAAAT
Found at i:15137833 original size:41 final size:43
Alignment explanation
Indices: 15137788--15137893 Score: 153
Period size: 43 Copynumber: 2.5 Consensus size: 43
15137778 TCGATGCCTC
* *
15137788 TGTCCAAGACAGGGTCTTACACG-AATCATATA-GGATGCCAA
1 TGTCCCAGACATGGTCTTACACGTAATCATATATGGATGCCAA
* * *
15137829 TGTCCCAGAAATGGTCTTACACGTAATCTTATATTGATGCCAA
1 TGTCCCAGACATGGTCTTACACGTAATCATATATGGATGCCAA
15137872 TGTCCCAGACATGGTCTTACAC
1 TGTCCCAGACATGGTCTTACAC
15137894 AAAATCACAC
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
41 20 0.35
42 8 0.14
43 29 0.51
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (43 bp):
TGTCCCAGACATGGTCTTACACGTAATCATATATGGATGCCAA
Found at i:15139544 original size:40 final size:40
Alignment explanation
Indices: 15139489--15139577 Score: 142
Period size: 40 Copynumber: 2.2 Consensus size: 40
15139479 TGGGTACCTG
* *
15139489 TCAGCTTGTGTGAGCAACCCGTGTAGTTACGTCTTGACTA
1 TCAGCTTGTATGAGCAACCCGTGTAGTTACATCTTGACTA
* *
15139529 TCAGCTTGTATGAGCAGCCCGTGTAGTTACATCTTGACTG
1 TCAGCTTGTATGAGCAACCCGTGTAGTTACATCTTGACTA
15139569 TCAGCTTGT
1 TCAGCTTGT
15139578 TTGAACAGGC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.19, C:0.22, G:0.25, T:0.34
Consensus pattern (40 bp):
TCAGCTTGTATGAGCAACCCGTGTAGTTACATCTTGACTA
Found at i:15142266 original size:43 final size:44
Alignment explanation
Indices: 15142165--15142280 Score: 128
Period size: 43 Copynumber: 2.7 Consensus size: 44
15142155 GGTTACCAAG
* * *
15142165 ATGTGATTACATGTAAGACCATGTCTGGGACATTAGCATCGTTA
1 ATGTGATTACATGTAAGACCATGTCTAGGACAGTAGCATCGATA
*** * *
15142209 AT-TGATTTTGTGTAAGACCCTGTCTAGGACAGTGGCATCGAT-
1 ATGTGATTACATGTAAGACCATGTCTAGGACAGTAGCATCGATA
* *
15142251 ATGTGATAACATGTAAGACCATATCTAGGA
1 ATGTGATTACATGTAAGACCATGTCTAGGA
15142281 GATGGTATTG
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
42 2 0.04
43 53 0.93
44 2 0.04
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATGTCTAGGACAGTAGCATCGATA
Found at i:15155438 original size:28 final size:28
Alignment explanation
Indices: 15155373--15155473 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
15155363 ATAGTGAATC
*
15155373 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
15155402 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
15155430 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
15155460 CGCACACTTAGTGC
1 CGCACACTTAGTGC
15155474 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:15163400 original size:28 final size:28
Alignment explanation
Indices: 15163335--15163435 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
15163325 ATAGTGAATC
*
15163335 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
15163364 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
15163392 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
15163422 CGCACACTTAGTGC
1 CGCACACTTAGTGC
15163436 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:15168586 original size:29 final size:29
Alignment explanation
Indices: 15168554--15168611 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
15168544 TAAAATAAAG
15168554 GTTAATAAAATAAGAAAACATAATAGTTT
1 GTTAATAAAATAAGAAAACATAATAGTTT
15168583 GTTAATAAAATAAGAAAACATAATAGTTT
1 GTTAATAAAATAAGAAAACATAATAGTTT
15168612 TCTTCCCTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.55, C:0.03, G:0.10, T:0.31
Consensus pattern (29 bp):
GTTAATAAAATAAGAAAACATAATAGTTT
Found at i:15169471 original size:19 final size:20
Alignment explanation
Indices: 15169439--15169484 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
15169429 CAGAAAATGA
15169439 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
15169459 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
15169478 TTTCTGG
1 TTTCTGG
15169485 TGTTTGGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:15170888 original size:32 final size:32
Alignment explanation
Indices: 15170842--15170921 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
15170832 TGCCAATCAT
*
15170842 TTCAATATCCAACAAGCTT-AAAACATAATAAA
1 TTCAATATCCAACAA-ATTCAAAACATAATAAA
** * *
15170874 TTCAATATGTAACAAATTCAAGACATAATAAT
1 TTCAATATCCAACAAATTCAAAACATAATAAA
*
15170906 TTCAAAATCCAACAAA
1 TTCAATATCCAACAAA
15170922 CTAAATTTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
31 2 0.05
32 37 0.95
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.26
Consensus pattern (32 bp):
TTCAATATCCAACAAATTCAAAACATAATAAA
Found at i:15171588 original size:35 final size:35
Alignment explanation
Indices: 15171539--15171657 Score: 141
Period size: 35 Copynumber: 3.4 Consensus size: 35
15171529 ATGTGAAACA
* * *
15171539 TAGGTATGGAATTTCTCATACCGAATGGTGACATG
1 TAGGTATGGTATTTCTCATACCGAGTGGTGAAATG
* * *
15171574 TAGGTATGGCATTTCCCATACCGAGTGGTGAAACG
1 TAGGTATGGTATTTCTCATACCGAGTGGTGAAATG
* * *
15171609 TAGATATGGTATTT-TCCATACTGAGTTGTGAAATG
1 TAGGTATGGTATTTCT-CATACCGAGTGGTGAAATG
15171644 TAGGTATGGTATTT
1 TAGGTATGGTATTT
15171658 TAATGAGGAA
Statistics
Matches: 71, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
35 71 1.00
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (35 bp):
TAGGTATGGTATTTCTCATACCGAGTGGTGAAATG
Found at i:15179619 original size:18 final size:18
Alignment explanation
Indices: 15179591--15179634 Score: 65
Period size: 18 Copynumber: 2.5 Consensus size: 18
15179581 AACAACGCCA
15179591 TGTTA-ATTTGTGT-TCTG
1 TGTTATATTTGTGTCT-TG
15179608 TGTTATATTTGTGTCTTG
1 TGTTATATTTGTGTCTTG
15179626 TGTTATATT
1 TGTTATATT
15179635 GTTAACAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.20
18 19 0.76
19 1 0.04
ACGTcount: A:0.14, C:0.05, G:0.20, T:0.61
Consensus pattern (18 bp):
TGTTATATTTGTGTCTTG
Found at i:15181268 original size:27 final size:27
Alignment explanation
Indices: 15181252--15181502 Score: 303
Period size: 27 Copynumber: 9.3 Consensus size: 27
15181242 TGACTTGTAA
15181252 AATTACCATTTTACCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
15181279 AATTACCATTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
** *
15181306 AATTACTGTTTTACCCTTGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
*
15181333 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
15181360 AATTACTATTTTATCCTCGATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
** *
15181387 AATTACTGTTTTCCCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* *
15181414 AATTACTATTTTACCCTCGATTTATAG
1 AATTACCATTTTACCCTCGATTTACAG
*
15181441 AATTACCGTTTTACCCTC-AGTTTACAG
1 AATTACCATTTTACCCTCGA-TTTACAG
* * *
15181468 AATTACCGTTTTACCTTCAATTTACAG
1 AATTACCATTTTACCCTCGATTTACAG
15181495 AATTACCA
1 AATTACCA
15181503 AAATACCCTT
Statistics
Matches: 197, Mismatches: 19, Indels: 16
0.85 0.08 0.07
Matches are distributed among these distances:
26 4 0.02
27 189 0.96
28 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (27 bp):
AATTACCATTTTACCCTCGATTTACAG
Found at i:15181509 original size:27 final size:27
Alignment explanation
Indices: 15181263--15181591 Score: 86
Period size: 27 Copynumber: 12.2 Consensus size: 27
15181253 ATTACCATTT
* ***
15181263 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* *****
15181290 TACCCTCAGTTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
** ****
15181317 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * ***
15181344 TACCCTCAGTTTACAGAATTACTATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * *****
15181371 TATCCTCGATTTACAGAATTACTGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * * ***
15181398 TCCCCTCAGTTTACAGAATTACTATTT
1 TACCCTCAATTTACAGAATTACCAAAA
* * ****
15181425 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
* ****
15181452 TACCCTCAGTTTACAGAATTACCGTTT
1 TACCCTCAATTTACAGAATTACCAAAA
*
15181479 TACCTTCAATTTACAGAATTACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
*** * * *
15181506 TACCCTTGGTTTATAAAATCACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
*** *
15181533 TACCCCTGGTTTGTA-A-AATTACTAAAA
1 TA-CCCTCAATT-TACAGAATTACCAAAA
*** *
15181560 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCAATTTACAGAATTACCAAAA
15181587 TACCC
1 TACCC
15181592 CTGGTTTGTA
Statistics
Matches: 247, Mismatches: 51, Indels: 8
0.81 0.17 0.03
Matches are distributed among these distances:
25 2 0.01
26 8 0.03
27 227 0.92
28 8 0.03
29 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (27 bp):
TACCCTCAATTTACAGAATTACCAAAA
Found at i:15181518 original size:54 final size:54
Alignment explanation
Indices: 15181252--15181501 Score: 392
Period size: 54 Copynumber: 4.6 Consensus size: 54
15181242 TGACTTGTAA
* *
15181252 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
* *
15181306 AATTACTGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
* * *
15181360 AATTACTATTTTATCCTCGATTTACAGAATTACTGTTTTCCCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
*
15181414 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAG
1 AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
** * *
15181468 AATTACCGTTTTACCTTCAATTTACAGAATTACC
1 AATTACTATTTTACCCTCGATTTACAGAATTACC
15181502 AAAATACCCT
Statistics
Matches: 178, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 178 1.00
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (54 bp):
AATTACTATTTTACCCTCGATTTACAGAATTACCGTTTTACCCTCAGTTTACAG
Found at i:15181520 original size:81 final size:81
Alignment explanation
Indices: 15181252--15181502 Score: 355
Period size: 81 Copynumber: 3.1 Consensus size: 81
15181242 TGACTTGTAA
15181252 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
*
15181317 TACCCTT-GATTTACAG
66 TA-CCTTCAATTTACAG
* * *
15181333 AATTACCGTTTTACCCTC-AGTTTACAGAATTACTATTTTATCCTC-GATTTACAGAATTACTGT
1 AATTACCATTTTACCCTCGA-TTTACAGAATTACCATTTTACCCTCAG-TTTACAGAATTACTGT
* * *
15181396 TTTCCCCTCAGTTTACAG
64 TTTACCTTCAATTTACAG
* * * *
15181414 AATTACTATTTTACCCTCGATTTATAGAATTACCGTTTTACCCTCAGTTTACAGAATTACCGTTT
1 AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
15181479 TACCTTCAATTTACAG
66 TACCTTCAATTTACAG
15181495 AATTACCA
1 AATTACCA
15181503 AAATACCCTT
Statistics
Matches: 147, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
80 5 0.03
81 140 0.95
82 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.40
Consensus pattern (81 bp):
AATTACCATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTGTTT
TACCTTCAATTTACAG
Found at i:15181596 original size:27 final size:27
Alignment explanation
Indices: 15181495--15181648 Score: 218
Period size: 27 Copynumber: 5.7 Consensus size: 27
15181485 CAATTTACAG
15181495 AATTACCAAAATACCCTTGGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
* * *
15181522 AATCACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
15181549 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
15181576 AATTACCAAAATACCCCTGGTTTGTAA
1 AATTACCAAAATACCCTTGGTTTATAA
* *
15181603 AATTACTAAAATACCCTTTGTTTATAA
1 AATTACCAAAATACCCTTGGTTTATAA
*
15181630 AATTACCGAAATACCCTTG
1 AATTACCAAAATACCCTTG
15181649 TAGGGTAGAA
Statistics
Matches: 108, Mismatches: 19, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 108 1.00
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGGTTTATAA
Found at i:15181662 original size:54 final size:54
Alignment explanation
Indices: 15181495--15181645 Score: 257
Period size: 54 Copynumber: 2.8 Consensus size: 54
15181485 CAATTTACAG
* *
15181495 AATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
*
15181549 AATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
* *
15181603 AATTACTAAAATACCCTTTGTTTATAAAATTACCGAAATACCC
1 AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCC
15181646 TTGTAGGGTA
Statistics
Matches: 91, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 91 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
AATTACTAAAATACCCTTGGTTTATAAAATTACCAAAATACCCCTGGTTTGTAA
Found at i:15184740 original size:19 final size:19
Alignment explanation
Indices: 15184716--15184753 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15184706 TTTAATATTG
*
15184716 AATTTAATGTAATATTTAT
1 AATTTAATCTAATATTTAT
15184735 AATTTAATCTAATATTTAT
1 AATTTAATCTAATATTTAT
15184754 CAAGATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
AATTTAATCTAATATTTAT
Found at i:15190997 original size:25 final size:25
Alignment explanation
Indices: 15190969--15191051 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
15190959 TAAGTAACGA
****
15190969 GAAGCTCATACGAGTTGTATATCGG
1 GAAGCTCATACGAGCCAAATATCGG
* *
15190994 GAAGCTCTTGCGAGCCAAATATCGG
1 GAAGCTCATACGAGCCAAATATCGG
*
15191019 GAAGCTCATGA-GAGCCAAGTATCGG
1 GAAGCTCAT-ACGAGCCAAATATCGG
15191044 GAAGCTCA
1 GAAGCTCA
15191052 AGAGAGCTGT
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
25 48 1.00
ACGTcount: A:0.30, C:0.20, G:0.29, T:0.20
Consensus pattern (25 bp):
GAAGCTCATACGAGCCAAATATCGG
Found at i:15191056 original size:25 final size:25
Alignment explanation
Indices: 15190987--15191058 Score: 108
Period size: 25 Copynumber: 2.9 Consensus size: 25
15190977 TACGAGTTGT
* *
15190987 ATATCGGGAAGCTCTTGCGAGCCAA
1 ATATCGGGAAGCTCATGAGAGCCAA
15191012 ATATCGGGAAGCTCATGAGAGCCAA
1 ATATCGGGAAGCTCATGAGAGCCAA
* *
15191037 GTATCGGGAAGCTCAAGAGAGC
1 ATATCGGGAAGCTCATGAGAGC
15191059 TGTGGTGTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.32, C:0.21, G:0.31, T:0.17
Consensus pattern (25 bp):
ATATCGGGAAGCTCATGAGAGCCAA
Found at i:15193797 original size:17 final size:17
Alignment explanation
Indices: 15193775--15193807 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
15193765 CTCTGCCTTT
15193775 CTTTTTCCTTTT-TTTTC
1 CTTTTT-CTTTTGTTTTC
15193792 CTTTTTCTTTTGTTTT
1 CTTTTTCTTTTGTTTT
15193808 TGTTTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (17 bp):
CTTTTTCTTTTGTTTTC
Found at i:15197346 original size:26 final size:27
Alignment explanation
Indices: 15197296--15197346 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
15197286 GAGCTAAAAT
*
15197296 TTAATTTATTTAAAAAATTCGATTCAA
1 TTAATTTATTTAAAAAATCCGATTCAA
* *
15197323 TTAATTT-TTTCAAAAATCCTATTC
1 TTAATTTATTTAAAAAATCCGATTC
15197347 TAAGCGATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.39, C:0.12, G:0.02, T:0.47
Consensus pattern (27 bp):
TTAATTTATTTAAAAAATCCGATTCAA
Found at i:15201063 original size:5 final size:5
Alignment explanation
Indices: 15201053--15201082 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
15201043 ATACAAATAC
15201053 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
15201083 TTTCTATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:15204138 original size:11 final size:11
Alignment explanation
Indices: 15204124--15204206 Score: 55
Period size: 11 Copynumber: 7.4 Consensus size: 11
15204114 AAACATCACC
*
15204124 AAACAACATAA
1 AAACAACACAA
15204135 AAACAACACAA
1 AAACAACACAA
*
15204146 AAA-ATAGCAC-C
1 AAACA-A-CACAA
15204157 AAACAACACAA
1 AAACAACACAA
*
15204168 AAA-AAGCATCAC
1 AAACAA-CA-CAA
* *
15204180 CAACAACACCA
1 AAACAACACAA
15204191 AAACAACACCAA
1 AAACAACA-CAA
15204203 AAAC
1 AAAC
15204207 CTGCAAAATA
Statistics
Matches: 55, Mismatches: 9, Indels: 15
0.70 0.11 0.19
Matches are distributed among these distances:
10 6 0.11
11 31 0.56
12 16 0.29
13 2 0.04
ACGTcount: A:0.65, C:0.29, G:0.02, T:0.04
Consensus pattern (11 bp):
AAACAACACAA
Found at i:15204160 original size:22 final size:23
Alignment explanation
Indices: 15204096--15204193 Score: 80
Period size: 22 Copynumber: 4.4 Consensus size: 23
15204086 CACAAAAAGT
* *
15204096 AACACTAAAATAGCATCA-AAAC
1 AACACAAAAAAAGCATCACAAAC
* * * *
15204118 ATCACCAAACAA-CAT-AAAAAC
1 AACACAAAAAAAGCATCACAAAC
15204139 AACACAAAAAATAGCA-C-CAAAC
1 AACACAAAAAA-AGCATCACAAAC
*
15204161 AACACAAAAAAAGCATCACCAAC
1 AACACAAAAAAAGCATCACAAAC
*
15204184 AACACCAAAA
1 AACACAAAAA
15204194 CAACACCAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
20 1 0.02
21 19 0.32
22 25 0.42
23 15 0.25
ACGTcount: A:0.62, C:0.28, G:0.03, T:0.07
Consensus pattern (23 bp):
AACACAAAAAAAGCATCACAAAC
Found at i:15204608 original size:18 final size:19
Alignment explanation
Indices: 15204582--15204618 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
15204572 TCTTACCCAT
15204582 GCTAAAGTCGAT-TTGGAA
1 GCTAAAGTCGATATTGGAA
*
15204600 GCTACAGTCGATATTGGAA
1 GCTAAAGTCGATATTGGAA
15204619 TTGCCAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (19 bp):
GCTAAAGTCGATATTGGAA
Found at i:15207082 original size:10 final size:10
Alignment explanation
Indices: 15207030--15207089 Score: 52
Period size: 10 Copynumber: 6.1 Consensus size: 10
15207020 ATCTCATATA
*
15207030 TATTTTTAAT
1 TATTTATAAT
* *
15207040 TGTTTATGAT
1 TATTTATAAT
15207050 TA--TATAAT
1 TATTTATAAT
* *
15207058 TTTTTATACAA
1 TATTTATA-AT
15207069 TATTTATAAT
1 TATTTATAAT
15207079 TATTTATAAT
1 TATTTATAAT
15207089 T
1 T
15207090 TAACCATATA
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
8 6 0.16
10 24 0.63
11 8 0.21
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.60
Consensus pattern (10 bp):
TATTTATAAT
Found at i:15211697 original size:5 final size:6
Alignment explanation
Indices: 15211668--15211704 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
15211658 GTCGAAACCA
* *
15211668 TTCCTT TTCCTT TCCCTT TTCCTT TTCTTT TTCCTT T
1 TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT TTCCTT T
15211705 ACATCGTTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCCTT
Found at i:15215434 original size:2 final size:2
Alignment explanation
Indices: 15215427--15215454 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15215417 TCTTGGTTAA
15215427 AT 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
15215455 CAAACGTCTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15218919 original size:21 final size:21
Alignment explanation
Indices: 15218880--15218919 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
15218870 TACTGTAAAG
* *
15218880 TTTTATTTATTAGTATATTAA
1 TTTTATTTATAAATATATTAA
*
15218901 TTTTATTTATAAATTTATT
1 TTTTATTTATAAATATATT
15218920 CCAACATAGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (21 bp):
TTTTATTTATAAATATATTAA
Found at i:15237299 original size:25 final size:25
Alignment explanation
Indices: 15237265--15237312 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
15237255 TTATTATTAA
*
15237265 CTTTTTTTTTTTAATCCAACAACAT
1 CTTTTCTTTTTTAATCCAACAACAT
* *
15237290 CTTTTCTTTTTTCATCTAACAAC
1 CTTTTCTTTTTTAATCCAACAAC
15237313 CTTATTCATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.23, G:0.00, T:0.52
Consensus pattern (25 bp):
CTTTTCTTTTTTAATCCAACAACAT
Found at i:15242990 original size:15 final size:15
Alignment explanation
Indices: 15242970--15242999 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15242960 TGGTAGTCCA
*
15242970 TATGCTATGTATCCC
1 TATGCTATGCATCCC
15242985 TATGCTATGCATCCC
1 TATGCTATGCATCCC
15243000 AGTGGAAACA
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:0.20, C:0.30, G:0.13, T:0.37
Consensus pattern (15 bp):
TATGCTATGCATCCC
Found at i:15255137 original size:47 final size:47
Alignment explanation
Indices: 15255062--15255157 Score: 135
Period size: 47 Copynumber: 2.0 Consensus size: 47
15255052 GCCTCTCTAT
*
15255062 TACTCTTTTCTTCTCTTTTGCAAGTATCTATCTATGTATACCAA-ACC
1 TACTCTTTTCTTCTCTTTTGCAAGTATCTATCTATATATA-CAATACC
15255109 TACTCTTTTCTTCT-TTATTGC-AGCTATCTATCTATATATACAATACC
1 TACTCTTTTCTTCTCTT-TTGCAAG-TATCTATCTATATATACAATACC
15255156 TA
1 TA
15255158 TTATTTATTC
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
46 7 0.16
47 38 0.84
ACGTcount: A:0.25, C:0.24, G:0.05, T:0.46
Consensus pattern (47 bp):
TACTCTTTTCTTCTCTTTTGCAAGTATCTATCTATATATACAATACC
Found at i:15260432 original size:12 final size:12
Alignment explanation
Indices: 15260400--15260443 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
15260390 ATTACACCAT
15260400 TAAATAAATATA
1 TAAATAAATATA
*
15260412 T--ATATATATA
1 TAAATAAATATA
15260422 TAAATAAATATA
1 TAAATAAATATA
*
15260434 TATATAAATA
1 TAAATAAATA
15260444 AATACAATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
10 9 0.33
12 18 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
TAAATAAATATA
Found at i:15260434 original size:16 final size:16
Alignment explanation
Indices: 15260403--15260447 Score: 72
Period size: 16 Copynumber: 2.7 Consensus size: 16
15260393 ACACCATTAA
15260403 ATAAATATATATATATAT
1 ATAAATA-A-ATATATAT
15260421 ATAAATAAATATATAT
1 ATAAATAAATATATAT
15260437 ATAAATAAATA
1 ATAAATAAATA
15260448 CAATGATGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
16 19 0.70
17 1 0.04
18 7 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAAATAAATATATAT
Found at i:15265747 original size:74 final size:73
Alignment explanation
Indices: 15265588--15266017 Score: 575
Period size: 74 Copynumber: 5.9 Consensus size: 73
15265578 TTATGAGTTA
* *
15265588 TTTTATCTATTTATTTATTTATTTGTTATTCTTTTAC-TATTAAATATTTAAATTTGACATTATC
1 TTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATC
*
15265652 TATATTCG
66 TATATTTG
** *
15265660 TTTTATCTATTTATTTATTTATTCCTTATTCTCTTACTTTTTAAATATTTAAAATTTGATATTAT
1 TTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTT-AAATTTGATATTAT
15265725 CTATATTTG
65 CTATATTTG
** * *
15265734 TTTTATCTATTTATTTATTTATTCATTATTCCTTCACTTTTTAAATATTTAAAATTTGATATTAT
1 TTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTT-AAATTTGATATTAT
* * *
15265799 TTATATCTA
65 CTATATTTG
* *
15265808 TATTATCCGTTTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGGTAT
1 TTTTAT-C---TATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATAT
15265873 TAT-TAATATTTG
62 TATCT-ATATTTG
*
15265885 TTTTATC----TATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATT
1 TTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATC
15265946 TATATTTG
66 TATATTTG
* * **
15265954 TTTTATCTATTTGTTCATTTATTTGTTATTCTTACACTTTTTAAATATTTAAATTTGATATTAT
1 TTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTAT
15266018 TATTAAAGTA
Statistics
Matches: 319, Mismatches: 27, Indels: 23
0.86 0.07 0.06
Matches are distributed among these distances:
69 66 0.21
70 1 0.00
72 34 0.11
73 60 0.19
74 93 0.29
75 1 0.00
76 2 0.01
77 23 0.07
78 39 0.12
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.61
Consensus pattern (73 bp):
TTTTATCTATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATC
TATATTTG
Found at i:15265896 original size:61 final size:61
Alignment explanation
Indices: 15265825--15265968 Score: 189
Period size: 69 Copynumber: 2.2 Consensus size: 61
15265815 CGTTTATTTA
* *
15265825 TTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGGTATTATTAATATTTGT
1 TTTATCTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTAATATTTGT
*
15265886 TTTATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTTATAT
1 TTTATC--------TATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTAATAT
15265951 TTGT
58 TTGT
15265955 TTTATCTATTTGTT
1 TTTATCTATTTGTT
15265969 CATTTATTTG
Statistics
Matches: 72, Mismatches: 3, Indels: 16
0.79 0.03 0.18
Matches are distributed among these distances:
61 13 0.18
69 59 0.82
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.65
Consensus pattern (61 bp):
TTTATCTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATTAATATTTGT
Found at i:15265994 original size:220 final size:222
Alignment explanation
Indices: 15265595--15266018 Score: 662
Period size: 220 Copynumber: 1.9 Consensus size: 222
15265585 TTATTTTATC
15265595 TATTTATTTATTTATTTGTTATTCTTTTACTATTAAATATTTAAATTTGACATTATCTATATTCG
1 TATTTATTTATTTATTTGTTATTCTTTTACTATTAAATATTTAAATTTGACATTATCTATATTCG
15265660 TTTTATCTATTTATTTATTTATTCCTTATTCTCTTACTTTTTAAATATTTAAAATTTGATATTAT
66 TTTTATCTATTTATTTA-TTATTCCTTATTCTCTTACTTTTTAAATATTTAAAATTTGATATTAT
*
15265725 CTATATTTGTTTTATCTATTTATTTATTTATTCATTATTCCTTCACTTTTTAAATATTTAAAATT
130 CTATATTTGTTTTATCTATTTATTCATTTATTCATTATTCCTTCACTTTTTAAATATTT-AAATT
15265790 TGATATTATTTATATCTATATTATCCGTT
194 TGATATTATTTATATCTATATTATCCGTT
* **
15265819 TATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGGTATTAT-TAATATT
1 TATTTATTTATTTATTTGTTATTCTTTTAC-TATTAAATATTTAAATTTGACATTATCT-ATATT
* * *
15265883 TGTTTTATCTATTTATTTA-T-TT-GTTATTCTTTTACTTTTTAAATATTT-AAATTTGATATTA
64 CGTTTTATCTATTTATTTATTATTCCTTATTCTCTTACTTTTTAAATATTTAAAATTTGATATTA
* * **
15265944 TTTATATTTGTTTTATCTATTTGTTCATTTATTTGTTATT-CTTACACTTTTTAAATATTTAAAT
129 TCTATATTTGTTTTATCTATTTATTCATTTATTCATTATTCCTT-CACTTTTTAAATATTTAAAT
15266008 TTGATATTATT
193 TTGATATTATT
15266019 ATTAAAGTAT
Statistics
Matches: 186, Mismatches: 11, Indels: 11
0.89 0.05 0.05
Matches are distributed among these distances:
219 18 0.10
220 64 0.34
221 24 0.13
222 2 0.01
223 1 0.01
224 31 0.17
225 46 0.25
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.61
Consensus pattern (222 bp):
TATTTATTTATTTATTTGTTATTCTTTTACTATTAAATATTTAAATTTGACATTATCTATATTCG
TTTTATCTATTTATTTATTATTCCTTATTCTCTTACTTTTTAAATATTTAAAATTTGATATTATC
TATATTTGTTTTATCTATTTATTCATTTATTCATTATTCCTTCACTTTTTAAATATTTAAATTTG
ATATTATTTATATCTATATTATCCGTT
Found at i:15266038 original size:73 final size:74
Alignment explanation
Indices: 15265595--15266044 Score: 423
Period size: 73 Copynumber: 6.1 Consensus size: 74
15265585 TTATTTTATC
* * * *
15265595 TATTTATTTATTTATTTGTTATTCTTTTAC-TATTAAATATTTAAATTTGACATTA-TCTATATT
1 TATTTATTTATTTATTTGTTATTCTTTCACTTTTTAAATATTTAAATTTGATATTATTATATATT
* * *
15265658 CGTTTTATC-
66 AG-TATACCT
**
15265667 TATTTATTTATTTATTCCTTATTCTCTT-ACTTTTTAAATATTTAAAATTTGATATTATCTATAT
1 TATTTATTTATTTATTTGTTATTCT-TTCACTTTTTAAATATTT-AAATTTGATATTAT-TATAT
* *
15265731 -TT-GTTTTATC-
63 ATTAG-TATACCT
** *
15265741 TATTTATTTATTTATTCATTATTCCTTCACTTTTTAAATATTTAAAATTTGATATTATT-TATAT
1 TATTTATTTATTTATTTGTTATTCTTTCACTTTTTAAATATTT-AAATTTGATATTATTATATAT
15265805 CTA-TATTATCCGTT
65 -TAGTA-TA-CC--T
* *
15265819 TATTTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGGTATTATTA-ATATT
1 TATTTATTTATTTATTTGTTATTCTTTCACTTTTTAAATATTTAAATTTGATATTATTATATATT
*
15265883 TGT-T---T
66 AGTATACCT
* *
15265888 TATCTATTTATTTATTTGTTATTCTTTTACTTTTTAAATATTTAAATTTGATATTATT-TATATT
1 TATTTATTTATTTATTTGTTATTCTTTCACTTTTTAAATATTTAAATTTGATATTATTATATATT
* * *
15265952 TGTTTTATC-
66 AG-TATACCT
* * * *
15265961 TATTTGTTCATTTATTTGTTATTCTTACACTTTTTAAATATTTAAATTTGATATTATTAT-TA-A
1 TATTTATTTATTTATTTGTTATTCTTTCACTTTTTAAATATTTAAATTTGATATTATTATATATT
15266024 AGTATACCCT
66 AGTATA-CCT
15266034 TATTTATTTAT
1 TATTTATTTAT
15266045 ATTTATCATT
Statistics
Matches: 325, Mismatches: 28, Indels: 49
0.81 0.07 0.12
Matches are distributed among these distances:
69 64 0.20
70 1 0.00
71 4 0.01
72 30 0.09
73 82 0.25
74 77 0.24
75 4 0.01
76 5 0.02
77 19 0.06
78 39 0.12
ACGTcount: A:0.28, C:0.08, G:0.04, T:0.61
Consensus pattern (74 bp):
TATTTATTTATTTATTTGTTATTCTTTCACTTTTTAAATATTTAAATTTGATATTATTATATATT
AGTATACCT
Found at i:15268188 original size:42 final size:42
Alignment explanation
Indices: 15268140--15268225 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
15268130 AACTTCCATA
15268140 ACAAGAGAATCAAGAATATAAGAAATCCAATTTAGAAAACTT
1 ACAAGAGAATCAAGAATATAAGAAATCCAATTTAGAAAACTT
15268182 ACAAGAGAATCAAGAATATAAGAAATCCAATTTAGAAAACTT
1 ACAAGAGAATCAAGAATATAAGAAATCCAATTTAGAAAACTT
15268224 AC
1 AC
15268226 CTATCAAAGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.55, C:0.13, G:0.12, T:0.21
Consensus pattern (42 bp):
ACAAGAGAATCAAGAATATAAGAAATCCAATTTAGAAAACTT
Found at i:15271427 original size:43 final size:43
Alignment explanation
Indices: 15271378--15271472 Score: 165
Period size: 43 Copynumber: 2.2 Consensus size: 43
15271368 AGATATAGAA
15271378 ATGTGGAAATATGAAATTAATATTGGC-GAAAGATACATATGAG
1 ATGTGGAAATATGAAATTAATATTGGCAG-AAGATACATATGAG
*
15271421 ATGTGGAAATATGAAATTGATATTGGCAGAAGATACATATGAG
1 ATGTGGAAATATGAAATTAATATTGGCAGAAGATACATATGAG
15271464 ATGTGGAAA
1 ATGTGGAAA
15271473 ATATTATATG
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
43 49 0.98
44 1 0.02
ACGTcount: A:0.43, C:0.04, G:0.25, T:0.27
Consensus pattern (43 bp):
ATGTGGAAATATGAAATTAATATTGGCAGAAGATACATATGAG
Found at i:15271429 original size:21 final size:21
Alignment explanation
Indices: 15271405--15271472 Score: 68
Period size: 21 Copynumber: 3.2 Consensus size: 21
15271395 TAATATTGGC
15271405 GAAAGATACATATGAGATGTG
1 GAAAGATACATATGAGATGTG
* * *
15271426 GAAATATGAAAT-TGATAT-TG
1 GAAAGAT-ACATATGAGATGTG
15271446 GCAGAAGATACATATGAGATGTG
1 G-A-AAGATACATATGAGATGTG
15271469 GAAA
1 GAAA
15271473 ATATTATATG
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
20 3 0.08
21 17 0.47
22 13 0.36
23 3 0.08
ACGTcount: A:0.44, C:0.04, G:0.26, T:0.25
Consensus pattern (21 bp):
GAAAGATACATATGAGATGTG
Found at i:15275789 original size:2 final size:2
Alignment explanation
Indices: 15275782--15275820 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
15275772 TTATTCACTT
15275782 TA 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 TA T
15275821 TAACTAAATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:15276120 original size:33 final size:35
Alignment explanation
Indices: 15276074--15276139 Score: 82
Period size: 33 Copynumber: 1.9 Consensus size: 35
15276064 CTTGTCTTTA
* *
15276074 ATTTAATTTAATAATAA-TAAATA-ATAAATATCT
1 ATTTAATTAAATAACAAGTAAATAGATAAATATCT
* *
15276107 ATTTACTTAAATAACAAGTAATTAGATAAATAT
1 ATTTAATTAAATAACAAGTAAATAGATAAATAT
15276140 GTTACAATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
33 14 0.52
34 5 0.19
35 8 0.30
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.39
Consensus pattern (35 bp):
ATTTAATTAAATAACAAGTAAATAGATAAATATCT
Found at i:15276280 original size:12 final size:13
Alignment explanation
Indices: 15276223--15276292 Score: 51
Period size: 12 Copynumber: 5.4 Consensus size: 13
15276213 AATAATTTAA
15276223 TAATATAATATCAAT
1 TAATAT-ATAT-AAT
15276238 TAA-ATA-ATAAT
1 TAATATATATAAT
*
15276249 AAATATATA-ACATCT
1 TAATATATATA-A--T
15276264 TAATATAT-TAAT
1 TAATATATATAAT
15276276 TAATATATATAA-
1 TAATATATATAAT
15276288 TAATA
1 TAATA
15276293 ATCTTTAGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 17
0.71 0.03 0.26
Matches are distributed among these distances:
11 5 0.11
12 20 0.43
13 6 0.13
14 3 0.07
15 12 0.26
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATATATATAAT
Found at i:15282252 original size:20 final size:20
Alignment explanation
Indices: 15282223--15282262 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
15282213 ATTCTTTTTC
*
15282223 TTGCTTTGTTTTTGTTATAT
1 TTGCTCTGTTTTTGTTATAT
15282243 TTGCTCTGTTTTTGTTATAT
1 TTGCTCTGTTTTTGTTATAT
15282263 GAAAATAGAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.07, G:0.15, T:0.68
Consensus pattern (20 bp):
TTGCTCTGTTTTTGTTATAT
Found at i:15283431 original size:30 final size:30
Alignment explanation
Indices: 15283397--15283457 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
15283387 TCCTTAACTC
15283397 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
15283427 AAACTTTTGTATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
15283457 A
1 A
15283458 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.21, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:15285677 original size:19 final size:19
Alignment explanation
Indices: 15285633--15285679 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
15285623 CTTAACTGAG
15285633 ACTAATTTTTATTCTTCAT
1 ACTAATTTTTATTCTTCAT
* *
15285652 ATTTAATTTTATATT-TTTAT
1 A-CTAATTTT-TATTCTTCAT
15285672 ACTAATTT
1 ACTAATTT
15285680 CACTTTAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.30
20 12 0.52
21 4 0.17
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.62
Consensus pattern (19 bp):
ACTAATTTTTATTCTTCAT
Found at i:15286027 original size:14 final size:14
Alignment explanation
Indices: 15286008--15286053 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
15285998 GCTGTGCGTA
15286008 TTTCTCTTTTCTTC
1 TTTCTCTTTTCTTC
*
15286022 TTTCTCATTT-TTC
1 TTTCTCTTTTCTTC
15286035 TTTCT-TTTTCTTTC
1 TTTCTCTTTTC-TTC
15286049 TTTCT
1 TTTCT
15286054 AATTTGTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 3 0.11
13 8 0.29
14 17 0.61
ACGTcount: A:0.02, C:0.24, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTCTCTTTTCTTC
Found at i:15286036 original size:21 final size:19
Alignment explanation
Indices: 15286007--15286045 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
15285997 CGCTGTGCGT
15286007 ATTTCTCTTTTCTTCTTTCTC
1 ATTTCTC-TTTCTT-TTTCTC
*
15286028 ATTTTTCTTTCTTTTTCT
1 ATTTCTCTTTCTTTTTCT
15286046 TTCTTTCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 6 0.35
21 6 0.35
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (19 bp):
ATTTCTCTTTCTTTTTCTC
Found at i:15286049 original size:27 final size:27
Alignment explanation
Indices: 15286005--15286078 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
15285995 AACGCTGTGC
*
15286005 GTATTTCTCTTTTC-TTCTTTCTCATTT
1 GTATTTCT-TTTTCTTTCTTTCTAATTT
* *
15286032 TTCTTTCTTTTTCTTTCTTTCTAATTT
1 GTATTTCTTTTTCTTTCTTTCTAATTT
*
15286059 GTATGTCTTTTTCTTTCTTT
1 GTATTTCTTTTTCTTTCTTT
15286079 TTTTTAATAC
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
26 5 0.12
27 35 0.88
ACGTcount: A:0.07, C:0.19, G:0.04, T:0.70
Consensus pattern (27 bp):
GTATTTCTTTTTCTTTCTTTCTAATTT
Found at i:15296833 original size:10 final size:10
Alignment explanation
Indices: 15296818--15296842 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15296808 CTAACTCTAA
15296818 AAATTAAAAT
1 AAATTAAAAT
15296828 AAATTAAAAT
1 AAATTAAAAT
15296838 AAATT
1 AAATT
15296843 TATTTTTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
AAATTAAAAT
Found at i:15297426 original size:33 final size:28
Alignment explanation
Indices: 15297365--15297421 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
15297355 GCGCTCGCCC
15297365 TTTCATTCATTTACAATAATACCTCTTT
1 TTTCATTCATTTACAATAATACCTCTTT
15297393 TTTCATTCATTTACAATAATACCTCTTT
1 TTTCATTCATTTACAATAATACCTCTTT
15297421 T
1 T
15297422 CTTTTCTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.28, C:0.21, G:0.00, T:0.51
Consensus pattern (28 bp):
TTTCATTCATTTACAATAATACCTCTTT
Found at i:15297759 original size:21 final size:21
Alignment explanation
Indices: 15297735--15297789 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
15297725 ATAATGGTGA
* *
15297735 CGGTAAGATTAGATATTATGG
1 CGGTGAGATTAGATATTATAG
*
15297756 CGGTGAGATTGGATATTATAG
1 CGGTGAGATTAGATATTATAG
15297777 CGGTGAGATTAGA
1 CGGTGAGATTAGA
15297790 AACAGCGGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.31, C:0.05, G:0.33, T:0.31
Consensus pattern (21 bp):
CGGTGAGATTAGATATTATAG
Found at i:15301275 original size:21 final size:21
Alignment explanation
Indices: 15301249--15301297 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
15301239 CAGAAACAGT
*
15301249 TATACCGGAAGATCATCGATG
1 TATACCGGAAGATCATCGACG
**
15301270 TATACCGGTCGATCATCGACG
1 TATACCGGAAGATCATCGACG
15301291 TATACCG
1 TATACCG
15301298 ATCATCAAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (21 bp):
TATACCGGAAGATCATCGACG
Found at i:15305771 original size:7 final size:7
Alignment explanation
Indices: 15305759--15305788 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
15305749 ACTCGCTGTA
15305759 TGGAAAG
1 TGGAAAG
*
15305766 TGGAAAA
1 TGGAAAG
15305773 TGGAAAG
1 TGGAAAG
15305780 TGGAAAG
1 TGGAAAG
15305787 TG
1 TG
15305789 TGTGTTTCGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.40, T:0.17
Consensus pattern (7 bp):
TGGAAAG
Found at i:15311825 original size:14 final size:14
Alignment explanation
Indices: 15311806--15311835 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15311796 TCAATACTAA
15311806 TGGCAAACAACTTT
1 TGGCAAACAACTTT
*
15311820 TGGCAAACCACTTT
1 TGGCAAACAACTTT
15311834 TG
1 TG
15311836 TTGAATTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (14 bp):
TGGCAAACAACTTT
Found at i:15312637 original size:16 final size:16
Alignment explanation
Indices: 15312574--15312640 Score: 59
Period size: 16 Copynumber: 4.2 Consensus size: 16
15312564 TCAATTCAAA
15312574 TAATTT-TA-TTAAAT
1 TAATTTATATTTAAAT
* *
15312588 GAATTTATATGATAAAT
1 TAATTTATAT-TTAAAT
* *
15312605 AAATTTTAAATTT-AAT
1 TAA-TTTATATTTAAAT
15312621 TAATTTATATTTAAAT
1 TAATTTATATTTAAAT
15312637 TAAT
1 TAAT
15312641 ATGTTTGATT
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
14 5 0.12
15 10 0.24
16 12 0.29
17 8 0.20
18 6 0.15
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (16 bp):
TAATTTATATTTAAAT
Found at i:15319789 original size:15 final size:14
Alignment explanation
Indices: 15319771--15319826 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 14
15319761 AAAAGTCTTC
15319771 AAAAATAAATAAAAG
1 AAAAA-AAATAAAAG
*
15319786 -AAAAAGA-AAAAG
1 AAAAAAAATAAAAG
*
15319798 AAAAAAAAGAAAAAG
1 AAAAAAAA-TAAAAG
15319813 AAAAAATAATAAAA
1 AAAAAA-AATAAAA
15319827 TAAATAGACT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
12 5 0.15
13 8 0.24
14 4 0.12
15 15 0.44
16 2 0.06
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (14 bp):
AAAAAAAATAAAAG
Found at i:15319792 original size:6 final size:6
Alignment explanation
Indices: 15319781--15319817 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
15319771 AAAAATAAAT
15319781 AAAAGA AAAAGA AAAAG- -AAA-A AAAAGA AAAAGA AAAA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAA
15319818 ATAATAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
4 3 0.11
5 3 0.11
6 22 0.79
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:15319795 original size:21 final size:20
Alignment explanation
Indices: 15319771--15319826 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 20
15319761 AAAAGTCTTC
15319771 AAAAATAAATAAAAGAAAAAG
1 AAAAA-AAATAAAAGAAAAAG
*
15319792 AAAAAGAAAAAAAAGAAAAAG
1 AAAAA-AAATAAAAGAAAAAG
15319813 AAAAAATAATAAAA
1 AAAAAA-AATAAAA
15319827 TAAATAGACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.97
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (20 bp):
AAAAAAAATAAAAGAAAAAG
Found at i:15321447 original size:23 final size:23
Alignment explanation
Indices: 15321415--15321460 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
15321405 AGAGACAAAG
*
15321415 AGAAATAAAATAAAATAA-AATAA
1 AGAAACAAAATAAAA-AATAATAA
15321438 AGAAACAAAATAAAAAATAATAA
1 AGAAACAAAATAAAAAATAATAA
15321461 TTAAACTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.10
23 19 0.90
ACGTcount: A:0.78, C:0.02, G:0.04, T:0.15
Consensus pattern (23 bp):
AGAAACAAAATAAAAAATAATAA
Found at i:15325136 original size:15 final size:14
Alignment explanation
Indices: 15325119--15325145 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15325109 AAGCAATTTA
15325119 AAAAGAAAAATTAG
1 AAAAGAAAAATTAG
15325133 AAAAGAAAAATTA
1 AAAAGAAAAATTA
15325146 AGCTAAAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.00, G:0.11, T:0.15
Consensus pattern (14 bp):
AAAAGAAAAATTAG
Found at i:15332185 original size:46 final size:46
Alignment explanation
Indices: 15332116--15332246 Score: 190
Period size: 46 Copynumber: 2.8 Consensus size: 46
15332106 ATAATTTCAC
*
15332116 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGATGTTCGCAT
* * * * *
15332162 CCATAATGAACTCGGAACACAACTTAACAAGTTCGGATGTTTGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGATGTTCGCAT
*
15332208 CCATAAGTGAACTCGGAACGCAACTCAATGAGCTCGGAT
1 CCATAA-TGAACTCGGAACGCAACTCAACGAGCTCGGAT
15332247 CTCAATTTCC
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
46 46 0.63
47 27 0.37
ACGTcount: A:0.32, C:0.25, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:15339392 original size:30 final size:29
Alignment explanation
Indices: 15339351--15339413 Score: 81
Period size: 30 Copynumber: 2.1 Consensus size: 29
15339341 AATCAATATG
* *
15339351 AGTTATCAAATTAAATTAATTAATTTTATA
1 AGTTATCAAATTAAAGTAATCAA-TTTATA
* *
15339381 AGTTATTAAATTCAAGTAATCAATTTATA
1 AGTTATCAAATTAAAGTAATCAATTTATA
15339410 AGTT
1 AGTT
15339414 TATGATATTC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.44
Consensus pattern (29 bp):
AGTTATCAAATTAAAGTAATCAATTTATA
Found at i:15340486 original size:23 final size:22
Alignment explanation
Indices: 15340460--15340509 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
15340450 AATTAACGTG
* **
15340460 AATATTTTAATTAAAAAATTTTA
1 AATATTTTAA-AAAAAAAACTTA
*
15340483 AATAATTTAAAAAAAAAACTTA
1 AATATTTTAAAAAAAAAACTTA
15340505 AATAT
1 AATAT
15340510 CATGATAAAG
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 13 0.59
23 9 0.41
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
AATATTTTAAAAAAAAAACTTA
Found at i:15346723 original size:42 final size:42
Alignment explanation
Indices: 15346664--15346752 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
15346654 TCCTAATTGG
15346664 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
15346706 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAA
1 GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
*
15346748 TAAAA
1 GAAAA
15346753 ATATTCCTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.52, C:0.15, G:0.06, T:0.28
Consensus pattern (42 bp):
GAAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAA
Found at i:15346773 original size:43 final size:42
Alignment explanation
Indices: 15346665--15346774 Score: 107
Period size: 42 Copynumber: 2.6 Consensus size: 42
15346655 CCTAATTGGG
* * * *
15346665 AAAATAGTTCCCTTATTCTAATAAACTACTAAAACATAAAAG
1 AAAATAGTTCCCTGAATATAATAAACTACTAAAACATAAAAA
* * * *
15346707 AAAATAGTTCCCTTATTCTAATAAACTACTAAAAGATAAAATA
1 AAAATAGTTCCCTGAATATAATAAACTACTAAAACATAAAA-A
15346750 AAAATA-TT-CCTAGAATATGAATAAA
1 AAAATAGTTCCCT-GAATAT-AATAAA
15346775 ACTTATCTAC
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
41 3 0.05
42 45 0.75
43 12 0.20
ACGTcount: A:0.52, C:0.14, G:0.05, T:0.29
Consensus pattern (42 bp):
AAAATAGTTCCCTGAATATAATAAACTACTAAAACATAAAAA
Found at i:15353723 original size:959 final size:959
Alignment explanation
Indices: 15351865--15353788 Score: 3195
Period size: 959 Copynumber: 2.0 Consensus size: 959
15351855 TCACTTGGGG
*
15351865 CTTATTACGGTTTTGTGATTATTTAAACTGAAACTCATCAAAACACGATTTTCCTAAAAACTAAG
1 CTTATTACGGTTTTGTGATTATTTAAACTGAAACTCATCAAAACACGATTTCCCTAAAAACTAAG
*
15351930 GTTTCGTAAATAAAAATGTTTTTACTTAAAACTAAATATTTGGGTTTCAAAAACTTTCGCGTAAA
66 GTTTCATAAATAAAAATGTTTTTACTTAAAACTAAATATTTGGGTTTCAAAAACTTTCGCGTAAA
15351995 AGAGATGATTTGAATCAAATCAATTAGAACTTGGATTCCCGAACTGAGTAAAAGCTAATAAATGG
131 AGAGATGATTTGAATCAAATCAATTAGAACTTGGATTCCCGAACTGAGTAAAAGCTAATAAATGG
* *
15352060 AAAGATTTGAAGGTTAATACATTTTTCTAAAATACAATCATGTGACTTTGCCAGATTCAGCCATA
196 AAAGATTTGAAGGTTAATACATTTTTCTAAAACACAATCATGTAACTTTGCCAGATTCAGCCATA
*
15352125 ACGTCCAGGCCGAGTTTGGGGTGTTACATTTAGTGGTATCAGAGCCAGATTACAAAACTCGACTG
261 ACGTCCAGGCCGAGTTTGGGATGTTACATTTAGTGGTATCAGAGCCAGATTACAAAACTCGACTG
* * * *
15352190 TGGATTTGGGTTTGATAGATTGGTTTTAAAGAAATAATTTGTAAATAATTTAAAATATTTTTTCT
326 TAGATTTGGGTTTGAAAGATTGGTTTTAAAGAAATAATTTGTAAATAATTTAAAATATTTTTGCA
* * * * *
15352255 ATAAGTATATGGTACATCGAGTCTTCGGCGCCGATCCTGTAAGTTCTTTGAAACTCTGTTTAAAA
391 ATAAGTATATGGTACATCGAGTCTTCGACGCCGATACTGTAAGTTCTCTAAAACTCCGTTTAAAA
*
15352320 TTGTCTAAAAATATGATTAGGATATACTGAAACTACTTTAGTTAGTATATTACACTGAAAATACT
456 TTGTCTAAAAATATGATTAGAATATACTGAAACTACTTTAGTTAGTATATTACACTGAAAATACT
** * *
15352385 CTAGGTAGTGTAGACTGAAAAATGTAGTGAGACTACTACTCGCGATAACTAACTCTGAATATTCT
521 CTAGACAATGTAGACTGAAAAATGTAGTGAGACTACTACTCGCGATAACTAACTATGAATATTCT
*
15352450 GATACTGCACTGCATAAAATATCTGTTAATAAATATTGAAACTGTAACTGATGCATAAAACTTTT
586 GATACTGCACTGCATAAAATATCTGTTAATAAATATTGAAACTGTAACTGATGCATAAAACTGTT
*
15352515 AATATAGATAAACTCTGAAATTACGATAAGCACATGTGGTACTCGTGGACGGGGTACTAGAGGCT
651 AATATAGATAAACTCTGAAATTACGATAAGCACATGTGGTACTCGTGGACAGGGTACTAGAGGCT
* *
15352580 GTGGTAGGGGTCGTAGAGGGGCTCGAGCTAAGTCTTTGGCATCTGATACTATTCCAAATCTGGGT
716 GTGGTAGGGGTCATAGAGGGGCTCGAGCTAAGTCCTTGGCATCTGATACTATTCCAAATCTGGGT
** **
15352645 ACTAGCGAGACGTCGGTATCACCTGCGACAGAGATTGGGTCTGGGTCTTATGATCGTGCGGCTGG
781 ACTAGCGAGACACCAATATCACCTGCGACAGAGATTGGGTCTGGGTCTTATGATCGTGCGGCTGG
**
15352710 GGACGGCGCACTGTCCCAAGCCATGCTACGGATCTTGGAGAGGGTCACTGGGCCCAATACTGGTT
846 GGACAACGCACTGTCCCAAGCCATGCTACGGATCTTGGAGAGGGTCACTGGGCCCAATACTGGTT
* *
15352775 CTGGGGGCCGAGGGTCAGTTACGGAACAACTCTGGTCTAATGGGGCTGA
911 CTGGGGGCCGAGGGTCAGTTACAGAACAACTCTGGTCCAATGGGGCTGA
* * * * *
15352824 CTTATTATGGTTTTGTGATTATTTAAACTGTAACTCATCAAAACATGGTTTCCCTAAAAGCTAAG
1 CTTATTACGGTTTTGTGATTATTTAAACTGAAACTCATCAAAACACGATTTCCCTAAAAACTAAG
* *
15352889 GTTTCATAAATAAAAATGTTTTTACTTAAAACTAATTATTTGGGTTTCAAAAGCTTTCGCGTAAA
66 GTTTCATAAATAAAAATGTTTTTACTTAAAACTAAATATTTGGGTTTCAAAAACTTTCGCGTAAA
15352954 AGAGATGATTTGAATCAAATCAATTAGAACTTGGATTCCCGAACTGAGTAAAAGCTAATAAATGG
131 AGAGATGATTTGAATCAAATCAATTAGAACTTGGATTCCCGAACTGAGTAAAAGCTAATAAATGG
** *
15353019 AAAGATTTGAAGGTTAATACATTTTTCTAAAACACTCTCATGTAACTTTGCCAGATTCGGCCATA
196 AAAGATTTGAAGGTTAATACATTTTTCTAAAACACAATCATGTAACTTTGCCAGATTCAGCCATA
* * * *
15353084 ACGTCCAGGCCGGGTTTGGGATGTTGCATTTAGTGGTATCAGATCCAGATTACAAAACTCGGCTG
261 ACGTCCAGGCCGAGTTTGGGATGTTACATTTAGTGGTATCAGAGCCAGATTACAAAACTCGACTG
* *
15353149 TAGATTTGGGTTTGAAAGATTGGTTTTAAAGAAATAATTTGTAAATAATTTGAAATATTTTTGGA
326 TAGATTTGGGTTTGAAAGATTGGTTTTAAAGAAATAATTTGTAAATAATTTAAAATATTTTTGCA
* * * * *
15353214 ATAAGTGTGTGGTACATCGAGTTTTCGATGCCGATATTGTAAGTTCTCTAAAACTCCGTTTAAAA
391 ATAAGTATATGGTACATCGAGTCTTCGACGCCGATACTGTAAGTTCTCTAAAACTCCGTTTAAAA
*
15353279 TTGTCTGAAAATATGATTAGAATATACTGAAACTACTTTAGTTAGTATATTACACTGAAAATACT
456 TTGTCTAAAAATATGATTAGAATATACTGAAACTACTTTAGTTAGTATATTACACTGAAAATACT
* *
15353344 CTAGACAATGTAGAGT-AAAAACTGTAGTGAGATTACTACTCGCGATAACTAACTATGAATATTC
521 CTAGACAATGTAGACTGAAAAA-TGTAGTGAGACTACTACTCGCGATAACTAACTATGAATATTC
*
15353408 TGATACTGTACTGCATAAAATATCTGTTAATAAATATTGAAACTGTAACTGATGCATAAAACTGT
585 TGATACTGCACTGCATAAAATATCTGTTAATAAATATTGAAACTGTAACTGATGCATAAAACTGT
* * *
15353473 TAATATAGATAAACTCTGAAATTATGATAGGCACATGTGGTACTCGTGGATAGGGTACTAGAGGC
650 TAATATAGATAAACTCTGAAATTACGATAAGCACATGTGGTACTCGTGGACAGGGTACTAGAGGC
* **
15353538 TGTGGTAGGGGTCATAGAGGGGCTCGAGCTGAGTCCTTGGCATCTGATACTATTCTGAATCTGGG
715 TGTGGTAGGGGTCATAGAGGGGCTCGAGCTAAGTCCTTGGCATCTGATACTATTCCAAATCTGGG
* *
15353603 TACTAGTGAGACACCAATATCACTTGCGACAGAGATTGGGTCTGGGT-TTGATGATCGTGCGGCT
780 TACTAGCGAGACACCAATATCACCTGCGACAGAGATTGGGTCTGGGTCTT-ATGATCGTGCGGCT
* *
15353667 GGGGACAACGCACTGTCCCAAGGCATGCTACGGATCTTGGAGAGGGTCGCTGGGCCCAATACTGG
844 GGGGACAACGCACTGTCCCAAGCCATGCTACGGATCTTGGAGAGGGTCACTGGGCCCAATACTGG
**
15353732 TTCTGGGGGCCGAGGGTTGGTTACAGAACAACTCTGGTCCAATGGGGCTGA
909 TTCTGGGGGCCGAGGGTCAGTTACAGAACAACTCTGGTCCAATGGGGCTGA
*
15353783 GTTATT
1 CTTATT
15353789 CAGGGGTGTT
Statistics
Matches: 894, Mismatches: 69, Indels: 4
0.92 0.07 0.00
Matches are distributed among these distances:
958 7 0.01
959 887 0.99
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (959 bp):
CTTATTACGGTTTTGTGATTATTTAAACTGAAACTCATCAAAACACGATTTCCCTAAAAACTAAG
GTTTCATAAATAAAAATGTTTTTACTTAAAACTAAATATTTGGGTTTCAAAAACTTTCGCGTAAA
AGAGATGATTTGAATCAAATCAATTAGAACTTGGATTCCCGAACTGAGTAAAAGCTAATAAATGG
AAAGATTTGAAGGTTAATACATTTTTCTAAAACACAATCATGTAACTTTGCCAGATTCAGCCATA
ACGTCCAGGCCGAGTTTGGGATGTTACATTTAGTGGTATCAGAGCCAGATTACAAAACTCGACTG
TAGATTTGGGTTTGAAAGATTGGTTTTAAAGAAATAATTTGTAAATAATTTAAAATATTTTTGCA
ATAAGTATATGGTACATCGAGTCTTCGACGCCGATACTGTAAGTTCTCTAAAACTCCGTTTAAAA
TTGTCTAAAAATATGATTAGAATATACTGAAACTACTTTAGTTAGTATATTACACTGAAAATACT
CTAGACAATGTAGACTGAAAAATGTAGTGAGACTACTACTCGCGATAACTAACTATGAATATTCT
GATACTGCACTGCATAAAATATCTGTTAATAAATATTGAAACTGTAACTGATGCATAAAACTGTT
AATATAGATAAACTCTGAAATTACGATAAGCACATGTGGTACTCGTGGACAGGGTACTAGAGGCT
GTGGTAGGGGTCATAGAGGGGCTCGAGCTAAGTCCTTGGCATCTGATACTATTCCAAATCTGGGT
ACTAGCGAGACACCAATATCACCTGCGACAGAGATTGGGTCTGGGTCTTATGATCGTGCGGCTGG
GGACAACGCACTGTCCCAAGCCATGCTACGGATCTTGGAGAGGGTCACTGGGCCCAATACTGGTT
CTGGGGGCCGAGGGTCAGTTACAGAACAACTCTGGTCCAATGGGGCTGA
Found at i:15360989 original size:50 final size:50
Alignment explanation
Indices: 15360865--15361103 Score: 286
Period size: 50 Copynumber: 4.8 Consensus size: 50
15360855 AGCCGAAGCT
* *
15360865 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACC-AACA
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACA
* * * *
15360914 ATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACA
* * *
15360964 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA--CA
* * * * *
15361015 AT-TGAGTACGCATAATAGCCTGCACTTAGTACTACACATGCGACTTAACA
1 ATCTGA-TACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACA
* *
15361065 ATATGGTACACGTAGTAGCCTGCACTTAGTACTACACAC
1 ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACAC
15361104 AAGTACTCAC
Statistics
Matches: 161, Mismatches: 23, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
49 42 0.26
50 80 0.50
51 38 0.24
52 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (50 bp):
ATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAACA
Found at i:15361075 original size:101 final size:99
Alignment explanation
Indices: 15360868--15361103 Score: 296
Period size: 101 Copynumber: 2.4 Consensus size: 99
15360858 CGAAGCTATC
* * * *
15360868 TGATACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAACAATCTGGTACACGTAGTAGC
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACAATCTGGTACACATAATAGC
* * * *
15360933 CTGCACTTAGTACTACACACGTGACCTCACCATC
66 CTGCACTTAGTACTACACACGCGACCTAACAATA
* * *
15360967 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTC-AT-TGAGTACGCATAA
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGA-CCAA--CAATCTG-GTACACATAA
* *
15361030 TAGCCTGCACTTAGTACTACACATGCGACTTAACAATA
62 TAGCCTGCACTTAGTACTACACACGCGACCTAACAATA
*
15361068 TGGTACACGTAGTAGCCTGCACTTAGTACTACACAC
1 TGATACACGTAGTAGCCTGCACTTAGTACTACACAC
15361104 AAGTACTCAC
Statistics
Matches: 119, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
99 37 0.31
100 5 0.04
101 76 0.64
102 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (99 bp):
TGATACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCAACAATCTGGTACACATAATAGC
CTGCACTTAGTACTACACACGCGACCTAACAATA
Found at i:15377458 original size:50 final size:49
Alignment explanation
Indices: 15377332--15377522 Score: 215
Period size: 50 Copynumber: 3.9 Consensus size: 49
15377322 AGCCGAAGCT
* * * *
15377332 ATCTGATACGCATAGTAGCTTGCACTTAGTACTACACATGTGACCAACA
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACC
* * * * *
15377381 ATCTGGTACACGTCGTAGCCTGTACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACC-AACC
* * *
15377431 ATCTGATACACGTAGTAGCCTGCACTTAGTACTA-ACACGTGATCGAAGTC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-CC
*
15377481 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACACGTG
1 ATCTGA-TACACATAGTAGCCTGCACTTAGTACTACACACGTG
15377523 TACTCACAAT
Statistics
Matches: 120, Mismatches: 17, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
49 50 0.42
50 63 0.52
51 7 0.06
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAACC
Found at i:15380606 original size:21 final size:22
Alignment explanation
Indices: 15380573--15380614 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
15380563 CTTTTCTGAA
15380573 TTTGGATTGAGGGGTT-TTCAT
1 TTTGGATTGAGGGGTTATTCAT
15380594 TTTGTGATT-AGGGGTTATTCA
1 TTTG-GATTGAGGGGTTATTCA
15380615 AGGGGCTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.17, C:0.05, G:0.31, T:0.48
Consensus pattern (22 bp):
TTTGGATTGAGGGGTTATTCAT
Found at i:15382013 original size:16 final size:16
Alignment explanation
Indices: 15381963--15382013 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
15381953 AAAACATGGT
*
15381963 TTTGATGGCTCGCATT
1 TTTGATGGCTCGCATC
*
15381979 TTTGCTGAGCTCGC-TC
1 TTTGATG-GCTCGCATC
*
15381995 TTTGATGGCTCGCAAC
1 TTTGATGGCTCGCATC
15382011 TTT
1 TTT
15382014 ACAACTAGCG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 6 0.21
16 17 0.59
17 6 0.21
ACGTcount: A:0.12, C:0.24, G:0.24, T:0.41
Consensus pattern (16 bp):
TTTGATGGCTCGCATC
Found at i:15382809 original size:66 final size:66
Alignment explanation
Indices: 15382690--15382821 Score: 169
Period size: 66 Copynumber: 2.0 Consensus size: 66
15382680 CTGAAGATAT
* * * * * * *
15382690 AGCTGGAGTTCGTCATATTTTCTTGTTGCCTCTGCTTTCCTTGTTGCTGCCTCCGCTTTAAGTTG
1 AGCTGGAGTTCATCATATTTTCTTGTAGCCTCTACTTTCCTCGATGCTACCTCCACTTTAAGTTG
15382755 A
66 A
15382756 AGCTGGAGTTCATCATATTTTCTT-TAAGCCTCTAC-TTCTCTCGATGCTACCTCCACTTTAAGT
1 AGCTGGAGTTCATCATATTTTCTTGT-AGCCTCTACTTTC-CTCGATGCTACCTCCACTTTAAGT
15382819 TGA
64 TGA
15382822 GCAATTTGCT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
65 4 0.07
66 53 0.93
ACGTcount: A:0.16, C:0.25, G:0.17, T:0.42
Consensus pattern (66 bp):
AGCTGGAGTTCATCATATTTTCTTGTAGCCTCTACTTTCCTCGATGCTACCTCCACTTTAAGTTG
A
Found at i:15386765 original size:22 final size:21
Alignment explanation
Indices: 15386709--15386790 Score: 67
Period size: 22 Copynumber: 3.7 Consensus size: 21
15386699 TCCAAGCTGA
*
15386709 TGAACAGTAAGCTCTATTGAGC
1 TGAACAGTAAGCTCT-TCGAGC
* *
15386731 TAAAACGGT-AGCTCTGTCGAGC
1 T-GAACAGTAAGCTCT-TCGAGC
*
15386753 TGAACAGTAAGCTCATACGAGC
1 TGAACAGTAAGCTC-TTCGAGC
*
15386775 TGAAACGGTAAGCTCT
1 TG-AACAGTAAGCTCT
15386791 AACAATCTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
21 5 0.10
22 26 0.54
23 17 0.35
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (21 bp):
TGAACAGTAAGCTCTTCGAGC
Found at i:15386789 original size:23 final size:23
Alignment explanation
Indices: 15386727--15386790 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
15386717 AAGCTCTATT
* *
15386727 GAGCTAAAACGGT-AGCTCTGTC
1 GAGCTGAAACGGTAAGCTCTGAC
*
15386749 GAGCTG-AACAGTAAGCTCAT-AC
1 GAGCTGAAACGGTAAGCTC-TGAC
15386771 GAGCTGAAACGGTAAGCTCT
1 GAGCTGAAACGGTAAGCTCT
15386791 AACAATCTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
21 5 0.14
22 18 0.51
23 12 0.34
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (23 bp):
GAGCTGAAACGGTAAGCTCTGAC
Found at i:15393675 original size:13 final size:13
Alignment explanation
Indices: 15393657--15393685 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
15393647 GGTTGTTTAT
15393657 TAAACTAATTAAC
1 TAAACTAATTAAC
15393670 TAAACTAATTAAC
1 TAAACTAATTAAC
15393683 TAA
1 TAA
15393686 TTAAACTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (13 bp):
TAAACTAATTAAC
Found at i:15396662 original size:28 final size:28
Alignment explanation
Indices: 15396631--15396686 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
15396621 TTTATTACTT
15396631 TAGCCATTTTTACTTTTATTGCAATTTA
1 TAGCCATTTTTACTTTTATTGCAATTTA
*
15396659 TAGCCATTTTTACTTTTGTTGCAATTTA
1 TAGCCATTTTTACTTTTATTGCAATTTA
15396687 CTTTTTGCTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.14, G:0.09, T:0.54
Consensus pattern (28 bp):
TAGCCATTTTTACTTTTATTGCAATTTA
Found at i:15398593 original size:51 final size:49
Alignment explanation
Indices: 15398476--15398665 Score: 236
Period size: 49 Copynumber: 3.8 Consensus size: 49
15398466 AAGGTTATTT
* * * *
15398476 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAATTCTCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCC
** * * *
15398525 GGTACATGTAGTAGCCTGTACTTAGTACTACACACGTGATCGAAGTTATCG
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TTATCC
* * * *
15398576 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCC
*
15398625 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACC
15398666 TCACAATAGA
Statistics
Matches: 118, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
49 75 0.64
50 6 0.05
51 37 0.31
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (49 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCC
Found at i:15398611 original size:100 final size:100
Alignment explanation
Indices: 15398476--15398663 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
15398466 AAGGTTATTT
* *
15398476 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAATTCTCCGGTACATGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAATTATCCGGTACACGTAGTAGCC
*
15398541 TGTACTTAGTACTACACACGTGATCGAAGTTATCG
66 TGCACTTAGTACTACACACGTGATCGAAGTTATCG
* *
15398576 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCC
1 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAATTATCCGGTACACGTAGTAGCC
15398641 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
15398664 CCTCACAATA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (100 bp):
GGTACGCATAGTAGCCTGCACTTAGTACTACACATGAGACCAATTATCCGGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCGAAGTTATCG
Found at i:15404400 original size:49 final size:49
Alignment explanation
Indices: 15404341--15404526 Score: 218
Period size: 49 Copynumber: 3.8 Consensus size: 49
15404331 GTAGACAAGG
* * *
15404341 TTATCTGGTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCAA
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
** * * * *
15404390 TTATCCGGTACATGTAATAGCCTGCACTTAGTACTACACACGTGATCGAA
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA
*
15404440 GTTAT-CGAGTAC-GATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 -TTATCCG-GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
*
15404489 TTATCTGGTACACATAGTAGCCT--ACTTAGTACTACACA
1 TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACA
15404527 CGTGACCTCA
Statistics
Matches: 115, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
47 15 0.13
48 8 0.07
49 51 0.44
50 33 0.29
51 8 0.07
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (49 bp):
TTATCCGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:15404483 original size:99 final size:98
Alignment explanation
Indices: 15404340--15404531 Score: 298
Period size: 99 Copynumber: 1.9 Consensus size: 98
15404330 TGTAGACAAG
**
15404340 GTTATCTGGTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACATGT
1 GTTATCTGGTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACAT
15404405 AATAGCCTGCACTTAGTACTACACACGTGATCGAA
66 AATAGCCT--ACTTAGTACTACACACGTGATCGAA
* *
15404440 GTTATC-GAGTACG-ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACA
1 GTTATCTG-GTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACA
*
15404503 TAGTAGCCTACTTAGTACTACACACGTGA
65 TAATAGCCTACTTAGTACTACACACGTGA
15404532 CCTCACAATA
Statistics
Matches: 86, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
97 20 0.23
99 55 0.64
100 11 0.13
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (98 bp):
GTTATCTGGTACGCATAGCAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACAT
AATAGCCTACTTAGTACTACACACGTGATCGAA
Found at i:15404807 original size:27 final size:25
Alignment explanation
Indices: 15404777--15404828 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 25
15404767 TCATACAACC
* *
15404777 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTT--CATTCAATT
15404804 CATGTAACAATAATTTCATTCAATT
1 CATGTAACAATAATTTCATTCAATT
15404829 TCACATGACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 9 0.39
27 14 0.61
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.40
Consensus pattern (25 bp):
CATGTAACAATAATTTCATTCAATT
Found at i:15405157 original size:30 final size:30
Alignment explanation
Indices: 15405123--15405181 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
15405113 CCAAAATCAT
15405123 ATTTTGGAAAAATTACAATTT-TGCCCCTAA
1 ATTTTGGAAAAATTAC-ATTTGTGCCCCTAA
**
15405153 ATTTTGTCAAAATTACATTTGTGCCCCTA
1 ATTTTGGAAAAATTACATTTGTGCCCCTA
15405182 GGCTCGTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.32, C:0.19, G:0.10, T:0.39
Consensus pattern (30 bp):
ATTTTGGAAAAATTACATTTGTGCCCCTAA
Found at i:15408898 original size:13 final size:13
Alignment explanation
Indices: 15408880--15408911 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
15408870 TCAGGGAGCT
15408880 ACACGGGCAAGGC
1 ACACGGGCAAGGC
15408893 ACACGGGCAAGGC
1 ACACGGGCAAGGC
15408906 ACACGG
1 ACACGG
15408912 TCGTGTGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.31, C:0.31, G:0.38, T:0.00
Consensus pattern (13 bp):
ACACGGGCAAGGC
Found at i:15428985 original size:19 final size:20
Alignment explanation
Indices: 15428953--15428998 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
15428943 CGGAAAGTAA
15428953 TTTCTGGAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
15428973 TTTCTGG-AAATGATTTACT
1 TTTCTGGAAAATGATTTACT
15428992 TTTCTGG
1 TTTCTGG
15428999 TGTTTGGATG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.73
20 7 0.27
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:15429544 original size:21 final size:22
Alignment explanation
Indices: 15429519--15429565 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
15429509 TTGTTCCATA
*
15429519 TTTTCTGAAATGACTTAAA-GT
1 TTTTCTAAAATGACTTAAAGGT
15429540 TTTTCTAAAATGACTTAAAGGT
1 TTTTCTAAAATGACTTAAAGGT
15429562 TTTT
1 TTTT
15429566 GTCTCACTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.47
Consensus pattern (22 bp):
TTTTCTAAAATGACTTAAAGGT
Found at i:15429943 original size:18 final size:18
Alignment explanation
Indices: 15429907--15429970 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
15429897 GAGTTTGTAT
**
15429907 CTTTG-ATAAGCTCGCAA
1 CTTTGAATAAGCTCATAA
15429924 CTTTGAATAAGCTCATAA
1 CTTTGAATAAGCTCATAA
* *
15429942 CTGTGGATGAAG-TCATAA
1 CTTTGAAT-AAGCTCATAA
*
15429960 ATTTGAATAAG
1 CTTTGAATAAG
15429971 TTCGTAGGTA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
17 8 0.21
18 27 0.71
19 3 0.08
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (18 bp):
CTTTGAATAAGCTCATAA
Found at i:15444949 original size:2 final size:2
Alignment explanation
Indices: 15444942--15444966 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15444932 ATCCTTACAC
15444942 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 A
15444967 AAGACCAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:15452850 original size:3 final size:3
Alignment explanation
Indices: 15452837--15452869 Score: 57
Period size: 3 Copynumber: 10.7 Consensus size: 3
15452827 CACTTTTAGT
15452837 TTC TATC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC T-TC TTC TTC TTC TTC TTC TTC TTC TTC TT
15452870 TTTTTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 26 0.90
4 3 0.10
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:15458285 original size:80 final size:80
Alignment explanation
Indices: 15458159--15458374 Score: 253
Period size: 81 Copynumber: 2.7 Consensus size: 80
15458149 TGAACCCTTA
* *
15458159 TGCAAACCCTTGCATGAAATCCC-CATAGGAGAAGCC-CTTTGATGCATGCGAACCCTTATGTGC
1 TGCAAACCCTTGCATGAAATCCCTCATAGGA-AA-CCTCTTTGATGCATGCGAACCCTTATGCGA
15458222 ACCCCC-TACTTACATG
64 ACCCCCATACTTACATG
* * *
15458238 TGCGAACCCTTGCATGAAAACCCTCATAGGCAAATCCTC-TTGATGCATGCGAACCTTTATGCGA
1 TGCAAACCCTTGCATGAAATCCCTCATAGG-AAA-CCTCTTTGATGCATGCGAACCCTTATGCGA
** *
15458302 ACCCCCATGTTTGCATG
64 ACCCCCATACTTACATG
* *
15458319 TGCAAACCCTTGCATGAAATCTACT-ATAGGTAAACCTCTTTGATGTATGCGAACCC
1 TGCAAACCCTTGCATGAAATC-CCTCATAGG-AAACCTCTTTGATGCATGCGAACCC
15458375 CAAAAATGAA
Statistics
Matches: 116, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
79 21 0.18
80 42 0.36
81 51 0.44
82 2 0.02
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (80 bp):
TGCAAACCCTTGCATGAAATCCCTCATAGGAAACCTCTTTGATGCATGCGAACCCTTATGCGAAC
CCCCATACTTACATG
Found at i:15461086 original size:47 final size:47
Alignment explanation
Indices: 15460977--15461087 Score: 136
Period size: 47 Copynumber: 2.4 Consensus size: 47
15460967 CCGGGATAAG
* * *
15460977 CACATAGTGCTTCATCGGAATAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
* * *
15461024 CACAAAGTACTTCATCGGAACAAATCCGAAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTA-TAGTA
15461071 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
15461088 ACTCAATGTC
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
46 1 0.02
47 51 0.94
48 2 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGAAACTTTAACAGTATAGTA
Done.