Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 59 of 297
Found at i:20908809 original size:12 final size:12
Alignment explanation
Indices: 20908775--20908813 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
20908765 CAAAAATGTA
*
20908775 AATATGCATATT
1 AATATGAATATT
*
20908787 AAATGTGAATATT
1 -AATATGAATATT
20908800 AATATGAATATT
1 AATATGAATATT
20908812 AA
1 AA
20908814 ATAAGCTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 13 0.57
13 10 0.43
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (12 bp):
AATATGAATATT
Found at i:20908816 original size:13 final size:13
Alignment explanation
Indices: 20908773--20908816 Score: 63
Period size: 13 Copynumber: 3.5 Consensus size: 13
20908763 GACAAAAATG
*
20908773 TAAATATGCATAT
1 TAAATATGAATAT
*
20908786 TAAATGTGAATAT
1 TAAATATGAATAT
20908799 T-AATATGAATAT
1 TAAATATGAATAT
20908811 TAAATA
1 TAAATA
20908817 AGCTAAATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 11 0.41
13 16 0.59
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (13 bp):
TAAATATGAATAT
Found at i:20909198 original size:26 final size:26
Alignment explanation
Indices: 20909169--20909221 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
20909159 TTAAATAAAA
*
20909169 AGGGGTTGCTAAGTGTTGATTACCTG
1 AGGGGTTGCTAAGTGCTGATTACCTG
* *
20909195 AGGGGTTTCTAAGTGCTGATTCCCTG
1 AGGGGTTGCTAAGTGCTGATTACCTG
20909221 A
1 A
20909222 ATTATTGACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.15, G:0.32, T:0.34
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTACCTG
Found at i:20909296 original size:43 final size:43
Alignment explanation
Indices: 20909198--20909518 Score: 241
Period size: 42 Copynumber: 7.6 Consensus size: 43
20909188 TTACCTGAGG
* * * *
20909198 GGTTTCTAAGTGCTGATTCCCTGAAT-TATTGACTCT-AAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCT-TTGAATGTGAAAGGT
* * * *
20909240 GGTTGCTAAGTGCTGATCCCACCGTATTTTTGATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGAATCTTTGAATGTGAAAGGT
* * *** *
20909283 GGTTGCTATGTGCTGATTCCCCGTATCACCGAATAT-AAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCTTTGAATGTGAAAGGT
20909325 GGTTGCTAAGTGCTGATTCCACCGAATCTTT-AAGTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGAATCTTTGAA-TGTGAAAGGT
* * * *
20909368 GGTTGCTATGTGCTAATTCCCCGAATCATTGAATAT-AAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCTTTGAATGTGAAAGGT
* * *
20909410 GGTTTCTAACTGCTGATTCCATCGAATCTTT-AAGTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGAATCTTTGAA-TGTGAAAGGT
* * ** * *
20909453 GGTTGCTATGTGCTGATTCCCCGTATCACTGAAT-TTATA-GT
1 GGTTGCTAAGTGCTGATTCCCCGAATCTTTGAATGTGAAAGGT
* *
20909494 AGTTGCTAAGTGCTGAATCCACCGA
1 GGTTGCTAAGTGCTGATTCC-CCGA
20909519 GTAACGAATA
Statistics
Matches: 220, Mismatches: 44, Indels: 30
0.75 0.15 0.10
Matches are distributed among these distances:
40 1 0.00
41 30 0.14
42 88 0.40
43 85 0.39
44 16 0.07
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (43 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCTTTGAATGTGAAAGGT
Found at i:20909327 original size:85 final size:85
Alignment explanation
Indices: 20909195--20909518 Score: 425
Period size: 85 Copynumber: 3.8 Consensus size: 85
20909185 TGATTACCTG
* * * * * * * * *
20909195 AGGGGTTTCTAAGTGCTGATTCCCTGAATTATTGACTCTAAAGGTGGTTGCTAAGTGCTGATCCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
* * * *
20909260 ACCGTATTTTTGATTGTGAA
66 ACCGAATCTTTAAGTGTGAA
*
20909280 AGGGGTTGCTATGTGCTGATTCCCCGTATCACCGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
20909345 ACCGAATCTTTAAGTGTGAA
66 ACCGAATCTTTAAGTGTGAA
* * * * *
20909365 AGGGGTTGCTATGTGCTAATTCCCCGAATCATTGAATATAAAGGTGGTTTCTAACTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
*
20909430 ATCGAATCTTTAAGTGTGAA
66 ACCGAATCTTTAAGTGTGAA
* * * *
20909450 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATTTATA-GTAGTTGCTAAGTGCTGAATCC
1 AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
20909514 ACCGA
66 ACCGA
20909519 GTAACGAATA
Statistics
Matches: 208, Mismatches: 31, Indels: 1
0.87 0.13 0.00
Matches are distributed among these distances:
84 22 0.11
85 186 0.89
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.33
Consensus pattern (85 bp):
AGGGGTTGCTATGTGCTGATTCCCCGTATCACTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
ACCGAATCTTTAAGTGTGAA
Found at i:20916317 original size:21 final size:20
Alignment explanation
Indices: 20916268--20916324 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
20916258 ATTAAATGGA
20916268 AATTGCAAATGATATTATTTG
1 AATTG-AAATGATATTATTTG
20916289 AATT-AAATGA-ATTATTGTGG
1 AATTGAAATGATATTATT-T-G
*
20916309 TATTGAAATGTATATT
1 AATTGAAATG-ATATT
20916325 GGATTGAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
18 6 0.20
19 7 0.23
20 4 0.13
21 9 0.30
22 1 0.03
23 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.44
Consensus pattern (20 bp):
AATTGAAATGATATTATTTG
Found at i:20918142 original size:21 final size:20
Alignment explanation
Indices: 20918118--20918183 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
20918108 GGAATGTAAA
20918118 CAGGGGCACGTATGTGCAATT
1 CAGGGGCACGTATGTGCAA-T
* * * *
20918139 CAGGGGTATCG-AAGTACAAA
1 CAGGGGCA-CGTATGTGCAAT
*
20918159 CAGGGGCACATATGTGCAACT
1 CAGGGGCACGTATGTGCAA-T
20918180 CAGG
1 CAGG
20918184 AAATAATTAA
Statistics
Matches: 33, Mismatches: 9, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
19 1 0.03
20 13 0.39
21 17 0.52
22 2 0.06
ACGTcount: A:0.30, C:0.20, G:0.32, T:0.18
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCAAT
Found at i:20931532 original size:23 final size:23
Alignment explanation
Indices: 20931506--20931554 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
20931496 AATTATGTTT
* *
20931506 CATATA-CATGTATCATCCATTTC
1 CATATACCATGTAACA-ACATTTC
20931529 CATATACCATGTAACAACATTTC
1 CATATACCATGTAACAACATTTC
20931552 CAT
1 CAT
20931555 GTAATTCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 15 0.65
24 8 0.35
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.35
Consensus pattern (23 bp):
CATATACCATGTAACAACATTTC
Found at i:20936879 original size:36 final size:36
Alignment explanation
Indices: 20936839--20936910 Score: 92
Period size: 39 Copynumber: 1.9 Consensus size: 36
20936829 TTCGCACTTT
*
20936839 AACCCCTAAATCCT-TAAAAAACCTTAACCCTAACAA
1 AACCCCTAAA-CCTAAAAAAAACCTTAACCCTAACAA
20936875 AACCCCTAAACCTAACAAAAAAAACCTTAACCCTAA
1 AACCCCTAAACCT---AAAAAAAACCTTAACCCTAA
20936911 GAGAAAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
35 3 0.10
36 10 0.32
39 18 0.58
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (36 bp):
AACCCCTAAACCTAAAAAAAACCTTAACCCTAACAA
Found at i:20936888 original size:18 final size:18
Alignment explanation
Indices: 20936839--20936894 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
20936829 TTCGCACTTT
20936839 AACCCCTAAATCCTTAA-AA
1 AACCCCTAAA-CC-TAACAA
* *
20936858 AA-CCTTAACCCTAACAA
1 AACCCCTAAACCTAACAA
20936875 AACCCCTAAACCTAACAA
1 AACCCCTAAACCTAACAA
20936893 AA
1 AA
20936895 AAAACCTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
16 3 0.10
17 6 0.19
18 20 0.65
19 2 0.06
ACGTcount: A:0.50, C:0.34, G:0.00, T:0.16
Consensus pattern (18 bp):
AACCCCTAAACCTAACAA
Found at i:20936941 original size:22 final size:22
Alignment explanation
Indices: 20936915--20936958 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
20936905 CCCTAAGAGA
20936915 AAGAAAGGAAAAATGCATCCAG
1 AAGAAAGGAAAAATGCATCCAG
20936937 AAGAAAGGAAAAATGCATCCAG
1 AAGAAAGGAAAAATGCATCCAG
20936959 CTGGGCGAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.14, G:0.23, T:0.09
Consensus pattern (22 bp):
AAGAAAGGAAAAATGCATCCAG
Found at i:20937654 original size:2 final size:2
Alignment explanation
Indices: 20937647--20937675 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
20937637 GTCGTTACAA
20937647 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
20937676 TATACATACA
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:20941796 original size:22 final size:21
Alignment explanation
Indices: 20941771--20941814 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 21
20941761 AAGCATATGA
*
20941771 AAATGATTTGGTTATATTCAAT
1 AAATGATTTGGTTA-ATACAAT
20941793 AAATGATTTGGTTAATACAAT
1 AAATGATTTGGTTAATACAAT
20941814 A
1 A
20941815 CTTATATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 7 0.33
22 14 0.67
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.41
Consensus pattern (21 bp):
AAATGATTTGGTTAATACAAT
Found at i:20941841 original size:44 final size:44
Alignment explanation
Indices: 20941793--20941886 Score: 170
Period size: 44 Copynumber: 2.1 Consensus size: 44
20941783 TATATTCAAT
*
20941793 AAATGATTTGGTTAATACAATACTTATATTTGATAAGCATATGA
1 AAATGATTTGATTAATACAATACTTATATTTGATAAGCATATGA
*
20941837 AAATGATTTGATTAATATAATACTTATATTTGATAAGCATATGA
1 AAATGATTTGATTAATACAATACTTATATTTGATAAGCATATGA
20941881 AAATGA
1 AAATGA
20941887 AAGTCGAGAC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.44, C:0.05, G:0.13, T:0.38
Consensus pattern (44 bp):
AAATGATTTGATTAATACAATACTTATATTTGATAAGCATATGA
Found at i:20941845 original size:22 final size:22
Alignment explanation
Indices: 20941820--20941886 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 22
20941810 CAATACTTAT
20941820 ATTTGATAAGCATATGAAAATG
1 ATTTGATAAGCATATGAAAATG
*
20941842 ATTTGATTA--ATAT-AATACTTAT-
1 ATTTGATAAGCATATGAA-A---ATG
20941864 ATTTGATAAGCATATGAAAATG
1 ATTTGATAAGCATATGAAAATG
20941886 A
1 A
20941887 AAGTCGAGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 16
0.66 0.04 0.30
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 2 0.06
22 17 0.49
23 2 0.06
24 5 0.14
25 2 0.06
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.37
Consensus pattern (22 bp):
ATTTGATAAGCATATGAAAATG
Found at i:20947761 original size:42 final size:42
Alignment explanation
Indices: 20947645--20947763 Score: 159
Period size: 42 Copynumber: 2.8 Consensus size: 42
20947635 CAAACAAAAA
* * *
20947645 CGTCGCTAAAGACCATGTTCTTTAGTGGCATTTTTTATTAAG
1 CGTCGCTAAAGACTATGTTCTTTAGCGGCGTTTTTTATTAAG
* * *
20947687 CGCCGCGAAAGA-TCATATTCTTTAGCGGCGTTTTTTATTAAG
1 CGTCGCTAAAGACT-ATGTTCTTTAGCGGCGTTTTTTATTAAG
*
20947729 CGTCGCTAAAGACTATGTTCTTTAGCGACGTTTTT
1 CGTCGCTAAAGACTATGTTCTTTAGCGGCGTTTTT
20947764 ATACAAAAAC
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 64 0.98
43 1 0.02
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (42 bp):
CGTCGCTAAAGACTATGTTCTTTAGCGGCGTTTTTTATTAAG
Found at i:20948176 original size:42 final size:42
Alignment explanation
Indices: 20948080--20948190 Score: 141
Period size: 42 Copynumber: 2.6 Consensus size: 42
20948070 TTGCTCTACT
* * ** *
20948080 CTACTTCTCTCGCTGCAGCCTCTGCTTCCCTTGCTGCAGCTA
1 CTACTTCTCTCGCTACAGCCGCTGCTTCCCTCACTGAAGCTA
*
20948122 CTACTTCTCTCGCTACAGCCGCTGCTTCCCTCACTGAAGCTG
1 CTACTTCTCTCGCTACAGCCGCTGCTTCCCTCACTGAAGCTA
* * *
20948164 CTGCTTCCCTCGCTACAGCCGTTGCTT
1 CTACTTCTCTCGCTACAGCCGCTGCTT
20948191 TAAGTTGTTG
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.11, C:0.41, G:0.17, T:0.32
Consensus pattern (42 bp):
CTACTTCTCTCGCTACAGCCGCTGCTTCCCTCACTGAAGCTA
Found at i:20948189 original size:21 final size:21
Alignment explanation
Indices: 20948083--20948190 Score: 92
Period size: 21 Copynumber: 5.1 Consensus size: 21
20948073 CTCTACTCTA
* * *
20948083 CTTCTCTCGCTGCAGCCTCTG
1 CTTCCCTCGCTACAGCCGCTG
* * ** *
20948104 CTTCCCTTGCTGCAGCTACTA
1 CTTCCCTCGCTACAGCCGCTG
*
20948125 CTTCTCTCGCTACAGCCGCTG
1 CTTCCCTCGCTACAGCCGCTG
* *
20948146 CTTCCCTCACTGA-AGCTGCTG
1 CTTCCCTCGCT-ACAGCCGCTG
*
20948167 CTTCCCTCGCTACAGCCGTTG
1 CTTCCCTCGCTACAGCCGCTG
20948188 CTT
1 CTT
20948191 TAAGTTGTTG
Statistics
Matches: 68, Mismatches: 17, Indels: 4
0.76 0.19 0.04
Matches are distributed among these distances:
20 1 0.01
21 66 0.97
22 1 0.01
ACGTcount: A:0.10, C:0.41, G:0.18, T:0.31
Consensus pattern (21 bp):
CTTCCCTCGCTACAGCCGCTG
Found at i:20953453 original size:5 final size:6
Alignment explanation
Indices: 20953438--20953462 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
20953428 AACATTCGTA
20953438 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
20953463 CTTCTCTCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:20954705 original size:9 final size:8
Alignment explanation
Indices: 20954686--20954715 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
20954676 AGACACGCAA
20954686 AAATTCCC
1 AAATTCCC
20954694 AAATTCCCC
1 AAATT-CCC
20954703 AAATTCCC
1 AAATTCCC
20954711 AAATT
1 AAATT
20954716 ACACTGAACC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (8 bp):
AAATTCCC
Found at i:20957011 original size:15 final size:15
Alignment explanation
Indices: 20956960--20957001 Score: 77
Period size: 15 Copynumber: 2.9 Consensus size: 15
20956950 AACACTAGTT
20956960 AATC-TAAACCCTAA
1 AATCATAAACCCTAA
20956974 AATCATAAACCCTAA
1 AATCATAAACCCTAA
20956989 AATCATAAACCCT
1 AATCATAAACCCT
20957002 TAACACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.15
15 23 0.85
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (15 bp):
AATCATAAACCCTAA
Found at i:20957011 original size:30 final size:29
Alignment explanation
Indices: 20956960--20957029 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
20956950 AACACTAGTT
20956960 AATCTAAACCCTAAAATCATAAACC-CTAA
1 AATCTAAACCCTAAAATCAT-AACCTCTAA
*
20956989 AATCATAAACCCTTAACA-CATAACCTCTAA
1 AATC-TAAACCC-TAAAATCATAACCTCTAA
* *
20957019 ACTTTAAACCC
1 AATCTAAACCC
20957030 CAGCCTTTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
29 15 0.43
30 16 0.46
31 4 0.11
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (29 bp):
AATCTAAACCCTAAAATCATAACCTCTAA
Found at i:20957484 original size:114 final size:113
Alignment explanation
Indices: 20957107--20957606 Score: 322
Period size: 114 Copynumber: 4.4 Consensus size: 113
20957097 ATGCATGGTT
* * * *
20957107 AAGACCAAAACTCTGCGTTTTGGTTAAGATATTTTTCGGCGCTT-CTCAAAAAGCACCGTTAATA
1 AAGA-CAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTAC-CCAAAAGCGCCGCTAATA
* * * ** * ** * *
20957171 CTATG-CTTTAGAGGCGAT-TTCTCGTGGACGCCAGTAATTCCACTATACATC
64 CTAGGAC-TTAGCGGCG-TGTTCGC-TATACGCCACTAATTATAGTATACCTC
* * * * * * *
20957222 AAGACCTAAACGCTGTGTTTTGGTTAATATATTTTGCGGTGCTT--CTAAGAACGCGCCGTTAAT
1 AAGA-CAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACCCAA-AA-GCGCCGCTAAT
* ** * * * **
20957285 AGTA-TTCTTTAGCGGCATGCTC-CCATAAGCGCCACTAA-TACTAACATACCTC
63 ACTAGGAC-TTAGCGGCGTGTTCGCTAT-A-CGCCACTAATTA-TAGTATACCTC
* ** **
20957337 AAGACAAAACTCTGCGTTTTGG-TGAGTATATTTTGCGGCATTTTA-TTAAAAGCGCCGCTAATA
1 AAGACAAAACTCTGCGTTTTGGTTAAG-ATATTTTGCGGC-GCTTACCCAAAAGCGCCGCTAATA
* * *
20957400 CT-GGAGTTAGCGGCGTTTTC-CAGTATACGCCACTAATTATAGTATACATC
64 CTAGGACTTAGCGGCGTGTTCGC--TATACGCCACTAATTATAGTATACCTC
* * * * *
20957450 AAGACAGAAACGCTGCGTTTTGGTTAAGAAATTTTGCGACGCTTACCCCAAAGCGCCGCTAATAG
1 AAGACA-AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACCCAAAAGCGCCGCTAATAC
* * * * *
20957515 TATGCCTTAGCGGCGTGTTCGCTTTGCGCCACTAATTCTAGTATACCTC
65 TAGGACTTAGCGGCGTGTTCGCTATACGCCACTAATTATAGTATACCTC
* *
20957564 AAGACCAAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTT
1 AAGACAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
20957607 CTCAAAAAAT
Statistics
Matches: 300, Mismatches: 66, Indels: 40
0.74 0.16 0.10
Matches are distributed among these distances:
113 76 0.25
114 116 0.39
115 104 0.35
116 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (113 bp):
AAGACAAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTACCCAAAAGCGCCGCTAATACT
AGGACTTAGCGGCGTGTTCGCTATACGCCACTAATTATAGTATACCTC
Found at i:20957661 original size:228 final size:227
Alignment explanation
Indices: 20957107--20957715 Score: 563
Period size: 228 Copynumber: 2.7 Consensus size: 227
20957097 ATGCATGGTT
* * *
20957107 AAGACCAAAACTCTGCGTTTTGGTTAAGATATTTTTCGGCGCTTCTCAAAAAGCACCGTTAATAC
1 AAGACC-AAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATAC
* * ** * ** *
20957172 TATGCTTTAG-AGGCGATTTCTCGTGGACGCCAGTAATTCCACTATACATCAAGACCTAAACGCT
65 TATGCTTTAGCA-GCG-TTTTTCCTTAACGCCACTAATTATACTATACATCAAGA-CAAAACGCT
* * ** * * * *
20957236 GTGTTTTGGTTAATATATTTTGCGGTGCTTCTAAGAACGCGCCGTTAATAGTATTCTTTAGCGGC
127 GCGTTTTGGTTAAGATATTTTGCGACGCTTCCAAGAACGCGCCGCTAATAGTATGCCTTAGCGGC
20957301 ATGCTCCCATAAGCGCCACTAATACTAACATACCTC
192 ATGCTCCCATAAGCGCCACTAATACTAACATACCTC
* * * *
20957337 AAGACAAAACTCTGCGTTTTGG-TGAGTATATTTTGCGGC-ATT-TTATTAAAAGCGCCGCTAAT
1 AAGACCAAACTCTGCGTTTTGGTTAAG-ATATTTTGCGGCGCTTCTCA--AAAAGCGCCGCTAAT
* ** * * *
20957399 ACT-GGAGTTAGCGGCG-TTTTCCAGTATACGCCACTAATTATAGTATACATCAAGACAGAAACG
63 ACTATGCTTTAGCAGCGTTTTTCC-TTA-ACGCCACTAATTATACTATACATCAAGACA-AAACG
* *
20957462 CTGCGTTTTGGTTAAGAAATTTTGCGACGCTTACCCCA-AA-GCGCCGCTAATAGTATGCCTTAG
125 CTGCGTTTTGGTTAAGATATTTTGCGACGCTT--CCAAGAACGCGCCGCTAATAGTATGCCTTAG
* * * ** * **
20957525 CGGCGTGTTCGC-TTTGCGCCACTAATTCTAGTATACCTC
188 CGGCATGCTCCCATAAGCGCCACTAATACTAACATACCTC
* ** *
20957564 AAGACCAAACTCTGCATTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAAATGCCGCTAATATT
1 AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATACT
* * * * *
20957629 ATCCTTTAGCAACGTTTTTCCTTAAGCGCCACTAACTATAACT-TACACCAAGACCAAAACGGTG
66 ATGCTTTAGCAGCGTTTTTCCTTAA-CGCCACTAATTAT-ACTATACATCAAGA-CAAAACGCTG
* *
20957693 CGCTTTGGTTAGGATATTTTGCG
128 CGTTTTGGTTAAGATATTTTGCG
20957716 GCGTTTTCTT
Statistics
Matches: 301, Mismatches: 61, Indels: 36
0.76 0.15 0.09
Matches are distributed among these distances:
226 4 0.01
227 73 0.24
228 160 0.53
229 57 0.19
230 7 0.02
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (227 bp):
AAGACCAAACTCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTCTCAAAAAGCGCCGCTAATACT
ATGCTTTAGCAGCGTTTTTCCTTAACGCCACTAATTATACTATACATCAAGACAAAACGCTGCGT
TTTGGTTAAGATATTTTGCGACGCTTCCAAGAACGCGCCGCTAATAGTATGCCTTAGCGGCATGC
TCCCATAAGCGCCACTAATACTAACATACCTC
Found at i:20961031 original size:21 final size:20
Alignment explanation
Indices: 20961007--20961049 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
20960997 TAATTTTCGT
*
20961007 TATTTTTTATTAAGTTAAAAA
1 TATTTTTT-TTAAATTAAAAA
*
20961028 TATTTTTTTTAAATTTAAAA
1 TATTTTTTTTAAATTAAAAA
20961048 TA
1 TA
20961050 AATTTTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TATTTTTTTTAAATTAAAAA
Found at i:20972338 original size:26 final size:26
Alignment explanation
Indices: 20972308--20972361 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
20972298 TATTCCAAAG
20972308 TTTGTTGACTTCTCGAGCCAAAATTT
1 TTTGTTGACTTCTCGAGCCAAAATTT
20972334 TTTGTTGACTTCTCGAGCCAAAATTT
1 TTTGTTGACTTCTCGAGCCAAAATTT
20972360 TT
1 TT
20972362 ACTAGTTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.22, C:0.19, G:0.15, T:0.44
Consensus pattern (26 bp):
TTTGTTGACTTCTCGAGCCAAAATTT
Found at i:20996210 original size:24 final size:23
Alignment explanation
Indices: 20996183--20996231 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
20996173 TTAAAACTAC
20996183 TTCTAA-AGAAAACTCAAAAGAGAA
1 TTCTAAGAG-AAACTC-AAAGAGAA
**
20996207 TTCTTGGAGAAACTCAAAGAGAA
1 TTCTAAGAGAAACTCAAAGAGAA
20996230 TT
1 TT
20996232 TTCACTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 10 0.45
24 10 0.45
25 2 0.09
ACGTcount: A:0.49, C:0.12, G:0.16, T:0.22
Consensus pattern (23 bp):
TTCTAAGAGAAACTCAAAGAGAA
Found at i:20997207 original size:6 final size:7
Alignment explanation
Indices: 20997190--20997215 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
20997180 ATTATCATCT
20997190 TTTTTTC
1 TTTTTTC
20997197 TTTTTTC
1 TTTTTTC
20997204 TTTTTTC
1 TTTTTTC
20997211 TTTTT
1 TTTTT
20997216 ATTGAACTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:20997330 original size:31 final size:30
Alignment explanation
Indices: 20997253--20997345 Score: 150
Period size: 30 Copynumber: 3.1 Consensus size: 30
20997243 GCTTTTTAAA
20997253 AATATTTACAAAAAGAGGCACCTAATTTTT
1 AATATTTACAAAAAGAGGCACCTAATTTTT
*
20997283 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCTAATTTTT
* *
20997313 AATATTTACAAAAAAGAGGAACCAAATTTTT
1 AATATTTAC-AAAAAGAGGCACCTAATTTTT
20997344 AA
1 AA
20997346 AAATAATTCA
Statistics
Matches: 58, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 38 0.66
31 20 0.34
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCTAATTTTT
Found at i:20997480 original size:30 final size:31
Alignment explanation
Indices: 20997444--20997506 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
20997434 GCTTTTTAAA
* *
20997444 AATATTTAC-AAAAAGAGGCACCTAATTTTT
1 AATATTTACAAAAAAGAGGAACCAAATTTTT
20997474 AATATTTACAAAAAAGAGGAACCAAATTTTT
1 AATATTTACAAAAAAGAGGAACCAAATTTTT
20997505 AA
1 AA
20997507 AAATAATTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 9 0.30
31 21 0.70
ACGTcount: A:0.49, C:0.11, G:0.10, T:0.30
Consensus pattern (31 bp):
AATATTTACAAAAAAGAGGAACCAAATTTTT
Found at i:20999941 original size:15 final size:15
Alignment explanation
Indices: 20999921--20999950 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20999911 TGTTTATGAG
20999921 TATTGATCAAATTAT
1 TATTGATCAAATTAT
*
20999936 TATTGATCGAATTAT
1 TATTGATCAAATTAT
20999951 CAACTTACTC
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:0.37, C:0.07, G:0.10, T:0.47
Consensus pattern (15 bp):
TATTGATCAAATTAT
Found at i:21002772 original size:22 final size:22
Alignment explanation
Indices: 21002747--21002793 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
21002737 GACGTGGTAA
21002747 AGAAATAAATCATTAATTGGTT
1 AGAAATAAATCATTAATTGGTT
21002769 AGAAATAAATCATTAATTGGTT
1 AGAAATAAATCATTAATTGGTT
21002791 AGA
1 AGA
21002794 TGCGAGTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.04, G:0.15, T:0.34
Consensus pattern (22 bp):
AGAAATAAATCATTAATTGGTT
Found at i:21010419 original size:20 final size:20
Alignment explanation
Indices: 21010392--21010441 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
21010382 CAAACTAAAG
*
21010392 TAAGCTAAAAATGAGCTCAT
1 TAAGCTAAAAACGAGCTCAT
* *
21010412 TGAGCTAAGAACGAGCTCAT
1 TAAGCTAAAAACGAGCTCAT
21010432 TAAGCTAAAA
1 TAAGCTAAAA
21010442 TTAAGCTGAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.44, C:0.16, G:0.18, T:0.22
Consensus pattern (20 bp):
TAAGCTAAAAACGAGCTCAT
Found at i:21011962 original size:21 final size:21
Alignment explanation
Indices: 21011923--21011963 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21011913 TGGAAACAGG
**
21011923 AATGATCTTAATGGTAATCCA
1 AATGATCTTAATGAAAATCCA
21011944 AATGATCTTAATGAAAATCC
1 AATGATCTTAATGAAAATCC
21011964 TCCCATTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (21 bp):
AATGATCTTAATGAAAATCCA
Found at i:21014492 original size:54 final size:54
Alignment explanation
Indices: 21014422--21014526 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
21014412 GTTACACGGC
* *
21014422 CTAGCACACAGCCTGTGACACGAACGTGTGTCACAAGTCAAAGAGTTACACAAT
1 CTAGCACACAGCCTGTGACACGAACGTGTGACACAACTCAAAGAGTTACACAAT
** ** * *
21014476 CTAGCACATGGCCTGTGACACGGTCGTGTGACCCAACTCAATGAGTTACAC
1 CTAGCACACAGCCTGTGACACGAACGTGTGACACAACTCAAAGAGTTACAC
21014527 GGGGTGAGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.30, C:0.28, G:0.22, T:0.20
Consensus pattern (54 bp):
CTAGCACACAGCCTGTGACACGAACGTGTGACACAACTCAAAGAGTTACACAAT
Found at i:21014548 original size:12 final size:12
Alignment explanation
Indices: 21014523--21014562 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
21014513 TCAATGAGTT
*
21014523 ACACGGGGTGAG
1 ACACGGGTTGAG
*
21014535 ACATGGGTTGAG
1 ACACGGGTTGAG
*
21014547 ACACGGGTTGGG
1 ACACGGGTTGAG
21014559 ACAC
1 ACAC
21014563 AGTCATATGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.25, C:0.17, G:0.42, T:0.15
Consensus pattern (12 bp):
ACACGGGTTGAG
Found at i:21015278 original size:17 final size:17
Alignment explanation
Indices: 21015256--21015288 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21015246 TTGATTACCA
21015256 AATTAAATTAATTCAAT
1 AATTAAATTAATTCAAT
*
21015273 AATTAATTTAATTCAA
1 AATTAAATTAATTCAA
21015289 GCGACACCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTAAATTAATTCAAT
Found at i:21018813 original size:51 final size:50
Alignment explanation
Indices: 21018733--21019124 Score: 292
Period size: 51 Copynumber: 7.7 Consensus size: 50
21018723 TGTCGATGAA
* * * *
21018733 CACGTGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-TTGGT
* * * * *
21018784 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGAG-
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATTTG-GT
* * * * *
21018835 CATGTGTGTAGTACTGTGTGAATGCTACTACGTGTATCGATAAATAATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAAT-TTGGT
* * * *
21018886 CA-GATGTGTAGTACTAAGTGAAGGCTACTATGTGTACCGAGAAGCTTTGAG-
1 CACG-TGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA-ATTTG-GT
* * * * * **
21018937 CATGTGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGTAAACTACGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAA-TTTGGT
* * ** * * * * *
21018988 TACATGTGTAGTACTAAATGAAGGCTACAATGGGTACCGA-AATGCTTTAGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAA--ATTTGGT
* * * *
21019039 CACGTATGTGGTACTATGTGAAGGCTACTACGTG-AGCCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA-CCGAT-AAATTTGGT
21019089 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTA
21019125 TCGAATGATA
Statistics
Matches: 257, Mismatches: 68, Indels: 32
0.72 0.19 0.09
Matches are distributed among these distances:
50 42 0.16
51 208 0.81
52 7 0.03
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (50 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTACCGATAAATTTGGT
Found at i:21018912 original size:102 final size:102
Alignment explanation
Indices: 21018736--21019124 Score: 511
Period size: 102 Copynumber: 3.8 Consensus size: 102
21018726 CGATGAACAC
*
21018736 GTGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAA
21018801 GTGAAGGCTACTATGTGTACCGAGAAGCTTTGAGCAT
66 GTGAAGGCTACTATGTGTACCGAGAAGCTTTGAGCAT
* *
21018838 GTGTGTAGTACTGTGTGAATGCTACTACGTGTATCGATAAATAATGGTCAGATGTGTAGTACTAA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAA
21018903 GTGAAGGCTACTATGTGTACCGAGAAGCTTTGAGCAT
66 GTGAAGGCTACTATGTGTACCGAGAAGCTTTGAGCAT
* * * *
21018940 GTGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGTAAACT-ACGGTTACATGTGTAGTACTA
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAA-TAATGGTCACATGTGTAGTACTA
* * * *
21019004 AATGAAGGCTACAATGGGTACCGA-AATGCTTT-AGTCAC
65 AGTGAAGGCTACTATGTGTACCGAGAA-GCTTTGAG-CAT
* * * * * * *
21019042 GTATGTGGTACTATGTGAAGGCTACTACGTG-AGCCG-TAAA-ACTTGATCACGTGTGTAGTACT
1 GTGTGTAGTACTGTGTGAAGGCTACTACGTGTA-TCGATAAATA-ATGGTCACATGTGTAGTACT
* *
21019104 ATGTGAAGGCTACTACGTGTA
64 AAGTGAAGGCTACTATGTGTA
21019125 TCGAATGATA
Statistics
Matches: 255, Mismatches: 26, Indels: 13
0.87 0.09 0.04
Matches are distributed among these distances:
101 40 0.16
102 214 0.84
103 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (102 bp):
GTGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGATAAATAATGGTCACATGTGTAGTACTAA
GTGAAGGCTACTATGTGTACCGAGAAGCTTTGAGCAT
Found at i:21021628 original size:10 final size:10
Alignment explanation
Indices: 21021613--21021637 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
21021603 AGACAACATC
21021613 CTGGTGAATG
1 CTGGTGAATG
21021623 CTGGTGAATG
1 CTGGTGAATG
21021633 CTGGT
1 CTGGT
21021638 TAATTAGCCG
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:0.16, C:0.12, G:0.40, T:0.32
Consensus pattern (10 bp):
CTGGTGAATG
Found at i:21025228 original size:40 final size:40
Alignment explanation
Indices: 21025130--21025392 Score: 309
Period size: 40 Copynumber: 6.6 Consensus size: 40
21025120 TCCTCGTTCA
* * * ** *
21025130 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
*
21025169 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
21025209 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
21025249 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
** * *
21025289 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
21025329 AAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCACG
* *
21025369 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21025393 CAGCATTCAA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
39 37 0.19
40 154 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:21030930 original size:412 final size:412
Alignment explanation
Indices: 21030166--21030989 Score: 1513
Period size: 412 Copynumber: 2.0 Consensus size: 412
21030156 GACTCAATAG
21030166 GTAAAGTCTTACTGGATGCTAAGGTTTCACATATGTAAGAATGAGTAGAACCGGGGTCAATCAAA
1 GTAAAGTCTTACTGGATGCTAAGGTTTCACATATGTAAGAATGAGTAGAACCGGGGTCAATCAAA
21030231 GCAATTACATTAGTATCAAAGAGAGTGAATGTACCGGTAATAACATCAGGCGAAGAAGCATCCTC
66 GCAATTACATTAGTATCAAAGAGAGTGAATGTACCGGTAATAACATCAGGCGAAGAAGCATCCTC
21030296 GCGGGCACGTATAGCATAAGCTCTAGCAGGCGCACGGGCTTCGGATCTGGTTATATCATCTCTAG
131 GCGGGCACGTATAGCATAAGCTCTAGCAGGCGCACGGGCTTCGGATCTGGTTATATCATCTCTAG
21030361 ATCCTCTCTGACCACCACCAGCATTGCCCATATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCA
196 ATCCTCTCTGACCACCACCAGCATTGCCCATATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCA
* * *
21030426 CCCGGTTTCCCACTCTGATTTTCATTCTGTTCAAACAACCTCGGGCAATCTTTAATGAAGTGGTC
261 CCCGGTCTCCCACTCTGATTTGCATTCTGTCCAAACAACCTCGGGCAATCTTTAATGAAGTGGTC
* *
21030491 CACTGATCCGCATTTGTAACAGGAGCGGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGC
326 AACTGATCCGCACTTGTAACAGGAGCGGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGC
*
21030556 AATATCGACATTCCGTTCTGTC
391 AATATCGACATTCCGTCCTGTC
*
21030578 GTAAAGTCTTACTGGATGCTAAGGTTTCACATATGTAGGAATGAGTAGAACCGGGGTCAATCAAA
1 GTAAAGTCTTACTGGATGCTAAGGTTTCACATATGTAAGAATGAGTAGAACCGGGGTCAATCAAA
*
21030643 GCAATTACATTAGTATCAAAGAGGGTGAATGTACCGGTAATAACATCAGGCGAAGAAGCATCCTC
66 GCAATTACATTAGTATCAAAGAGAGTGAATGTACCGGTAATAACATCAGGCGAAGAAGCATCCTC
21030708 GCGGGCACGTATAGCATAAGCTCTAGCAGGCGCACGGGCTTCGGATCTGGTTATATCATCTCTAG
131 GCGGGCACGTATAGCATAAGCTCTAGCAGGCGCACGGGCTTCGGATCTGGTTATATCATCTCTAG
* *
21030773 ATCCTCTCTGACCACCACTAGCATTGCCCGTATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCA
196 ATCCTCTCTGACCACCACCAGCATTGCCCATATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCA
**
21030838 CCCGGTCTCCCACTCTGATTTGCATTCTGTCCCGACAACCTCGGGCAATCTTTAATGAAGTGGTC
261 CCCGGTCTCCCACTCTGATTTGCATTCTGTCCAAACAACCTCGGGCAATCTTTAATGAAGTGGTC
*
21030903 AACTGATCCGCACTTGTAACAGGAGCGGTCAGGGAATCTACAACTCCCCGAATGCCATTTACCGC
326 AACTGATCCGCACTTGTAACAGGAGCGGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGC
* *
21030968 AATATCGGCATTTCGTCCTGTC
391 AATATCGACATTCCGTCCTGTC
21030990 TCGACGTTCA
Statistics
Matches: 397, Mismatches: 15, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
412 397 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (412 bp):
GTAAAGTCTTACTGGATGCTAAGGTTTCACATATGTAAGAATGAGTAGAACCGGGGTCAATCAAA
GCAATTACATTAGTATCAAAGAGAGTGAATGTACCGGTAATAACATCAGGCGAAGAAGCATCCTC
GCGGGCACGTATAGCATAAGCTCTAGCAGGCGCACGGGCTTCGGATCTGGTTATATCATCTCTAG
ATCCTCTCTGACCACCACCAGCATTGCCCATATTTCCAGATGGTCTACCTCGAGCAGTGGTAGCA
CCCGGTCTCCCACTCTGATTTGCATTCTGTCCAAACAACCTCGGGCAATCTTTAATGAAGTGGTC
AACTGATCCGCACTTGTAACAGGAGCGGTCAGGAAATCTACAACTCCCCGAATGCCATTTACCGC
AATATCGACATTCCGTCCTGTC
Found at i:21033587 original size:40 final size:40
Alignment explanation
Indices: 21033489--21033871 Score: 504
Period size: 40 Copynumber: 9.6 Consensus size: 40
21033479 TCCTCGTTCA
* * * * *
21033489 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
21033528 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
21033568 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
21033608 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
21033648 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
21033688 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
21033728 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * *
21033768 AAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAATAACTCGCACG
** * * * *
21033808 AATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
21033848 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21033872 CAGCATTCAA
Statistics
Matches: 315, Mismatches: 23, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
39 39 0.12
40 264 0.84
41 12 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:21033880 original size:41 final size:41
Alignment explanation
Indices: 21033803--21033880 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
21033793 TTTGTATCTC
* * *
21033803 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
21033844 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
21033881 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:21037937 original size:51 final size:50
Alignment explanation
Indices: 21037861--21038137 Score: 161
Period size: 51 Copynumber: 5.5 Consensus size: 50
21037851 GATGAACACG
** * *
21037861 TGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAATAATGGTCAGA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAAT-ATGGTCACA
* * * * *
21037912 TGTGTAGTACTAAGTGAAGGTTACTATGTGTA-CTGAGAAGCTTTGAG-CACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATC-GATAA-ATATG-GTCACA
** * * * *
21037963 TGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGTAAACTACGGTTACA
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAA-TATGGTCACA
* * * * * * *
21038014 TGTGTAGTACTAAGTGAAGGCTACAATGGGTACCGA-AATGCTTTGGTCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAA--ATATGGTCACA
* * * * * *
21038065 TATGTGGTACTATGTGAAGGCTACTACGTG-AGCCG-TAAA-ACTTGATCACG
1 TGTGTAGTACTAAGTGAAGGCTACTACGTGTA-TCGATAAATA--TGGTCACA
*
21038115 TGTGTAGTACTATGTGAAGGCTA
1 TGTGTAGTACTAAGTGAAGGCTA
21038138 AATAATATAG
Statistics
Matches: 170, Mismatches: 44, Indels: 25
0.71 0.18 0.10
Matches are distributed among these distances:
50 33 0.19
51 134 0.79
52 3 0.02
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTAAGTGAAGGCTACTACGTGTATCGATAAATATGGTCACA
Found at i:21038057 original size:102 final size:102
Alignment explanation
Indices: 21037861--21038137 Score: 312
Period size: 102 Copynumber: 2.7 Consensus size: 102
21037851 GATGAACACG
* * *
21037861 TGTGTAGTACTGTGTGGAGGCTACTACGTGTATCGATAAA-TAATGGTCAGATGTGTAGTACTAA
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACT-ATGGTCACATGTGTAGTACTAA
* * * *
21037925 GTGAAGGTTACTATGTGTACTGAGAAGCTTTGAG-CACA
65 GTGAAGGCTACAATGGGTACCGAGAAGCTTTG-GTCACA
* * *
21037963 TGTGTAGTACTGTGTGAATGCTACTACGTGTATCGGTAAACTACGGTTACATGTGTAGTACTAAG
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTACTAAG
*
21038028 TGAAGGCTACAATGGGTACCGA-AATGCTTTGGTCACG
66 TGAAGGCTACAATGGGTACCGAGAA-GCTTTGGTCACA
* * * * * * * *
21038065 TATGTGGTACTATGTGAAGGCTACTACGTG-AGCCGTAAAACT-TGATCACGTGTGTAGTACTAT
1 TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGT-AAACTATGGTCACATGTGTAGTACTAA
21038128 GTGAAGGCTA
65 GTGAAGGCTA
21038138 AATAATATAG
Statistics
Matches: 149, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
101 33 0.22
102 115 0.77
103 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (102 bp):
TGTGTAGTACTGTGTGAAGGCTACTACGTGTATCGGTAAACTATGGTCACATGTGTAGTACTAAG
TGAAGGCTACAATGGGTACCGAGAAGCTTTGGTCACA
Found at i:21038335 original size:171 final size:171
Alignment explanation
Indices: 21038050--21038393 Score: 688
Period size: 171 Copynumber: 2.0 Consensus size: 171
21038040 TGGGTACCGA
21038050 AATGCTTTGGTCACGTATGTGGTACTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACG
1 AATGCTTTGGTCACGTATGTGGTACTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACG
21038115 TGTGTAGTACTATGTGAAGGCTAAATAATATAGTGCTATGTGAATAAGGAATATTGGAATAGAAC
66 TGTGTAGTACTATGTGAAGGCTAAATAATATAGTGCTATGTGAATAAGGAATATTGGAATAGAAC
21038180 AGATTTGGATAGTGACGGTGATGTTAGTTTGAAAAATCACC
131 AGATTTGGATAGTGACGGTGATGTTAGTTTGAAAAATCACC
21038221 AATGCTTTGGTCACGTATGTGGTACTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACG
1 AATGCTTTGGTCACGTATGTGGTACTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACG
21038286 TGTGTAGTACTATGTGAAGGCTAAATAATATAGTGCTATGTGAATAAGGAATATTGGAATAGAAC
66 TGTGTAGTACTATGTGAAGGCTAAATAATATAGTGCTATGTGAATAAGGAATATTGGAATAGAAC
21038351 AGATTTGGATAGTGACGGTGATGTTAGTTTGAAAAATCACC
131 AGATTTGGATAGTGACGGTGATGTTAGTTTGAAAAATCACC
21038392 AA
1 AA
21038394 AAACTATAGA
Statistics
Matches: 173, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
171 173 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.30
Consensus pattern (171 bp):
AATGCTTTGGTCACGTATGTGGTACTATGTGAAGGCTACTACGTGAGCCGTAAAACTTGATCACG
TGTGTAGTACTATGTGAAGGCTAAATAATATAGTGCTATGTGAATAAGGAATATTGGAATAGAAC
AGATTTGGATAGTGACGGTGATGTTAGTTTGAAAAATCACC
Found at i:21042563 original size:25 final size:25
Alignment explanation
Indices: 21042522--21042582 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
21042512 TCTTGTACAT
* *
21042522 GTATGCTCATACGAGCTATGAATCG
1 GTATGCTCATACAAGCTATAAATCG
*
21042547 GTATGCTC-TCACAAGCTGTAAATCG
1 GTATGCTCAT-ACAAGCTATAAATCG
*
21042572 GTAAGCTCATA
1 GTATGCTCATA
21042583 TGTGCTAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
24 1 0.03
25 28 0.93
26 1 0.03
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (25 bp):
GTATGCTCATACAAGCTATAAATCG
Found at i:21042605 original size:50 final size:49
Alignment explanation
Indices: 21042526--21042649 Score: 151
Period size: 50 Copynumber: 2.5 Consensus size: 49
21042516 GTACATGTAT
* *
21042526 GCTCATACGAGCTATGAATCGGTATGCTCTCACAAGCTGTAAATCGGTAA
1 GCTCATACGAGCTAAGAATCGGTAAGCTCTCACAAGCTG-AAATCGGTAA
* * * * *
21042576 GCTCATATGTGCTAAGAATCGGTAAGCTCTCACGAGTTGCAATCGGTAA
1 GCTCATACGAGCTAAGAATCGGTAAGCTCTCACAAGCTGAAATCGGTAA
*
21042625 GCTCCA-ACGAGCTGAGAATCGGTAA
1 GCT-CATACGAGCTAAGAATCGGTAA
21042650 CCCTAACGAC
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 28 0.44
50 35 0.56
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (49 bp):
GCTCATACGAGCTAAGAATCGGTAAGCTCTCACAAGCTGAAATCGGTAA
Found at i:21042634 original size:24 final size:25
Alignment explanation
Indices: 21042542--21042649 Score: 89
Period size: 25 Copynumber: 4.4 Consensus size: 25
21042532 ACGAGCTATG
* *
21042542 AATCGGTATGCTCTCACAAGCTGTA-
1 AATCGGTAAGCTCTCACGAGCTG-AC
* * * *
21042567 AATCGGTAAGCTCAT-ATGTGCTAAG
1 AATCGGTAAGCTC-TCACGAGCTGAC
*
21042592 AATCGGTAAGCTCTCACGAGTTG-C
1 AATCGGTAAGCTCTCACGAGCTGAC
*
21042616 AATCGGTAAGCTC-CAACGAGCTGAG
1 AATCGGTAAGCTCTC-ACGAGCTGAC
21042641 AATCGGTAA
1 AATCGGTAA
21042650 CCCTAACGAC
Statistics
Matches: 66, Mismatches: 12, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
23 1 0.02
24 22 0.33
25 42 0.64
26 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (25 bp):
AATCGGTAAGCTCTCACGAGCTGAC
Found at i:21042657 original size:24 final size:25
Alignment explanation
Indices: 21042590--21042658 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
21042580 ATATGTGCTA
* * *
21042590 AGAATCGGTAAGCTCTCACGAGTTG
1 AGAATCGGTAAGCCCTAACGAGCTG
*
21042615 -CAATCGGTAAGCTCC-AACGAGCTG
1 AGAATCGGTAAGC-CCTAACGAGCTG
21042639 AGAATCGGTAA-CCCTAACGA
1 AGAATCGGTAAGCCCTAACGA
21042659 CATGTCATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
23 2 0.06
24 24 0.67
25 10 0.28
ACGTcount: A:0.32, C:0.25, G:0.25, T:0.19
Consensus pattern (25 bp):
AGAATCGGTAAGCCCTAACGAGCTG
Found at i:21048484 original size:23 final size:22
Alignment explanation
Indices: 21048452--21048496 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 22
21048442 CCCATTTTGA
21048452 TTGCAAACTAATGGCCAATACC
1 TTGCAAACTAATGGCCAATACC
*
21048474 TTGCACAACTAATGGCCATTACC
1 TTGCA-AACTAATGGCCAATACC
21048497 AATGATGAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.24
Consensus pattern (22 bp):
TTGCAAACTAATGGCCAATACC
Found at i:21061729 original size:21 final size:21
Alignment explanation
Indices: 21061704--21061746 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
21061694 GGAAGAAATC
21061704 AAATTCTAAAATTATTCTCAA
1 AAATTCTAAAATTATTCTCAA
21061725 AAATTCTAAAATTATTCTCAA
1 AAATTCTAAAATTATTCTCAA
21061746 A
1 A
21061747 CTCTATGAGG
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:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTCTAAAATTATTCTCAA
Found at i:21065026 original size:27 final size:27
Alignment explanation
Indices: 21064987--21065207 Score: 250
Period size: 27 Copynumber: 8.3 Consensus size: 27
21064977 AGAGGTCAAT
*
21064987 AAATGACCAAAATACCCCCATAGGATA
1 AAATGACCGAAATACCCCCATAGGATA
*
21065014 AAATGACCGAAATA-CTCCATAGGAT-
1 AAATGACCGAAATACCCCCATAGGATA
** *
21065039 AAATGATTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGATA
* *
21065066 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGATA
* * *
21065093 AAGTGACTGAAATACCCTCATAGGATA
1 AAATGACCGAAATACCCCCATAGGATA
*
21065120 AAATGACCGAAATACCCCCACATGG-TA
1 AAATGACCGAAATACCCCCATA-GGATA
* *
21065147 AAATGACCAAAATACCCCCATAGAATA
1 AAATGACCGAAATACCCCCATAGGATA
* * * * *
21065174 AAATAACCAAAATAGCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGATA
21065201 AAATGAC
1 AAATGAC
21065208 TTTTATACCC
Statistics
Matches: 165, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
25 12 0.07
26 20 0.12
27 131 0.79
28 2 0.01
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGATA
Found at i:21065150 original size:81 final size:81
Alignment explanation
Indices: 21064987--21065207 Score: 293
Period size: 81 Copynumber: 2.8 Consensus size: 81
21064977 AGAGGTCAAT
* **
21064987 AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACTC-CATAGGAT-AAATGATTGAA
1 AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCCTCATAGGATAAAATGACCGAA
*
21065050 ATACCCCCATAGGGTA
66 ATACCCCCACAGGGTA
* * * * *
21065066 AAATGATCGAAATACCCCCATAGGGTAAAGTGACTGAAATACCCTCATAGGATAAAATGACCGAA
1 AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCCTCATAGGATAAAATGACCGAA
*
21065131 ATACCCCCACATGGTA
66 ATACCCCCACAGGGTA
* * * * *
21065147 AAATGACCAAAATACCCCCATAGAATAAAATAACCAAAATAGCCTCATAGGGTAAAATGAC
1 AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCCTCATAGGATAAAATGAC
21065208 TTTTATACCC
Statistics
Matches: 120, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
79 38 0.32
80 8 0.07
81 74 0.62
ACGTcount: A:0.45, C:0.22, G:0.15, T:0.18
Consensus pattern (81 bp):
AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCCTCATAGGATAAAATGACCGAA
ATACCCCCACAGGGTA
Found at i:21065232 original size:81 final size:79
Alignment explanation
Indices: 21064987--21065233 Score: 234
Period size: 81 Copynumber: 3.1 Consensus size: 79
21064977 AGAGGTCAAT
21064987 AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATA-CTCCATAGGAT-AAATGA-TTGA
1 AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCT-CATAGGATAAAATGACTT-A
21065049 AATACCCCCATAGG-GTA
64 AATA-CCCC-TAGGAGTA
* * * * * **
21065066 AAATGATCGAAATACCCCCATAGGGTAAAGTGACTGAAATACCCTCATAGGATAAAATGACCGAA
1 AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATA-CCTCATAGGATAAAATGACTTAA
* *
21065131 ATACCCCCA-CATGGTA
65 ATACCCCTAGGA--GTA
* * * * **
21065147 AAATGACCAAAATACCCCCATAGAATAAAATAACCAAAATAGCCTCATAGGGTAAAATGACTTTT
1 AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATA-CCTCATAGGATAAAATGACTTAA
*
21065212 ATACCCCTAGGAGATG
65 ATACCCCTAGGAG-TA
21065228 AAATGA
1 AAATGA
21065234 TTGTTCTGGC
Statistics
Matches: 133, Mismatches: 26, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
79 37 0.28
80 13 0.10
81 82 0.62
82 1 0.01
ACGTcount: A:0.44, C:0.21, G:0.15, T:0.19
Consensus pattern (79 bp):
AAATGACCAAAATACCCCCATAGGATAAAATGACCGAAATACCTCATAGGATAAAATGACTTAAA
TACCCCTAGGAGTA
Found at i:21065400 original size:26 final size:26
Alignment explanation
Indices: 21065371--21065477 Score: 133
Period size: 26 Copynumber: 4.1 Consensus size: 26
21065361 TGGAGGAAGT
* * *
21065371 ATACTGTTACTAGTAGCTTTGTTGTG
1 ATACTGTTACTAGCAGCTTTGCTGCG
*
21065397 ATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTAGCAGCTTTGCTGCG
* * *
21065423 ATACTGTTATTGGCAGCTTTGCTACG
1 ATACTGTTACTAGCAGCTTTGCTGCG
* *
21065449 ATACTATTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTAGCAGCTTTGCTGCG
21065475 ATA
1 ATA
21065478 TTGGTGTGTT
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (26 bp):
ATACTGTTACTAGCAGCTTTGCTGCG
Found at i:21065441 original size:52 final size:52
Alignment explanation
Indices: 21065371--21065477 Score: 151
Period size: 52 Copynumber: 2.1 Consensus size: 52
21065361 TGGAGGAAGT
* * ** *
21065371 ATACTGTTACTAGTAGCTTTGTTGTGATACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTAGCAGCTTTGCTACGATACTATTACTGGCAGCTTTGCTGCG
* *
21065423 ATACTGTTATTGGCAGCTTTGCTACGATACTATTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTAGCAGCTTTGCTACGATACTATTACTGGCAGCTTTGCTGCG
21065475 ATA
1 ATA
21065478 TTGGTGTGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (52 bp):
ATACTGTTACTAGCAGCTTTGCTACGATACTATTACTGGCAGCTTTGCTGCG
Found at i:21065619 original size:28 final size:27
Alignment explanation
Indices: 21065587--21065644 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 27
21065577 GCACTAATTT
* *
21065587 TGTATTAGGCTAAGGCCCACACTGTTAC
1 TGTATCAGGCGAAGGCCCACACTG-TAC
21065615 TGTATCAGGCGAAGGCCCACACTGTAC
1 TGTATCAGGCGAAGGCCCACACTGTAC
21065642 TGT
1 TGT
21065645 TACTGAATAG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (27 bp):
TGTATCAGGCGAAGGCCCACACTGTAC
Found at i:21078170 original size:43 final size:43
Alignment explanation
Indices: 21078123--21078219 Score: 131
Period size: 43 Copynumber: 2.3 Consensus size: 43
21078113 TCCCAAATAT
* * *
21078123 GGTCTTACATGTTATCACATATCGATGCCACTGTCCCAGACAG
1 GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACAG
** * *
21078166 GGTCTTACACGTAATCGTATATCGATGCCAATGTCCCAGATAT
1 GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACAG
21078209 GGTCTTACACG
1 GGTCTTACACG
21078220 AAAGCACACC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (43 bp):
GGTCTTACACGTAATCACATATCGATGCCAATGTCCCAGACAG
Found at i:21091192 original size:56 final size:56
Alignment explanation
Indices: 21091125--21091356 Score: 446
Period size: 56 Copynumber: 4.1 Consensus size: 56
21091115 TATTAGTTTA
* *
21091125 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTGATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
21091181 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
21091237 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
21091293 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
21091349 TTGCCCAT
1 TTGCCCAT
21091357 CATCCCTTGT
Statistics
Matches: 174, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 174 1.00
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.46
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:21095123 original size:18 final size:18
Alignment explanation
Indices: 21095093--21095127 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21095083 AGAATACAAA
21095093 TCAACAATCTCAAAAACG
1 TCAACAATCTCAAAAACG
21095111 TCAA-AATCATCAAAAAC
1 TCAACAATC-TCAAAAAC
21095128 CGAACTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
TCAACAATCTCAAAAACG
Found at i:21096772 original size:39 final size:39
Alignment explanation
Indices: 21096724--21096852 Score: 141
Period size: 39 Copynumber: 3.3 Consensus size: 39
21096714 ATTCACTTTT
* * * *
21096724 AAGCGTATATCACATTACACATATAATAACATAACATTT
1 AAGCATATATCACAATACTCATATAATAACATAACATTC
* * * **
21096763 ACGCATATATAAAAATACTCATATAATCGCATAACATTC
1 AAGCATATATCACAATACTCATATAATAACATAACATTC
* * *
21096802 AAGCATATATCACAATACTCATATAATCACAGAATATTC
1 AAGCATATATCACAATACTCATATAATAACATAACATTC
*
21096841 AACCATATATCA
1 AAGCATATATCA
21096853 TAATCCACAC
Statistics
Matches: 74, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 74 1.00
ACGTcount: A:0.47, C:0.20, G:0.05, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATAATAACATAACATTC
Found at i:21098872 original size:15 final size:14
Alignment explanation
Indices: 21098851--21098886 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
21098841 ATAATCCTTA
*
21098851 ATAATTATCTTAAT
1 ATAATTATCCTAAT
21098865 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
21098880 ATAATTA
1 ATAATTA
21098887 AAATAGATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:21102736 original size:39 final size:39
Alignment explanation
Indices: 21102653--21102791 Score: 138
Period size: 39 Copynumber: 3.6 Consensus size: 39
21102643 ATTCACTTTT
* * * *
21102653 AAGCTTATATCACATTACACATATAATCAC-ATACATTT
1 AAGCATATATCACAATACACATATAATCACAAAACATTC
* * * *
21102691 ACGCATATACCACAATACTCATACAATCACAAAACATTC
1 AAGCATATATCACAATACACATATAATCACAAAACATTC
* * * *
21102730 AAGCATATATCATAGTACTCTTATAATCACATAAA-ATTC
1 AAGCATATATCACAATACACATATAATCACA-AAACATTC
*
21102769 AAGCATATATCATAATACACATA
1 AAGCATATATCACAATACACATA
21102792 ATCATATTTA
Statistics
Matches: 82, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
38 24 0.29
39 55 0.67
40 3 0.04
ACGTcount: A:0.45, C:0.22, G:0.04, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACACATATAATCACAAAACATTC
Found at i:21109801 original size:20 final size:20
Alignment explanation
Indices: 21109773--21109822 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
21109763 AAGACTATGA
*
21109773 ACCACTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
21109793 ACCATTCCATTTACTTACTT
1 ACCATTCCATTTACTTACTT
*
21109813 TCCATTCCAT
1 ACCATTCCAT
21109823 CTATTTAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.42
Consensus pattern (20 bp):
ACCATTCCATTTACTTACTT
Found at i:21110374 original size:26 final size:25
Alignment explanation
Indices: 21110324--21110374 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
21110314 TGGAATGGTC
**
21110324 GATGATTTGAGGATTGAATGGGATT
1 GATGATTTGAGGATTGAAAAGGATT
*
21110349 GATGATTTGAGTGATTGAAAATGATT
1 GATGATTTGAG-GATTGAAAAGGATT
21110375 TATAGAATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.37
Consensus pattern (25 bp):
GATGATTTGAGGATTGAAAAGGATT
Found at i:21115585 original size:40 final size:40
Alignment explanation
Indices: 21115487--21115829 Score: 485
Period size: 40 Copynumber: 8.6 Consensus size: 40
21115477 TCCTCGTTCA
* * * * *
21115487 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
21115526 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
21115566 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
21115606 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
21115646 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
21115686 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
21115726 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
21115766 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
21115806 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
21115830 CAGCATTCAA
Statistics
Matches: 280, Mismatches: 20, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
39 37 0.13
40 235 0.84
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:21127318 original size:16 final size:16
Alignment explanation
Indices: 21127297--21127340 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
21127287 TCTCCCATGG
21127297 TTTCACAATCTATAAT
1 TTTCACAATCTATAAT
*
21127313 TTTCACAGTTCTATAAT
1 TTTCACA-ATCTATAAT
21127330 TTTCAC-ATCTA
1 TTTCACAATCTA
21127341 AAGATCACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 4 0.16
16 7 0.28
17 14 0.56
ACGTcount: A:0.32, C:0.20, G:0.02, T:0.45
Consensus pattern (16 bp):
TTTCACAATCTATAAT
Found at i:21130378 original size:20 final size:20
Alignment explanation
Indices: 21130331--21130381 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
21130321 CAAGCTACGA
*
21130331 CTCAACAAAGGCTGATATGG
1 CTCAACACAGGCTGATATGG
* *
21130351 CTCAACACAGGTTGCTATGG
1 CTCAACACAGGCTGATATGG
21130371 CTCAACACAGG
1 CTCAACACAGG
21130382 AGTCATGTCG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (20 bp):
CTCAACACAGGCTGATATGG
Found at i:21131304 original size:27 final size:27
Alignment explanation
Indices: 21131244--21131588 Score: 233
Period size: 27 Copynumber: 12.9 Consensus size: 27
21131234 TTTAAGGATT
* * * *
21131244 AGGGTAAAATAACCGAAATACTCTAGA
1 AGGGTAAAATTACTGAAATACCCTTGA
* *
21131271 TGTGTAAAATTACTGAAATACCCTTGA
1 AGGGTAAAATTACTGAAATACCCTTGA
** *
21131298 AGGGTAAAATTACCAAAATGCCCTTGA
1 AGGGTAAAATTACTGAAATACCCTTGA
* * * *
21131325 TGGGTAAAATTATTGAAACACCC-TAA
1 AGGGTAAAATTACTGAAATACCCTTGA
**
21131351 AGGGTAAAATTA-TCGAAATACCCTCAA
1 AGGGTAAAATTACT-GAAATACCCTTGA
**
21131378 AGGGTAAAATTA-TCGAAATACCCTCAA
1 AGGGTAAAATTACT-GAAATACCCTTGA
*
21131405 AGGGTAAAATTA-TCGAAATACCCTCGA
1 AGGGTAAAATTACT-GAAATACCCTTGA
* *
21131432 TGGGTAAAATTACCGAAATA-CCTTCGA
1 AGGGTAAAATTACTGAAATACCCTT-GA
* * *
21131459 TGGGTAAAATTACTAAAATACCCTCG-
1 AGGGTAAAATTACTGAAATACCCTTGA
* *
21131485 ATGGTAAAATTA-TCGAAATACCC-TCA
1 AGGGTAAAATTACT-GAAATACCCTTGA
* * **
21131511 ATAGGTAAAATTA-TCAAAATACCCCCGA
1 A-GGGTAAAATTACT-GAAATACCCTTGA
* * * * *
21131539 ACGGTAAAATGACCGGAATACCC-TCA
1 AGGGTAAAATTACTGAAATACCCTTGA
*
21131565 ATGGGTAAAATTACTAAAATACCC
1 A-GGGTAAAATTACTGAAATACCC
21131589 CTATAGGGAA
Statistics
Matches: 258, Mismatches: 49, Indels: 22
0.78 0.15 0.07
Matches are distributed among these distances:
25 2 0.01
26 45 0.17
27 206 0.80
28 5 0.02
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (27 bp):
AGGGTAAAATTACTGAAATACCCTTGA
Found at i:21131371 original size:107 final size:106
Alignment explanation
Indices: 21131244--21131588 Score: 354
Period size: 107 Copynumber: 3.2 Consensus size: 106
21131234 TTTAAGGATT
* * *
21131244 AGGGTAAAATAACCGAAATACTCTAGATGTGTAAAATTA-CTGAAATACCCTTGAAGGGTAAAAT
1 AGGGTAAAATTA-CGAAATACCCTAGATG-GTAAAATTATC-GAAATACCCTTAAAGGGTAAAAT
* * * **
21131308 TACCAAAATGCCCTTGATGGGTAAAATTATTGAAACACCCT-AA
63 TATCAAAATACCCTCGATGGGTAAAATTACCGAAACACCCTCAA
* * *
21131351 AGGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATT
1 AGGGTAAAATTA-CGAAATACCCT-AGATGGTAAAATTATCGAAATACCCTTAAAGGGTAAAATT
* * * *
21131416 ATCGAAATACCCTCGATGGGTAAAATTACCGAAATACCTTCGA
64 ATCAAAATACCCTCGATGGGTAAAATTACCGAAACACCCTCAA
* * * *
21131459 TGGGTAAAATTACTAAAATACCCTCGATGGTAAAATTATCGAAATACCCTCAATA-GGTAAAATT
1 AGGGTAAAATTAC-GAAATACCCTAGATGGTAAAATTATCGAAATACCCTTAA-AGGGTAAAATT
* ** * * *
21131523 ATCAAAATACCCCCGAACGGTAAAATGACCGGAATACCCTCAA
64 ATCAAAATACCCTCGATGGGTAAAATTACCGAAACACCCTCAA
* *
21131566 TGGGTAAAATTACTAAAATACCC
1 AGGGTAAAATTAC-GAAATACCC
21131589 CTATAGGGAA
Statistics
Matches: 204, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
107 178 0.87
108 26 0.13
ACGTcount: A:0.42, C:0.19, G:0.16, T:0.24
Consensus pattern (106 bp):
AGGGTAAAATTACGAAATACCCTAGATGGTAAAATTATCGAAATACCCTTAAAGGGTAAAATTAT
CAAAATACCCTCGATGGGTAAAATTACCGAAACACCCTCAA
Found at i:21131589 original size:54 final size:54
Alignment explanation
Indices: 21131274--21131588 Score: 343
Period size: 54 Copynumber: 5.9 Consensus size: 54
21131264 CTCTAGATGT
* * * * * *
21131274 GTAAAATTACTGAAATACCCTTGAA-GGGTAAAATTACCAAAATGCCCTTGATGG
1 GTAAAATTACCGAAATACCC-TCAATGGGTAAAATTATCAAAATACCCTCGAAGG
** * * * *
21131328 GTAAAATTATTGAAACACCCT-AAAGGGTAAAATTATCGAAATACCCTCAAAGG
1 GTAAAATTACCGAAATACCCTCAATGGGTAAAATTATCAAAATACCCTCGAAGG
* * * *
21131381 GTAAAATTATCGAAATACCCTCAAAGGGTAAAATTATCGAAATACCCTCGATGG
1 GTAAAATTACCGAAATACCCTCAATGGGTAAAATTATCAAAATACCCTCGAAGG
* * *
21131435 GTAAAATTACCGAAATACCTTCGATGGGTAAAATTA-CTAAAATACCCTCG-ATG
1 GTAAAATTACCGAAATACCCTCAATGGGTAAAATTATC-AAAATACCCTCGAAGG
* * * *
21131488 GTAAAATTATCGAAATACCCTCAATAGGTAAAATTATCAAAATACCCCCGAACG
1 GTAAAATTACCGAAATACCCTCAATGGGTAAAATTATCAAAATACCCTCGAAGG
* *
21131542 GTAAAATGACCGGAATACCCTCAATGGGTAAAATTA-CTAAAATACCC
1 GTAAAATTACCGAAATACCCTCAATGGGTAAAATTATC-AAAATACCC
21131589 CTATAGGGAA
Statistics
Matches: 226, Mismatches: 29, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
52 2 0.01
53 89 0.39
54 135 0.60
ACGTcount: A:0.42, C:0.19, G:0.15, T:0.24
Consensus pattern (54 bp):
GTAAAATTACCGAAATACCCTCAATGGGTAAAATTATCAAAATACCCTCGAAGG
Found at i:21131615 original size:54 final size:54
Alignment explanation
Indices: 21131245--21131607 Score: 324
Period size: 54 Copynumber: 6.8 Consensus size: 54
21131235 TTAAGGATTA
* * * * * * * * *
21131245 GGGTAAAATAACCGAAATACTCTAGATGTGTAAAATTACTGAAATACCCTTGAA-
1 GGGTAAAATTATCAAAATACCCTCGATGGGTAAAATGACCGAAATACCC-TCAAT
* * * * ** * *
21131299 GGGTAAAATTACCAAAATGCCCTTGATGGGTAAAATTATTGAAACACCCT-AAA
1 GGGTAAAATTATCAAAATACCCTCGATGGGTAAAATGACCGAAATACCCTCAAT
* * * * * *
21131352 GGGTAAAATTATCGAAATACCCTCAAAGGGTAAAATTATCGAAATACCCTCAAA
1 GGGTAAAATTATCAAAATACCCTCGATGGGTAAAATGACCGAAATACCCTCAAT
* * * *
21131406 GGGTAAAATTATCGAAATACCCTCGATGGGTAAAATTACCGAAATACCTTCGAT
1 GGGTAAAATTATCAAAATACCCTCGATGGGTAAAATGACCGAAATACCCTCAAT
* *
21131460 GGGTAAAATTA-CTAAAATACCCTCGAT-GGTAAAATTATCGAAATACCCTCAAT
1 GGGTAAAATTATC-AAAATACCCTCGATGGGTAAAATGACCGAAATACCCTCAAT
* * ** *
21131513 AGGTAAAATTATCAAAATACCCCCGAACGGTAAAATGACCGGAATACCCTCAAT
1 GGGTAAAATTATCAAAATACCCTCGATGGGTAAAATGACCGAAATACCCTCAAT
* *
21131567 GGGTAAAATTA-CTAAAATACCC-CTATAGGGAAAAATGACCG
1 GGGTAAAATTATC-AAAATACCCTCGAT-GGGTAAAATGACCG
21131608 TTATACCCCT
Statistics
Matches: 265, Mismatches: 37, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
52 2 0.01
53 92 0.35
54 171 0.65
ACGTcount: A:0.42, C:0.18, G:0.16, T:0.23
Consensus pattern (54 bp):
GGGTAAAATTATCAAAATACCCTCGATGGGTAAAATGACCGAAATACCCTCAAT
Found at i:21131900 original size:26 final size:26
Alignment explanation
Indices: 21131801--21131892 Score: 121
Period size: 26 Copynumber: 3.5 Consensus size: 26
21131791 CCACAAATAT
* * *
21131801 TGTTACTGGCAGCTTTACTACGTTAT
1 TGTTACTGGCAGCTCTACTGCGTTAC
* **
21131827 TGATACTGGCAGCTCTGTTGCGTTAC
1 TGTTACTGGCAGCTCTACTGCGTTAC
*
21131853 TGTTACTAGCAGCTCTACTGCGTTAC
1 TGTTACTGGCAGCTCTACTGCGTTAC
21131879 TGTTACTGGCAGCT
1 TGTTACTGGCAGCT
21131893 TTGCTGCGAT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (26 bp):
TGTTACTGGCAGCTCTACTGCGTTAC
Found at i:21132108 original size:30 final size:30
Alignment explanation
Indices: 21132020--21132122 Score: 113
Period size: 30 Copynumber: 3.5 Consensus size: 30
21132010 AAATACTATT
21132020 TTGGGCTAAGG-CC-CACACTGTTACTGTA
1 TTGGGCTAAGGCCCACACACTGTTACTGTA
* * *
21132048 TTTGGCTAAGGCCCACACTCTGTTATTGTA
1 TTGGGCTAAGGCCCACACACTGTTACTGTA
* **
21132078 TTGGGCTATGGCCCACACACTACTACTGTA
1 TTGGGCTAAGGCCCACACACTGTTACTGTA
*
21132108 TAGGGCTCAA-GCCCA
1 TTGGGCT-AAGGCCCA
21132123 GACTGATTCT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 10 0.16
29 2 0.03
30 48 0.79
31 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.28
Consensus pattern (30 bp):
TTGGGCTAAGGCCCACACACTGTTACTGTA
Found at i:21137896 original size:3 final size:3
Alignment explanation
Indices: 21137882--21137918 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
21137872 AAAATAAAAC
*
21137882 TAA TAA TGA TAA TAA CTAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
21137919 CATTGATGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:21141772 original size:3 final size:3
Alignment explanation
Indices: 21141758--21141794 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
21141748 AAAATAAAAC
*
21141758 TAA TAA TGA TAA TAA CTAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA
21141795 CATTGATGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:21142557 original size:16 final size:16
Alignment explanation
Indices: 21142536--21142566 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21142526 CAAAAACTAA
21142536 TCTTTTGTTTTTGATT
1 TCTTTTGTTTTTGATT
*
21142552 TCTTTTTTTTTTGAT
1 TCTTTTGTTTTTGAT
21142567 ACAGTATGCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.06, G:0.10, T:0.77
Consensus pattern (16 bp):
TCTTTTGTTTTTGATT
Found at i:21143355 original size:50 final size:49
Alignment explanation
Indices: 21143301--21144156 Score: 397
Period size: 50 Copynumber: 17.1 Consensus size: 49
21143291 TTGTACCTTC
* *
21143301 AATCTTTTTAACTGCGATGTCGGGGATGCAAGATTTACCATTGTGGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGGAAGCAAGATTCACCATTGTGGCTTT
* ** *** * * **** * *
21143351 AATCTGTTCCACTGCACCACCTGGGAAGTAAGATTCGTTGTTGTAGCCTT
1 AATCTTTTTAACTGCA-TGTCGGGGAAGCAAGATTCACCATTGTGGCTTT
*
21143401 AATCTTTTTGACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTT
* **** * * * * * *
21143451 AATCTGTACCGCTGCATTGCCTAGGG-AGTAAGATTCACTATTATAGCTTT
1 AATCTTTTTAACTGCA-TGTC-GGGGAAGCAAGATTCACCATTGTGGCTTT
*
21143501 AGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGATT-TGGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTT
* *** * * *
21143551 AATCTATTCCGCTGCATCGCCTGGGG-AGTAAGATTC-CCTATTGTAGCTTT
1 AATCTTTTTAACTGCAT-GTC-GGGGAAGCAAGATTCACC-ATTGTGGCTTT
*
21143601 AATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCGA-TGTGGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTT
* ** * * * * ** * *
21143651 AATCTGTTCCACTGCATCGCCTAGGG-AGTAAGATTCGCTGTTATAGCTTT
1 AATCTTTTTAACTGCAT-GTC-GGGGAAGCAAGATTCACCATTGTGGCTTT
*
21143701 AATCTTTTTAACTGGAATGTCGGGGAAGCAAGATTCACCGA-TGTGGCTTT
1 AATCTTTTTAACT-GCATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTT
** *** ** * **
21143751 AATCTGCTCCGCTGCATCACCTGGGG-AGTAAGATTCACTGTTGTGGCTTT
1 AATCTTTTTAACTGCAT-GTC-GGGGAAGCAAGATTCACCATTGTGGCTTT
* * *
21143801 AATCTTTTTAACTACAGTGT-GGGGAAAGCAAGATTCACCGTTATGGCTTT
1 AATCTTTTTAACTGCA-TGTCGGGG-AAGCAAGATTCACCATTGTGGCTTT
** ** * * * ** * *
21143851 AATCTGCTCCACTGCACTGGCTGGGAGAGTAAGATTCGTCGTTGTGACTTT
1 AATCTTTTTAACTGCA-TGTCGGGGA-AGCAAGATTCACCATTGTGGCTTT
*
21143902 AATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCGA-TGTAGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGGAAGCAAGATTCACC-ATTGTGGCTTT
** * * * **** **
21143952 AAT-TTGTTCCACTGCATCGCCTGGGAAGTAAGATTCGTTGTTGCAGCTTT
1 AATCTT-TTTAACTGCAT-GTCGGGGAAGCAAGATTCACCATTGTGGCTTT
*
21144002 AATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCATCGA-TGTGGCTTT
1 AATCTTTTTAACTGC-ATGTCGGGGAAGCAAGATTCA-CCATTGTGGCTTT
* ** * * * ** * ** *
21144052 AATCTGTTCCACTGCACCGCCAGGGAAATAAGATTCGCTGTTGTAGCTTT
1 AATCTTTTTAACTGCA-TGTCGGGGAAGCAAGATTCACCATTGTGGCTTT
* * * * * **
21144102 AATCTTTTTAACTGTAATGTCAGGAAAGCATGATTCGCTGTTGTGGCTTT
1 AATCTTTTTAACTG-CATGTCGGGGAAGCAAGATTCACCATTGTGGCTTT
21144152 AATCT
1 AATCT
21144157 GTTCCACTGC
Statistics
Matches: 583, Mismatches: 183, Indels: 80
0.69 0.22 0.09
Matches are distributed among these distances:
48 4 0.01
49 30 0.05
50 474 0.81
51 74 0.13
52 1 0.00
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (49 bp):
AATCTTTTTAACTGCATGTCGGGGAAGCAAGATTCACCATTGTGGCTTT
Found at i:21143449 original size:100 final size:100
Alignment explanation
Indices: 21143276--21144186 Score: 1170
Period size: 100 Copynumber: 9.1 Consensus size: 100
21143266 AACTTTTGGA
* ** * * * * *
21143276 AAGTAAGATTTGCCATTGTACCTTCAATCTTTTTAACTGCGATGTCGGGGATGCAAGATTTACC-
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* *
21143340 ATTGTGGCTTTAATCTGTTCCACTGCACCACCTGGG
66 A-TGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * *
21143376 AAGTAAGATTCGTTGTTGTAGCCTTAATCTTTTTGACTGCAATGTCGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * *
21143441 ATGTGGCTTTAATCTGTACCGCTGCATTGCCTAGGG
66 ATGTGGCTTTAATCTGTTCCACTGCATCGCCT-GGG
* * * *
21143477 -AGTAAGATTCACTATTATAGCTTTAGTCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * *
21143541 ATTTGGCTTTAATCTATTCCGCTGCATCGCCTGGG
66 ATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * * *
21143576 GAGTAAGATTCCCTATTGTAGCTTTAATCTTTTTAACTGCAATGTCAGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
21143641 ATGTGGCTTTAATCTGTTCCACTGCATCGCCTAGGG
66 ATGTGGCTTTAATCTGTTCCACTGCATCGCCT-GGG
* *
21143677 -AGTAAGATTCGCTGTTATAGCTTTAATCTTTTTAACTGGAATGTCGGGGAAGCAAGATTCACCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * *
21143741 ATGTGGCTTTAATCTGCTCCGCTGCATCACCTGGG
66 ATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * * * *
21143776 GAGTAAGATTCACTGTTGTGGCTTTAATCTTTTTAACTACAGTGT-GGGGAAAGCAAGATTCACC
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGG-AAGCAAGATTCACC
* * * *
21143840 GTTATGGCTTTAATCTGCTCCACTGCA-CTGGCTGGG
65 GATGTGGCTTTAATCTGTTCCACTGCATC-GCCTGGG
21143876 AGAGTAAGATTCG-TCGTTGT-GACTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCA
1 A-AGTAAGATTCGCT-GTTGTAG-CTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCA
* *
21143939 CCGATGTAGCTTTAATTTGTTCCACTGCATCGCCTGGG
63 CCGATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * *
21143977 AAGTAAGATTCGTTGTTGCAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCATCG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* *
21144042 ATGTGGCTTTAATCTGTTCCACTGCACCGCCAGGG
66 ATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
* * * * * * *
21144077 AAATAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGTAATGTCAGGAAAGCATGATTCGCTG
1 AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
* * *
21144142 TTGTGGCTTTAATCTGTTCCACTGCACCGCCTAGG
66 ATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
21144177 AGAGTAAGAT
1 A-AGTAAGAT
21144187 ATGTAATTCT
Statistics
Matches: 713, Mismatches: 83, Indels: 29
0.86 0.10 0.04
Matches are distributed among these distances:
99 11 0.02
100 601 0.84
101 96 0.13
102 5 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (100 bp):
AAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTGCAATGTCGGGGAAGCAAGATTCACCG
ATGTGGCTTTAATCTGTTCCACTGCATCGCCTGGG
Found at i:21144344 original size:44 final size:44
Alignment explanation
Indices: 21144284--21144406 Score: 176
Period size: 44 Copynumber: 2.8 Consensus size: 44
21144274 CCTTTATTTT
* * *
21144284 AATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * *
21144328 AATCTGTTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
21144372 AATCTGCTCCACTGTAA-CATCAGGGAGATAAGATT
1 AATCTGCTCCACTGTAATC-TCAGGGAGATAAGATT
21144407 CACCATTTCC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
43 1 0.01
44 69 0.99
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
Found at i:21144709 original size:129 final size:129
Alignment explanation
Indices: 21144479--21144732 Score: 427
Period size: 129 Copynumber: 2.0 Consensus size: 129
21144469 AATCTTCAAT
* *
21144479 CTATTCCACTGCTGACTAGGGATATCGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGAT
1 CTATTCCACTACTGACTAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGAT
* * * * *
21144544 AAGATTTGTCGTCTTCGATCTGCTCCGCTATTGCTTAGGGATACAAGATCTGTAATTTCCCAAC
66 AAGATTTGTCGTATTCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTGTAATTTCCCAAC
*
21144608 CTATTCCACTACTGACTAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACTCTTGAAGAT
1 CTATTCCACTACTGACTAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGAT
*
21144673 AAGATTTGTCGTATTCGATCTGCTTCACTACTGCTTAAGGAGACAAGATCTGTAATTTCC
66 AAGATTTGTCGTATTCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTGTAATTTCC
21144733 TAGATCTGTT
Statistics
Matches: 116, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
129 116 1.00
ACGTcount: A:0.24, C:0.22, G:0.19, T:0.35
Consensus pattern (129 bp):
CTATTCCACTACTGACTAGGGATATAGGACTTGTGGCTTAAATCTGCTTCCTTACACTTGAAGAT
AAGATTTGTCGTATTCGATCTGCTCCACTACTGCTTAAGGAGACAAGATCTGTAATTTCCCAAC
Found at i:21146870 original size:14 final size:14
Alignment explanation
Indices: 21146851--21146889 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
21146841 TTTTTTGTCA
21146851 TTTTTTATTTTGAT
1 TTTTTTATTTTGAT
* *
21146865 TTTTTTATCTAGAT
1 TTTTTTATTTTGAT
21146879 TTTTTTATTTT
1 TTTTTTATTTT
21146890 TTCTTCATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.15, C:0.03, G:0.05, T:0.77
Consensus pattern (14 bp):
TTTTTTATTTTGAT
Found at i:21151175 original size:40 final size:42
Alignment explanation
Indices: 21151067--21151187 Score: 113
Period size: 46 Copynumber: 2.8 Consensus size: 42
21151057 ATAAATGAAG
* * * *
21151067 AAAATAAATAAAAGATATGTATATGGATTATAAAATACAAAAGC
1 AAAATATATAAAATATAAGTATATAGATTATAAAATAC-AAA-C
* * *
21151111 ATAAATATTTACATATATAGGTATATAGATTATAAAATAC-AA-
1 A-AAATATATA-AAATATAAGTATATAGATTATAAAATACAAAC
21151153 AAAATATATAAAATATAAGTATATACG-TTATAAAA
1 AAAATATATAAAATATAAGTATATA-GATTATAAAA
21151188 AAATGTGTAT
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
40 21 0.32
41 9 0.14
42 1 0.02
44 3 0.05
45 7 0.11
46 24 0.37
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.31
Consensus pattern (42 bp):
AAAATATATAAAATATAAGTATATAGATTATAAAATACAAAC
Found at i:21151509 original size:3 final size:3
Alignment explanation
Indices: 21151495--21151528 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
21151485 CAAATAAAAC
*
21151495 TAA TAA TGA TAA TAA CTAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA
21151529 CATTGATGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:21151511 original size:16 final size:16
Alignment explanation
Indices: 21151487--21151525 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
21151477 TAAAAGGGCA
21151487 AATAA-AACTAATAAT
1 AATAATAACTAATAAT
*
21151502 GATAATAACTAATAAT
1 AATAATAACTAATAAT
21151518 AATAATAA
1 AATAATAA
21151526 TAACATTGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (16 bp):
AATAATAACTAATAAT
Found at i:21166201 original size:22 final size:24
Alignment explanation
Indices: 21166176--21166230 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
21166166 ATAAGAAGAG
21166176 AAATATTTTAAAAATTACAA-AA-A
1 AAATATTTTAAAAATTA-AAGAATA
* * *
21166199 AATTCTTTTAAAATTTAAAGAATA
1 AAATATTTTAAAAATTAAAGAATA
21166223 AAATATTT
1 AAATATTT
21166231 AATTAAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
22 2 0.08
23 16 0.64
24 7 0.28
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (24 bp):
AAATATTTTAAAAATTAAAGAATA
Found at i:21169221 original size:16 final size:16
Alignment explanation
Indices: 21169200--21169239 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
21169190 TTTGGTTCGC
21169200 TGTAATAGAATAGAGG
1 TGTAATAGAATAGAGG
21169216 TGTAATAGAATAGAGG
1 TGTAATAGAATAGAGG
*
21169232 CGTAATAG
1 TGTAATAG
21169240 GTAATCTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.42, C:0.03, G:0.30, T:0.25
Consensus pattern (16 bp):
TGTAATAGAATAGAGG
Found at i:21169510 original size:16 final size:16
Alignment explanation
Indices: 21169485--21169516 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
21169475 AAAAATATAT
*
21169485 TTTTATATTTTTTAAA
1 TTTTAAATTTTTTAAA
21169501 TTTTAAATTTTTTAAA
1 TTTTAAATTTTTTAAA
21169517 AATATTTTTA
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAAATTTTTTAAA
Found at i:21169526 original size:12 final size:12
Alignment explanation
Indices: 21169505--21169554 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
21169495 TTTAAATTTT
21169505 AAAT-TTTTTAA
1 AAATATTTTTAA
21169516 AAATATTTTT-A
1 AAATATTTTTAA
**
21169527 AAATACTTTTTTT
1 AAATA-TTTTTAA
*
21169540 AAATTTTTTTAA
1 AAATATTTTTAA
21169552 AAA
1 AAA
21169555 GTTGGTGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
11 10 0.31
12 18 0.56
13 4 0.12
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (12 bp):
AAATATTTTTAA
Found at i:21169547 original size:11 final size:11
Alignment explanation
Indices: 21169501--21169553 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
21169491 ATTTTTTAAA
21169501 TTTT-AAATTT
1 TTTTAAAATTT
* *
21169511 TTTAAAAATAT
1 TTTTAAAATTT
21169522 TTTTAAAATACTT
1 TTTTAAAAT--TT
*
21169535 TTTTTAAATTT
1 TTTTAAAATTT
21169546 TTTTAAAA
1 TTTTAAAA
21169554 AGTTGGTGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
10 3 0.09
11 22 0.65
13 9 0.26
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATTT
Found at i:21169606 original size:16 final size:16
Alignment explanation
Indices: 21169578--21169619 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
21169568 TTTAAAAAAT
*
21169578 GGGC-CGGGTCGGGTC
1 GGGCTCGGGCCGGGTC
*
21169593 GGGCTCGGGCCGGGTT
1 GGGCTCGGGCCGGGTC
*
21169609 GGGCTTGGGCC
1 GGGCTCGGGCC
21169620 CAGTATGCAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.00, C:0.26, G:0.57, T:0.17
Consensus pattern (16 bp):
GGGCTCGGGCCGGGTC
Found at i:21170652 original size:13 final size:13
Alignment explanation
Indices: 21170636--21170661 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21170626 ATGACTTTTA
21170636 AATGATAATAAGT
1 AATGATAATAAGT
21170649 AATGATAATAAGT
1 AATGATAATAAGT
21170662 TACGATATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (13 bp):
AATGATAATAAGT
Found at i:21177544 original size:79 final size:81
Alignment explanation
Indices: 21177408--21177592 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
21177398 TTGAATGATG
* *
21177408 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
21177472 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
21177487 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
21177549 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
21177567 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21177593 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:21177606 original size:40 final size:40
Alignment explanation
Indices: 21177409--21177592 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
21177399 TGAATGATGT
* * * *
21177409 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
21177449 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
21177489 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
21177527 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
21177568 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
21177593 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:21177614 original size:79 final size:79
Alignment explanation
Indices: 21177461--21177625 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
21177451 GGACTAAGAT
* * **
21177461 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
21177526 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
21177540 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
21177603 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
21177619 CCGAAGG
1 CCGAAGG
21177626 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:21187042 original size:46 final size:46
Alignment explanation
Indices: 21186966--21187053 Score: 106
Period size: 46 Copynumber: 1.9 Consensus size: 46
21186956 AAAAGTGTAG
* * *
21186966 TGTGGGCCTTAGCCTATTATAGTATCAGAATCAAAAATAGAATACA
1 TGTGGGCCTAAGCCCATTACAGTATCAGAATCAAAAATAGAATACA
* **
21187012 TGTGGGCCTAAGCCCATTACGGTGAT-AGAATCAGTAATAGAA
1 TGTGGGCCTAAGCCCATTACAGT-ATCAGAATCAAAAATAGAA
21187054 ATGCAACAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
46 33 0.94
47 2 0.06
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (46 bp):
TGTGGGCCTAAGCCCATTACAGTATCAGAATCAAAAATAGAATACA
Found at i:21187352 original size:32 final size:32
Alignment explanation
Indices: 21187284--21187441 Score: 178
Period size: 32 Copynumber: 4.9 Consensus size: 32
21187274 ATAAGTACAG
** * * *
21187284 TAATATGATTAGCATAAAGCCATCAGCAGC-A
1 TAATATGATCGGCACAAAGCCATCAGTAACGA
* *
21187315 GTAATATGATCGGCACACAA-CCATTAGTAACAA
1 -TAATATGATCGGCACA-AAGCCATCAGTAACGA
*
21187348 TAATATGA-CTGGTACAAAGCCATCAGTAACGA
1 TAATATGATC-GGCACAAAGCCATCAGTAACGA
*
21187380 TAATATGATCGGCACAAAGCCATCAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGA
*
21187412 TAATATGATCGGCACAAAGCTATCAGTAAC
1 TAATATGATCGGCACAAAGCCATCAGTAAC
21187442 ATCATAGCAA
Statistics
Matches: 109, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
31 3 0.03
32 102 0.94
33 4 0.04
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (32 bp):
TAATATGATCGGCACAAAGCCATCAGTAACGA
Found at i:21187487 original size:27 final size:27
Alignment explanation
Indices: 21187457--21187520 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
21187447 AGCAAAGCTG
*
21187457 CCAGTAATAGT-ATATGTGGCCA-AGCCA
1 CCAGTAACAGTGAT-TGTGG-CAGAGCCA
*
21187484 CCAGAAACAGTGATTGTGGCAGAGCCA
1 CCAGTAACAGTGATTGTGGCAGAGCCA
21187511 CCAGT-ACAGT
1 CCAGTAACAGT
21187521 ACTTCCCCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
26 7 0.22
27 23 0.72
28 2 0.06
ACGTcount: A:0.33, C:0.23, G:0.25, T:0.19
Consensus pattern (27 bp):
CCAGTAACAGTGATTGTGGCAGAGCCA
Found at i:21187995 original size:27 final size:27
Alignment explanation
Indices: 21187668--21187982 Score: 336
Period size: 27 Copynumber: 11.7 Consensus size: 27
21187658 AAAATAGCCA
*
21187668 TTTACCCT-CTAGGGGCATTACGATCAT
1 TTTACCCTAC-AGGGGCATTACGGTCAT
21187695 TTTACCCTACAGGGGCATTACGGTCAT
1 TTTACCCTACAGGGGCATTACGGTCAT
*
21187722 TTTACCCTACAGGGGCATTACGGTCTT
1 TTTACCCTACAGGGGCATTACGGTCAT
* * * * *
21187749 TTTACCTTATAGGGGTATTACGATTAT
1 TTTACCCTACAGGGGCATTACGGTCAT
* *
21187776 TTTACCCTA-TGAGGGTATTACGGTCAT
1 TTTACCCTACAG-GGGCATTACGGTCAT
*
21187803 TTTACCCTACAGGGGCATTACGATCAT
1 TTTACCCTACAGGGGCATTACGGTCAT
*
21187830 TTTA-CCTATAGGGGCATTACGGTCAT
1 TTTACCCTACAGGGGCATTACGGTCAT
* * * * *
21187856 TTTATCCTAAAAGGGCATTACAGTCTT
1 TTTACCCTACAGGGGCATTACGGTCAT
* * *
21187883 TTTA-CCTACAGAGGCATTACAGTCTT
1 TTTACCCTACAGGGGCATTACGGTCAT
* * * *
21187909 TTTACCCAACAGGGGTATTACAGTAAT
1 TTTACCCTACAGGGGCATTACGGTCAT
*
21187936 TTTATCCCATA-A-GGGCATTACGATCAT
1 TTTA-CCC-TACAGGGGCATTACGGTCAT
21187963 TTTACCCTACAGGGGCATTA
1 TTTACCCTACAGGGGCATTA
21187983 TGGTTATTAT
Statistics
Matches: 245, Mismatches: 34, Indels: 18
0.82 0.11 0.06
Matches are distributed among these distances:
25 2 0.01
26 52 0.21
27 184 0.75
28 6 0.02
29 1 0.00
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.34
Consensus pattern (27 bp):
TTTACCCTACAGGGGCATTACGGTCAT
Found at i:21192341 original size:44 final size:44
Alignment explanation
Indices: 21192293--21192381 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
21192283 AAATAGTGAA
* *
21192293 TTTTTGGTGAATGGATCAAATTGTAAAGAAAGCAAAACTTTCTT
1 TTTTTGGTGAATGGACCAAATTGTAAAGAAAGAAAAACTTTCTT
21192337 TTTTTGGTGAATGGACCAAATTGTAAAGAAAGAAAAACTTTCTT
1 TTTTTGGTGAATGGACCAAATTGTAAAGAAAGAAAAACTTTCTT
21192381 T
1 T
21192382 CTTCTCTTCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.37, C:0.09, G:0.18, T:0.36
Consensus pattern (44 bp):
TTTTTGGTGAATGGACCAAATTGTAAAGAAAGAAAAACTTTCTT
Found at i:21199169 original size:39 final size:41
Alignment explanation
Indices: 21199074--21199257 Score: 199
Period size: 40 Copynumber: 4.6 Consensus size: 41
21199064 TTGAATGATG
*
21199074 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
21199113 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
21199153 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* * *
21199192 TCCGGGTTAAGTCCCGAAGGCATTTGTACGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
21199232 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21199258 AACGAGGAGC
Statistics
Matches: 125, Mismatches: 10, Indels: 19
0.81 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 60 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:21199209 original size:79 final size:81
Alignment explanation
Indices: 21199074--21199257 Score: 213
Period size: 79 Copynumber: 2.3 Consensus size: 81
21199064 TTGAATGATG
21199074 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
*
21199137 TGTGCGAGA-TACTA-A
66 TGTACGA-ATTACTATA
* * **
21199152 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
21199213 ATTTGTACGAATTACTATA
63 ATTTGTACGAATTACTATA
* *
21199232 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21199258 AACGAGGAGC
Statistics
Matches: 91, Mismatches: 7, Indels: 13
0.82 0.06 0.12
Matches are distributed among these distances:
78 11 0.12
79 57 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTACGAATTACTATA
Found at i:21199279 original size:79 final size:79
Alignment explanation
Indices: 21199126--21199290 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
21199116 GGACTAAGAT
* * ** *
21199126 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
21199191 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
21199205 CCGAAGGCATTTGTACGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTACGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
21199267 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
21199284 CCGAAGG
1 CCGAAGG
21199291 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
78 3 0.04
79 45 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:21205024 original size:50 final size:50
Alignment explanation
Indices: 21204969--21205069 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
21204959 GCCACAGATC
*
21204969 GTCAAAAATCGTATGCGGATTTGAAACGAAAGGACATTGAATATCAGGTG
1 GTCAAAAATCGTATGCGGATTTGAAACAAAAGGACATTGAATATCAGGTG
21205019 GTCAAAAATCGTATGCGGATTTGAAACAAAAGGACATTGAATATCAGGTG
1 GTCAAAAATCGTATGCGGATTTGAAACAAAAGGACATTGAATATCAGGTG
21205069 G
1 G
21205070 GAGATAAAGT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.24
Consensus pattern (50 bp):
GTCAAAAATCGTATGCGGATTTGAAACAAAAGGACATTGAATATCAGGTG
Found at i:21207359 original size:40 final size:40
Alignment explanation
Indices: 21207121--21207345 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
21207111 TTGAGTGATG
* * * *
21207121 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
21207161 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
21207201 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
21207240 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
21207280 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
21207321 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
21207346 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 14, Indels: 10
0.87 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:21207367 original size:119 final size:119
Alignment explanation
Indices: 21207121--21207378 Score: 285
Period size: 119 Copynumber: 2.2 Consensus size: 119
21207111 TTGAGTGATG
* *
21207121 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
21207186 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
* * * **
21207240 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
21207303 TTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAA
* *
21207360 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
21207379 TACGTGATTT
Statistics
Matches: 118, Mismatches: 15, Indels: 12
0.81 0.10 0.08
Matches are distributed among these distances:
118 4 0.03
119 82 0.69
120 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:21212578 original size:51 final size:51
Alignment explanation
Indices: 21212501--21213464 Score: 1813
Period size: 51 Copynumber: 18.9 Consensus size: 51
21212491 CGGATACATG
* * * *
21212501 GTGGCCTTCACATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 GTGGCATTCACATAGTACCACACTTGT-GTCCAAAACTATTATATTCACAAA
*
21212552 GTGGCCTTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
1 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
21212603 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
1 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
21212654 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
1 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
21212705 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
1 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
21212756 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
1 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
21212807 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
1 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
21212858 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
1 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
21212909 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
1 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
21212960 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
1 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
21213011 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
1 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
21213062 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
1 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
21213113 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
1 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
21213164 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
1 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
21213215 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
1 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
21213266 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
1 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
21213317 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
1 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
*
21213368 GTGGCATTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
1 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
* * * * *
21213419 GTGACCTTCACATAATACCACACTTGTGTCCAAAGCTATTTTATTC
1 GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTC
21213465 CTAAGGTTCA
Statistics
Matches: 903, Mismatches: 9, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
50 1 0.00
51 902 1.00
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (51 bp):
GTGGCATTCACATAGTACCACACTTGTGTCCAAAACTATTATATTCACAAA
Found at i:21213532 original size:24 final size:24
Alignment explanation
Indices: 21213500--21213578 Score: 104
Period size: 24 Copynumber: 3.1 Consensus size: 24
21213490 ACTTAGCACA
21213500 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
21213524 ATGCCATGGACTTATTTCACTTAG
1 ATGCCATGGACTTATTTCACTTAG
* *
21213548 CCCATTGCCATAGACTTATTTCACGTAG
1 ---A-TGCCATGGACTTATTTCACTTAG
21213576 ATG
1 ATG
21213579 TCATTGTTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
24 26 0.53
25 1 0.02
27 1 0.02
28 21 0.43
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.35
Consensus pattern (24 bp):
ATGCCATGGACTTATTTCACTTAG
Found at i:21213565 original size:28 final size:26
Alignment explanation
Indices: 21213488--21213571 Score: 109
Period size: 28 Copynumber: 3.2 Consensus size: 26
21213478 GGGAAATTTC
21213488 TCACTTAGCACAATGCCATGGACTTATT
1 TCACTTAGC-C-ATGCCATGGACTTATT
21213516 TCACTTAG--ATGCCATGGACTTATT
1 TCACTTAGCCATGCCATGGACTTATT
*
21213540 TCACTTAGCCCATTGCCATAGACTTATT
1 TCACTTAG-CCA-TGCCATGGACTTATT
21213568 TCAC
1 TCAC
21213572 GTAGATGTCA
Statistics
Matches: 51, Mismatches: 1, Indels: 8
0.85 0.02 0.13
Matches are distributed among these distances:
24 24 0.47
27 1 0.02
28 26 0.51
ACGTcount: A:0.26, C:0.26, G:0.13, T:0.35
Consensus pattern (26 bp):
TCACTTAGCCATGCCATGGACTTATT
Found at i:21220175 original size:51 final size:51
Alignment explanation
Indices: 21220098--21220347 Score: 340
Period size: 51 Copynumber: 4.9 Consensus size: 51
21220088 CGGATACACG
* * *
21220098 ATGGCCTTCATATAGTACCACCCTTGTAG-CCAAAGCTATTTTATTCACAAA
1 ATGGCCTTCACATAGTACCACACTTGT-GTCCAAAGCTATTATATTCACAAA
* * *
21220149 ATGGCCTTCACATAGTGCTACACTTGTGTCCAAAGCTATTATATTTACAAA
1 ATGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
* *
21220200 TTGGCCTTCACATAGTACCACACTTGTATCCAAAGCTATTATATTCACAAA
1 ATGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
* * *
21220251 GTGGCCTTCACATAGTACCACACTTGTGTCTAAAGCTATTATCTTCACAAA
1 ATGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
* * * * *
21220302 CTGACCTTCACATAGTACCGCACCTGTGTCCAAAGCTATTTTATTC
1 ATGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTC
21220348 CTAAGGTTCA
Statistics
Matches: 176, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
50 1 0.01
51 175 0.99
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
ATGGCCTTCACATAGTACCACACTTGTGTCCAAAGCTATTATATTCACAAA
Found at i:21220417 original size:49 final size:49
Alignment explanation
Indices: 21220358--21220456 Score: 162
Period size: 49 Copynumber: 2.0 Consensus size: 49
21220348 CTAAGGTTCA
* * *
21220358 ACCGGGAAATTTCTCACTTAGCACAATGGCATGGACTTATTTCACTTAG
1 ACCGGGAAATTTCTCACTTAGCACAATGCCAAGGACTTAATTCACTTAG
*
21220407 ACCGGGAAATTTCTCACTTAGTACAATGCCAAGGACTTAATTCACTTAG
1 ACCGGGAAATTTCTCACTTAGCACAATGCCAAGGACTTAATTCACTTAG
21220456 A
1 A
21220457 TGCCATAGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.29
Consensus pattern (49 bp):
ACCGGGAAATTTCTCACTTAGCACAATGCCAAGGACTTAATTCACTTAG
Found at i:21220467 original size:24 final size:24
Alignment explanation
Indices: 21220432--21220503 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
21220422 ACTTAGTACA
*
21220432 ATGCCA-AGGACTTAATTCACTTAG
1 ATGCCATA-GACTTATTTCACTTAG
21220456 ATGCCATAGACTTATTTCACTTAG
1 ATGCCATAGACTTATTTCACTTAG
* *
21220480 ATGCCATGGTCTTATTTCACTTAG
1 ATGCCATAGACTTATTTCACTTAG
21220504 CACAATGTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
24 43 0.98
25 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (24 bp):
ATGCCATAGACTTATTTCACTTAG
Found at i:21221642 original size:51 final size:51
Alignment explanation
Indices: 21221556--21221662 Score: 144
Period size: 51 Copynumber: 2.1 Consensus size: 51
21221546 ACAGATACAC
* * * * *
21221556 AGTGACCTTCACATAGTACCACCCTTGTAGGCAAAGTTATTTTATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTATTATATTCACAA
*
21221607 AGTGGCCTTTACATAGTACCACACTTGT-GTCCAAAGCTATTATATTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTAG-CCAAAGCTATTATATTCACAA
21221658 AGTGG
1 AGTGG
21221663 AATTCTATAA
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
50 1 0.02
51 48 0.98
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTAGCCAAAGCTATTATATTCACAA
Found at i:21237187 original size:47 final size:44
Alignment explanation
Indices: 21237083--21237253 Score: 130
Period size: 44 Copynumber: 3.8 Consensus size: 44
21237073 ATATATGCAT
21237083 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTG
* * * * * * *
21237127 GCCGATGCGTGTCCCAAACACGTCTTACACTGGC-TATCTCTGTCGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCT-T---G
** * * *
21237174 GCTGATGCATGTCCCAGACATGTCTTATTCTGGCACTCATAAT-ATG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCA--CA-ACTCTTG
* * *
21237220 GATGAAGCATGTCCCAGGCATGTCTTACACTAGC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
21237254 CCTCGTCTGG
Statistics
Matches: 96, Mismatches: 23, Indels: 14
0.72 0.17 0.11
Matches are distributed among these distances:
43 5 0.05
44 30 0.31
46 29 0.30
47 29 0.30
49 1 0.01
50 1 0.01
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.27
Consensus pattern (44 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCACAACTCTTG
Found at i:21238025 original size:12 final size:12
Alignment explanation
Indices: 21238008--21238033 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21237998 TAAAAAATGT
21238008 GAAAATCATCAA
1 GAAAATCATCAA
21238020 GAAAATCATCAA
1 GAAAATCATCAA
21238032 GA
1 GA
21238034 TCACTTACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (12 bp):
GAAAATCATCAA
Found at i:21241848 original size:28 final size:28
Alignment explanation
Indices: 21241782--21241909 Score: 157
Period size: 28 Copynumber: 4.5 Consensus size: 28
21241772 CTTGAGATTG
* * **
21241782 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
21241811 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
21241839 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
*
21241868 GCACTAAGTGTGTGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
21241896 ACACTAAGGGTGCG
1 GCACTAAGTGTGCG
21241910 GACTTACTAT
Statistics
Matches: 86, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
28 43 0.50
29 43 0.50
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:21241871 original size:57 final size:57
Alignment explanation
Indices: 21241782--21241909 Score: 168
Period size: 57 Copynumber: 2.2 Consensus size: 57
21241772 CTTGAGATTG
*
21241782 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * **
21241839 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGTGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* *
21241896 ACACTAAGGGTGCG
1 GCACTAAGTGTGCG
21241910 GACTTACTAT
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 59 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:21245022 original size:45 final size:45
Alignment explanation
Indices: 21244963--21245050 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
21244953 GAACTATGTG
* * *
21244963 ATCTGAACTAATTGAGTTGTTGTTTGAGTTCATGATATATGTGGC
1 ATCTGAACTAATTGAGTTATGGTCTGAGTTCATGATATATGTGGC
* *
21245008 ATCTGAACTCATTGAGTTATGGTCTGAGTTCATGATGTATGTG
1 ATCTGAACTAATTGAGTTATGGTCTGAGTTCATGATATATGTG
21245051 ACACATGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.24, C:0.10, G:0.25, T:0.41
Consensus pattern (45 bp):
ATCTGAACTAATTGAGTTATGGTCTGAGTTCATGATATATGTGGC
Done.