Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008736.1 Hibiscus syriacus cultivar Beakdansim tig00111810_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2478687
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 13
Found at i:1941534 original size:23 final size:24
Alignment explanation
Indices: 1941480--1941536 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 24
1941470 GTCACAATTC
*
1941480 AATTTAA-TGATTATATTTATTTT
1 AATTTAATTAATTATATTTATTTT
*
1941503 ATTTTAATTAATTA-ATTTATTTT
1 AATTTAATTAATTATATTTATTTT
1941526 AATTTAATTAA
1 AATTTAATTAA
1941537 AGCAAATAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 25 0.83
24 5 0.17
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
AATTTAATTAATTATATTTATTTT
Found at i:1941739 original size:27 final size:28
Alignment explanation
Indices: 1941701--1941758 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 28
1941691 ATAAATTTTA
1941701 TTTTTATCTTAAATATA-TTTAAAATAT
1 TTTTTATCTTAAATATATTTTAAAATAT
* * *
1941728 TTTTTATTTTAAATGTATTTTAATATAT
1 TTTTTATCTTAAATATATTTTAAAATAT
1941756 TTT
1 TTT
1941759 AAATATATGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
27 15 0.56
28 12 0.44
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTTTATCTTAAATATATTTTAAAATAT
Found at i:1941746 original size:11 final size:11
Alignment explanation
Indices: 1941709--1941766 Score: 58
Period size: 10 Copynumber: 5.9 Consensus size: 11
1941699 TATTTTTATC
1941709 TTAAATATA-T
1 TTAAATATATT
1941719 TTAAA-ATATT
1 TTAAATATATT
1941729 TT---T-TATT
1 TTAAATATATT
*
1941736 TTAAATGTATT
1 TTAAATATATT
1941747 TT-AATATATT
1 TTAAATATATT
1941757 TTAAATATAT
1 TTAAATATAT
1941767 GAATAATATA
Statistics
Matches: 40, Mismatches: 1, Indels: 13
0.74 0.02 0.24
Matches are distributed among these distances:
7 6 0.15
9 3 0.08
10 18 0.45
11 13 0.32
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (11 bp):
TTAAATATATT
Found at i:1942064 original size:22 final size:22
Alignment explanation
Indices: 1942042--1942084 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1942032 TCATAATTAT
1942042 TTAAAAA-ATTAAATAAAAATA
1 TTAAAAATATTAAATAAAAATA
*
1942063 TTAAAAATATTTAATAAAAATA
1 TTAAAAATATTAAATAAAAATA
1942085 ATTTTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
TTAAAAATATTAAATAAAAATA
Found at i:1944267 original size:20 final size:20
Alignment explanation
Indices: 1944242--1944283 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
1944232 TGATTATTTT
1944242 ATTATAATATTAAAAATATA
1 ATTATAATATTAAAAATATA
* *
1944262 ATTATATTATTAGAAATATA
1 ATTATAATATTAAAAATATA
1944282 AT
1 AT
1944284 AAAATAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATTATAATATTAAAAATATA
Found at i:1948996 original size:44 final size:44
Alignment explanation
Indices: 1948947--1949065 Score: 130
Period size: 45 Copynumber: 2.7 Consensus size: 44
1948937 TTATCCAAAT
* *
1948947 CGCCCTTTCGGGTTTTCAACTTGGACCCATCATTGGTTTCAAGA
1 CGCCCTTTCGGGTTTTCATCTTGGACCCATCATTGGCTTCAAGA
* * * * * *
1948991 CGCCCTTTTCGGATTTTTATCTTAGTCCCCTCCTTGGCTTCAAGA
1 CGCCC-TTTCGGGTTTTCATCTTGGACCCATCATTGGCTTCAAGA
* *
1949036 CGCCCTTTGCAGGTTTTCATCTTGAACCCA
1 CGCCCTTT-CGGGTTTTCATCTTGGACCCA
1949066 CCTTATTTTC
Statistics
Matches: 58, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
44 8 0.14
45 50 0.86
ACGTcount: A:0.16, C:0.30, G:0.18, T:0.36
Consensus pattern (44 bp):
CGCCCTTTCGGGTTTTCATCTTGGACCCATCATTGGCTTCAAGA
Found at i:1952934 original size:31 final size:31
Alignment explanation
Indices: 1952896--1953060 Score: 168
Period size: 31 Copynumber: 5.3 Consensus size: 31
1952886 GCTTGAGAGA
*
1952896 CTACCCAAGAAAGTTCTCAGGGCCACAGGGC
1 CTACCCAAGAAAGATCTCAGGGCCACAGGGC
* **
1952927 CTACCCAAGAAAGATCTCAGGGTCGTAGGGC
1 CTACCCAAGAAAGATCTCAGGGCCACAGGGC
* * * * * **
1952958 CTATCTAAGAATGATCTCAAGTCCATGGGGC
1 CTACCCAAGAAAGATCTCAGGGCCACAGGGC
* * *
1952989 CTGCCCAAGAAAAATCTCAGGGCCACAAGGC
1 CTACCCAAGAAAGATCTCAGGGCCACAGGGC
* * * *
1953020 CTATCCAAGAATGATCTCAGGGCCGCAGAGC
1 CTACCCAAGAAAGATCTCAGGGCCACAGGGC
1953051 CTACCCAAGA
1 CTACCCAAGA
1953061 GTCACATTAG
Statistics
Matches: 104, Mismatches: 30, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
31 104 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (31 bp):
CTACCCAAGAAAGATCTCAGGGCCACAGGGC
Found at i:1953058 original size:62 final size:62
Alignment explanation
Indices: 1952900--1953060 Score: 187
Period size: 62 Copynumber: 2.6 Consensus size: 62
1952890 GAGAGACTAC
* * * * ** *
1952900 CCAAGAAAGTTCTCAGGGCCACAGGGCCTACCCAAGAAAGATCTCAGGGTCGTAGGGCCTAT
1 CCAAGAATGATCTCAGGGCCACAGGGCCTACCCAAGAAAAATCTCAGGGCCACAAGGCCTAT
* * * ** *
1952962 CTAAGAATGATCTCAAGTCCATGGGGCCTGCCCAAGAAAAATCTCAGGGCCACAAGGCCTAT
1 CCAAGAATGATCTCAGGGCCACAGGGCCTACCCAAGAAAAATCTCAGGGCCACAAGGCCTAT
* *
1953024 CCAAGAATGATCTCAGGGCCGCAGAGCCTACCCAAGA
1 CCAAGAATGATCTCAGGGCCACAGGGCCTACCCAAGA
1953061 GTCACATTAG
Statistics
Matches: 78, Mismatches: 21, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
62 78 1.00
ACGTcount: A:0.31, C:0.29, G:0.25, T:0.16
Consensus pattern (62 bp):
CCAAGAATGATCTCAGGGCCACAGGGCCTACCCAAGAAAAATCTCAGGGCCACAAGGCCTAT
Found at i:1970663 original size:113 final size:113
Alignment explanation
Indices: 1970465--1970677 Score: 320
Period size: 113 Copynumber: 1.9 Consensus size: 113
1970455 GGATTATGGC
* * *
1970465 TTATTGCATTTGCAGTGTATTACTTTTCATGTTTAAATTAAGGTTTATTATATTTGCAGTTAATC
1 TTATTGCATTTGAAGTGTATTACTTTTCATGTTTAAATTAAGGCTTATTATATTTGAAGTTAATC
* *
1970530 TCAAGTTAAAGGAAAAATGTTTCAATTGCAGTTACTTAAAACTTCAGA
66 TCAAGTTAAAGGAAAAATGTTACAATTACAGTTACTTAAAACTTCAGA
* * * *
1970578 TTATTGCATTTGAAGTGTGTTACTTTTGATGTTTATATTAAGGCTTATTGTATTTGAAGTTAATC
1 TTATTGCATTTGAAGTGTATTACTTTTCATGTTTAAATTAAGGCTTATTATATTTGAAGTTAATC
*
1970643 TCAAAGTTAAAGG-AAAATGTTACATTTACAGTTAC
66 TC-AAGTTAAAGGAAAAATGTTACAATTACAGTTAC
1970678 AAAAAGCTTG
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
113 79 0.89
114 10 0.11
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.43
Consensus pattern (113 bp):
TTATTGCATTTGAAGTGTATTACTTTTCATGTTTAAATTAAGGCTTATTATATTTGAAGTTAATC
TCAAGTTAAAGGAAAAATGTTACAATTACAGTTACTTAAAACTTCAGA
Found at i:1973682 original size:3 final size:3
Alignment explanation
Indices: 1973674--1973754 Score: 135
Period size: 3 Copynumber: 27.0 Consensus size: 3
1973664 ATTTATTTAT
* *
1973674 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
1973722 TAA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1973755 AAAAAATAAT
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 76 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:1973920 original size:15 final size:15
Alignment explanation
Indices: 1973900--1973929 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1973890 GTTGAAGCCC
1973900 TATGGTGAGTCACCA
1 TATGGTGAGTCACCA
1973915 TATGGTGAGTCACCA
1 TATGGTGAGTCACCA
1973930 CCATAGCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.27
Consensus pattern (15 bp):
TATGGTGAGTCACCA
Found at i:1977417 original size:14 final size:14
Alignment explanation
Indices: 1977379--1977417 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
1977369 ATTTTAAATA
*
1977379 ATTTACATTTACAT
1 ATTTACATTTGCAT
*
1977393 TTTTACATTTGCAT
1 ATTTACATTTGCAT
1977407 ATTTACATTTG
1 ATTTACATTTG
1977418 GCATCTCTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.28, C:0.13, G:0.05, T:0.54
Consensus pattern (14 bp):
ATTTACATTTGCAT
Found at i:1983156 original size:114 final size:114
Alignment explanation
Indices: 1982956--1983293 Score: 534
Period size: 114 Copynumber: 3.0 Consensus size: 114
1982946 GTGTCATGTT
*
1982956 CTCATAATAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* *
1983021 ATTTGGTATGAACTCCAAAACCAATCAGTGAATTTGAAAGATGAATTTG
66 ATTTGGTATGAACCCCAAAACCAATCATTGAATTTGAAAGATGAATTTG
*
1983070 CTCATAGTAGAAATAAGGAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* * *
1983135 ATTTGGTATAAACCCCAAAACCAATCATTGGATTTAAAAGATGAATTTG
66 ATTTGGTATGAACCCCAAAACCAATCATTGAATTTGAAAGATGAATTTG
* *
1983184 CTCATAGTAGAAATAAGAAAACCCAATAGCATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTG
1 CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
* * * * *
1983249 GTTCGGTAGGAATCCCAGAACCAATCATTGGAA-TTGAAAGATGAA
66 ATTTGGTATGAACCCCAAAACCAATCATT-GAATTTGAAAGATGAA
1983294 CTGCATGATC
Statistics
Matches: 205, Mismatches: 18, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
114 203 0.99
115 2 0.01
ACGTcount: A:0.35, C:0.16, G:0.19, T:0.30
Consensus pattern (114 bp):
CTCATAGTAGAAATAAGAAGACCCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
ATTTGGTATGAACCCCAAAACCAATCATTGAATTTGAAAGATGAATTTG
Found at i:1984518 original size:76 final size:75
Alignment explanation
Indices: 1984435--1984608 Score: 231
Period size: 76 Copynumber: 2.3 Consensus size: 75
1984425 ATTAACAAGA
* * *
1984435 AGCAAATGTTAGGGCATGCTGAAAACCCTTTTCAATCTGAATCAGGAATGTTGATGTATCCTGAA
1 AGCAAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATGTTGATGTATCCTGAA
* *
1984500 TGTTTATATC
66 CGTTCATATC
* * * **
1984510 AGCAAAATGTTGGGGCATGCTGAAAGCCTTTTTCAATCAGAATGAAGAATGTTGATGTATTTTGA
1 AGC-AAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATGTTGATGTATCCTGA
*
1984575 ACGTTCGTATC
65 ACGTTCATATC
*
1984586 AGCAATTGTTGGGGCATGCTGAA
1 AGCAAATGTTGGGGCATGCTGAA
1984609 GGCCCACATC
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
75 22 0.26
76 64 0.74
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (75 bp):
AGCAAATGTTGGGGCATGCTGAAAACCCTTTTCAATCAGAATCAAGAATGTTGATGTATCCTGAA
CGTTCATATC
Found at i:1985913 original size:22 final size:22
Alignment explanation
Indices: 1985882--1985936 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
1985872 CATCTACTTC
1985882 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGATAGATTCCCTT
* *
1985904 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCCCTT
1985926 TTCAAAGATGA
1 TTCAAAGATGA
1985937 AAGCTTTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCCCTT
Found at i:1986541 original size:113 final size:113
Alignment explanation
Indices: 1986343--1986884 Score: 757
Period size: 113 Copynumber: 4.8 Consensus size: 113
1986333 GATTCAAATC
* * * *
1986343 CATCATTTGATGGATCAACATTGCCAGGTCGAGTTCATAATAAGAAGAACTCATCTGAACAAAGA
1 CATCATTTGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
*
1986408 AGAAGAAGTTCGTAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTTGAATT
* *
1986456 CATCATTCGATGGATCAACATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1986521 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAA-CTTTTCGCTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT-GCTTGAATT
* *
1986569 CATCATTTGATGGATCAGCATTACCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGA
1 CATCATTTGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* * * * ** *
1986633 AGAATACGTTCATAATGAGAAGAATTTATTCAACCTTTTGCTCAAATC
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
* * * * ****
1986681 CATCACTTGATGAATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1 CATCATTTGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
* *
1986746 AGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATT
66 AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
* * * * * *
1986794 CATCATTTGATGGATCAGCATTGCCAGGTAGAGTTCATAATAAAAAGAACTCATTTAAAGAAAGA
1 CATCATTTGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1986859 AGAAGAAGTTCATAATGAGAAGAACT
66 AGAAGAAGTTCATAATGAGAAGAACT
1986885 CATCTGAATA
Statistics
Matches: 384, Mismatches: 43, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
112 92 0.24
113 292 0.76
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
CATCATTTGATGGATCAGCATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATT
Found at i:1986750 original size:225 final size:225
Alignment explanation
Indices: 1986343--1986884 Score: 759
Period size: 225 Copynumber: 2.4 Consensus size: 225
1986333 GATTCAAATC
* * *
1986343 CATCATTTGATGGATCAACATTGCCAGGTCGAGTTCATAATAAGAAGAACTCATCTGAACAAAGA
1 CATCATTTGATGGATCAGCATTGCCAGGTCAAGTTCATAATAAGAAGAACTCATCTGAA-GAAGA
* * ** * *
1986408 AGAAGAAGTTCGTAATGAGAAGAACTTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCA
65 AGAAGAAGTTCATAATGAGAAGAACTTATTCAACTTTTCGCTCAAATCCATCATTCGATGAATCA
****
1986473 ACATTGCCAGGTCGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
130 ACATTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATG
1986538 AGAAGAACTTGTTCAA-CTTTTCGCTTGAATT
195 AGAAGAACTTGTTCAACCTTTT-GCTTGAATT
* * *
1986569 CATCATTTGATGGATCAGCATTACCAGGTCAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAA
1 CATCATTTGATGGATCAGCATTGCCAGGTCAAGTTCATAATAAGAAGAACTCATCTGAAGAAGAA
* * *
1986634 GAATACGTTCATAATGAGAAGAATTTATTCAACCTTTT-GCTCAAATCCATCACTT-GATGAATC
66 GAAGAAGTTCATAATGAGAAGAACTTATTCAA-CTTTTCGCTCAAATCCATCA-TTCGATGAATC
* * *
1986697 AGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
129 AACATTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* *
1986762 GAGAAGAATTTGTTCAACCTTTTGTTTGAATT
194 GAGAAGAACTTGTTCAACCTTTTGCTTGAATT
* * *
1986794 CATCATTTGATGGATCAGCATTGCCAGGT-AGAGTTCATAATAAAAAGAACTCATTTAAAGAAAG
1 CATCATTTGATGGATCAGCATTGCCAGGTCA-AGTTCATAATAAGAAGAACTCATCTGAAG-AAG
1986858 AAGAAGAAGTTCATAATGAGAAGAACT
64 AAGAAGAAGTTCATAATGAGAAGAACT
1986885 CATCTGAATA
Statistics
Matches: 278, Mismatches: 33, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
224 1 0.00
225 184 0.66
226 93 0.33
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (225 bp):
CATCATTTGATGGATCAGCATTGCCAGGTCAAGTTCATAATAAGAAGAACTCATCTGAAGAAGAA
GAAGAAGTTCATAATGAGAAGAACTTATTCAACTTTTCGCTCAAATCCATCATTCGATGAATCAA
CATTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA
GAAGAACTTGTTCAACCTTTTGCTTGAATT
Found at i:1986882 original size:40 final size:40
Alignment explanation
Indices: 1986825--1986924 Score: 146
Period size: 40 Copynumber: 2.5 Consensus size: 40
1986815 TGCCAGGTAG
* * *
1986825 AGTTCATAATAAAAAGAACTCATTTAAAGAAAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAGA
* *
1986865 AGTTCATAATGAGAAGAACTCATCTGAATAAAGAAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAGA
*
1986905 AGTTCGTAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACT
1986925 TGTTCAACTT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (40 bp):
AGTTCATAATGAGAAGAACTCATCTAAAGAAAGAAGAAGA
Found at i:1986901 original size:153 final size:155
Alignment explanation
Indices: 1986706--1987039 Score: 485
Period size: 153 Copynumber: 2.2 Consensus size: 155
1986696 CAGCTTTTCC
* * *
1986706 AGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAAC
* * * * *
1986771 TTGTTCAACCTTTT-GTTTGAATTCATCATTTGATGGATCAGCATTGCCAG-G-TAGAGTTCATA
66 TTGTTCAA-CTTTTCGCTTGAATTCATCATTCGATGGATCAACATTGCCAGTGAAAGAGTGCATA
*
1986833 ATAAAAAGAACTCATTTAAAGAAAGA
130 ATAAAAAGAACTCATCTAAAGAAAGA
* *
1986859 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAATAAAGAAGAAGAAGTTCGTAATGAGAAGAAC
1 AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAAC
* *
1986924 TTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGTGAAAGAGTGCATAA
66 TTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTGCCAGTGAAAGAGTGCATAA
* * *
1986989 TGAGAAGAACTCATCTGAAGAAAGA
131 TAAAAAGAACTCATCTAAAGAAAGA
*
1987014 AGAAGAAGTTCATAATAAGAAGAACT
1 AGAAGAAGTTCATAATGAGAAGAACT
1987040 TGTTTAACTT
Statistics
Matches: 161, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
152 5 0.03
153 99 0.61
154 1 0.01
155 56 0.35
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.26
Consensus pattern (155 bp):
AGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAAC
TTGTTCAACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTGCCAGTGAAAGAGTGCATAA
TAAAAAGAACTCATCTAAAGAAAGA
Found at i:1987076 original size:268 final size:265
Alignment explanation
Indices: 1986599--1987152 Score: 740
Period size: 268 Copynumber: 2.1 Consensus size: 265
1986589 TTACCAGGTC
* * * * *
1986599 AAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAATACGTTCATAATGAGAAGAATTTATTC
1 AAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
* *
1986664 AACCTTTTGCTCAAATCCATCACTTGATGAATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGA
66 AACCTTTTGCTCAAATCCATCACTTGATGAATCAACTTTTCCAGAAAAAGTGCATAATGAGAAGA
* * * * *
1986729 ACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATT
131 ACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTCGAATT
* * * *
1986794 CATCATTTGATGGATCAGCATTGCCAG-GTAGAGTTCATAATAAAAAGAACTCAT-TTAAAGAAA
196 CATCACTCGATGGATCAACATTGCCAGAG-AGAGTTCATAATAAAAAGAACTCATCTGAAA-AAA
1986857 GAAGAAG
259 GAAGAAG
* *
1986864 AAGTTCATAATGAGAAGAACTCATCTGAATAAAGAAGAAGAAGTTCGTAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCTGAA-AAAGAAGAAGAAGTTCATAATGAGAAGAACTTATT
** * * *
1986929 CAA-CTTTTCGCTTGAATTCATCA-TTCGATGGATCAACTTTTCCAGTGAAAGAGTGCATAATGA
65 CAACCTTTT-GCTCAAATCCATCACTT-GATGAATCAACTTTTCCA--GAAAAAGTGCATAATGA
*
1986992 GAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTTAA-CTTTTCGCT
126 GAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTT-GCT
* * * *
1987056 CGAATTCATCACTCGATGGATCAACTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAA
190 CGAATTCATCACTCGATGGATCAACATTGCCAGAGAGAGTTCATAATAAAAAGAACTCATCTGAA
1987121 AAAAGAAGAAG
255 AAAAGAAGAAG
*
1987132 AAGTTCATAATAAGAAGAACT
1 AAGTTCATAATGAGAAGAACT
1987153 TGTTCAACTT
Statistics
Matches: 252, Mismatches: 29, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
265 36 0.14
266 58 0.23
267 5 0.02
268 148 0.59
269 5 0.02
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (265 bp):
AAGTTCATAATGAGAAGAACTCATCTGAAAAAGAAGAAGAAGTTCATAATGAGAAGAACTTATTC
AACCTTTTGCTCAAATCCATCACTTGATGAATCAACTTTTCCAGAAAAAGTGCATAATGAGAAGA
ACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTCGAATT
CATCACTCGATGGATCAACATTGCCAGAGAGAGTTCATAATAAAAAGAACTCATCTGAAAAAAGA
AGAAG
Found at i:1987147 original size:113 final size:113
Alignment explanation
Indices: 1986865--1987471 Score: 1054
Period size: 113 Copynumber: 5.3 Consensus size: 113
1986855 AAGAAGAAGA
* * *
1986865 AGTTCATAATGAGAAGAACTCATCTGAATAAAGAAGAAGAAGTTCGTAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
* * *
1986930 AACTTTTCGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGTGAAAG
66 AACTTTTCGCTCGAATTCATCACTCGATGGATCAACTTTTCCA--GAGAG
* *
1986980 AGTGCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTT
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
1987045 AACTTTTCGCTCGAATTCATCACTCGATGGATCAACTTTTCCAGAGAG
66 AACTTTTCGCTCGAATTCATCACTCGATGGATCAACTTTTCCAGAGAG
*
1987093 AGTTCATAATGAGAAGAACTCATCTGAAAAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
*
1987158 AACTTTTCGCTCGAATTCATCACTCGATGGATCAATTTTTCCAGAGAG
66 AACTTTTCGCTCGAATTCATCACTCGATGGATCAACTTTTCCAGAGAG
1987206 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
*
1987271 AACTTTTCGCTCGAATTCATCACTCGATGGATCAACTTTTCCAGAGAT
66 AACTTTTCGCTCGAATTCATCACTCGATGGATCAACTTTTCCAGAGAG
*
1987319 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
*
1987384 AACTTTTCGCTCGAATTCATCACTCGATGGATCAACTTTTCCAGTGAAAG
66 AACTTTTCGCTCGAATTCATCACTCGATGGATCAACTTTTCCA--GAGAG
1987434 AGTTCATAATGAGAAGAACTCATCTGAAG-AAGAAGAAG
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAG
1987472 TTCACAATGA
Statistics
Matches: 472, Mismatches: 18, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
113 330 0.70
114 9 0.02
115 133 0.28
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTC
AACTTTTCGCTCGAATTCATCACTCGATGGATCAACTTTTCCAGAGAG
Found at i:1987189 original size:381 final size:378
Alignment explanation
Indices: 1986487--1987265 Score: 1114
Period size: 381 Copynumber: 2.1 Consensus size: 378
1986477 TGCCAGGTCG
*
1986487 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* * ** *
1986552 AACTTTTCGCTTGAATTCATCATTTGATGGATCAGCATTACCAGGTCAAGTTCATAATGAGAAGA
66 AACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTACCAGGAAAAGTGCATAATGAGAAGA
* * * * *
1986617 ACTCATCTGAAGAGGAAGAATACGTTCATAATGAGAAGAATTTATTCAACCTTTTGCTCAAATCC
131 ACTCATCTGAAGAAGAAGAAGAAGTTCATAATAAGAAGAACTTATTCAACCTTTTGCTCAAATCC
* * * *
1986682 ATCACTTGATGAATCAGCTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
196 ATCACTCGATGAATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAAAAAGAA
* * * * * * *
1986747 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTTTGAATTCATCATTTGATGGATCAG
261 GAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATGGATCAA
*
1986812 CATTGCCAG-GTAGAGTTCATAATAAAAAGAACTCATTTAAAGAAAGAAGAAGA
326 CATTGCCAGAG-AGAGTTCATAATAAAAAGAACTCATCTAAAGAAAGAAGAAGA
* *
1986865 AGTTCATAATGAGAAGAACTCATCTGAATAAAGAAGAAGAAGTTCGTAATGAGAAGAACTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
* *
1986930 AACTTTTCGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGTGAAAGAGTGCATAATGAGAA
66 AACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTACCAG-GAAA-AGTGCATAATGAGAA
* * *
1986995 GAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTTTAA-CTTTTCGCTCGA
129 GAACTCATCTGAAG-AAGAAGAAGAAGTTCATAATAAGAAGAACTTATTCAACCTTTT-GCTCAA
* * * *
1987059 ATTCATCACTCGATGGATCAACTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAAAA
192 ATCCATCACTCGATGAATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAAAA
1987124 AGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA-CTTTTCGCTCGAATTCATCACTCGATGG
257 AGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTT-GCTCGAATTCATCACTCGATGG
** * * * *
1987188 ATCAATTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGA
321 ATCAACATTGCCAGAGAGAGTTCATAATAAAAAGAACTCATCTAAAGAAAGAAGAAGA
*
1987246 AGTTCATAATAAGAAGAACT
1 AGTTCATAATGAGAAGAACT
1987266 TGTTCAACTT
Statistics
Matches: 354, Mismatches: 41, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
378 102 0.29
379 2 0.01
380 38 0.11
381 211 0.60
382 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.27
Consensus pattern (378 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTTC
AACTTTTCGCTTGAATTCATCATTCGATGGATCAACATTACCAGGAAAAGTGCATAATGAGAAGA
ACTCATCTGAAGAAGAAGAAGAAGTTCATAATAAGAAGAACTTATTCAACCTTTTGCTCAAATCC
ATCACTCGATGAATCAACTTTTCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAAAAAGAA
GAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGCTCGAATTCATCACTCGATGGATCAA
CATTGCCAGAGAGAGTTCATAATAAAAAGAACTCATCTAAAGAAAGAAGAAGA
Found at i:1987543 original size:115 final size:113
Alignment explanation
Indices: 1986864--1987568 Score: 664
Period size: 113 Copynumber: 6.2 Consensus size: 113
1986854 AAAGAAGAAG
* ** *
1986864 AAGTTCATAATGAGAAGAACTCATCTGAATAAAGAAGAAGAAGTTCGTAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCT--AGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTGTG
* * * * * *
1986929 CAACTTTTCGCTTGAATTCATCATTCGATGGATCAACTTTTCCAGT-GAA
64 CAACCTTTCGCTAGAATTCATCACTAGAGGGATCAAATTTTCCAGTGGAA
* * *
1986978 AGAGTGCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGT
1 A-AGTTCATAATGAGAAGAACTCATCT--AGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTGT
** * * * * * *
1987043 TTAACTTTTCGCTCGAATTCATCACTCGATGGATCAACTTTTCCAG-AG-A
63 GCAACCTTTCGCTAGAATTCATCACTAGAGGGATCAAATTTTCCAGTGGAA
* * * * *
1987092 GAGTTCATAATGAGAAGAACTCATCTGAAAAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCT--AGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTGTG
* * * * * *
1987157 CAACTTTTCGCTCGAATTCATCACTCGATGGATCAATTTTTCCAG-AG-A
64 CAACCTTTCGCTAGAATTCATCACTAGAGGGATCAAATTTTCCAGTGGAA
* * * *
1987205 GAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATAAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCT--AGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTGTG
* * * * * *
1987270 CAACTTTTCGCTCGAATTCATCACTCGATGGATCAACTTTTCCAG-AG-A
64 CAACCTTTCGCTAGAATTCATCACTAGAGGGATCAAATTTTCCAGTGGAA
* * *
1987318 TAGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAACTTGTT
1 AAGTTCATAATGAGAAGAACTCATCT--AGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTGTG
* * * * *
1987383 CAACTTTTCGCTCGAATTCATCACTCGATGGATCAACTTTTCCAGT-GAA
64 CAACCTTTCGCTAGAATTCATCACTAGAGGGATCAAATTTTCCAGTGGAA
*
1987432 AGAGTTCATAATGAGAAGAACTCATCT-G-AAGAAGAAGAAGTTCACAATGAGAAGAGCTTGTGC
1 A-AGTTCATAATGAGAAGAACTCATCTAGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTGTGC
1987495 AACCTTT-GCTAG-ATTACATCAC-AGAAGGAGAT-AAATTGTCATCCCCAGTGGAA
65 AACCTTTCGCTAGAATT-CATCACTAG-AGG-GATCAAATT-T--T--CCAGTGGAA
*
1987548 AAGTTCATAATTAGAAGAACT
1 AAGTTCATAATGAGAAGAACT
1987569 AATCCCAAAG
Statistics
Matches: 551, Mismatches: 26, Indels: 27
0.91 0.04 0.04
Matches are distributed among these distances:
109 4 0.01
110 16 0.03
111 42 0.08
112 1 0.00
113 329 0.60
114 3 0.01
115 152 0.28
116 4 0.01
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (113 bp):
AAGTTCATAATGAGAAGAACTCATCTAGAAAGAAGAAGAAGTTCACAATGAGAAGAACTTGTGCA
ACCTTTCGCTAGAATTCATCACTAGAGGGATCAAATTTTCCAGTGGAA
Found at i:1987739 original size:3 final size:3
Alignment explanation
Indices: 1987726--1987788 Score: 94
Period size: 3 Copynumber: 21.0 Consensus size: 3
1987716 CCCATTTTAT
1987726 TTA TT- TTA TTA TTA TTA TTTA TTA TTA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA
1987770 TATA TTA TTA TTA TTA TTA
1 T-TA TTA TTA TTA TTA TTA
1987789 AAAAAATAAT
Statistics
Matches: 56, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
2 4 0.07
3 46 0.82
4 6 0.11
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1987800 original size:21 final size:21
Alignment explanation
Indices: 1987755--1987800 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
1987745 TATTATTATT
* * * *
1987755 ATTATTATTATTATATATATT
1 ATTATTATTATTAAAAAAATA
1987776 ATTATTATTATTAAAAAAATA
1 ATTATTATTATTAAAAAAATA
1987797 ATTA
1 ATTA
1987801 CAAACCGGCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTATTATTATTAAAAAAATA
Found at i:2008625 original size:20 final size:20
Alignment explanation
Indices: 2008600--2008641 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
2008590 AAAATTAATC
2008600 ATGTTCAAACAATCAAATTA
1 ATGTTCAAACAATCAAATTA
*
2008620 ATGTTCAAAGAATCAAATTA
1 ATGTTCAAACAATCAAATTA
2008640 AT
1 AT
2008642 TTTTAAACTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.50, C:0.12, G:0.07, T:0.31
Consensus pattern (20 bp):
ATGTTCAAACAATCAAATTA
Found at i:2012345 original size:22 final size:21
Alignment explanation
Indices: 2012303--2012342 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
2012293 GAGTTTATTT
*
2012303 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
2012324 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
2012343 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:2021635 original size:66 final size:66
Alignment explanation
Indices: 2021554--2021685 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
2021544 TTCTAACAAT
2021554 TCTTTTCCAAATCCAATAATCTTGGGTAGAATACACCCTACAAACCAACATAGACATACTATCAA
1 TCTTTTCCAAATCCAATAATCTTGGGTAGAATACACCCTACAAACCAACATAGACATACTATCAA
2021619 C
66 C
2021620 TCTTTTCCAAATCCAATAATCTTGGGTAGAATACACCCTACAAACCAACATAGACATACTATCAA
1 TCTTTTCCAAATCCAATAATCTTGGGTAGAATACACCCTACAAACCAACATAGACATACTATCAA
2021685 C
66 C
2021686 GTCGTGTTTG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.39, C:0.27, G:0.08, T:0.26
Consensus pattern (66 bp):
TCTTTTCCAAATCCAATAATCTTGGGTAGAATACACCCTACAAACCAACATAGACATACTATCAA
C
Found at i:2028585 original size:18 final size:18
Alignment explanation
Indices: 2028561--2028616 Score: 76
Period size: 18 Copynumber: 3.1 Consensus size: 18
2028551 CGAGGGTTAT
2028561 AAGTGGTCATTCGGGACA
1 AAGTGGTCATTCGGGACA
* * *
2028579 TAGTGGTCCTTCGTGACA
1 AAGTGGTCATTCGGGACA
*
2028597 AAGTGGTCATTCGGAACA
1 AAGTGGTCATTCGGGACA
2028615 AA
1 AA
2028617 TTTTAAGTGC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (18 bp):
AAGTGGTCATTCGGGACA
Found at i:2029853 original size:23 final size:24
Alignment explanation
Indices: 2029827--2029886 Score: 104
Period size: 23 Copynumber: 2.5 Consensus size: 24
2029817 AAAGCACTAT
2029827 ACAAACATGACAAGAAAAAGAAA-
1 ACAAACATGACAAGAAAAAGAAAC
*
2029850 ACAAACATGACACGAAAAAGAAAC
1 ACAAACATGACAAGAAAAAGAAAC
2029874 ACAAACATGACAA
1 ACAAACATGACAA
2029887 ATATATTTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
23 22 0.65
24 12 0.35
ACGTcount: A:0.65, C:0.18, G:0.12, T:0.05
Consensus pattern (24 bp):
ACAAACATGACAAGAAAAAGAAAC
Found at i:2031207 original size:23 final size:23
Alignment explanation
Indices: 2031181--2031228 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
2031171 ATAAAGTACA
*
2031181 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
2031204 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
2031227 AT
1 AT
2031229 TTACCTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:2032205 original size:23 final size:23
Alignment explanation
Indices: 2032179--2032243 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
2032169 ATGCGAGATA
2032179 GATACCTATTACATTATATAAAC
1 GATACCTATTACATTATATAAAC
**
2032202 GATACCTATTACATTATATAAGG
1 GATACCTATTACATTATATAAAC
* *
2032225 GCTACCTATTACATCATAT
1 GATACCTATTACATTATAT
2032244 GTTTACCTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.38, C:0.18, G:0.08, T:0.35
Consensus pattern (23 bp):
GATACCTATTACATTATATAAAC
Found at i:2033029 original size:21 final size:20
Alignment explanation
Indices: 2032999--2033052 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
2032989 GATAGACACT
*
2032999 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
2033020 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
2033043 TTACATTATA
1 TTACATTATA
2033053 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:2033040 original size:23 final size:23
Alignment explanation
Indices: 2033014--2033076 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2033004 ATATAACCAT
2033014 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
2033037 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
2033060 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2033077 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2033839 original size:406 final size:408
Alignment explanation
Indices: 2032204--2034408 Score: 3847
Period size: 406 Copynumber: 5.3 Consensus size: 408
2032194 ATATAAACGA
2032204 TACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTC
1 TACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTC
2032269 CATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA-TTTTT
66 CATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTT
2032333 TAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCAC-AAAAATTAT
131 TAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTAT
2032397 TTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAAATTTAATAATAATATATACCGT
196 TTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAAATTTAATAATAATATATACCGT
2032462 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
261 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
2032527 GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGAC
326 GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGAC
2032592 ACTTTACAATATAACCAT
391 ACTTTACAATATAACCAT
2032610 TACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTC
1 TACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTC
2032675 CATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA-TTTTT
66 CATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTT
2032739 TAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTAT
131 TAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTAT
2032804 TTGATTGTTTTTATATTTTATAAAATA-TATTTAGAATTTTAAA-TTAATAATAATATATACCGT
196 TTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAAATTTAATAATAATATATACCGT
2032867 AACGT-AAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
261 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
2032931 GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGAC
326 GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGAC
2032996 ACTTTACAATATAACCATTACCTATTACATTATAT
391 ACTTTACAATAT----A--A-C-----C-----AT
2033031 AAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAA
1 ------TACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAA
2033096 AGTGTCCATAC-TTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA
60 AGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA
2033160 TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAA
125 TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAA
2033225 AATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAAATTTAATAAT-A-ATA
190 AATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAAATTTAATAATAATATA
2033288 TA---TAACGT---AAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
255 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
2033347 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
320 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
2033412 ATAGACACTTTACAATATAACCAT
385 ATAGACACTTTACAATATAACCAT
2033436 TACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTC
1 TACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTC
2033501 CATAC-TTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA-TTTTT
66 CATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTT
2033564 TAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTAT
131 TAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTAT
2033629 TTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAAATTTAATAATAATATATACCGT
196 TTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAAATTTAATAATAATATATACCGT
*
2033694 AACGTAAAAAATAAGTCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
261 AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
2033759 GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGAC
326 GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGAC
2033824 ACTTTACAATATAACCATTACCTATTACATTATAT
391 ACTTTACAATAT----A--A-C-----C-----AT
2033859 AAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAA
1 ------TACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAA
2033924 AGTGTCCATAC-TTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA
60 AGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAA
2033988 TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAA
125 TTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAA
2034053 AATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAAATTTAATAATAATATA
190 AATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAAATTTAATAATAATATA
2034118 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
255 TACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCAC
2034183 TCAAAAGATAACCTTAAATTAATG-TTTCCACAGTGAAAAAAGTATGGACAC-TTTATAAAAAGG
320 TCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGG
2034246 ATAGACACTTTACAATATAACCAT
385 ATAGACACTTTACAATATAACCAT
2034270 TACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTC
1 TACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTC
2034335 CATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTT
66 CATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTT
2034400 TAACAGTGT
131 TAACAGTGT
2034409 ACTGCGAATT
Statistics
Matches: 1737, Mismatches: 2, Indels: 120
0.93 0.00 0.06
Matches are distributed among these distances:
398 123 0.07
399 124 0.07
400 5 0.00
403 6 0.00
404 136 0.08
405 97 0.06
406 401 0.23
407 36 0.02
408 1 0.00
410 3 0.00
411 3 0.00
412 1 0.00
413 1 0.00
415 1 0.00
416 3 0.00
418 2 0.00
421 3 0.00
422 135 0.08
423 2 0.00
424 7 0.00
426 53 0.03
427 172 0.10
428 47 0.03
429 158 0.09
430 217 0.12
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (408 bp):
TACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTC
CATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTT
TAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAATTTCATTTGCACAAAAAATTAT
TTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAAATTTAATAATAATATATACCGT
AACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAATATCTTAAAACTCACTCAAAA
GATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACTTTTATAAAAAGGATAGAC
ACTTTACAATATAACCAT
Found at i:2033857 original size:21 final size:20
Alignment explanation
Indices: 2033827--2033880 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
2033817 GATAGACACT
*
2033827 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
2033848 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
2033871 TTACATTATA
1 TTACATTATA
2033881 TAAGGGCTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.04
21 8 0.29
22 1 0.04
23 14 0.50
24 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.37
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:2033868 original size:23 final size:23
Alignment explanation
Indices: 2033842--2033904 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
2033832 ATATAACCAT
2033842 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
2033865 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
2033888 TACCTATTACATCATAT
1 TACCTATTACATTATAT
2033905 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:2033932 original size:828 final size:830
Alignment explanation
Indices: 2032181--2034408 Score: 4267
Period size: 828 Copynumber: 2.7 Consensus size: 830
2032171 GCGAGATAGA
2032181 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
2032246 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
66 TTACCTATTATATTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
2032311 TGTAATTTATGTTTCAA-TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
130 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
2032375 ATTTCATTTGCAC-AAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTA
195 ATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTA
2032439 AATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATT
260 AATTTAATAATAATATATA-C-TAACGT--AAAATAAATCATTAGACGCCTATAATTACTAAATT
2032504 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
321 AATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGG
2032569 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCATTACCTATTACATTATATAAGGGCT
386 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCATTACCTATTACATTATATAAGGGCT
2032634 ACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGA
451 ACCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGA
2032699 TACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCT
516 TACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCT
2032764 ACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAA
581 ACAATATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAA
2032829 TATATTTAGAATTTTAAATTAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCT
646 TATATTTAGAATTTTAAATTAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCT
2032894 ATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAG
711 ATAATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAG
2032959 TGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
776 TGAAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
2033014 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
2033079 TTACCTATTATATTGAAAGTGTCCATACTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTAT
66 TTACCTATTATATTGAAAGTGTCCATACTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTAT
2033144 GTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
131 GTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
2033209 TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAA
196 TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAA
2033274 ATTTAATAAT-A-ATATA-TAACGT-AAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
261 ATTTAATAATAATATATACTAACGTAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
2033335 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
326 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
2033400 TTTATAAAAAGGATAGACACTTTACAATATAACCATTACCTATTACATTATATAAGGGCTACCTA
391 TTTATAAAAAGGATAGACACTTTACAATATAACCATTACCTATTACATTATATAAGGGCTACCTA
2033465 TTACATCATATGTTTACCTATTATATTGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATACTT
456 TTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTT
2033529 TTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAAT
521 TTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAAT
2033594 ATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTA
586 ATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATA-TA
*
2033659 TTTAGAATTTTAAATTTAATAATAATATATACCGTAACGTAAAAAATAAGTCATTAGACGCCTAT
650 TTTAGAATTTTAAA-TTAATAATAATATATACCGTAACGT-AAAAATAAATCATTAGACGCCTAT
2033724 AATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG
713 AATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG
2033789 AAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
778 AAAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
2033842 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
2033907 TTACCTATTATATTGAAAGTGTCCATACTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTAT
66 TTACCTATTATATTGAAAGTGTCCATACTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTAT
2033972 GTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
131 GTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
2034037 TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAA
196 TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAA
2034102 ATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTA
261 ATTTAATAATAATATATA-C-TAACGT--AAAATAAATCATTAGACGCCTATAATTACTAAATTA
2034167 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATG-TTTCCACAGTGAAAAAAGTATGGA
322 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGA
2034231 CAC-TTTATAAAAAGGATAGACACTTTACAATATAACCATTACCTATTACATTATATAAGGGCTA
387 CACTTTTATAAAAAGGATAGACACTTTACAATATAACCATTACCTATTACATTATATAAGGGCTA
2034295 CCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGAT
452 CCTATTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGAT
2034360 ACTTTTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTTAACAGTGT
517 ACTTTTTTTAAAACTTATGTAATTTATGTTTCAA-TTTTTTAACAGTGT
2034409 ACTGCGAATT
Statistics
Matches: 1379, Mismatches: 1, Indels: 27
0.98 0.00 0.02
Matches are distributed among these distances:
825 150 0.11
826 226 0.16
827 25 0.02
828 411 0.30
829 7 0.01
830 5 0.00
832 58 0.04
833 160 0.12
834 168 0.12
835 80 0.06
836 89 0.06
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (830 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
TTACCTATTATATTGAAAGTGTCCATACTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTAT
GTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAA
TTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTAA
ATTTAATAATAATATATACTAACGTAAAATAAATCATTAGACGCCTATAATTACTAAATTAATAT
CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGGACACT
TTTATAAAAAGGATAGACACTTTACAATATAACCATTACCTATTACATTATATAAGGGCTACCTA
TTACATCATATGTTTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTT
TTTTTAAAACTTATGTAATTTATGTTTCAATTTTTTAACAGTGTTTCATGTTTTCCACCTACAAT
ATTGATTTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTTATATTTTATAAAATATAT
TTAGAATTTTAAATTAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAAT
TACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAA
AAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
Found at i:2034244 original size:20 final size:20
Alignment explanation
Indices: 2034219--2034257 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2034209 TCCACAGTGA
* *
2034219 AAAAAGTATGGACACTTTAT
1 AAAAAGGATAGACACTTTAT
2034239 AAAAAGGATAGACACTTTA
1 AAAAAGGATAGACACTTTA
2034258 CAATATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:2037245 original size:183 final size:184
Alignment explanation
Indices: 2036860--2037704 Score: 1534
Period size: 183 Copynumber: 4.7 Consensus size: 184
2036850 TTTTAAATGG
* *
2036860 TATGGACATAAAGTACCGACAC-ATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
2036924 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGG-TCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
2036988 GATGTGT-AAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
2037041 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
2037106 TAAGATCGGTATATTTATACCGGTTATA-TACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
2037170 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
2037224 TATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
2037288 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
2037353 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
2037407 TATGGACATAAAGTACCGACACAATATTAAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGC
1 TATGGACATAAAGTACCGACACAATATT-AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGC
2037472 ATAAGACCGGTATATTTATACCGGTTATATTAC-AAA--ATCTATTACATTATAATTATGGGTTC
65 ATAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTC
*
2037534 CGATGTGTAAAATGTCGACAC--TTTTAAATTGTATCGACACATTTTTCTTCCAA
130 CGATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
2037587 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATT--CGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
**
2037650 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
2037705 ATGTTGAAAG
Statistics
Matches: 647, Mismatches: 8, Indels: 19
0.96 0.01 0.03
Matches are distributed among these distances:
177 36 0.06
178 3 0.00
179 31 0.05
180 74 0.11
181 54 0.08
182 186 0.29
183 192 0.30
184 3 0.00
185 68 0.11
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (184 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:2037622 original size:364 final size:363
Alignment explanation
Indices: 2036860--2037704 Score: 1524
Period size: 364 Copynumber: 2.3 Consensus size: 363
2036850 TTTTAAATGG
* *
2036860 TATGGACATAAAGTACCGACAC-ATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
2036924 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTCCG
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTCCG
2036989 ATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAG
131 ATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAG
*
2037054 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGATCGGTATA
196 TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATA
2037119 TTTATACCGGTTATATACAAAATTATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
261 TTTATACCGGTTATATACAAAA-TATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGT
2037184 CGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
325 CGACAC-TTTTTAAATCGTATCGACACATTTTTCTTCCAA
2037224 TATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
2037288 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGG-TCC
2037353 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAA
130 GATGTGT-AAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAA
2037418 AGTACCGACACAATATTAAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGT
194 AGTACCGACACAATATT-AAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGT
2037483 ATATTTATACCGGTTATATTAC-AAA-ATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
258 ATATTTATACCGGTTATA-TACAAAATATCTATTACATTATAATTATGGGTTCCGATGTGTAAAA
*
2037546 TGTCGACAC-TTTTAAATTGTATCGACACATTTTTCTTCCAA
322 TGTCGACACTTTTTAAATCGTATCGACACATTTTTCTTCCAA
2037587 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATT--CGCA
1 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
**
2037650 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTTTATTATAAT
66 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAAT
2037705 ATGTTGAAAG
Statistics
Matches: 468, Mismatches: 7, Indels: 14
0.96 0.01 0.03
Matches are distributed among these distances:
362 57 0.12
363 59 0.13
364 146 0.31
365 62 0.13
366 74 0.16
367 67 0.14
368 3 0.01
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (363 bp):
TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTCCG
ATGTGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATGGACATAAAG
TACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAGACCGGTATA
TTTATACCGGTTATATACAAAATATCTATTACATTATAATTATGGGTTCCGATGTGTAAAATGTC
GACACTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:2038463 original size:19 final size:19
Alignment explanation
Indices: 2038436--2038480 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
2038426 ATTCACATAA
*
2038436 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
2038455 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
2038474 AAAATTA
1 AAAATTA
2038481 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:2040289 original size:33 final size:33
Alignment explanation
Indices: 2040252--2040317 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
2040242 CATCTTAATA
*
2040252 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
2040285 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
2040318 CCTTCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:2042569 original size:19 final size:20
Alignment explanation
Indices: 2042543--2042588 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
2042533 ACACTTTTAA
2042543 TTTTACCGGTTTTA-CAT-T
1 TTTTACCGGTTTTATCATAT
2042561 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
2042582 TTTTACC
1 TTTTACC
2042589 TGGTATAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 2 0.08
19 12 0.48
20 8 0.32
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:2043075 original size:222 final size:221
Alignment explanation
Indices: 2042654--2043090 Score: 688
Period size: 223 Copynumber: 2.0 Consensus size: 221
2042644 TTAAAACTGC
2042654 TTTTAAAGTTATGTATTTATGTTTCAATTTATTTAATAGTGTTTATGTTTTCCACCTACAATATT
1 TTTTAAAGTTATGTATTTATGTTTCAATTTATTTAATAGTGTTTATGTTTTCCACCTACAATATT
**
2042719 AATTAATATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTATTTAG
66 AATTAATATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTAT-AAATATTATTTAG
* *
2042784 AATTTAAATTTAACAATATTAACCAATATAATAATAAATAGTTTTCAACAGTGAAATAAGTATGG
130 AATTTAAATTTAACAATATTAACAAAGATAATAATAAATAGTTTTCAACAGTGAAATAAGTATGG
*
2042849 ACAC-TTTATAAAAATGATATATACTT
195 ACACTTTTATAAAAAGGATATATACTT
2042875 TTTTGAAAGTTATGTAATTTATGTTTCAATTT-TTTAATAGTGTTTTCATGTTTTCCACCTACAA
1 TTTT-AAAGTTATGT-ATTTATGTTTCAATTTATTTAATAGTG-TTT-ATGTTTTCCACCTACAA
*
2042939 TATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTAT-AA-ATTA
62 TATTAA-TTAAT-ATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAATATTA
* *
2043002 TTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAAT-AATATTTTTC-ACAGTGAAATAA
125 TTTAGAATTTAAATTTAACAATATTAAC-AAAGATAATAATAAATAGTTTTCAACAGTGAAATAA
2043065 GTATGGACACTTTTATAAAAAGGATA
189 GTATGGACACTTTTATAAAAAGGATA
2043091 GATAATTTAC
Statistics
Matches: 200, Mismatches: 8, Indels: 14
0.90 0.04 0.06
Matches are distributed among these distances:
221 4 0.02
222 42 0.21
223 73 0.37
224 35 0.17
225 5 0.03
226 41 0.20
ACGTcount: A:0.39, C:0.07, G:0.08, T:0.46
Consensus pattern (221 bp):
TTTTAAAGTTATGTATTTATGTTTCAATTTATTTAATAGTGTTTATGTTTTCCACCTACAATATT
AATTAATATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAATATTATTTAGA
ATTTAAATTTAACAATATTAACAAAGATAATAATAAATAGTTTTCAACAGTGAAATAAGTATGGA
CACTTTTATAAAAAGGATATATACTT
Found at i:2045538 original size:19 final size:18
Alignment explanation
Indices: 2045498--2045548 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
2045488 GCTGCTGGAA
*
2045498 ACCGGTTTAACCGTTTTC
1 ACCGGTTTAACCGATTTC
* *
2045516 ACCGGTTCTGACCGATTTG
1 ACCGGTT-TAACCGATTTC
2045535 ACCGGTTTCAACCG
1 ACCGGTTT-AACCG
2045549 TTCGAACCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 8 0.30
19 19 0.70
ACGTcount: A:0.18, C:0.29, G:0.22, T:0.31
Consensus pattern (18 bp):
ACCGGTTTAACCGATTTC
Found at i:2045543 original size:28 final size:27
Alignment explanation
Indices: 2045502--2045584 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 27
2045492 CTGGAAACCG
* *
2045502 GTTTAACCGTTTTCACCGGTTCTGACC
1 GTTTGACCGGTTTCACCGGTTCTGACC
2045529 GATTTGACCGGTTTCAACC-GTTC-GAACC
1 G-TTTGACCGGTTTC-ACCGGTTCTG-ACC
**
2045557 GTTTGACCGGTCTGAACCGGTT-TGACC
1 GTTTGACCGGT-TTCACCGGTTCTGACC
2045584 G
1 G
2045585 GTCGGACTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
27 19 0.41
28 24 0.52
29 3 0.07
ACGTcount: A:0.17, C:0.28, G:0.24, T:0.31
Consensus pattern (27 bp):
GTTTGACCGGTTTCACCGGTTCTGACC
Found at i:2045581 original size:19 final size:19
Alignment explanation
Indices: 2045516--2045587 Score: 69
Period size: 19 Copynumber: 3.8 Consensus size: 19
2045506 AACCGTTTTC
* *
2045516 ACCGGTTCTGACCGATTTG-
1 ACCGGTT-TGACCGGTCTGA
* *
2045535 ACCGGTTTCAACCGTTC-GA
1 ACCGGTTT-GACCGGTCTGA
2045554 ACC-GTTTGACCGGTCTGA
1 ACCGGTTTGACCGGTCTGA
2045572 ACCGGTTTGACCGGTC
1 ACCGGTTTGACCGGTC
2045588 GGACTTGACC
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 6 0.14
18 11 0.25
19 27 0.61
ACGTcount: A:0.17, C:0.29, G:0.26, T:0.28
Consensus pattern (19 bp):
ACCGGTTTGACCGGTCTGA
Found at i:2045584 original size:27 final size:28
Alignment explanation
Indices: 2045516--2045584 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
2045506 AACCGTTTTC
*
2045516 ACCGGTTCTGACCGATTTGACCGGTTTCA
1 ACCGGTT-TGACCGATTTGACCGGTCTCA
* *
2045545 ACC-GTTCGAACCG-TTTGACCGGTCTGA
1 ACCGGTTTG-ACCGATTTGACCGGTCTCA
2045572 ACCGGTTTGACCG
1 ACCGGTTTGACCG
2045585 GTCGGACTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
27 20 0.59
28 11 0.32
29 3 0.09
ACGTcount: A:0.17, C:0.29, G:0.26, T:0.28
Consensus pattern (28 bp):
ACCGGTTTGACCGATTTGACCGGTCTCA
Found at i:2045586 original size:9 final size:9
Alignment explanation
Indices: 2045498--2045586 Score: 65
Period size: 9 Copynumber: 9.7 Consensus size: 9
2045488 GCTGCTGGAA
*
2045498 ACCGGTTTA
1 ACCGGTTTG
* *
2045507 ACCGTTTTC
1 ACCGGTTTG
2045516 ACCGGTTCTG
1 ACCGGTT-TG
*
2045526 ACCGATTTG
1 ACCGGTTTG
*
2045535 ACCGGTTTCA
1 ACCGGTTT-G
*
2045545 ACC-GTTCG
1 ACCGGTTTG
2045553 AACC-GTTTG
1 -ACCGGTTTG
*
2045562 ACCGGTCTG
1 ACCGGTTTG
2045571 AACCGGTTTG
1 -ACCGGTTTG
2045581 ACCGGT
1 ACCGGT
2045587 CGGACTTGAC
Statistics
Matches: 63, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
8 3 0.05
9 42 0.67
10 18 0.29
ACGTcount: A:0.17, C:0.28, G:0.25, T:0.30
Consensus pattern (9 bp):
ACCGGTTTG
Found at i:2045613 original size:5 final size:5
Alignment explanation
Indices: 2045594--2045641 Score: 51
Period size: 5 Copynumber: 8.8 Consensus size: 5
2045584 GGTCGGACTT
*
2045594 GACCC GACCGTC GACCC GACCC GACCGTT GACCC GACCC GACCC GACC
1 GACCC GACC--C GACCC GACCC GACC--C GACCC GACCC GACCC GACC
2045642 GTTGATCGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 28 0.76
7 9 0.24
ACGTcount: A:0.19, C:0.52, G:0.23, T:0.06
Consensus pattern (5 bp):
GACCC
Found at i:2045616 original size:17 final size:17
Alignment explanation
Indices: 2045594--2045636 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
2045584 GGTCGGACTT
2045594 GACCCGACCGTCGACCC
1 GACCCGACCGTCGACCC
*
2045611 GACCCGACCGTTGACCC
1 GACCCGACCGTCGACCC
2045628 GACCCGACC
1 GACCCGACC
2045637 CGACCGTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.19, C:0.51, G:0.23, T:0.07
Consensus pattern (17 bp):
GACCCGACCGTCGACCC
Found at i:2045630 original size:22 final size:22
Alignment explanation
Indices: 2045605--2045646 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
2045595 ACCCGACCGT
2045605 CGACCCGACCCGACCGTTGACC
1 CGACCCGACCCGACCGTTGACC
2045627 CGACCCGACCCGACCGTTGA
1 CGACCCGACCCGACCGTTGA
2045647 TCGTTGACCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.48, G:0.24, T:0.10
Consensus pattern (22 bp):
CGACCCGACCCGACCGTTGACC
Found at i:2052813 original size:19 final size:19
Alignment explanation
Indices: 2052740--2052816 Score: 93
Period size: 19 Copynumber: 4.1 Consensus size: 19
2052730 GGCTGCTGGA
* *
2052740 AACCGGTTTAAATGGT-TCG
1 AACCGGTTTGACTGGTCT-G
2052759 AACCGGTTTGACTGGTCTG
1 AACCGGTTTGACTGGTCTG
2052778 AACCGGTTTGACTGGTCTG
1 AACCGGTTTGACTGGTCTG
* * *
2052797 AATCGGTTTAACCGGTCTG
1 AACCGGTTTGACTGGTCTG
2052816 A
1 A
2052817 CCCGACCCGA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
19 51 0.98
20 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (19 bp):
AACCGGTTTGACTGGTCTG
Found at i:2052825 original size:5 final size:5
Alignment explanation
Indices: 2052815--2052877 Score: 54
Period size: 5 Copynumber: 11.8 Consensus size: 5
2052805 TAACCGGTCT
* * * *
2052815 GACCC GACCC GACCGTT GACCT GACTC GACCC GACCGTT GACCC GACCC
1 GACCC GACCC GACC--C GACCC GACCC GACCC GACC--C GACCC GACCC
2052864 GACCC GACCC GACC
1 GACCC GACCC GACC
2052878 GTTGACCGTT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
5 40 0.83
7 8 0.17
ACGTcount: A:0.19, C:0.49, G:0.22, T:0.10
Consensus pattern (5 bp):
GACCC
Found at i:2052838 original size:22 final size:22
Alignment explanation
Indices: 2052813--2052872 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
2052803 TTTAACCGGT
2052813 CTGACCCGACCCGACCGTTGAC
1 CTGACCCGACCCGACCGTTGAC
*
2052835 CTGACTCGACCCGACCGTTGAC
1 CTGACCCGACCCGACCGTTGAC
*
2052857 CCGACCCGACCCGACC
1 CTGACCCGACCCGACC
2052873 CGACCGTTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.18, C:0.48, G:0.22, T:0.12
Consensus pattern (22 bp):
CTGACCCGACCCGACCGTTGAC
Found at i:2052862 original size:27 final size:27
Alignment explanation
Indices: 2052832--2052884 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
2052822 CCCGACCGTT
* *
2052832 GACCTGACTCGACCCGACCGTTGACCC
1 GACCCGACCCGACCCGACCGTTGACCC
2052859 GACCCGACCCGACCCGACCGTTGACC
1 GACCCGACCCGACCCGACCGTTGACC
2052885 GTTGACCGTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.19, C:0.47, G:0.23, T:0.11
Consensus pattern (27 bp):
GACCCGACCCGACCCGACCGTTGACCC
Found at i:2052886 original size:7 final size:7
Alignment explanation
Indices: 2052874--2052911 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
2052864 GACCCGACCC
2052874 GACCGTT
1 GACCGTT
2052881 GACCGTT
1 GACCGTT
2052888 GACCGTT
1 GACCGTT
2052895 GACCGTT
1 GACCGTT
2052902 GACCGTT
1 GACCGTT
2052909 GAC
1 GAC
2052912 TTTCTTTGAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.16, C:0.29, G:0.29, T:0.26
Consensus pattern (7 bp):
GACCGTT
Found at i:2055493 original size:329 final size:329
Alignment explanation
Indices: 2054866--2055493 Score: 833
Period size: 329 Copynumber: 1.9 Consensus size: 329
2054856 CAACGGTTGG
* * *** * *
2054866 CTTTTCAGAGGTCATTTAATGTAGAATTCAAGTGACTTTTCAGAAAATGGGTAAAATAGTGGTGC
1 CTTTTCAGAAGTCATTCAATGTAGAATTCAAACAACATTTCAAAAAATGGGTAAAATAGTGGTGC
* *
2054931 ATTATCATCTTCAGCAACTTTCAATATATCAACTCAAATCAGAAAACATTTTTTTAATCAGAAAA
66 ATTATCATCTTCAACAACTTTCAATATATCAAATCAAATCAGAAAACATTTTTTTAATCAGAAAA
*
2054996 ATAATGCACATTCCAGCTATTTTTCAGTGTAATATGAACTCAAATCAGAAAACTTTTCAGTGTTG
131 ATAATGCACATTCCAGCTATTTTTCAGTGAAATATGAACTCAAATCAGAAAACTTTTCAGTGTTG
* * *
2055061 CATTATCACTTCAAATCACAAAAACGTGTATTTCAATCAGGCCAAATTATTTACTGTTTGAACAA
196 AATTATCACTTCAAATCACAAAAACGTATATTTCAATCAGGCCAAATTATTCACTGTTTGAACAA
* * *
2055126 CTTTTCAATGCTCAATTAATACACGTTTCAGTAACTTTTCAAATGTTATTTATTGCATCAATAAT
261 CTTTTCAATGCACAATTAATACACATTTCAGCAACTTTTCAAATGTTATTTATTGCATCAATAAT
2055191 GCAA
326 GCAA
* * * *
2055195 CTTTTCAGAAGTCATTCAATGTATAATTTAAACAACATTTCAAAAAATGGGTGAAATAGTTGTGC
1 CTTTTCAGAAGTCATTCAATGTAGAATTCAAACAACATTTCAAAAAATGGGTAAAATAGTGGTGC
*
2055260 ATTATCATCTTCAAC-ACTTTTCAATGATATTAAATCAAAT-A-AAAA-ATGTGTTTTTAACTCA
66 ATTATCATCTTCAACAAC-TTTCAAT-ATATCAAATCAAATCAGAAAACAT-T-TTTTTAA-TCA
* * *
2055321 GGCAAAATAATGCACCCTTCCAGCTA-TTTTCAGTGAAATATGAACTCAAAT-AGAAAACTTTTT
126 -GAAAAATAATGCA-CATTCCAGCTATTTTTCAGTGAAATATGAACTCAAATCAGAAAACTTTTC
* * **
2055384 AGTGTTGAATTATCACTTCAAATCA-TAAAACTTATATTTCAA-CTAGG-TTAATTATTCACTGT
189 AGTGTTGAATTATCACTTCAAATCACAAAAACGTATATTTCAATC-AGGCCAAATTATTCACTGT
* * *
2055446 TTGAACAACTTTTCAGTGCACAATTAATGCACCATTTTAGCAACTTTT
253 TTGAACAACTTTTCAATGCACAATTAATACA-CATTTCAGCAACTTTT
2055494 AGAGGTCAAT
Statistics
Matches: 259, Mismatches: 31, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
327 2 0.01
328 48 0.19
329 113 0.44
330 50 0.19
331 36 0.14
332 10 0.04
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.36
Consensus pattern (329 bp):
CTTTTCAGAAGTCATTCAATGTAGAATTCAAACAACATTTCAAAAAATGGGTAAAATAGTGGTGC
ATTATCATCTTCAACAACTTTCAATATATCAAATCAAATCAGAAAACATTTTTTTAATCAGAAAA
ATAATGCACATTCCAGCTATTTTTCAGTGAAATATGAACTCAAATCAGAAAACTTTTCAGTGTTG
AATTATCACTTCAAATCACAAAAACGTATATTTCAATCAGGCCAAATTATTCACTGTTTGAACAA
CTTTTCAATGCACAATTAATACACATTTCAGCAACTTTTCAAATGTTATTTATTGCATCAATAAT
GCAA
Found at i:2056306 original size:72 final size:72
Alignment explanation
Indices: 2056189--2056332 Score: 279
Period size: 72 Copynumber: 2.0 Consensus size: 72
2056179 AGCTTGTGGC
2056189 AGTGAATAGAGCCGTTGGAAGGTAGGTTCCCCGATTAAATGATGTCCAGAAGCTTTTAGTATCGG
1 AGTGAATAGAGCCGTTGGAAGGTAGGTTCCCCGATTAAATGATGTCCAGAAGCTTTTAGTATCGG
2056254 TACTCGT
66 TACTCGT
*
2056261 AGTGAATAGAGCCGTTGGAAGGTAGGTTCCCGGATTAAATGATGTCCAGAAGCTTTTAGTATCGG
1 AGTGAATAGAGCCGTTGGAAGGTAGGTTCCCCGATTAAATGATGTCCAGAAGCTTTTAGTATCGG
2056326 TACTCGT
66 TACTCGT
2056333 CTCTTAGTAT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 71 1.00
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.29
Consensus pattern (72 bp):
AGTGAATAGAGCCGTTGGAAGGTAGGTTCCCCGATTAAATGATGTCCAGAAGCTTTTAGTATCGG
TACTCGT
Found at i:2057128 original size:38 final size:39
Alignment explanation
Indices: 2057077--2057154 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
2057067 TAAATAATAA
2057077 AGGTGTGATGATCAAAC-GCCAAACAAGTTAGTCAACAT
1 AGGTGTGATGATCAAACGGCCAAACAAGTTAGTCAACAT
2057115 AGGTGTGATGATCAAACGGCCAAACAAGTTAGTCAACAT
1 AGGTGTGATGATCAAACGGCCAAACAAGTTAGTCAACAT
2057154 A
1 A
2057155 ATTAATATCC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
38 17 0.44
39 22 0.56
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.21
Consensus pattern (39 bp):
AGGTGTGATGATCAAACGGCCAAACAAGTTAGTCAACAT
Found at i:2062807 original size:13 final size:13
Alignment explanation
Indices: 2062791--2062817 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
2062781 ATTAGATACT
2062791 TCTTTTAGTTCAA
1 TCTTTTAGTTCAA
2062804 TCTTTTAGTTCAA
1 TCTTTTAGTTCAA
2062817 T
1 T
2062818 TATTGATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (13 bp):
TCTTTTAGTTCAA
Found at i:2063456 original size:21 final size:22
Alignment explanation
Indices: 2063432--2063475 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
2063422 AGTCGAGGGT
*
2063432 TACATAAGTCCTT-GGGACATA
1 TACATAAGTCCTTCGGGAAATA
*
2063453 TACATAGGTCCTTCGGGAAATA
1 TACATAAGTCCTTCGGGAAATA
2063475 T
1 T
2063476 GCAGGTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (22 bp):
TACATAAGTCCTTCGGGAAATA
Found at i:2065119 original size:185 final size:184
Alignment explanation
Indices: 2064846--2065215 Score: 690
Period size: 187 Copynumber: 2.0 Consensus size: 184
2064836 ATTTGAATGA
*
2064846 ATATAGATAAAAACAATGAAGATTCTAGTAGAAATACAAATAAGTAAAGTCCATTCACTAATTAA
1 ATATAGATAAAAACAATGAAGATTCTAGTAGAAATAAAAATAAGTAAAGTCCATTCACTAATTAA
2064911 TCAAAAACTAACTAAAACTGAGCCTAAATTCGAAAAGAAAAGTTAGGG-TT-AAAATATTACCTT
66 TCAAAAACTAACTAAAACTGAGCCTAAATTCGAAAAGAAAAGTTAGGGTTTAAAAATATTACCTT
2064974 TAAAAGTTGGATTAAGATGGAATTTGAAGATGAATGCGTGAAGTTGATGATGCT
131 TAAAAGTTGGATTAAGATGGAATTTGAAGATGAATGCGTGAAGTTGATGATGCT
2065028 ATATAGATAAAAACAATGAAGATTCTAGTGTAGAAATAAAAATAAGTAAAGTCCATTCACTAATT
1 ATATAGATAAAAACAATGAAGATTCTA--GTAGAAATAAAAATAAGTAAAGTCCATTCACTAA-T
2065093 TAATCAAAAACTAACTAAAACTGAGCCTAAATTCGAAAAGAAAAGTTAGGGTTTAAAAATATTAC
63 TAATCAAAAACTAACTAAAACTGAGCCTAAATTCGAAAAGAAAAGTTAGGGTTTAAAAATATTAC
2065158 CTTTAAAAGTTGGATTAAGATGGAATTTGAAGATGAATGCGTGAAGTTGATGATGCT
128 CTTTAAAAGTTGGATTAAGATGGAATTTGAAGATGAATGCGTGAAGTTGATGATGCT
2065215 A
1 A
2065216 GCAGGTTGGA
Statistics
Matches: 182, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
182 27 0.15
184 33 0.18
185 52 0.29
186 2 0.01
187 68 0.37
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.28
Consensus pattern (184 bp):
ATATAGATAAAAACAATGAAGATTCTAGTAGAAATAAAAATAAGTAAAGTCCATTCACTAATTAA
TCAAAAACTAACTAAAACTGAGCCTAAATTCGAAAAGAAAAGTTAGGGTTTAAAAATATTACCTT
TAAAAGTTGGATTAAGATGGAATTTGAAGATGAATGCGTGAAGTTGATGATGCT
Found at i:2071465 original size:27 final size:27
Alignment explanation
Indices: 2071427--2071511 Score: 152
Period size: 27 Copynumber: 3.1 Consensus size: 27
2071417 TAGGAGCATA
2071427 TACAGCTTACCTTCATGTAAGATTTTG
1 TACAGCTTACCTTCATGTAAGATTTTG
2071454 TACAGCTTACCTTCATGTAAGATTTTG
1 TACAGCTTACCTTCATGTAAGATTTTG
2071481 TATACAGCTTACCTTCATGTAAGATTTTG
1 --TACAGCTTACCTTCATGTAAGATTTTG
2071510 TA
1 TA
2071512 TACGGAGTGT
Statistics
Matches: 56, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
27 29 0.52
29 27 0.48
ACGTcount: A:0.27, C:0.18, G:0.14, T:0.41
Consensus pattern (27 bp):
TACAGCTTACCTTCATGTAAGATTTTG
Found at i:2071496 original size:29 final size:29
Alignment explanation
Indices: 2071425--2071514 Score: 166
Period size: 29 Copynumber: 3.2 Consensus size: 29
2071415 GTTAGGAGCA
2071425 TATACAGCTTACCTTCATGTAAGATTTTG
1 TATACAGCTTACCTTCATGTAAGATTTTG
2071454 --TACAGCTTACCTTCATGTAAGATTTTG
1 TATACAGCTTACCTTCATGTAAGATTTTG
2071481 TATACAGCTTACCTTCATGTAAGATTTTG
1 TATACAGCTTACCTTCATGTAAGATTTTG
2071510 TATAC
1 TATAC
2071515 GGAGTGTATC
Statistics
Matches: 59, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
27 27 0.46
29 32 0.54
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (29 bp):
TATACAGCTTACCTTCATGTAAGATTTTG
Found at i:2073852 original size:2 final size:2
Alignment explanation
Indices: 2073845--2073893 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
2073835 AAATATTAAC
2073845 TA TA TA TA TA TA TA TA TA TA -A TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2073886 TA T- TA TA T
1 TA TA TA TA T
2073894 TTTATAAATA
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 43 0.96
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2073885 original size:23 final size:23
Alignment explanation
Indices: 2073845--2073893 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
2073835 AAATATTAAC
2073845 TATATATATATATATATATAATA
1 TATATATATATATATATATAATA
*
2073868 TATATATATATATATATATATTA
1 TATATATATATATATATATAATA
2073891 TAT
1 TAT
2073894 TTTATAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TATATATATATATATATATAATA
Found at i:2073898 original size:7 final size:7
Alignment explanation
Indices: 2073845--2073899 Score: 58
Period size: 8 Copynumber: 7.6 Consensus size: 7
2073835 AAATATTAAC
2073845 TATATA-
1 TATATAT
2073851 TATATAT
1 TATATAT
*
2073858 ATATATAA
1 -TATATAT
2073866 TATATAT
1 TATATAT
2073873 ATATATAT
1 -TATATAT
2073881 ATATATAT
1 -TATATAT
*
2073889 TATATTT
1 TATATAT
2073896 TATA
1 TATA
2073900 AATAAGATCT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
6 6 0.14
7 16 0.37
8 21 0.49
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
TATATAT
Found at i:2074177 original size:150 final size:153
Alignment explanation
Indices: 2073883--2074183 Score: 368
Period size: 152 Copynumber: 2.0 Consensus size: 153
2073873 ATATATATAT
* *
2073883 ATATATTATATTTTATAAATAAGATCTTTATTTATTTAGAAATATCAGAAAAAGACTTCTAGTTG
1 ATATATTATAATTTATAAATAAGA-CTTTAGTTATTTAGAAATATCAGAAAAAGACTTCTAGTTG
* *
2073948 CTTTAAGACAATCATTTTCTTAATATTAAAAAATAAATAAATATTAATATAACATTTTTTCTAAA
65 CTTTAAGACAAGCATTTTCTTAATATTAAAAAATAAATAAATATTAATATAACATTTTTCCTAAA
2074013 AATAATTAAAAT-AAATTAAATTA
130 AATAATTAAAATAAAATTAAATTA
*
2074036 ATATA-TATAATTTATAAAAGTAAGA-TTTAGTTATTTA-AATATATCAGAAAATGACTTCTAGT
1 ATATATTATAATTTAT-AAA-TAAGACTTTAGTTATTTAGAA-ATATCAGAAAAAGACTTCTAGT
* * **
2074098 TGTTTTAAGA-TAGC-TTTTCTTAATATT-AAAAAT-AAT-AATATTAAAATATGATTATTTTTC
63 TGCTTTAAGACAAGCATTTTCTTAATATTAAAAAATAAATAAATATT--AATAT-AACATTTTTC
* * *
2074158 CTAAAAGTAATTTATATAAAATTAAA
125 CTAAAAATAATTAAAATAAAATTAAA
2074184 GTTATTAATA
Statistics
Matches: 129, Mismatches: 12, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
147 6 0.05
148 3 0.02
149 11 0.09
150 34 0.26
151 12 0.09
152 50 0.39
153 8 0.06
154 5 0.04
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (153 bp):
ATATATTATAATTTATAAATAAGACTTTAGTTATTTAGAAATATCAGAAAAAGACTTCTAGTTGC
TTTAAGACAAGCATTTTCTTAATATTAAAAAATAAATAAATATTAATATAACATTTTTCCTAAAA
ATAATTAAAATAAAATTAAATTA
Found at i:2075527 original size:19 final size:19
Alignment explanation
Indices: 2075499--2075539 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
2075489 GGATCTGGCA
2075499 AGATCCAACGGTTGAAAGG
1 AGATCCAACGGTTGAAAGG
*
2075518 AGATCTAACGGTTGAAAGG
1 AGATCCAACGGTTGAAAGG
2075537 AGA
1 AGA
2075540 GGCGGCTGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.39, C:0.12, G:0.32, T:0.17
Consensus pattern (19 bp):
AGATCCAACGGTTGAAAGG
Found at i:2075655 original size:3 final size:3
Alignment explanation
Indices: 2075647--2075751 Score: 74
Period size: 3 Copynumber: 35.0 Consensus size: 3
2075637 TTTGGGCCTG
* * * * *
2075647 TAA TAA TAA TAA TAA TAA T-A TTA TTA TTA TTA TTA TAA TTAA -AA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA
* * *
2075691 TTA TAA T-A TAA TAA TAAA TCA TAAA TACA TAA TAA TAA TAA CAA T-A
1 TAA TAA TAA TAA TAA T-AA TAA T-AA TA-A TAA TAA TAA TAA TAA TAA
2075737 TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA
2075752 AACCGAATGG
Statistics
Matches: 87, Mismatches: 7, Indels: 16
0.79 0.06 0.15
Matches are distributed among these distances:
2 8 0.09
3 68 0.78
4 11 0.13
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:2076243 original size:119 final size:121
Alignment explanation
Indices: 2076104--2076802 Score: 794
Period size: 122 Copynumber: 5.7 Consensus size: 121
2076094 GAATTAAGGC
* * *
2076104 AAGGTTGAACAAATTCTTCTCATTATGAATTTTTTCTT-CTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAAC-AATGCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * * * *
2076168 GAACACTTCTGGAAAGGTTGATACTGATTTATCTCCTTTTGTGATACAGTCATACAA
65 GAACTCTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATACAA
2076225 AAGGTTGAACAA-GCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATG
1 AAGGTTGAACAATGCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATG
* * *
2076289 AACTCTTTTAGAAATGTTGATGTTGATCTATCTCCTTCTGTGAT-GAGTCATACAA
66 AACTCTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATACAA
2076344 AAGGTTGAACAA-GCTTCTCATTATGAACTTCTTCTTCCTCTTCA-ATGAGTTCTTCTCATTATG
1 AAGGTTGAACAATGCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATG
* *
2076407 AACTCTTCTGAGAACTCATCTGGAAATGTTGATGCTGATCTATCCCCTTCTGTG-TAGAATCGA-
66 AA-----CT-----CT--TCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTC-AT
*
2076470 GCAA
118 ACAA
* * *
2076474 AA-GTTGAAGAAATTCTTCTCATTACGAACTTCTTCTTCC-CTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAA-CAATGCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * ** * *
2076537 GAACTCTTTCTTGAAATGCTGATATTGATCTATCT-CTTCCTATGATAGAATC-TAGC-A
65 GAACTC-TTCTGGAAATGTTGATGCTGATCTATCTCCTT-CTGTGATAGAGTCATA-CAA
* * *
2076594 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATAAGTTATTCTCATTAT
1 AAGGTTGAACAA-TGCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * * * *
2076659 GAACTTTCTCTTGAAAAGTTGATGCTGAT-TATCTCCTTTTTTGATACAGTCATACAA
65 GAACTCT-TCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATACAA
*
2076716 AAGGTTGAACAAGTGTTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAA-TGCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* *
2076781 AAACTCTTCTGAAAATGTTGAT
65 GAACTCTTCTGGAAATGTTGAT
2076803 CTATTGAGTG
Statistics
Matches: 498, Mismatches: 50, Indels: 60
0.82 0.08 0.10
Matches are distributed among these distances:
118 21 0.04
119 78 0.16
120 96 0.19
121 79 0.16
122 117 0.23
123 2 0.00
126 2 0.00
128 2 0.00
129 7 0.01
130 48 0.10
131 46 0.09
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (121 bp):
AAGGTTGAACAATGCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATG
AACTCTTCTGGAAATGTTGATGCTGATCTATCTCCTTCTGTGATAGAGTCATACAA
Found at i:2077215 original size:22 final size:22
Alignment explanation
Indices: 2077181--2077265 Score: 91
Period size: 22 Copynumber: 3.9 Consensus size: 22
2077171 AAATCCAATA
* *
2077181 AATCTTTCTTCTTTGGAA-AGAG
1 AATCTATCATCTTT-GAAGAGAG
2077203 AATCTATCATCTTTGAAGAGAG
1 AATCTATCATCTTTGAAGAGAG
* *
2077225 AATCTATCATCTTTAAAGATAG
1 AATCTATCATCTTTGAAGAGAG
* * *
2077247 ATTTTATCATATTTGAAGA
1 AATCTATCATCTTTGAAGA
2077266 ATGTATGTAG
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
21 3 0.06
22 51 0.94
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (22 bp):
AATCTATCATCTTTGAAGAGAG
Found at i:2078224 original size:18 final size:18
Alignment explanation
Indices: 2078197--2078237 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
2078187 ATAAAAGAAT
* *
2078197 AAATTGAATTTCTAAAAG
1 AAATTAAATTTCGAAAAG
*
2078215 AAATTAAATTTCGAAAAT
1 AAATTAAATTTCGAAAAG
2078233 AAATT
1 AAATT
2078238 TGGAATCTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (18 bp):
AAATTAAATTTCGAAAAG
Found at i:2078614 original size:23 final size:24
Alignment explanation
Indices: 2078571--2078625 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
2078561 ATATTGACCC
* *
2078571 TCATTTTCTATTTTTTCTTTTTTT
1 TCATTTTCTATTTTATCTTTTCTT
2078595 TCATTTTC-ATTTTCAT-TTTTCTT
1 TCATTTTCTATTTT-ATCTTTTCTT
*
2078618 TCTTTTTC
1 TCATTTTC
2078626 CTTCCTCAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.75
Consensus pattern (24 bp):
TCATTTTCTATTTTATCTTTTCTT
Found at i:2079158 original size:18 final size:19
Alignment explanation
Indices: 2079113--2079158 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
2079103 CTCGTGCCAA
2079113 TCTTTGTAAGTTTCAGTAG
1 TCTTTGTAAGTTTCAGTAG
2079132 TCTTTGTAAGTTTCAGTAG
1 TCTTTGTAAGTTTCAGTAG
2079151 TC-TTGTAA
1 TCTTTGTAA
2079159 TGATTCTCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 6 0.22
19 21 0.78
ACGTcount: A:0.22, C:0.11, G:0.20, T:0.48
Consensus pattern (19 bp):
TCTTTGTAAGTTTCAGTAG
Found at i:2080306 original size:26 final size:26
Alignment explanation
Indices: 2080277--2080328 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
2080267 TATTCTGGAG
2080277 AATTAACACTGCCCAAATTCCTCGTC
1 AATTAACACTGCCCAAATTCCTCGTC
2080303 AATTAACACTGCCCAAATTCCTCGTC
1 AATTAACACTGCCCAAATTCCTCGTC
2080329 CCAAGGCGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.35, G:0.08, T:0.27
Consensus pattern (26 bp):
AATTAACACTGCCCAAATTCCTCGTC
Found at i:2085945 original size:15 final size:15
Alignment explanation
Indices: 2085921--2085953 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
2085911 AAATAATGCA
*
2085921 ATGAATAATGAATGT
1 ATGAAAAATGAATGT
2085936 ATGAAAAATGAATGT
1 ATGAAAAATGAATGT
2085951 ATG
1 ATG
2085954 CAAAGGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.21, T:0.30
Consensus pattern (15 bp):
ATGAAAAATGAATGT
Found at i:2089020 original size:22 final size:22
Alignment explanation
Indices: 2088992--2089038 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
2088982 CTTTGGTTTG
2088992 AAAAATTCAATTTCTTAATAAA
1 AAAAATTCAATTTCTTAATAAA
*
2089014 AAAAATTCAATTTCTTAATGAA
1 AAAAATTCAATTTCTTAATAAA
2089036 AAA
1 AAA
2089039 GGGGGAGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAAATTCAATTTCTTAATAAA
Found at i:2089294 original size:31 final size:31
Alignment explanation
Indices: 2089196--2089286 Score: 159
Period size: 31 Copynumber: 3.0 Consensus size: 31
2089186 CAATTTAAGG
2089196 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
2089227 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
*
2089258 CAAAAT-GTTTTTAGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
2089287 TTCAAAATTT
Statistics
Matches: 59, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
29 11 0.19
30 11 0.19
31 37 0.63
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:2089511 original size:21 final size:21
Alignment explanation
Indices: 2089485--2089526 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
2089475 ATTTGAATAT
*
2089485 TATGAAGGGGTATCGATTCCC
1 TATGAAGGGGTACCGATTCCC
2089506 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
2089527 CCCATTCTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:2089588 original size:21 final size:21
Alignment explanation
Indices: 2089555--2089594 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
2089545 TTTTAGTAGA
*
2089555 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
2089577 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
2089595 AGATATGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 2 0.12
22 4 0.24
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.15
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:2089853 original size:34 final size:32
Alignment explanation
Indices: 2089810--2089879 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
2089800 TTTGTAAAGG
*
2089810 GGGAAAGGTTCTAGCTTAGCCCGTATAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCGGA-AAAA-CTA
*
2089844 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
2089876 GGGA
1 GGGA
2089880 GTTGTAAGGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 4 0.12
34 23 0.68
ACGTcount: A:0.33, C:0.16, G:0.30, T:0.21
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:2093023 original size:151 final size:144
Alignment explanation
Indices: 2092752--2093028 Score: 324
Period size: 151 Copynumber: 1.8 Consensus size: 144
2092742 TTATAAATAA
* * *
2092752 GATATTTATTTATTTAGAATATCAGAAAATACTTCTAGTTGCTTTAAGACATTTTCTTAATATTA
1 GATATTTAGTTATTTAAAATATCAGAAAAGACTTCTAGTTGCTTTAAGACATTTTCTTAATATTA
* *
2092817 AAAATAAATAATATTAATAAAAATTTTTTCTAAAAATAATTAAAATAAAATAAATTAATATATAT
66 AAAACAAATAATATTAATAAAAATTTTTCCTAAAAATAATT-AAATAAAATAAATTAATATATAT
2092882 AATTTATAAAAGTAT
130 AATTTATAAAAGTAT
* *
2092897 GATATTTAGTTATTTAAATATATCAGAAAAAGACTTCTAGTTGTTTTAAGATAGACTTTTTCTTA
1 GATATTTAGTTATTTAAA-ATATCAG-AAAAGACTTCTAGTTGCTTT---A-AGACATTTTCTTA
* *
2092962 ATATT-AAAACAAATAAATATTAA-AATATGATTATTTTTCCTAAAAGTAATTTATATAAAATTA
60 ATATTAAAAACAAAT-AATATTAATAA-A--A--ATTTTTCCTAAAAATAA-TTAAATAAAA-TA
2093025 AATT
117 AATT
2093029 TATTAATAGG
Statistics
Matches: 109, Mismatches: 9, Indels: 17
0.81 0.07 0.13
Matches are distributed among these distances:
145 16 0.15
146 7 0.06
147 18 0.17
150 11 0.10
151 26 0.24
153 1 0.01
155 22 0.20
156 8 0.07
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (144 bp):
GATATTTAGTTATTTAAAATATCAGAAAAGACTTCTAGTTGCTTTAAGACATTTTCTTAATATTA
AAAACAAATAATATTAATAAAAATTTTTCCTAAAAATAATTAAATAAAATAAATTAATATATATA
ATTTATAAAAGTAT
Found at i:2094426 original size:5 final size:5
Alignment explanation
Indices: 2094416--2094493 Score: 78
Period size: 5 Copynumber: 16.0 Consensus size: 5
2094406 AAATTAAAAT
2094416 TATAA TATAA TAATAA -ATAA TA-AA TACATAA TATAA TA-AA -ATAA
1 TATAA TATAA T-ATAA TATAA TATAA T--ATAA TATAA TATAA TATAA
2094460 TAATAA TATAA TAT-A -ATAA TATAA TATAA TATAA
1 T-ATAA TATAA TATAA TATAA TATAA TATAA TATAA
2094494 AACCGAATGA
Statistics
Matches: 63, Mismatches: 0, Indels: 20
0.76 0.00 0.24
Matches are distributed among these distances:
3 3 0.05
4 13 0.21
5 34 0.54
6 10 0.16
7 3 0.05
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (5 bp):
TATAA
Found at i:2094430 original size:3 final size:3
Alignment explanation
Indices: 2094417--2094490 Score: 72
Period size: 3 Copynumber: 26.0 Consensus size: 3
2094407 AATTAAAATT
2094417 ATA AT- ATA ATA ATAA ATA ATAA ATA CATA AT- ATA ATA A-A ATA ATA
1 ATA ATA ATA ATA AT-A ATA AT-A ATA -ATA ATA ATA ATA ATA ATA ATA
2094462 ATA AT- ATA AT- ATA ATA AT- ATA AT- ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
2094491 TAAAACCGAA
Statistics
Matches: 61, Mismatches: 0, Indels: 20
0.75 0.00 0.25
Matches are distributed among these distances:
2 14 0.23
3 38 0.62
4 9 0.15
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:2094430 original size:8 final size:8
Alignment explanation
Indices: 2094417--2094485 Score: 79
Period size: 8 Copynumber: 8.4 Consensus size: 8
2094407 AATTAAAATT
2094417 ATAATATA
1 ATAATATA
2094425 ATAATA-A
1 ATAATATA
2094432 ATAATAAATA
1 ATAAT--ATA
2094442 CATAATATA
1 -ATAATATA
*
2094451 ATAAAATA
1 ATAATATA
2094459 ATAATA-A
1 ATAATATA
2094466 TATAATATA
1 -ATAATATA
2094475 ATAATATA
1 ATAATATA
2094483 ATA
1 ATA
2094486 TAATATAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
7 7 0.13
8 35 0.66
9 5 0.09
10 1 0.02
11 5 0.09
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (8 bp):
ATAATATA
Found at i:2094433 original size:24 final size:24
Alignment explanation
Indices: 2094406--2094480 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 24
2094396 ATTAAAATTA
2094406 AAATTAAAATTATAATATAATAAT
1 AAATTAAAATTATAATATAATAAT
* *
2094430 AAATAATAAATACATAATATAATAA-
1 AAATTA-AAAT-TATAATATAATAAT
*
2094455 AATAATAATAA-TATAATATAATAAT
1 AA-ATTAA-AATTATAATATAATAAT
2094480 A
1 A
2094481 TAATATAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
24 17 0.41
25 8 0.20
26 16 0.39
ACGTcount: A:0.65, C:0.01, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATTAAAATTATAATATAATAAT
Found at i:2097019 original size:19 final size:18
Alignment explanation
Indices: 2096995--2097038 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 18
2096985 CTCTAAAGAG
2096995 AAGTATCATACTCTTACCA
1 AAGTATCATACTC-TACCA
*
2097014 AAGTATTGATACTCTACCA
1 AAGTA-TCATACTCTACCA
2097033 AAGTAT
1 AAGTAT
2097039 GGAAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 1 0.04
19 15 0.65
20 7 0.30
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (18 bp):
AAGTATCATACTCTACCA
Found at i:2097025 original size:20 final size:20
Alignment explanation
Indices: 2096975--2097038 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
2096965 TTATACAGGG
* **
2096975 AGTATTGATACTCTAAAGAGA
1 AGTATTGATACTCTTACCA-A
*
2096996 AGTA-TCATACTCTTACCAA
1 AGTATTGATACTCTTACCAA
2097015 AGTATTGATACTC-TACCAA
1 AGTATTGATACTCTTACCAA
2097034 AGTAT
1 AGTAT
2097039 GGAAATTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 16 0.43
20 17 0.46
21 4 0.11
ACGTcount: A:0.39, C:0.17, G:0.12, T:0.31
Consensus pattern (20 bp):
AGTATTGATACTCTTACCAA
Found at i:2101899 original size:26 final size:26
Alignment explanation
Indices: 2101863--2101921 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
2101853 GTAAAAGTCA
2101863 ATGTCACGACTATCGTCACCCTAGGT
1 ATGTCACGACTATCGTCACCCTAGGT
2101889 ATGTCACGACTATCGTCACCCTAGGT
1 ATGTCACGACTATCGTCACCCTAGGT
*
2101915 GTGTCAC
1 ATGTCAC
2101922 TATATGTCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (26 bp):
ATGTCACGACTATCGTCACCCTAGGT
Found at i:2102448 original size:189 final size:191
Alignment explanation
Indices: 2102221--2102569 Score: 470
Period size: 189 Copynumber: 1.8 Consensus size: 191
2102211 ACTAATTATA
* * * ** *
2102221 TCACTAAATTAAGTAAAATTTCGTTATTGATGATTTATATCGTCACGGATAATACATTTAAATCA
1 TCACTAAATTAAATAAAACTTCGTTATTGATAATTTATATCGTCACAAATAATACATTAAAATCA
* *
2102286 ACCTATATGTGAC-AAA-AGAGATTGTCACA-TTAGTGATATAATATAAATGTTACCTAATAATA
66 ACCTATATGTCACGAAAGAGAGATTGTCACATTTAGTGACATAATAT-AATGTTACCTAATAATA
*
2102348 TTATGAATGACGTTTATGCATAACGTCACTTTATAATTTATATTCTATGACTGTTGGTTACG
130 TTATGAATGACGATTATGCATAACGTCACTTTATAATTTATATTCTATGACTGTTGGTTACG
* * **
2102410 TCACTAAATTAAATAAGACTTCGTTATTGATAATTTATATTGTCACAAATAATGTATTAAAATCA
1 TCACTAAATTAAATAAAACTTCGTTATTGATAATTTATATCGTCACAAATAATACATTAAAATCA
* * * * *
2102475 ACTTATATGTCACGAAAGAGATATTGTCGCATTTTTAGTGCCATAATATATTGTTACCTAATAAT
66 ACCTATATGTCACGAAAGAGAGATTGTCACA--TTTAGTGACATAATATAATGTTACCTAATAAT
* *
2102540 ATTATGAATGATGATTATGCATAATGTCAC
129 ATTATGAATGACGATTATGCATAACGTCAC
2102570 CATATTTAAT
Statistics
Matches: 135, Mismatches: 20, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
189 66 0.49
190 3 0.02
191 11 0.08
193 42 0.31
194 13 0.10
ACGTcount: A:0.37, C:0.12, G:0.13, T:0.38
Consensus pattern (191 bp):
TCACTAAATTAAATAAAACTTCGTTATTGATAATTTATATCGTCACAAATAATACATTAAAATCA
ACCTATATGTCACGAAAGAGAGATTGTCACATTTAGTGACATAATATAATGTTACCTAATAATAT
TATGAATGACGATTATGCATAACGTCACTTTATAATTTATATTCTATGACTGTTGGTTACG
Found at i:2103487 original size:18 final size:18
Alignment explanation
Indices: 2103464--2103508 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
2103454 TATGATTTAA
* *
2103464 AAAAATAGATTTTAAAAT
1 AAAAATAAACTTTAAAAT
*
2103482 AAAAATAAACTTTATAAT
1 AAAAATAAACTTTAAAAT
*
2103500 AAATATAAA
1 AAAAATAAA
2103509 AAGTGTTCAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (18 bp):
AAAAATAAACTTTAAAAT
Found at i:2107272 original size:25 final size:26
Alignment explanation
Indices: 2107244--2107311 Score: 61
Period size: 25 Copynumber: 2.7 Consensus size: 26
2107234 ATAACTTTTG
*
2107244 AAAAGTAACATTTAAAAATGTTGTA-
1 AAAAGTAACATTTAAAAATGGTGTAT
**
2107269 AAAACG-AATTTTTAAAAATGGTGTAT
1 AAAA-GTAACATTTAAAAATGGTGTAT
*
2107295 AAAAAT-ACAATTTAAAA
1 AAAAGTAAC-ATTTAAAA
2107312 TTTAATTATT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
25 21 0.64
26 12 0.36
ACGTcount: A:0.54, C:0.04, G:0.10, T:0.31
Consensus pattern (26 bp):
AAAAGTAACATTTAAAAATGGTGTAT
Found at i:2109221 original size:12 final size:12
Alignment explanation
Indices: 2109204--2109233 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
2109194 TAAAAATAGT
*
2109204 AAAAATGTAAAA
1 AAAAATCTAAAA
2109216 AAAAATCTAAAA
1 AAAAATCTAAAA
2109228 AAAAAT
1 AAAAAT
2109234 TATTGGAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (12 bp):
AAAAATCTAAAA
Found at i:2118054 original size:70 final size:70
Alignment explanation
Indices: 2117979--2118118 Score: 271
Period size: 70 Copynumber: 2.0 Consensus size: 70
2117969 ATATAATGTA
2117979 TATTGTTATTATAAAATATGATACAAAATTAAGTGAACAAATATGTTATACGTGTTATATGTATT
1 TATTGTTATTATAAAATATGATACAAAATTAAGTGAACAAATATGTTATACGTGTTATATGTATT
2118044 AAAGT
66 AAAGT
*
2118049 TATTGTTATTATAAAATATGATACAAAATTAAGTGAACAAATATGTTATATGTGTTATATGTATT
1 TATTGTTATTATAAAATATGATACAAAATTAAGTGAACAAATATGTTATACGTGTTATATGTATT
2118114 AAAGT
66 AAAGT
2118119 GTCATGGAAA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
70 69 1.00
ACGTcount: A:0.43, C:0.04, G:0.13, T:0.41
Consensus pattern (70 bp):
TATTGTTATTATAAAATATGATACAAAATTAAGTGAACAAATATGTTATACGTGTTATATGTATT
AAAGT
Found at i:2119613 original size:20 final size:20
Alignment explanation
Indices: 2119585--2119627 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
2119575 AAATAAAAAA
2119585 TTAT-TTTTTATTAAATATTT
1 TTATATTTTTATTAAAT-TTT
*
2119605 TTATATTTTTATTTAATTTT
1 TTATATTTTTATTAAATTTT
2119625 TTA
1 TTA
2119628 AATAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
TTATATTTTTATTAAATTTT
Found at i:2123051 original size:15 final size:15
Alignment explanation
Indices: 2123031--2123102 Score: 56
Period size: 15 Copynumber: 4.4 Consensus size: 15
2123021 AATAAGGTTT
2123031 TTTATTTTAAAATAA
1 TTTATTTTAAAATAA
*
2123046 TTTATTATAAAATATGGA
1 TTTATTTTAAAATA---A
2123064 TTGATTTATTTTAAAATAA
1 ----TTTATTTTAAAATAA
*
2123083 TTTATTGT-AAATAA
1 TTTATTTTAAAATAA
2123097 TTTATT
1 TTTATT
2123103 AGTATAGATT
Statistics
Matches: 47, Mismatches: 3, Indels: 15
0.72 0.05 0.23
Matches are distributed among these distances:
14 12 0.26
15 20 0.43
18 1 0.02
19 1 0.02
22 13 0.28
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.53
Consensus pattern (15 bp):
TTTATTTTAAAATAA
Found at i:2123073 original size:22 final size:22
Alignment explanation
Indices: 2123045--2123147 Score: 98
Period size: 22 Copynumber: 4.5 Consensus size: 22
2123035 TTTTAAAATA
*
2123045 ATTTATTATAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
**
2123067 ATTTATTTTAAAATAATTTATTG
1 ATTTATTTTAAAAT-ATGGATTG
** * * * *
2123090 TAAATAATTTATTAGTATAGATTG
1 -ATTTATTTTA-AAATATGGATTG
2123114 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
2123136 ATTTATTTTAAA
1 ATTTATTTTAAA
2123148 TAATTTATTA
Statistics
Matches: 62, Mismatches: 16, Indels: 6
0.74 0.19 0.07
Matches are distributed among these distances:
22 34 0.55
23 13 0.21
24 13 0.21
25 2 0.03
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (22 bp):
ATTTATTTTAAAATATGGATTG
Found at i:2123096 original size:14 final size:15
Alignment explanation
Indices: 2123067--2123102 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
2123057 ATATGGATTG
*
2123067 ATTTATTTTAAAATA
1 ATTTATTGTAAAATA
2123082 ATTTATTGT-AAATA
1 ATTTATTGTAAAATA
2123096 ATTTATT
1 ATTTATT
2123103 AGTATAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (15 bp):
ATTTATTGTAAAATA
Found at i:2123149 original size:54 final size:53
Alignment explanation
Indices: 2123082--2123574 Score: 797
Period size: 54 Copynumber: 9.1 Consensus size: 53
2123072 TTTTAAAATA
*
2123082 ATTTATTGTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATGGATTG
* *
2123136 ATTTATTTTAAATAATTTATTATTATGAATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTATG-ATTGATTTATTTTAAAATATGGATTG
*
2123190 ATATATTTTAAATAATTTATTAGTATGTATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATG-ATTGATTTATTTTAAAATATGGATTG
*
2123244 ATCTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATGGATTG
*
2123298 ATCTATTTTAAATAATTTATTAGTATGAATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTATG-ATTGATTTATTTTAAAATATGGATTG
*
2123352 ATCTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATGGATTG
* *
2123406 ATCTATTTTAAATAATTTATTAGTATAGATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATGGATTG
*
2123460 ATTTATTTTAAATAATTTATTAGTATGGATTGATTTATTTTAAAATATGAATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATGGATTG
* *
2123514 ATTTATTTTAAATAATTTATTAGTATCGATTCATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAATAATTTATTAGTAT-GATTGATTTATTTTAAAATATGGATTG
2123568 ATTTATT
1 ATTTATT
2123575 ATTGTAATTG
Statistics
Matches: 420, Mismatches: 15, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
53 2 0.00
54 416 0.99
55 2 0.00
ACGTcount: A:0.37, C:0.01, G:0.10, T:0.51
Consensus pattern (53 bp):
ATTTATTTTAAATAATTTATTAGTATGATTGATTTATTTTAAAATATGGATTG
Found at i:2123175 original size:22 final size:22
Alignment explanation
Indices: 2123159--2123201 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2123149 AATTTATTAT
*
2123159 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATATATTTTAAAA
2123181 TATGAATTGATATATTTTAAA
1 TATGAATTGATATATTTTAAA
2123202 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (22 bp):
TATGAATTGATATATTTTAAAA
Found at i:2123238 original size:22 final size:22
Alignment explanation
Indices: 2123213--2123255 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2123203 AATTTATTAG
* *
2123213 TATGTATTGATTTATTTTAAAA
1 TATGGATTGATCTATTTTAAAA
2123235 TATGGATTGATCTATTTTAAA
1 TATGGATTGATCTATTTTAAA
2123256 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGGATTGATCTATTTTAAAA
Found at i:2123292 original size:22 final size:22
Alignment explanation
Indices: 2123267--2123309 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2123257 AATTTATTAG
*
2123267 TATGGATTGATTTATTTTAAAA
1 TATGGATTGATCTATTTTAAAA
2123289 TATGGATTGATCTATTTTAAA
1 TATGGATTGATCTATTTTAAA
2123310 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (22 bp):
TATGGATTGATCTATTTTAAAA
Found at i:2123346 original size:22 final size:22
Alignment explanation
Indices: 2123321--2123363 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
2123311 AATTTATTAG
*
2123321 TATGAATTGATTTATTTTAAAA
1 TATGAATTGATCTATTTTAAAA
*
2123343 TATGGATTGATCTATTTTAAA
1 TATGAATTGATCTATTTTAAA
2123364 TAATTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (22 bp):
TATGAATTGATCTATTTTAAAA
Found at i:2123508 original size:22 final size:22
Alignment explanation
Indices: 2123483--2123525 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
2123473 AATTTATTAG
*
2123483 TATGGATTGATTTATTTTAAAA
1 TATGAATTGATTTATTTTAAAA
2123505 TATGAATTGATTTATTTTAAA
1 TATGAATTGATTTATTTTAAA
2123526 TAATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (22 bp):
TATGAATTGATTTATTTTAAAA
Found at i:2124151 original size:2 final size:2
Alignment explanation
Indices: 2124144--2124174 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2124134 TGGGTAACTA
2124144 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2124175 AAAGAATCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2124876 original size:20 final size:20
Alignment explanation
Indices: 2124851--2124890 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
2124841 TACAGTACAA
2124851 TACTCTATCGGAGATGCTGG
1 TACTCTATCGGAGATGCTGG
2124871 TACTCTATCGGAGATGCTGG
1 TACTCTATCGGAGATGCTGG
2124891 AAGCCCTGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (20 bp):
TACTCTATCGGAGATGCTGG
Found at i:2127231 original size:21 final size:21
Alignment explanation
Indices: 2127207--2127319 Score: 217
Period size: 21 Copynumber: 5.4 Consensus size: 21
2127197 ACATTATTGA
2127207 TACTGATACAATTAGTATCGG
1 TACTGATACAATTAGTATCGG
2127228 TACTGATACAATTAGTATCGG
1 TACTGATACAATTAGTATCGG
2127249 TACTGATACAATTAGTATCGG
1 TACTGATACAATTAGTATCGG
2127270 TACTGATACAATTAGTATCGG
1 TACTGATACAATTAGTATCGG
*
2127291 TACTGATACAATTAGTATCAG
1 TACTGATACAATTAGTATCGG
2127312 TACTGATA
1 TACTGATA
2127320 TGGGTATCGA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
21 91 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.34
Consensus pattern (21 bp):
TACTGATACAATTAGTATCGG
Found at i:2127847 original size:54 final size:54
Alignment explanation
Indices: 2127765--2128210 Score: 676
Period size: 54 Copynumber: 8.3 Consensus size: 54
2127755 TTACTGAATG
* *
2127765 GGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCTGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
*
2127819 GGCACTATGTGTGTAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * *
2127873 AGCACTATGTGTGTAACCTAAGAAATTCATAATAAGTTTATGAATTTCTGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
** * *
2127927 ACCACTATGTGTGCAACTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
2127981 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * *
2128035 GGCACTATTTGTGCAACCTAATAAATTCATAATAAGTTTATGAATTTTCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
2128089 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * * * * * * * *
2128143 GGCACTATGTGTGCACCCGATGTAATTCATAGTGAGTTTGTGAATTACCGTATC
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* *
2128197 GGTACTACGTGTGC
1 GGCACTATGTGTGC
2128211 GAAAACCACT
Statistics
Matches: 361, Mismatches: 31, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 361 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (54 bp):
GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
Found at i:2133668 original size:54 final size:54
Alignment explanation
Indices: 2133586--2134033 Score: 628
Period size: 54 Copynumber: 8.3 Consensus size: 54
2133576 TTACCGAATG
* * * *
2133586 GGCACTATATGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCCATTTT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
*
2133640 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
*
2133694 GGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTTATGAATTTCCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * * * *
2133748 GGCATTATGTGTGAAACCTAAGAAATTCGTAGTAAGTTTATAAATTTCCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
*
2133802 GGCACTATGTGTTCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* *
2133856 GGCACTATGTGTGCAATCTAAGAAATTCATAATAAGTTTATGAATTTCTGTATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * * *
2133910 AGCACTATGTGTGCAACCTAAGAAATTCATAATTAGTTAATGAATTTCCATATT
1 GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
* * * * * * * * *
2133964 GGCACTATATGTGC-ACCATATGTAATTTATAGTGAGTTTGTGAATTACCGTATC
1 GGCACTATGTGTGCAACC-TAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
*
2134018 GGCACTACGTGTGCAA
1 GGCACTATGTGTGCAA
2134034 AAACCACTGA
Statistics
Matches: 350, Mismatches: 42, Indels: 3
0.89 0.11 0.01
Matches are distributed among these distances:
53 3 0.01
54 346 0.99
55 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.37
Consensus pattern (54 bp):
GGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTATT
Found at i:2137171 original size:20 final size:21
Alignment explanation
Indices: 2137130--2137176 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
2137120 TATTATTTCC
2137130 AATATTTAAAATGATGGAAAAT
1 AATATTTAAAAT-ATGGAAAAT
*
2137152 AATATTTAAAAT-TTGAAAAT
1 AATATTTAAAATATGGAAAAT
2137172 AATAT
1 AATAT
2137177 GGATCATTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 12 0.50
22 12 0.50
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (21 bp):
AATATTTAAAATATGGAAAAT
Found at i:2139753 original size:20 final size:20
Alignment explanation
Indices: 2139728--2139771 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
2139718 TTTTTTAAAT
2139728 AGTGAATAGTAACCG-TGAAC
1 AGTGAATAGTAA-CGATGAAC
*
2139748 AGTGAATAGTGACGATGAAC
1 AGTGAATAGTAACGATGAAC
2139768 AGTG
1 AGTG
2139772 GGGAATCGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.39, C:0.11, G:0.30, T:0.20
Consensus pattern (20 bp):
AGTGAATAGTAACGATGAAC
Found at i:2147330 original size:14 final size:14
Alignment explanation
Indices: 2147307--2147343 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
2147297 AAAAACGCTG
* *
2147307 AAAATGAAATTACC
1 AAAATAAAATTACA
2147321 AAAATAAAATTACA
1 AAAATAAAATTACA
2147335 AAAATAAAA
1 AAAATAAAA
2147344 AATGATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.70, C:0.08, G:0.03, T:0.19
Consensus pattern (14 bp):
AAAATAAAATTACA
Found at i:2165573 original size:23 final size:24
Alignment explanation
Indices: 2165547--2165594 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
2165537 ACTTGTGAAA
2165547 TTTACTTATT-CAAAAAAAATATT
1 TTTACTTATTGCAAAAAAAATATT
* * *
2165570 TTTACTTGTTGCGAAAGAAATATT
1 TTTACTTATTGCAAAAAAAATATT
2165594 T
1 T
2165595 GATCTATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (24 bp):
TTTACTTATTGCAAAAAAAATATT
Found at i:2166199 original size:88 final size:88
Alignment explanation
Indices: 2165864--2167678 Score: 2998
Period size: 88 Copynumber: 20.8 Consensus size: 88
2165854 TAGTAGGGCT
* * * *
2165864 TCTTAAGGCTAGTATGTGTAGTTAGGATGATTGTTCATGTTTGATGTGTTAGAACCATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAAC-AA
* *
2165929 TTCATGTAAACTAAATATTTCAAGACCAG
65 ---A--TAAACTAAATATTTCAAGATCTG
* * *
2165958 TCTTAAGGTTAGTGCGTGTAGTTAGTTTAATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
* * *
2166023 TAAACCAAATATTTCAAAATTTG
66 TAAACTAAATATTTCAAGATCTG
*
2166046 TCTTAAGGTTA--GTGTGTAGTTGGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
* *
2166109 TAAACTAAACATTTTAAGATCTG
66 TAAACTAAATATTTCAAGATCTG
*
2166132 TCTTAAGGTTAGTGTGTGTAGCTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
2166197 TAAACTAAATATTTCAAGATCTG
66 TAAACTAAATATTTCAAGATCTG
* *
2166220 TCTTAAGGTTAGTGTGTGTGGTTGGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
2166285 TAAACTAAATATTTCAAGATCTG
66 TAAACTAAATATTTCAAGATCTG
* * *
2166308 TCTTAAGGTTAGTGTGTGTAGTTAGGTAGATTGTTCATGTTTGTTATGTTAGAACCATAACCAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
*
2166373 CAAACTAAATATTTCAAGATCTG
66 TAAACTAAATATTTCAAGATCTG
* *
2166396 TCTTAAGGTTA--GTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTAAGAACCATGAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
* *
2166459 TAAACTAAATTTTTCAAGATATG
66 TAAACTAAATATTTCAAGATCTG
2166482 TCTTAAGGTTAGTGTGT-T-GTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
*
2166545 TAAACTAAATATTTCAAGATCGG
66 TAAACTAAATATTTCAAGATCTG
*
2166568 TCTTAGGGTTA--GTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
2166631 TAAACTAAATATTTCAAGATCTG
66 TAAACTAAATATTTCAAGATCTG
*
2166654 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTAAGAACCATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
* * *
2166719 TGAACTAAATATTTCAAAATATG
66 TAAACTAAATATTTCAAGATCTG
2166742 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
* * *
2166807 TAAACTAAACAGTTCAAGATCTT
66 TAAACTAAATATTTCAAGATCTG
*
2166830 TCTTAAGGTTAGTATGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
* *
2166895 TAAACTAAATAATTCAAGATCTA
66 TAAACTAAATATTTCAAGATCTG
*
2166918 TCTTAAGGTTAGTATGTGTAGTTAGGTTGATTGTTCATG-TTGTTGTGTTAGAACCATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
*
2166982 TAAACTAAATAATTCAAGATCTG
66 TAAACTAAATATTTCAAGATCTG
*
2167005 TCTTAAGGTTAGTATGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
*
2167070 TAAACTAAATAATTCAAGATCTG
66 TAAACTAAATATTTCAAGATCTG
*
2167093 TCTTAAGGTTAGTATGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
* *
2167158 TAAACTAAATAATTCAAGATCTA
66 TAAACTAAATATTTCAAGATCTG
2167181 TCTTAA-GTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
2167245 TAAACTAAATATTTCAAGATCTG
66 TAAACTAAATATTTCAAGATCTG
2167268 TCTTAAGGTTA--GTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
2167331 TAAACTAAATATTTCAAGATCTG
66 TAAACTAAATATTTCAAGATCTG
2167354 TCTTAAGGTTA--GTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
*
2167417 TAAACTAAATATTTCAAGATCTT
66 TAAACTAAATATTTCAAGATCTG
2167440 TCTTAA-GTTA--GTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
2167502 TAAACTAAATATTTCAAGATCTG
66 TAAACTAAATATTTCAAGATCTG
* *
2167525 TCTTAAGGTTAGTGTGTGCAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACTATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
2167590 TAAACTAAATATTTCAAGATCTG
66 TAAACTAAATATTTCAAGATCTG
* * *
2167613 TTTTAAGGTTAGTGTGGGTAGTTAGGTTGATTGTTCATATTTGTTGTGTTAGAACCATAAACAAA
1 TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
2167678 T
66 T
2167679 TCATATAAAG
Statistics
Matches: 1629, Mismatches: 79, Indels: 32
0.94 0.05 0.02
Matches are distributed among these distances:
84 4 0.00
85 85 0.05
86 475 0.29
87 171 0.10
88 836 0.51
90 1 0.00
93 2 0.00
94 55 0.03
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (88 bp):
TCTTAAGGTTAGTGTGTGTAGTTAGGTTGATTGTTCATGTTTGTTGTGTTAGAACCATAAACAAA
TAAACTAAATATTTCAAGATCTG
Found at i:2170047 original size:2 final size:2
Alignment explanation
Indices: 2170040--2170065 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2170030 TTTTCCAACA
2170040 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
2170066 TACATTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2173110 original size:55 final size:55
Alignment explanation
Indices: 2173036--2173284 Score: 259
Period size: 55 Copynumber: 4.5 Consensus size: 55
2173026 AAATCTATGA
* * **
2173036 AATTCATCATGAGTTGATGAATAACCGTACATGCACT-GTCTGTAAAAATCCACAG
1 AATTCATCATGAGTTGATGAATAACCGTACAAGCACTAG-GTGTGCAAATCCACAG
* * * **
2173091 AATTTATCATGAGTTGATGAATAGCCATACAAGCACT-GTGTGTGCAAATCCATGG
1 AATTCATCATGAGTTGATGAATAACCGTACAAGCACTAG-GTGTGCAAATCCACAG
** * * * * *
2173146 AATTCATCGCGAGTTGATGAATAACAGAACATGCATTAGGTGTGCAAATCCACAA
1 AATTCATCATGAGTTGATGAATAACCGTACAAGCACTAGGTGTGCAAATCCACAG
* * * * *
2173201 AATTCATCATGGGTTGATGAATAATCATACAAACACTAGGTGTGCAAATCCACAT
1 AATTCATCATGAGTTGATGAATAACCGTACAAGCACTAGGTGTGCAAATCCACAG
* *
2173256 AATTCATCATGAGTTGATAAATTACCGTA
1 AATTCATCATGAGTTGATGAATAACCGTA
2173285 TAGTACATGT
Statistics
Matches: 156, Mismatches: 37, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
55 155 0.99
56 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (55 bp):
AATTCATCATGAGTTGATGAATAACCGTACAAGCACTAGGTGTGCAAATCCACAG
Found at i:2173211 original size:110 final size:110
Alignment explanation
Indices: 2173025--2173273 Score: 288
Period size: 110 Copynumber: 2.3 Consensus size: 110
2173015 ACCGTGTGCA
* * * *
2173025 CAAATCTATGAAATTCATCATGAGTTGATGAATAACCGTACATGCACTGTCTGTAAAAATCCACA
1 CAAATCCATGAAATTCATCACGAGTTGATGAATAACAGAACATGCACTGTCTGTAAAAATCCACA
* * * *
2173090 GAATTTATCATGAGTTGATGAATAGCCATACAAGCACT-GTGTGTG
66 AAATTCATCATGAGTTGATGAATAACCATACAAACACTAG-GTGTG
* * * * **
2173135 CAAATCCATGGAATTCATCGCGAGTTGATGAATAACAGAACATGCATTAG-GTGTGCAAATCCAC
1 CAAATCCATGAAATTCATCACGAGTTGATGAATAACAGAACATGCACT-GTCTGTAAAAATCCAC
* *
2173199 AAAATTCATCATGGGTTGATGAATAATCATACAAACACTAGGTGTG
65 AAAATTCATCATGAGTTGATGAATAACCATACAAACACTAGGTGTG
* *
2173245 CAAATCCA-CATAATTCATCATGAGTTGAT
1 CAAATCCATGA-AATTCATCACGAGTTGAT
2173274 AAATTACCGT
Statistics
Matches: 116, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
110 114 0.98
111 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (110 bp):
CAAATCCATGAAATTCATCACGAGTTGATGAATAACAGAACATGCACTGTCTGTAAAAATCCACA
AAATTCATCATGAGTTGATGAATAACCATACAAACACTAGGTGTG
Done.