Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold31
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: 2401195
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 123915 characters in sequence are not A, C, G, or T
File 11 of 16
Found at i:1626621 original size:29 final size:30
Alignment explanation
Indices: 1626527--1626631 Score: 87
Period size: 29 Copynumber: 3.6 Consensus size: 30
1626517 GCACCCTTTT
* * *
1626527 AAGCCCACAAGTCGGTGGC-ACCCTTTTC-A
1 AAGCCCACAAGTTGATGACAACCC-TTTCAA
*
1626556 AAGCCCACAAGTT-AGTGGCAA-CC-TTCAA
1 AAGCCCACAAGTTGA-TGACAACCCTTTCAA
*
1626584 AAGCACACAAGTTGAT-ACAACCCTTTCAA
1 AAGCCCACAAGTTGATGACAACCCTTTCAA
1626613 AAGCCCACACAAGTTGATG
1 AAG-CC-CACAAGTTGATG
1626632 GCGTCTTCTT
Statistics
Matches: 62, Mismatches: 5, Indels: 15
0.76 0.06 0.18
Matches are distributed among these distances:
27 6 0.10
28 16 0.26
29 27 0.44
30 2 0.03
31 11 0.18
ACGTcount: A:0.34, C:0.30, G:0.17, T:0.19
Consensus pattern (30 bp):
AAGCCCACAAGTTGATGACAACCCTTTCAA
Found at i:1626930 original size:130 final size:127
Alignment explanation
Indices: 1626697--1626943 Score: 320
Period size: 130 Copynumber: 1.9 Consensus size: 127
1626687 ATCTTTAAAT
*
1626697 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATCGCTGGCCTTAAATT
1 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATCGCTGGCCTTAAATC
* *
1626762 AGCATATTGGCACCTCATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTAGCATAAGC
66 AGCACATTGGCA-C-CA-CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTAGCATAAGC
* * *
1626827 CCAATATCGCTGGCTTTGAATC-GACGTATTGGCACCTTGTTTTTAAGTCCAATATTGCTGGCCT
1 CCAATATCGCTGGCCTTGAATCAG-CATATTGGCACC-----TTTAAGTCCAATATCGCTGGCCT
* *
1626891 TGAATCAGCACATTGGCA-C-CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCA
60 TAAATCAGCACATTGGCACCACTTTAAGACCAATATCGCTGGCCTTGAATCAGCA
1626944 TATTGGCACC
Statistics
Matches: 103, Mismatches: 8, Indels: 12
0.84 0.07 0.10
Matches are distributed among these distances:
129 1 0.01
130 64 0.62
132 1 0.01
135 37 0.36
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (127 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATATCGCTGGCCTTAAATC
AGCACATTGGCACCACTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTAGCATAAGC
Found at i:1626948 original size:178 final size:178
Alignment explanation
Indices: 1626648--1627129 Score: 741
Period size: 178 Copynumber: 2.7 Consensus size: 178
1626638 TCTTCTAATT
* * * * * *
1626648 CCAATATCGCTGGCCTT-AAACCAGCATATTGGCACCTTCATCTTTAAATCCAATATCGCTGGCC
1 CCAATATCGCTGGCTTTGAATCGA-CGTATTGGCACCTT-GTCTTTAAGTCCAATATCGCTGGCC
* * *
1626712 TTGAATCAGCATATTGGCACCTTTAAGTCCAATATCGCTGGCCTTAAATTAGCATATTGGCACCT
64 TTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT
*
1626777 CATCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTAGCATAAGC
129 CATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTAGCATAAGC
* *
1626827 CCAATATCGCTGGCTTTGAATCGACGTATTGGCACCTTGTTTTTAAGTCCAATATTGCTGGCCTT
1 CCAATATCGCTGGCTTTGAATCGACGTATTGGCACCTTGTCTTTAAGTCCAATATCGCTGGCCTT
1626892 GAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCA
66 GAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCA
* *
1626957 TCTTTAAAACCAATGTCGCTGGCCTTGAATCAGTACATTGGCATAAGC
131 TCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTAGCATAAGC
* * * * *
1627005 CCAATATCGCTAGCTTTGAATCGGCGTATTGGCACCTTGTCTTTAAGTCTAATGTCGATGGCCTT
1 CCAATATCGCTGGCTTTGAATCGACGTATTGGCACCTTGTCTTTAAGTCCAATATCGCTGGCCTT
* * *
1627070 GAATCAGCACATCGGCACCTTTAAGTCCAATATCGTTGGCCGTGAATCAGCATATTGGCA
66 GAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1627130 TCTTTATCAC
Statistics
Matches: 278, Mismatches: 24, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
178 245 0.88
179 29 0.10
180 4 0.01
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (178 bp):
CCAATATCGCTGGCTTTGAATCGACGTATTGGCACCTTGTCTTTAAGTCCAATATCGCTGGCCTT
GAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCA
TCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCACATTAGCATAAGC
Found at i:1626963 original size:91 final size:91
Alignment explanation
Indices: 1626647--1627129 Score: 597
Period size: 87 Copynumber: 5.4 Consensus size: 91
1626637 TTCTTCTAAT
* * * *
1626647 TCCAATATCGCTGGCCTTAAACCAGCATATTGGCACCTTCATCTTTAAATCCAATATCGCTGGCC
1 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TCATCTTTAAGTCCAATGTCGCTGGCC
*
1626712 TTGAATCAGCATATTGGCACCTTTAAG
65 TTGAATCAGCACATTGGCACCTTTAAG
* * *
1626739 TCCAATATCGCTGGCCTTAAATTAGCATATTGGCACCTCATCTTTAAGACCAATGTCGCTGGCCT
1 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGTCCAATGTCGCTGGCCT
*
1626804 TGAATCAGCACATTAGCA----TAAG
66 TGAATCAGCACATTGGCACCTTTAAG
* * * ** * * *
1626826 CCCAATATCGCTGGCTTTGAATC-GACGTATTGGCACCTTGTTTTTAAGTCCAATATTGCTGGCC
1 TCCAATATCGCTGGCCTTGAATCAG-CATATTGGCACCTCATCTTTAAGTCCAATGTCGCTGGCC
1626890 TTGAATCAGCACATTGGCACCTTTAAG
65 TTGAATCAGCACATTGGCACCTTTAAG
**
1626917 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAAACCAATGTCGCTGGCCT
1 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGTCCAATGTCGCTGGCCT
*
1626982 TGAATCAGTACATTGGCA----TAAG
66 TGAATCAGCACATTGGCACCTTTAAG
* * * * * ** * *
1627004 CCCAATATCGCTAGCTTTGAATCGGCGTATTGGCACCTTGTCTTTAAGTCTAATGTCGATGGCCT
1 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGTCCAATGTCGCTGGCCT
*
1627069 TGAATCAGCACATCGGCACCTTTAAG
66 TGAATCAGCACATTGGCACCTTTAAG
* *
1627095 TCCAATATCGTTGGCCGTGAATCAGCATATTGGCA
1 TCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1627130 TCTTTATCAC
Statistics
Matches: 331, Mismatches: 50, Indels: 21
0.82 0.12 0.05
Matches are distributed among these distances:
86 1 0.00
87 147 0.44
91 147 0.44
92 36 0.11
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (91 bp):
TCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTTTAAGTCCAATGTCGCTGGCCT
TGAATCAGCACATTGGCACCTTTAAG
Found at i:1626983 original size:48 final size:47
Alignment explanation
Indices: 1626822--1627129 Score: 229
Period size: 48 Copynumber: 6.8 Consensus size: 47
1626812 CACATTAGCA
* * * *
1626822 TAAGCCCAATATCGCTGGCTTTGAATC-G-ACGTATTGGCACCTTGTTTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCAC--ATTGGCACC-TCTCTT
*
1626870 TAAGTCCAATATTGCTGGCCTTGAATCAGCACATTGGCA---C-CTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCTCTT
*
1626913 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCATCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTC-TCTT
** * *
1626961 TAAAACCAATGTCGCTGGCCTTGAATCAGTACATTGGCA--------
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCTCTT
* * * * ** *
1627000 TAAGCCCAATATCGCTAGCTTTGAATCGGCGTATTGGCACCTTGTCTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACC-TCTCTT
* * * *
1627048 TAAGTCTAATGTCGATGGCCTTGAATCAGCACATCGGCA---C-CTT
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCTCTT
* * *
1627091 TAAGTCCAATATCGTTGGCCGTGAATCAGCATATTGGCA
1 TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
1627130 TCTTTATCAC
Statistics
Matches: 206, Mismatches: 38, Indels: 37
0.73 0.14 0.13
Matches are distributed among these distances:
39 30 0.15
43 75 0.36
46 1 0.00
48 97 0.47
49 1 0.00
50 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (47 bp):
TAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTCTCTT
Found at i:1628118 original size:33 final size:33
Alignment explanation
Indices: 1628081--1628147 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1628071 TTCAACGATT
1628081 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1628114 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1628147 T
1 T
1628148 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1628119 original size:13 final size:13
Alignment explanation
Indices: 1628101--1628125 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1628091 CATAAAATGT
1628101 TGTATCGATACAA
1 TGTATCGATACAA
1628114 TGTATCGATACA
1 TGTATCGATACA
1628126 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1628206 original size:13 final size:13
Alignment explanation
Indices: 1628188--1628212 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1628178 ATTACTCAAA
1628188 TGTATCGATACAT
1 TGTATCGATACAT
1628201 TGTATCGATACA
1 TGTATCGATACA
1628213 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1628264 original size:52 final size:53
Alignment explanation
Indices: 1628201--1628340 Score: 169
Period size: 52 Copynumber: 2.7 Consensus size: 53
1628191 ATCGATACAT
*** *
1628201 TGTATCGATACACCGAT-CTTTGTATCAATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACCGATAAAATGTATCAATACATGCAGGCAAATCTGCCCAGA
** *
1628253 TGTATCGATACA-TTATAAAATGTATCGATACATGCAGGCAAATCTGCCCAGA
1 TGTATCGATACACCGATAAAATGTATCAATACATGCAGGCAAATCTGCCCAGA
* * *
1628305 TGTATCGATACA-CTATTAAATGTATCGATACATGCA
1 TGTATCGATACACCGATAAAATGTATCAATACATGCA
1628341 AGTAACTTTT
Statistics
Matches: 78, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
51 2 0.03
52 76 0.97
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.29
Consensus pattern (53 bp):
TGTATCGATACACCGATAAAATGTATCAATACATGCAGGCAAATCTGCCCAGA
Found at i:1635540 original size:30 final size:31
Alignment explanation
Indices: 1635503--1635587 Score: 118
Period size: 30 Copynumber: 2.8 Consensus size: 31
1635493 CAAATACCTT
1635503 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
* *
1635534 -TCAAAGTCCACGACTTAGTGGCATTTTTTC
1 TTCAAAGTCCACGACTCAGTGGCATTTTGTC
* * *
1635564 TTTAAAGTCCACAACTCTGTGGCA
1 TTCAAAGTCCACGACTCAGTGGCA
1635588 CACTTTTTCT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 28 0.60
31 19 0.40
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (31 bp):
TTCAAAGTCCACGACTCAGTGGCATTTTGTC
Found at i:1635679 original size:34 final size:34
Alignment explanation
Indices: 1635551--1636031 Score: 469
Period size: 34 Copynumber: 14.4 Consensus size: 34
1635541 CCACGACTTA
* * *
1635551 GTGGCA-T-TTTTTC-TTTAAAGTCCACAACTCT
1 GTGGCACTCTTTTTCTTTTTAAGCCCACAACTCC
* **
1635582 GTGGCACACTTTTTCTTTTTAAAGCCCACAACTTT
1 GTGGCACTCTTTTTCTTTTT-AAGCCCACAACTCC
*
1635617 GTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCC
1 GTGGCACTCTTTTT--CTTTT-TAAGCCCACAACTCC
1635654 GTGGCAC-CTTTTTCTTTTTACAGCCCACAACTCC
1 GTGGCACTCTTTTTCTTTTTA-AGCCCACAACTCC
*
1635688 GTGGCACTCTTTTTCCCTTATTAAAGCCCACAACTCC
1 GTGGCACTCTTTTT--CTT-TTTAAGCCCACAACTCC
*
1635725 GTGGCAC-C---TTCTTTTCAAAGCCCACAACTCC
1 GTGGCACTCTTTTTCTTTT-TAAGCCCACAACTCC
* * *
1635756 GTGGCAC-C-----C-TTTTAAGTCCACGACTAC
1 GTGGCACTCTTTTTCTTTTTAAGCCCACAACTCC
* * *
1635783 GTGGCACTC-TTTTCCTTTAAAGCCCACAACTAC
1 GTGGCACTCTTTTTCTTTTTAAGCCCACAACTCC
* *
1635816 GTGGCACTC-TTTTCCTTCTAAGCCCACAACTCC
1 GTGGCACTCTTTTTCTTTTTAAGCCCACAACTCC
* *
1635849 GTGGCACTCTTTTTCCTTCTAAGCCCACAACTCC
1 GTGGCACTCTTTTTCTTTTTAAGCCCACAACTCC
* * *
1635883 ATGGCACTCTTTTTCCTTCTAAGCCCACAACTCC
1 GTGGCACTCTTTTTCTTTTTAAGCCCACAACTCC
* *
1635917 GTGGCACTCTTTTTCCTTCTAAGCCCACAACTCC
1 GTGGCACTCTTTTTCTTTTTAAGCCCACAACTCC
*
1635951 GTGGCACTCTTTTTTCCCTTTTAAAGCCCACAACTCC
1 GTGGCACTC-TTTTT--CTTTTTAAGCCCACAACTCC
* * *
1635988 GTGGCAC-CTTGTTCTTTTTAAGTCCACAACTTC
1 GTGGCACTCTTTTTCTTTTTAAGCCCACAACTCC
1636021 GTGGCA-TCTTT
1 GTGGCACTCTTT
1636032 CACCCTTTCT
Statistics
Matches: 396, Mismatches: 30, Indels: 46
0.84 0.06 0.10
Matches are distributed among these distances:
27 18 0.05
28 4 0.01
29 1 0.00
30 2 0.01
31 32 0.08
32 1 0.00
33 89 0.22
34 127 0.32
35 40 0.10
36 8 0.02
37 71 0.18
38 3 0.01
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (34 bp):
GTGGCACTCTTTTTCTTTTTAAGCCCACAACTCC
Found at i:1635943 original size:195 final size:200
Alignment explanation
Indices: 1635563--1635963 Score: 552
Period size: 195 Copynumber: 2.0 Consensus size: 200
1635553 GGCATTTTTT
* * **
1635563 CTTTAAAGTCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACAACTTTGTGGCACTCTT
1 CTTTTAAGTCCACAACTCTGTGGCACACTTTTTCTCTTTAAAGCCCACAACTACGTGGCACTCTT
* * *
1635628 TTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTTACAGCCCACAACTCCGTGGC
66 TTTCCC-TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTCTACAGCCCACAACTCCATGGC
*
1635693 ACTCTTTTTCCCTTATTAAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGT
130 ACTCTTTTTCCCTTACTAAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGT
1635758 GGCACC
195 GGCACC
* *
1635764 CTTTTAAGTCCACGACTAC-GTGGCACTC-TTTTC-CTTTAAAGCCCACAACTACGTGGCACTC-
1 CTTTTAAGTCCACAACT-CTGTGGCACACTTTTTCTCTTTAAAGCCCACAACTACGTGGCACTCT
*
1635825 TTTT-CC-TTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTA-AGCCCACAACTCCATGG
65 TTTTCCCTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTTCCTTCTACAGCCCACAACTCCATGG
* *
1635887 CACTCTTTTT-CCTT-CT-AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACT
129 CACTCTTTTTCCCTTACTAAAGCCCACAACTCCGTGGCAC-CTTCTT--TTCAAAGCCCACAACT
*
1635949 CCGTGGCACT
191 CCGTGGCACC
1635959 CTTTT
1 CTTTT
1635964 TTCCCTTTTA
Statistics
Matches: 181, Mismatches: 14, Indels: 16
0.86 0.07 0.08
Matches are distributed among these distances:
192 21 0.12
193 6 0.03
194 4 0.02
195 79 0.44
196 11 0.06
197 2 0.01
198 4 0.02
199 25 0.14
200 5 0.03
201 23 0.13
202 1 0.01
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.32
Consensus pattern (200 bp):
CTTTTAAGTCCACAACTCTGTGGCACACTTTTTCTCTTTAAAGCCCACAACTACGTGGCACTCTT
TTTCCCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTCTACAGCCCACAACTCCATGGCA
CTCTTTTTCCCTTACTAAAGCCCACAACTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTG
GCACC
Found at i:1636076 original size:33 final size:33
Alignment explanation
Indices: 1636035--1636270 Score: 329
Period size: 33 Copynumber: 7.2 Consensus size: 33
1636025 CATCTTTCAC
*
1636035 CCTT-TCTAAAGCCCACACAAGTCGATGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1636067 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1636100 CCCTTCTCTAAAGCCCACACAAGTCGGTGGC-AA
1 -CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
* *
1636133 CCTTCCTCTAAAGCCCACACAAGTTGGTGGCAATC
1 CCTT-CTCTAAAGCCCACACAAGTCGGTGGCAA-A
* *
1636168 CCTTC-CCAAAGCCCACACAAGTCGGTGGCAAC
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
* *
1636200 CCTTC-CCAAAGCCCACACAAGTTGGTGGC-AA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
*
1636231 CCATTCTCTAAAGCCCACACAAGTCGGTGGCAAC
1 CC-TTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1636265 CCTTCT
1 CCTTCT
1636271 AAGCCCAATA
Statistics
Matches: 186, Mismatches: 10, Indels: 15
0.88 0.05 0.07
Matches are distributed among these distances:
31 3 0.02
32 40 0.22
33 104 0.56
34 35 0.19
35 4 0.02
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.19
Consensus pattern (33 bp):
CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
Found at i:1636125 original size:67 final size:67
Alignment explanation
Indices: 1636033--1636270 Score: 360
Period size: 67 Copynumber: 3.6 Consensus size: 67
1636023 GGCATCTTTC
* *
1636033 ACCCTT-TCTAAAGCCCACACAAGTCGATGGCAAACCTTCTCTAAAGCCCACACAAGTCGGTGGC
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTTCTCTAAAGCCCACACAAGTTGGTGGC
1636097 AA
66 AA
1636099 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGC-AACCTTCCTCTAAAGCCCACACAAGTTGGTGG
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTT-CTCTAAAGCCCACACAAGTTGGTGG
1636163 CAA
65 CAA
* * * *
1636166 TCCCTTC-CCAAAGCCCACACAAGTCGGTGGCAACCCTTC-CCAAAGCCCACACAAGTTGGTGGC
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTTCTCTAAAGCCCACACAAGTTGGTGGC
1636229 -A
66 AA
* *
1636230 ACCATTCTCTAAAGCCCACACAAGTCGGTGGCAACCCTTCT
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTTCT
1636271 AAGCCCAATA
Statistics
Matches: 158, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
64 6 0.04
65 54 0.34
66 36 0.23
67 62 0.39
ACGTcount: A:0.29, C:0.36, G:0.17, T:0.18
Consensus pattern (67 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCTTCTCTAAAGCCCACACAAGTTGGTGGC
AA
Found at i:1636328 original size:49 final size:49
Alignment explanation
Indices: 1636270--1636755 Score: 581
Period size: 49 Copynumber: 9.8 Consensus size: 49
1636260 GCAACCCTTC
* *
1636270 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
1636319 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
1636367 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
1636410 TAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * * *
1636462 TAAGTCCAATGTAGCTGGCCTTGACTCAGCATATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
1636511 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
1636560 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
1636609 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTT
* * * *
1636661 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC----T--TCATCTT
* * * * *
1636717 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
1636756 TCTTTATCAC
Statistics
Matches: 380, Mismatches: 40, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
43 39 0.10
45 1 0.00
48 44 0.12
49 168 0.44
50 3 0.01
51 2 0.01
52 81 0.21
53 2 0.01
55 3 0.01
56 36 0.09
57 1 0.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:1636409 original size:21 final size:20
Alignment explanation
Indices: 1636385--1636452 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 20
1636375 ATGTAGCTGG
1636385 CCTTGAATCAGCACATTGGCA
1 CCTTGAATCAGCA-ATTGGCA
* *
1636406 CCTTTAAGTC--CAATATAGCTA
1 CCTTGAA-TCAGCAAT-TGGC-A
1636427 GCCTTGAATCAGCATATTGGCA
1 -CCTTGAATCAGCA-ATTGGCA
1636449 CCTT
1 CCTT
1636453 TTCCATCTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 14
0.67 0.07 0.26
Matches are distributed among these distances:
19 2 0.06
20 5 0.14
21 13 0.36
22 9 0.25
23 5 0.14
24 2 0.06
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.29
Consensus pattern (20 bp):
CCTTGAATCAGCAATTGGCA
Found at i:1636673 original size:199 final size:192
Alignment explanation
Indices: 1636270--1636696 Score: 665
Period size: 199 Copynumber: 2.2 Consensus size: 192
1636260 GCAACCCTTC
* * * * *
1636270 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCATTAAGTCCAATATAGCT
1636335 GGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACA
66 GGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACA
*
1636400 TTGGCACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
131 TTGGCACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
*
1636462 TAAGTCCAATGTAGCTGGCCTTGACTCAGCATATTGGCACCTTCACCATTAAGTCCAATATAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCATTAAGTCCAATATAGCT
* * * *
1636527 GGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCAC
66 GGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCAC
*
1636592 ATTGGCACCTTCATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCA
130 ATTGGCA----C--CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATCGGCACCTTTTCCA
1636657 TCTT
189 TCTT
* *
1636661 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTG
1636697 ACATCCTTTT
Statistics
Matches: 213, Mismatches: 15, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
192 83 0.39
193 43 0.20
197 1 0.00
199 86 0.40
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (192 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTCACCATTAAGTCCAATATAGCT
GGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACA
TTGGCACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
Found at i:1637665 original size:20 final size:20
Alignment explanation
Indices: 1637621--1637678 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
1637611 ATTTCAACGA
***
1637621 TTTGTATCGATACATAAAAT
1 TTTGTATCGATACATATTTT
*
1637641 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATATTTT
1637661 TTTGTATCGATACA-ATTT
1 TTTGTATCGATACATATTT
1637679 AAGCTACTGC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 4 0.12
20 29 0.88
ACGTcount: A:0.31, C:0.10, G:0.12, T:0.47
Consensus pattern (20 bp):
TTTGTATCGATACATATTTT
Found at i:1637735 original size:13 final size:13
Alignment explanation
Indices: 1637717--1637741 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1637707 ATTACTCAAA
1637717 TGTATCGATACAT
1 TGTATCGATACAT
1637730 TGTATCGATACA
1 TGTATCGATACA
1637742 CCGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1637806 original size:52 final size:52
Alignment explanation
Indices: 1637750--1637869 Score: 213
Period size: 52 Copynumber: 2.3 Consensus size: 52
1637740 CACCGATCTT
* *
1637750 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
*
1637802 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
1637854 TGTATCGATACATGCA
1 TGTATCGATACATGCA
1637870 AGTAACTTTT
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATCTGCCCAGATGTATCGATACACTATAAAA
Found at i:1641116 original size:32 final size:32
Alignment explanation
Indices: 1641075--1641190 Score: 196
Period size: 32 Copynumber: 3.6 Consensus size: 32
1641065 TTTCAACGAT
**
1641075 TTGTATCGATACAATGTATGGATACATAAGTG
1 TTGTATCGATACAATGTATCCATACATAAGTG
1641107 TTGTATCGATACAATGTATCCATACATAAGTG
1 TTGTATCGATACAATGTATCCATACATAAGTG
*
1641139 TTGTATCGATACAATGTATCCATACATAAGTT
1 TTGTATCGATACAATGTATCCATACATAAGTG
*
1641171 TTGTATCGATACAACGTATC
1 TTGTATCGATACAATGTATC
1641191 ACTATGAAGC
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 80 1.00
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.35
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCCATACATAAGTG
Found at i:1641117 original size:19 final size:18
Alignment explanation
Indices: 1641089--1641183 Score: 66
Period size: 19 Copynumber: 5.7 Consensus size: 18
1641079 ATCGATACAA
*
1641089 TGTATGGATACATAAGTGT
1 TGTATCGATACATAAGT-T
1641108 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
*
1641121 TGTATCCATACATAAGTGT
1 TGTATCGATACATAAGT-T
1641140 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
*
1641153 TGTATCCATACATAAGTTT
1 TGTATCGATACATAAG-TT
1641172 TGTATCGATACA
1 TGTATCGATACA
1641184 ACGTATCACT
Statistics
Matches: 59, Mismatches: 5, Indels: 24
0.67 0.06 0.27
Matches are distributed among these distances:
13 20 0.34
15 4 0.07
17 4 0.07
19 31 0.53
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.36
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:1641254 original size:13 final size:13
Alignment explanation
Indices: 1641236--1641260 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1641226 ATTACTCAAA
1641236 TGTATCGATACAT
1 TGTATCGATACAT
1641249 TGTATCGATACA
1 TGTATCGATACA
1641261 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1642669 original size:51 final size:52
Alignment explanation
Indices: 1642565--1642682 Score: 159
Period size: 51 Copynumber: 2.3 Consensus size: 52
1642555 ATAATAACGA
*
1642565 GGTTAGAGTATCCCCGATTATGGAAAAACAGTGTTCTAAAAAATAAAATCGG
1 GGTTAGAGTATCCCCGATTATGGAAAAACAGTGTTCTAAAAAATAAAACCGG
** * *
1642617 GGTTAGAGTATCCCCGATTAT-GAAAAATTGATGTT-TTAGAAATAAAACCGG
1 GGTTAGAGTATCCCCGATTATGGAAAAACAG-TGTTCTAAAAAATAAAACCGG
*
1642668 GGTTGGAGTATCCCC
1 GGTTAGAGTATCCCC
1642683 TCGAAAATAA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
51 34 0.58
52 25 0.42
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (52 bp):
GGTTAGAGTATCCCCGATTATGGAAAAACAGTGTTCTAAAAAATAAAACCGG
Found at i:1642709 original size:79 final size:79
Alignment explanation
Indices: 1642614--1643122 Score: 829
Period size: 79 Copynumber: 6.4 Consensus size: 79
1642604 AAAATAAAAT
*
1642614 CGGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1642679 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
* *
1642693 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTCGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
1642758 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* *
1642772 CGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
1642837 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* * * *
1642851 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1642916 CCCCTCGAAAATAA
66 CCCCTCGAAAATAA
*
1642930 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
*
1642995 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
* * * * * *
1643009 CGGGATTGGAGTATCCCCGATTGTAAAAAAATTAATATTTTAGAAATAAAACCGGGGTTGAAGTA
1 CGGGGTTGGAGTATCCCCGATTAT-GAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTA
1643074 TCCCCTCGAAAATAA
65 TCCCCTCGAAAATAA
*
1643089 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
1643123 GAAACTTAAC
Statistics
Matches: 397, Mismatches: 32, Indels: 2
0.92 0.07 0.00
Matches are distributed among these distances:
79 325 0.82
80 72 0.18
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.26
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:1644405 original size:35 final size:35
Alignment explanation
Indices: 1644366--1644432 Score: 125
Period size: 35 Copynumber: 1.9 Consensus size: 35
1644356 TTATTCCATG
*
1644366 CCCATGCCTTCATTTTTTTATTCCATGCCCATTAT
1 CCCATGCCTTCAATTTTTTATTCCATGCCCATTAT
1644401 CCCATGCCTTCAATTTTTTATTCCATGCCCAT
1 CCCATGCCTTCAATTTTTTATTCCATGCCCAT
1644433 GCCTTCATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.18, C:0.33, G:0.06, T:0.43
Consensus pattern (35 bp):
CCCATGCCTTCAATTTTTTATTCCATGCCCATTAT
Found at i:1644526 original size:27 final size:27
Alignment explanation
Indices: 1644341--1644512 Score: 240
Period size: 27 Copynumber: 6.1 Consensus size: 27
1644331 TTCCATCATT
*
1644341 CCATGCCTTCA-TTTCTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
1644367 CCATGCCTTCATTTTTTTATTCCATGCCCATTATC
1 CCATGCCTTCATTTTTTTATTCCATG--------C
*
1644402 CCATGCCTTCAATTTTTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
1644429 CCATGCCTTCA-TTTTTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
1644455 CCATGCCTTCATTTTTTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
1644482 CCATGCCTTCATTTTTTTATTCCATGC
1 CCATGCCTTCATTTTTTTATTCCATGC
1644509 CCAT
1 CCAT
1644513 CATCCCGTGT
Statistics
Matches: 134, Mismatches: 2, Indels: 19
0.86 0.01 0.12
Matches are distributed among these distances:
26 37 0.28
27 71 0.53
35 26 0.19
ACGTcount: A:0.16, C:0.31, G:0.07, T:0.45
Consensus pattern (27 bp):
CCATGCCTTCATTTTTTTATTCCATGC
Found at i:1644716 original size:172 final size:172
Alignment explanation
Indices: 1644525--1644861 Score: 577
Period size: 172 Copynumber: 2.0 Consensus size: 172
1644515 TCCCGTGTTT
* *
1644525 TTTTTTTATTTCTTGATTTTTAAACCGAAAATTAACTCGATTAATTGCGACTTCTCC-GAGCCTC
1 TTTTTTTATTCCTTGATTTTCAAACCGAAAATTAACTCGATTAATTGCGACTTCTCCGGA-CCTC
**
1644589 CGAGAAAAGCTTAAAAAAAACATTGACTGATGCAATTTACTCTTATCCGATAAAAATGAATATTC
65 CGAGAAAAGCTTAAAAAAAACATCAACTGATGCAATTTACTCTTATCCGATAAAAATGAATATTC
*
1644654 GGTCAGTTATGAAATCTCGGATATCCAAAATTTCAAACCTTCA
130 GGTCAATTATGAAATCTCGGATATCCAAAATTTCAAACCTTCA
1644697 TTTTTTTATTCCTTGATTTTCAAACCGAAAATTAACTCGATTAATTGCGACTTCTCCGGACCTCC
1 TTTTTTTATTCCTTGATTTTCAAACCGAAAATTAACTCGATTAATTGCGACTTCTCCGGACCTCC
* * *
1644762 GAGAAAAGCTTAAAAAAAACATCAACTGATGTAATTTACTTTTATCTGATAAAAATGAATATTCG
66 GAGAAAAGCTTAAAAAAAACATCAACTGATGCAATTTACTCTTATCCGATAAAAATGAATATTCG
*
1644827 GTCAATTATGAAATCTGGGATATCCAAAATTTCAA
131 GTCAATTATGAAATCTCGGATATCCAAAATTTCAA
1644862 GAAAATGACC
Statistics
Matches: 155, Mismatches: 9, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
172 153 0.99
173 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (172 bp):
TTTTTTTATTCCTTGATTTTCAAACCGAAAATTAACTCGATTAATTGCGACTTCTCCGGACCTCC
GAGAAAAGCTTAAAAAAAACATCAACTGATGCAATTTACTCTTATCCGATAAAAATGAATATTCG
GTCAATTATGAAATCTCGGATATCCAAAATTTCAAACCTTCA
Found at i:1657293 original size:8 final size:8
Alignment explanation
Indices: 1657280--1657364 Score: 59
Period size: 8 Copynumber: 10.8 Consensus size: 8
1657270 CCTTCATATA
1657280 AAAAAAAC
1 AAAAAAAC
1657288 AAAAAAA-
1 AAAAAAAC
1657295 AAAGAAAA-
1 AAA-AAAAC
** *
1657303 AAACCAAG
1 AAAAAAAC
1657311 AAAAAAA-
1 AAAAAAAC
1657318 ATAAAAAAC
1 A-AAAAAAC
1657327 AAAAAAAC
1 AAAAAAAC
* *
1657335 AAAATAAT
1 AAAAAAAC
* *
1657343 AAAACAAT
1 AAAAAAAC
*
1657351 AAACAAAC
1 AAAAAAAC
1657359 AAAAAA
1 AAAAAA
1657365 GGGGTCCAGA
Statistics
Matches: 62, Mismatches: 11, Indels: 8
0.77 0.14 0.10
Matches are distributed among these distances:
7 6 0.10
8 55 0.89
9 1 0.02
ACGTcount: A:0.84, C:0.09, G:0.02, T:0.05
Consensus pattern (8 bp):
AAAAAAAC
Found at i:1657302 original size:20 final size:19
Alignment explanation
Indices: 1657279--1657364 Score: 82
Period size: 20 Copynumber: 4.3 Consensus size: 19
1657269 TCCTTCATAT
1657279 AAAAAAAACAAAAAAAAAA
1 AAAAAAAACAAAAAAAAAA
* *
1657298 GAAAAAAACCAAGAAAAAAA
1 -AAAAAAAACAAAAAAAAAA
*
1657318 ATAAAAAACAAAAAAACAAA
1 AAAAAAAACAAAAAAA-AAA
* *
1657338 ATAATAAAACAATAAACAAACA
1 A-AAAAAAACAA-AAA-AAAAA
1657360 AAAAA
1 AAAAA
1657365 GGGGTCCAGA
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
19 13 0.25
20 21 0.40
21 11 0.21
22 6 0.11
23 2 0.04
ACGTcount: A:0.84, C:0.09, G:0.02, T:0.05
Consensus pattern (19 bp):
AAAAAAAACAAAAAAAAAA
Found at i:1658655 original size:28 final size:28
Alignment explanation
Indices: 1658617--1659094 Score: 424
Period size: 28 Copynumber: 16.7 Consensus size: 28
1658607 AGAACGTTCA
*
1658617 CCTTCTCAAAGCCCACAAGTTAGTGGCAC
1 CCTT-TCAAAGCCCACAAGTTAGTGGCAT
* * * *
1658646 CCTTTCAAAGCCTATAAGTCAATGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * * *
1658674 CCTTTCGAAGCCCATAAGTCAGTGGCAA
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * *
1658702 CCTTTAAAATCCCACAAGTCTA-TAGCA-
1 CCTTTCAAAGCCCACAAGT-TAGTGGCAT
*
1658729 CCTTTTCAAAGCCCACACAAGTCAGTGGCAT
1 CC-TTTCAAAG-CC-CACAAGTTAGTGGCAT
*
1658760 CATTTCAAAGCCCACAAGTTAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
1658788 -CTTTCCAAAGCCCACAAGTTAGTGGCAT
1 CCTTT-CAAAGCCCACAAGTTAGTGGCAT
* *
1658816 CCTTTCAAAGCCCACCAGTTAGTAGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
1658844 CCTTTCAAAGCCCAGAAGTTAGTGACAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* **** *
1658872 CATTTCAAAGCCTTTGAGTCAGTGGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* *
1658900 CCTTCTCAAAGCCCACAGGTCAGTGGCAT
1 CCTT-TCAAAGCCCACAAGTTAGTGGCAT
* * ** *
1658929 CTTTTTCAAAGCCCACAAATCGGTGGCAA
1 C-CTTTCAAAGCCCACAAGTTAGTGGCAT
*
1658958 CCTCTCTCAAAGCCCACAAGTTAGTGTCA-
1 CCT-T-TCAAAGCCCACAAGTTAGTGGCAT
* *
1658987 CCTTTTCAAAGCCTACAAGTTAGTGGCAA
1 CC-TTTCAAAGCCCACAAGTTAGTGGCAT
* * *
1659016 CCTTTCAAAGCCCACAAATCAGTAGCAT
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
* * * *
1659044 CTTTTTAAAGCCCACAAGTCAGTGGCAA
1 CCTTTCAAAGCCCACAAGTTAGTGGCAT
*
1659072 CCCTTCTAAAGGCCACACAAGTT
1 CCTTTC-AAA-GCC-CACAAGTT
1659095 GGTAGCAACC
Statistics
Matches: 365, Mismatches: 67, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
27 5 0.01
28 244 0.67
29 64 0.18
30 44 0.12
31 8 0.02
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (28 bp):
CCTTTCAAAGCCCACAAGTTAGTGGCAT
Found at i:1659904 original size:51 final size:51
Alignment explanation
Indices: 1659828--1659926 Score: 171
Period size: 51 Copynumber: 1.9 Consensus size: 51
1659818 AAAAATCATA
*
1659828 TTTTTACCCAGATGTATCGATACATTCTTCAATGTACCGATGCATTTTGTC
1 TTTTTACCCAGATGTATCGATACATTCTTCAATGTACCGATACATTTTGTC
* *
1659879 TTTTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTTT
1 TTTTTACCCAGATGTATCGATACATTCTTCAATGTACCGATACATTTT
1659927 TCAATGTATC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.25, C:0.19, G:0.12, T:0.43
Consensus pattern (51 bp):
TTTTTACCCAGATGTATCGATACATTCTTCAATGTACCGATACATTTTGTC
Found at i:1659915 original size:20 final size:20
Alignment explanation
Indices: 1659890--1659944 Score: 110
Period size: 20 Copynumber: 2.8 Consensus size: 20
1659880 TTTTACCCAG
1659890 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
1659910 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
1659930 ATGTATCGATACATT
1 ATGTATCGATACATT
1659945 CTGTCTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1659955 original size:71 final size:71
Alignment explanation
Indices: 1659839--1659974 Score: 218
Period size: 71 Copynumber: 1.9 Consensus size: 71
1659829 TTTTACCCAG
* *
1659839 ATGTATCGATACATTCTTCAATGTACCGATGCATTTTGTCTTTTTACCCAGATGTATCGATACAT
1 ATGTATCGATACATTCTTCAATGTACCGATACATTCTGTCTTTTTACCCAGATGTATCGATACAT
1659904 TTTTCA
66 TTTTCA
* * * *
1659910 ATGTATCGATACATTTTTCAATGTATCGATACATTCTGTCTTTTTACCTAGATGTATTGATACAT
1 ATGTATCGATACATTCTTCAATGTACCGATACATTCTGTCTTTTTACCCAGATGTATCGATACAT
1659975 CTAGTTAAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
71 59 1.00
ACGTcount: A:0.26, C:0.18, G:0.12, T:0.43
Consensus pattern (71 bp):
ATGTATCGATACATTCTTCAATGTACCGATACATTCTGTCTTTTTACCCAGATGTATCGATACAT
TTTTCA
Found at i:1663365 original size:56 final size:55
Alignment explanation
Indices: 1663185--1663374 Score: 172
Period size: 56 Copynumber: 3.4 Consensus size: 55
1663175 CTTCAACTTG
*
1663185 TGTG-CAAGCTAGTGTGGGCTTAGACTTAGATGCCAACTAATATGGACTTCGATTCA
1 TGTGCCAA-CTAGTGTGGGCTTAGACTTAGATGCCAACTAATGTGG-CTTCGATTCA
* * * * * ** * * *
1663241 TATGCCAACTACTATGAGCTTTA-A-TGT-GAATGCTAGTTAATGTGGGCTTCAACTCG
1 TGTGCCAACTAGTGTGGGC-TTAGACT-TAG-ATGCCAACTAATGT-GGCTTCGATTCA
* *
1663297 TGTGCTAGCTAGTGTGGGCTTAGACTTAGATGCCAACTAATGTAGGCTTCGATTCA
1 TGTGCCAACTAGTGTGGGCTTAGACTTAGATGCCAACTAATGT-GGCTTCGATTCA
1663353 TGTGCCAACTAGTGTGGGCTTA
1 TGTGCCAACTAGTGTGGGCTTA
1663375 CTTTTGATGA
Statistics
Matches: 100, Mismatches: 26, Indels: 16
0.70 0.18 0.11
Matches are distributed among these distances:
55 5 0.05
56 85 0.85
57 10 0.10
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (55 bp):
TGTGCCAACTAGTGTGGGCTTAGACTTAGATGCCAACTAATGTGGCTTCGATTCA
Found at i:1666024 original size:56 final size:55
Alignment explanation
Indices: 1665844--1666033 Score: 172
Period size: 56 Copynumber: 3.4 Consensus size: 55
1665834 CTTCAACTTG
*
1665844 TGTG-CAAGCTAGTGTGGGCTTAGACTTAGATGCCAACTAATATGGACTTCGATTCA
1 TGTGCCAA-CTAGTGTGGGCTTAGACTTAGATGCCAACTAATGTGG-CTTCGATTCA
* * * * * ** * * *
1665900 TATGCCAACTACTATGAGCTTTA-A-TGT-GAATGCTAGTTAATGTGGGCTTCAACTCG
1 TGTGCCAACTAGTGTGGGC-TTAGACT-TAG-ATGCCAACTAATGT-GGCTTCGATTCA
* *
1665956 TGTGCTAGCTAGTGTGGGCTTAGACTTAGATGCCAACTAATGTAGGCTTCGATTCA
1 TGTGCCAACTAGTGTGGGCTTAGACTTAGATGCCAACTAATGT-GGCTTCGATTCA
1666012 TGTGCCAACTAGTGTGGGCTTA
1 TGTGCCAACTAGTGTGGGCTTA
1666034 CTTTTGATGA
Statistics
Matches: 100, Mismatches: 26, Indels: 16
0.70 0.18 0.11
Matches are distributed among these distances:
55 5 0.05
56 85 0.85
57 10 0.10
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.32
Consensus pattern (55 bp):
TGTGCCAACTAGTGTGGGCTTAGACTTAGATGCCAACTAATGTGGCTTCGATTCA
Found at i:1674647 original size:154 final size:153
Alignment explanation
Indices: 1674435--1674757 Score: 416
Period size: 154 Copynumber: 2.1 Consensus size: 153
1674425 CCCTAAAGGT
* * * * * * * * *
1674435 ATTTTGGTAATTTTTTCTAAAATCGAATCTTAGGTAGTCATTGATTTGCTTTTATGCCAAAGGTA
1 ATTTTGATAATTTTTCCTAAAACCGAAGCCTAAGTAGTCACTGAATCGCTTTTATGCCAAAGGTA
*
1674500 TACATTTAGGAT-TGGTTCATCATTTTATAATCCTTTTGTGTCCTTTAGGGTAGCCAA-AAACTT
66 TACATTTA-GATAT-GTTCATCATTTTATAATCCTTTTGTGTCCTTTAGGGTAACCAAGAAACTT
* * *
1674563 TCAAGTTGAAAGCATACACTTGGGGC
129 TCAAGTCGAAAGCATA-ACTAGGAGC
*
1674589 ATTTTGATAATTTTTCCTAAAACCGAAGCCTAAGTAGTCGCTGAATCGCTTTTATGCCAAAGGTA
1 ATTTTGATAATTTTTCCTAAAACCGAAGCCTAAGTAGTCACTGAATCGCTTTTATGCCAAAGGTA
* * * *
1674654 TACATTTAGATATGTTCATCTTTTTATGATCCTTTTGTGTCCTTTATGGTAACCAAGATACTTTC
66 TACATTTAGATATGTTCATCATTTTATAATCCTTTTGTGTCCTTTAGGGTAACCAAGAAACTTTC
* * *
1674719 ACGTCGAAAGTATATCTAGGAGC
131 AAGTCGAAAGCATAACTAGGAGC
1674742 ATTTTGATAATTTTTC
1 ATTTTGATAATTTTTC
1674758 TTAGAATTAA
Statistics
Matches: 146, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
153 64 0.44
154 82 0.56
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (153 bp):
ATTTTGATAATTTTTCCTAAAACCGAAGCCTAAGTAGTCACTGAATCGCTTTTATGCCAAAGGTA
TACATTTAGATATGTTCATCATTTTATAATCCTTTTGTGTCCTTTAGGGTAACCAAGAAACTTTC
AAGTCGAAAGCATAACTAGGAGC
Found at i:1677833 original size:41 final size:41
Alignment explanation
Indices: 1677760--1677990 Score: 150
Period size: 41 Copynumber: 5.7 Consensus size: 41
1677750 AGCCTCTTGG
***
1677760 CTTTATCGGTTTTGCCCT-GGCCAACATTTCTAATTGGTTGA
1 CTTTATCGGTTTTGCCCTAGG-CAACCCCTCTAATTGGTTGA
* * * * *
1677801 CTTTATCGGGTTTACCCTAGTCAACCCCTCTAACCT-GTTGG
1 CTTTATCGGTTTTGCCCTAGGCAACCCCTCTAA-TTGGTTGA
* * * ** *
1677842 CTTTATCGATTTTG-CGTTGGCCAATTCCTCTAATTGGTTAA
1 CTTTATCGGTTTTGCCCTAGG-CAACCCCTCTAATTGGTTGA
* * * * *
1677883 CTTTATCGATTTTGCCCTTA-TCAACCCCTATAACTT-ATTGG
1 CTTTATCGGTTTTGCCC-TAGGCAACCCCTCTAA-TTGGTTGA
* * * *
1677924 CTTTATTGGTTTTGCCCTGGGCAACTCCTCTACTTGGTTGA
1 CTTTATCGGTTTTGCCCTAGGCAACCCCTCTAATTGGTTGA
**
1677965 -TTTATCGGTTTCACCCTAGGCAACCC
1 CTTTATCGGTTTTGCCCTAGGCAACCC
1677991 TTTTAACCTA
Statistics
Matches: 139, Mismatches: 42, Indels: 19
0.69 0.21 0.09
Matches are distributed among these distances:
40 28 0.20
41 105 0.76
42 5 0.04
43 1 0.01
ACGTcount: A:0.18, C:0.26, G:0.17, T:0.39
Consensus pattern (41 bp):
CTTTATCGGTTTTGCCCTAGGCAACCCCTCTAATTGGTTGA
Found at i:1677907 original size:82 final size:82
Alignment explanation
Indices: 1677756--1678184 Score: 279
Period size: 82 Copynumber: 5.2 Consensus size: 82
1677746 ATTAAGCCTC
*
1677756 TTGGCTTTATCGGTTTTGCCCTGGCCAACATT--TCTAATTGGTTGACTTTATCGGGTTTACCCT
1 TTGGCTTTATCGGTTTTGCCCTGGCC-A-ATTCCTCTAATTGGTTGACTTTATCGAGTTTACCCT
* *
1677819 AGTCAACCCCTCTAACCTG
64 AGTCAACCCCTATAACCTA
* ** * * *
1677838 TTGGCTTTATCGATTTTGCGTTGGCCAATTCCTCTAATTGGTTAACTTTATCGATTTTGCCCTTA
1 TTGGCTTTATCGGTTTTGCCCTGGCCAATTCCTCTAATTGGTTGACTTTATCGAGTTTACCC-TA
*
1677903 -TCAACCCCTATAACTTA
65 GTCAACCCCTATAACCTA
* * * *
1677920 TTGGCTTTATTGGTTTTGCCCTGGGCAACTCCTCTACTTGGTTGA-TTTATCG-GTTTCACCCTA
1 TTGGCTTTATCGGTTTTGCCCTGGCCAATTCCTCTAATTGGTTGACTTTATCGAGTTT-ACCCTA
* * *
1677983 GGCAACCCTTTTAACCTA
65 GTCAACCCCTATAACCTA
* * ** * * * * ** * * *
1678001 TTGACGTTATTAGTTCTACCCTAGCTAAGCCCTTTAATTGGTTGACTTTATCTA-TTTCACCTTA
1 TTGGCTTTATCGGTTTTGCCCTGGCCAATTCCTCTAATTGGTTGACTTTATCGAGTTT-ACCCTA
* * *
1678065 GTC-ACCCCTTCTAACTTG
65 GTCAACCCC-TATAACCTA
* * ** ** * *
1678083 TTAGCTTTATCGATTTCT-CTTTGGCCAACACTTCTAACTT-GTTAACTTTATC-AGTTTTACCC
1 TTGGCTTTATCGGTTT-TGCCCTGGCCAATTCCTCTAA-TTGGTTGACTTTATCGAG-TTTACCC
* *
1678145 TAGTCAACCTTCC--TAACTTG
63 TAGTCAACC--CCTATAACCTA
*
1678165 TTGGCTTTATCGATTTTGCC
1 TTGGCTTTATCGGTTTTGCC
1678185 TAGCCAACCC
Statistics
Matches: 269, Mismatches: 62, Indels: 32
0.74 0.17 0.09
Matches are distributed among these distances:
80 8 0.03
81 63 0.23
82 185 0.69
83 11 0.04
85 2 0.01
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.41
Consensus pattern (82 bp):
TTGGCTTTATCGGTTTTGCCCTGGCCAATTCCTCTAATTGGTTGACTTTATCGAGTTTACCCTAG
TCAACCCCTATAACCTA
Found at i:1678091 original size:41 final size:41
Alignment explanation
Indices: 1678046--1678207 Score: 134
Period size: 41 Copynumber: 4.0 Consensus size: 41
1678036 AATTGGTTGA
* *
1678046 CTTTATCTATTTCACCTTAGTCACCCCTTCTAACTTGTTAG
1 CTTTATCGATTTCACCTTAGCCACCCCTTCTAACTTGTTAG
* * * * * *
1678087 CTTTATCGATTTCTCTTTGGCCAACACTTCTAACTTGTTAA
1 CTTTATCGATTTCACCTTAGCCACCCCTTCTAACTTGTTAG
* * * * *
1678128 CTTTATC-AGTTTTACCCTAGTCA-ACCTTCCTAACTTGTTGG
1 CTTTATCGA-TTTCACCTTAGCCACCCCTT-CTAACTTGTTAG
**
1678169 CTTTATCGATTTTGCC-TAGCCAACCCC-TCTAACTTGTTA
1 CTTTATCGATTTCACCTTAGCC-ACCCCTTCTAACTTGTTA
1678208 ACTCTATTGG
Statistics
Matches: 94, Mismatches: 22, Indels: 11
0.74 0.17 0.09
Matches are distributed among these distances:
40 18 0.19
41 73 0.78
42 3 0.03
ACGTcount: A:0.20, C:0.28, G:0.10, T:0.42
Consensus pattern (41 bp):
CTTTATCGATTTCACCTTAGCCACCCCTTCTAACTTGTTAG
Found at i:1678517 original size:67 final size:66
Alignment explanation
Indices: 1678300--1678527 Score: 217
Period size: 67 Copynumber: 3.4 Consensus size: 66
1678290 ACTCTATAGG
* * * * *
1678300 TTCTACCCTAGTCTCTTTTAGTTGGCTTTATC-AGTTTTACCCTAATCAATACC-CTTTCTACTT
1 TTCTACCCTAGTCTCTTTTAGTTGACTTTATCGA-TTTTACCC-AGTCAACACCTTTTTCGACTT
*
1678363 AGG
64 AGA
* * * * * *
1678366 TTCTGCACTAGTCTCTTTTAGTTGACTTTATCGGTTTCAACCTAGTCAACACTTTTTTCGACTTA
1 TTCTACCCTAGTCTCTTTTAGTTGACTTTATCGATTT-TACCCAGTCAACACCTTTTTCGACTTA
1678431 GA
65 GA
***** *
1678433 TTCCGTTTTAGTATCTTTTAGTTGACTTTATCGATTTTACCCAGGTCAACACCTTTTTCGACTTA
1 TTCTACCCTAGTCTCTTTTAGTTGACTTTATCGATTTTACCCA-GTCAACACCTTTTTCGACTTA
*
1678498 GT
65 GA
* *
1678500 TTATACCCTAGTCTCTTTTAATTGACTT
1 TTCTACCCTAGTCTCTTTTAGTTGACTT
1678528 AATTAGTTTT
Statistics
Matches: 128, Mismatches: 30, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
66 43 0.34
67 85 0.66
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (66 bp):
TTCTACCCTAGTCTCTTTTAGTTGACTTTATCGATTTTACCCAGTCAACACCTTTTTCGACTTAG
A
Found at i:1679089 original size:145 final size:147
Alignment explanation
Indices: 1678887--1679156 Score: 322
Period size: 146 Copynumber: 1.9 Consensus size: 147
1678877 TTTCTTCAAT
* *
1678887 TTTTTCTCGGTTTCAAAATATAAACCTTTCTTTATCTGTAAAATTTTTATAGAA-TTTTCTGGAG
1 TTTTTCTCAGTTTCAAAATATAAACATTTCTTTATCTGTAAAATTTTTATAGAATTTTTCT-GAG
* * * *
1678951 TTTCAAA-CTTTAAAATTCTTTAAATATTTTCATTAAATT-ATCA-TAGAATC-ATTTTTGAAAA
65 TTTAAAATCTTTAAAATTCATCAAATATTTTCATAAAATTCA-CATTA-AATCAATTTTTGAAAA
1679012 ATTCTAACTCATTTTGTAGA
128 ATTCTAACTCATTTTGTAGA
* * * *
1679032 TTTTTCTCATTTTCAAAATATAAA-ATTT-TTTACTCTGT-AAATTTTTCAGTTGGATTTTTCTT
1 TTTTTCTCAGTTTCAAAATATAAACATTTCTTTA-TCTGTAAAATTTTT-A-TAGAATTTTTCTG
* *
1679094 AGTTTAAAATTTTTAAAATTCATCAAATATTTTTATAAAATTCACATTAAATCAATTTTTGAA
63 AGTTTAAAATCTTTAAAATTCATCAAATATTTTCATAAAATTCACATTAAATCAATTTTTGAA
1679157 TTTTTGAATT
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
143 12 0.11
144 9 0.09
145 33 0.31
146 39 0.37
147 12 0.11
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (147 bp):
TTTTTCTCAGTTTCAAAATATAAACATTTCTTTATCTGTAAAATTTTTATAGAATTTTTCTGAGT
TTAAAATCTTTAAAATTCATCAAATATTTTCATAAAATTCACATTAAATCAATTTTTGAAAAATT
CTAACTCATTTTGTAGA
Found at i:1679285 original size:24 final size:25
Alignment explanation
Indices: 1679258--1679313 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
1679248 TTCTAAAAAT
1679258 TTTTATTATAATTGTTA-A-TTTTAA
1 TTTTATTATAATT-TTAGATTTTTAA
* * *
1679282 TTTTCTTTTAATTTTAGATTTTTTA
1 TTTTATTATAATTTTAGATTTTTAA
1679307 TTTTATT
1 TTTTATT
1679314 TTATTTCTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 3 0.12
24 12 0.46
25 11 0.42
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (25 bp):
TTTTATTATAATTTTAGATTTTTAA
Found at i:1681334 original size:20 final size:20
Alignment explanation
Indices: 1681311--1681383 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
1681301 ACAATTCAAA
1681311 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*
1681331 GTATCGATACATGAAAATG--AT
1 GTATCGATACATG---TTGCAAT
1681352 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
1681372 GTATCGATACAT
1 GTATCGATACAT
1681384 AAAAAAAGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
18 2 0.04
20 27 0.59
21 15 0.33
23 2 0.04
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:1681362 original size:41 final size:42
Alignment explanation
Indices: 1681311--1681405 Score: 165
Period size: 41 Copynumber: 2.3 Consensus size: 42
1681301 ACAATTCAAA
* *
1681311 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAATGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1681352 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1681394 GTATCGATACAT
1 GTATCGATACAT
1681406 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
41 32 0.63
42 19 0.37
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.31
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:1681462 original size:13 final size:13
Alignment explanation
Indices: 1681444--1681469 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1681434 TACAGCAAGT
1681444 ATGTATCGATACA
1 ATGTATCGATACA
1681457 ATGTATCGATACA
1 ATGTATCGATACA
1681470 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1682952 original size:22 final size:22
Alignment explanation
Indices: 1682902--1682954 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 22
1682892 AAAAAATAGG
*
1682902 AATTATTGATATGATTTTGTTGTT
1 AATT-TTGATATGA-TTTGGTGTT
1682926 AATTTTGATATG-TTTGGTGCTT
1 AATTTTGATATGATTTGGTG-TT
1682948 AATTTTG
1 AATTTTG
1682955 TATTTTAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
21 6 0.22
22 9 0.33
23 8 0.30
24 4 0.15
ACGTcount: A:0.23, C:0.02, G:0.19, T:0.57
Consensus pattern (22 bp):
AATTTTGATATGATTTGGTGTT
Found at i:1686348 original size:21 final size:21
Alignment explanation
Indices: 1686319--1686386 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
1686309 TAATATTTTG
* *
1686319 TATTTTTAAATATATTATTTT
1 TATTATTAAATATATTAATTT
1686340 TATTATT-AAT-T-TTAATTT
1 TATTATTAAATATATTAATTT
*
1686358 TATCATTATAATA-ATTAATTT
1 TATTATTA-AATATATTAATTT
*
1686379 TATAATTA
1 TATTATTA
1686387 TCATTACTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
18 12 0.31
19 1 0.03
20 6 0.15
21 20 0.51
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATTAAATATATTAATTT
Found at i:1686770 original size:6 final size:6
Alignment explanation
Indices: 1686744--1686788 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
1686734 ATGGATCCAA
** *
1686744 TAAATT TAAACC TAAATTT TAAATT TAAATT TAAATT TAATTT TA
1 TAAATT TAAATT TAAA-TT TAAATT TAAATT TAAATT TAAATT TA
1686789 TTTGACAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
6 29 0.88
7 4 0.12
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (6 bp):
TAAATT
Found at i:1686859 original size:6 final size:6
Alignment explanation
Indices: 1686837--1686877 Score: 64
Period size: 6 Copynumber: 6.7 Consensus size: 6
1686827 TATTGAAAAA
*
1686837 ATATTAT ATATTA ATATTT ATATTT ATATTT ATATTT ATAT
1 ATATT-T ATATTT ATATTT ATATTT ATATTT ATATTT ATAT
1686878 ACTATAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
6 27 0.84
7 5 0.16
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (6 bp):
ATATTT
Found at i:1686883 original size:25 final size:24
Alignment explanation
Indices: 1686837--1686892 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
1686827 TATTGAAAAA
* *
1686837 ATATTATATATTAATATTTATATTT
1 ATATT-TATATTAATATCTATAATT
*
1686862 ATATTTATATTTATATACTATAATT
1 ATATTTATATTAATAT-CTATAATT
*
1686887 AAATTT
1 ATATTT
1686893 TTTTAAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 10 0.38
25 16 0.62
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
ATATTTATATTAATATCTATAATT
Found at i:1690808 original size:2 final size:2
Alignment explanation
Indices: 1690801--1690832 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
1690791 ATACATTGAG
1690801 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1690833 TCATCATCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1693124 original size:25 final size:25
Alignment explanation
Indices: 1693055--1693135 Score: 74
Period size: 27 Copynumber: 3.1 Consensus size: 25
1693045 TAATGATAAA
* *
1693055 AATATAATTTTAAATTAAATTTTATT
1 AATATAAATTT-AATTATATTTTATT
* *
1693081 AA-ATAATAATTTATTTTATATCTTATT
1 AATAT-A-AATTTA-ATTATATTTTATT
*
1693108 AATATAAATTTAATTATATTTTGTT
1 AATATAAATTTAATTATATTTTATT
1693133 AAT
1 AAT
1693136 TATGATAATT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
25 15 0.34
26 10 0.23
27 17 0.39
28 2 0.05
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (25 bp):
AATATAAATTTAATTATATTTTATT
Found at i:1693199 original size:14 final size:14
Alignment explanation
Indices: 1693182--1693211 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1693172 CATAATACAA
*
1693182 ATAAACTTTAATTT
1 ATAAACTTCAATTT
1693196 ATAAACTTCAATTT
1 ATAAACTTCAATTT
1693210 AT
1 AT
1693212 TTATATGCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.43, C:0.10, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAAACTTCAATTT
Found at i:1693466 original size:18 final size:16
Alignment explanation
Indices: 1693447--1693477 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1693437 ATGTATAGAT
1693447 TATT-TTTAAAAAATA
1 TATTATTTAAAAAATA
1693462 TATTATTTAAAAAATA
1 TATTATTTAAAAAATA
1693478 AAATAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TATTATTTAAAAAATA
Found at i:1693760 original size:18 final size:21
Alignment explanation
Indices: 1693737--1693776 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1693727 TTAGTTTTAG
1693737 TTTGAA-T-AATA-TTAAATA
1 TTTGAATTCAATATTTAAATA
1693755 TTTGAATTCAATATTTAAATA
1 TTTGAATTCAATATTTAAATA
1693776 T
1 T
1693777 AATTTTTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 1 0.05
20 4 0.21
21 8 0.42
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (21 bp):
TTTGAATTCAATATTTAAATA
Found at i:1694081 original size:17 final size:16
Alignment explanation
Indices: 1694040--1694097 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
1694030 ATAATATGAT
1694040 AAAAAAACTTAAAACTA
1 AAAAAAAC-TAAAACTA
*
1694057 TATAAAAACTAAAACTA
1 -AAAAAAACTAAAACTA
* *
1694074 AAAGAAAAATAAAAGTA
1 AAA-AAAACTAAAACTA
1694091 AAAAAAA
1 AAAAAAA
1694098 AAACTCAATC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
16 6 0.17
17 22 0.63
18 7 0.20
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.16
Consensus pattern (16 bp):
AAAAAAACTAAAACTA
Found at i:1694669 original size:123 final size:123
Alignment explanation
Indices: 1694533--1694782 Score: 410
Period size: 123 Copynumber: 2.0 Consensus size: 123
1694523 ATAAACAACG
* * **
1694533 GAAAGCTTGAGACTTTAGAAATAATTTAAAATAATTGTTGTTTTCTTAAAATTTTTCAATACATT
1 GAAAGCTTGAGACTTTAGAAATAATTTAAAATAATTGTCGTTTGCTTAAAAAATTTCAATACATT
* *
1694598 AATTTAAAGTATGATCTATGAAAAAATATTTGAAATAATAAAAATTTTAAATTTGTAA
66 AATTTAAAGTATGATCTATGAAAAAATATTTAAAATAATAAAAATTTTAAATTTATAA
* *
1694656 GAAAGCTTGAGACTTTAGAAATAATTTAATATAATTGTCGTTTGCTTAAAAAATTTCAATGCATT
1 GAAAGCTTGAGACTTTAGAAATAATTTAAAATAATTGTCGTTTGCTTAAAAAATTTCAATACATT
* *
1694721 AATTTGAAGTATGATCTATGAAAAAGTATTTAAAATAATAAAAATTTTAAATTTATAA
66 AATTTAAAGTATGATCTATGAAAAAATATTTAAAATAATAAAAATTTTAAATTTATAA
1694779 GAAA
1 GAAA
1694783 ATTTAATTAC
Statistics
Matches: 117, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
123 117 1.00
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (123 bp):
GAAAGCTTGAGACTTTAGAAATAATTTAAAATAATTGTCGTTTGCTTAAAAAATTTCAATACATT
AATTTAAAGTATGATCTATGAAAAAATATTTAAAATAATAAAAATTTTAAATTTATAA
Found at i:1696495 original size:20 final size:20
Alignment explanation
Indices: 1696470--1696513 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
1696460 GAAGAGATGA
1696470 TTTAGTCACATCTTTGGACG
1 TTTAGTCACATCTTTGGACG
1696490 TTTAGTCACATCTTTGGACG
1 TTTAGTCACATCTTTGGACG
1696510 TTTA
1 TTTA
1696514 AGCCTAAGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.18, G:0.18, T:0.43
Consensus pattern (20 bp):
TTTAGTCACATCTTTGGACG
Found at i:1697415 original size:21 final size:21
Alignment explanation
Indices: 1697359--1697415 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
1697349 GTCTTAAAGG
* *
1697359 TTTTTATTTATATTTAATTAA
1 TTTTTATTTATTTTTAAATAA
** * *
1697380 TTTTTAGCTACTTTTAAATCA
1 TTTTTATTTATTTTTAAATAA
1697401 TTTTTATTTATTTTT
1 TTTTTATTTATTTTT
1697416 TTATATTTAA
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTTATTTATTTTTAAATAA
Found at i:1701235 original size:16 final size:16
Alignment explanation
Indices: 1701214--1701247 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1701204 AAAAATTATT
*
1701214 TACATATTAATATTTA
1 TACATATTAATAATTA
*
1701230 TACATATTTATAATTA
1 TACATATTAATAATTA
1701246 TA
1 TA
1701248 TTTAAATAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (16 bp):
TACATATTAATAATTA
Found at i:1702804 original size:14 final size:14
Alignment explanation
Indices: 1702785--1702813 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1702775 TTCATGTAAA
1702785 ATGATACACTAAGC
1 ATGATACACTAAGC
1702799 ATGATACACTAAGC
1 ATGATACACTAAGC
1702813 A
1 A
1702814 GGCAAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.45, C:0.21, G:0.14, T:0.21
Consensus pattern (14 bp):
ATGATACACTAAGC
Found at i:1705719 original size:2 final size:2
Alignment explanation
Indices: 1705712--1705741 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
1705702 AATAGGCTGA
*
1705712 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1705742 GTAATCCTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1706749 original size:2 final size:2
Alignment explanation
Indices: 1706742--1706772 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1706732 TTTAGAAGAC
1706742 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
1706773 AAGGAGTCGA
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:1713925 original size:2 final size:2
Alignment explanation
Indices: 1713914--1714015 Score: 60
Period size: 2 Copynumber: 55.5 Consensus size: 2
1713904 TATTTTTAAT
* * *
1713914 TA TA TA -A TA TA TA TT TA T- TT TA TA TT TA TA TA T- 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
* * * * *
1713953 -A TT TT TA T- TA TA T- TA AA AA TA AA 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
*
1713992 TA TA TA -A TA T- TA TA -A TA TA AA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1714016 TAAATAATTT
Statistics
Matches: 78, Mismatches: 13, Indels: 18
0.72 0.12 0.17
Matches are distributed among these distances:
1 9 0.12
2 69 0.88
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1713950 original size:26 final size:27
Alignment explanation
Indices: 1713900--1713966 Score: 86
Period size: 26 Copynumber: 2.6 Consensus size: 27
1713890 ACTCCAATTC
*
1713900 AATTTATTTT-TAATTATATAATATAT
1 AATTTATTTTATATTTATATAATATAT
*
1713926 -ATTTATTTTATATTTATATATTATAT
1 AATTTATTTTATATTTATATAATATAT
1713952 AATTT-TTATTATATT
1 AATTTATT-TTATATT
1713967 AAAAATAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
25 9 0.25
26 16 0.44
27 11 0.31
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (27 bp):
AATTTATTTTATATTTATATAATATAT
Found at i:1722451 original size:23 final size:23
Alignment explanation
Indices: 1722425--1722469 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1722415 CATCTCAATC
1722425 TCTTCAAGA-ATTATAC-CTCAAGT
1 TCTT-AAGAGATTA-ACACTCAAGT
1722448 TCTTAAGAGATTAACACTCAAG
1 TCTTAAGAGATTAACACTCAAG
1722470 GTTGAACACA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (23 bp):
TCTTAAGAGATTAACACTCAAGT
Found at i:1722914 original size:33 final size:33
Alignment explanation
Indices: 1722872--1722940 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
1722862 TAGTTAGAAG
*
1722872 CAATGTATCGATACAAT-TCATCATATATCGATA
1 CAATGTATCGATACAATGT-ACCATATATCGATA
*
1722905 CAATGTATCGATACAATGTACCATGTATCGATA
1 CAATGTATCGATACAATGTACCATATATCGATA
1722938 CAA
1 CAA
1722941 ACAGTGGTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (33 bp):
CAATGTATCGATACAATGTACCATATATCGATA
Found at i:1722915 original size:13 final size:13
Alignment explanation
Indices: 1722897--1722924 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1722887 ATTCATCATA
1722897 TATCGATACAATG
1 TATCGATACAATG
1722910 TATCGATACAATG
1 TATCGATACAATG
1722923 TA
1 TA
1722925 CCATGTATCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:1722992 original size:20 final size:19
Alignment explanation
Indices: 1722969--1723022 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
1722959 CTGCTAGTTT
***
1722969 CATGTATCGATACAATTGCC
1 CATGTATCGATACAA-TAAA
*
1722989 CATGTATCTATACAATAAA
1 CATGTATCGATACAATAAA
1723008 CATGTATCGATACAA
1 CATGTATCGATACAA
1723023 AGCATAATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.39, C:0.20, G:0.11, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATAAA
Found at i:1725532 original size:13 final size:13
Alignment explanation
Indices: 1725514--1725553 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
1725504 ATAGTAACCC
1725514 ATGTATCGATACA
1 ATGTATCGATACA
1725527 ATGTATCGATACA
1 ATGTATCGATACA
*
1725540 ATGTATTGATACA
1 ATGTATCGATACA
1725553 A
1 A
1725554 GGAATATTGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.40, C:0.12, G:0.15, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1729375 original size:9 final size:9
Alignment explanation
Indices: 1729361--1729394 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
1729351 TCCGAGTCAC
1729361 CATCATTAT
1 CATCATTAT
1729370 CATCATTAT
1 CATCATTAT
*
1729379 CATCTTTAT
1 CATCATTAT
1729388 CATCATT
1 CATCATT
1729395 GATGGTTGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.47
Consensus pattern (9 bp):
CATCATTAT
Found at i:1731051 original size:19 final size:19
Alignment explanation
Indices: 1731007--1731079 Score: 85
Period size: 20 Copynumber: 3.7 Consensus size: 19
1730997 CTGCCAGTTT
**
1731007 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
1731027 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
1731046 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAATG-A-A
1731067 -ATGTATCGATACA
1 CATGTATCGATACA
1731080 TCTGTGTCTG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 18 0.38
20 29 0.60
21 1 0.02
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:1731430 original size:31 final size:31
Alignment explanation
Indices: 1731368--1731467 Score: 101
Period size: 32 Copynumber: 3.2 Consensus size: 31
1731358 GATCCTAACA
* ***
1731368 AACTCGTGTGGGCTTTAGAGAACATTGCCACC
1 AACTTGTGTGGGCTTTAGA-AGGGTTGCCACC
1731400 AACTTGTGTGGGCTTTAGAAGGGTTGCCACC
1 AACTTGTGTGGGCTTTAGAAGGGTTGCCACC
* * * *
1731431 GACCTGTGTAGGTTTTAGAAGAGGTTGCCACC
1 AACTTGTGTGGGCTTTAGAAG-GGTTGCCACC
*
1731463 GACTT
1 AACTT
1731468 ATGGGCTTTG
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
31 26 0.45
32 32 0.55
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (31 bp):
AACTTGTGTGGGCTTTAGAAGGGTTGCCACC
Found at i:1731462 original size:32 final size:31
Alignment explanation
Indices: 1731392--1731465 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
1731382 TTAGAGAACA
* * *
1731392 TTGCCACCAACTTGTGTGGGCTTTAGAAGGG
1 TTGCCACCGACCTGTGTAGGCTTTAGAAGGG
*
1731423 TTGCCACCGACCTGTGTAGGTTTTAGAAGAGG
1 TTGCCACCGACCTGTGTAGGCTTTAGAAG-GG
1731455 TTGCCACCGAC
1 TTGCCACCGAC
1731466 TTATGGGCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
31 25 0.66
32 13 0.34
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (31 bp):
TTGCCACCGACCTGTGTAGGCTTTAGAAGGG
Found at i:1731494 original size:28 final size:28
Alignment explanation
Indices: 1731456--1731932 Score: 463
Period size: 28 Copynumber: 17.1 Consensus size: 28
1731446 TAGAAGAGGT
* *
1731456 TGCCACCGACTTATGGGCTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
1731484 TGCCATTGACTTATGGGTTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGG
*
1731512 TGCCACTAACTTGTGGGCTTTG-AAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGG
* *
1731539 ATGCCACTAACTTGT-GGCTTTGAAAAGA
1 -TGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
1731567 TGCCACTAACTTGCGGGCTTTGAAAATG
1 TGCCACTGACTTGTGGGCTTTGAAAAGG
*
1731595 TGCCACTGACTTGTGAGCTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
1731623 TACTACTGGCTTGTGGGCTTTGAAAA-G
1 TGCCACTGACTTGTGGGCTTTGAAAAGG
*
1731650 TGCCACTGGCTTGTGGGCTTTG-AAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGG
*
1731677 TGCCA-TTAGCTTGTGGG-TTCTG-AAAGG
1 TGCCACTGA-CTTGTGGGCTT-TGAAAAGG
* *
1731704 ATGCCACTAACTTGTGGGCTCTG-AAAGG
1 -TGCCACTGACTTGTGGGCTTTGAAAAGG
*
1731732 ATGCCACTGACTTGTGGGCCTTG-AAAGG
1 -TGCCACTGACTTGTGGGCTTTGAAAAGG
* ** **
1731760 ATACCACAAACTTGTGGGCCCT-AAAAGG
1 -TGCCACTGACTTGTGGGCTTTGAAAAGG
* *
1731788 ATGCCACTGACTTATGGGCTTTGAAAGGG
1 -TGCCACTGACTTGTGGGCTTTGAAAAGG
1731817 TGCCACTGACTTGTGGGCTTTG-AAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGG
* *
1731844 CTGCTATTGACTTGTGGGCTTTGAAAAGG
1 -TGCCACTGACTTGTGGGCTTTGAAAAGG
* * *
1731873 TGCCATTGATTTATGGGCTTTGAAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAA-GG
** * *
1731902 ATGCCTTTGACTCGAGGGCTTTGAAAAGG
1 -TGCCACTGACTTGTGGGCTTTGAAAAGG
1731931 TG
1 TG
1731933 TCATATTGAC
Statistics
Matches: 383, Mismatches: 51, Indels: 30
0.83 0.11 0.06
Matches are distributed among these distances:
26 6 0.02
27 71 0.19
28 268 0.70
29 17 0.04
30 21 0.05
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGG
Found at i:1745037 original size:10 final size:10
Alignment explanation
Indices: 1745012--1745043 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
1745002 AGAGTCGTTC
1745012 TAAAAATATT
1 TAAAAATATT
1745022 TCAAAAATATT
1 T-AAAAATATT
1745033 TAAAAATATT
1 TAAAAATATT
1745043 T
1 T
1745044 TTCCTTGAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (10 bp):
TAAAAATATT
Found at i:1746953 original size:50 final size:51
Alignment explanation
Indices: 1746876--1747021 Score: 222
Period size: 50 Copynumber: 2.9 Consensus size: 51
1746866 TTTTAACTAG
** *
1746876 ATGTATCGATACATTGCAAAATGTATCGATACATCTAGGTAAAAAGACAGA
1 ATGTATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAAAGACAGA
* *
1746927 ATGTATCGATATATT-AAAAATGTATCGATACATCTGGGTAAAAGGACAGA
1 ATGTATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAAAGACAGA
* *
1746977 ATATATCGATACATTAAAAAATGTATCAATACATCTGGGTAAAAA
1 ATGTATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAAA
1747022 TGTGACTTTT
Statistics
Matches: 86, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
50 45 0.52
51 41 0.48
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (51 bp):
ATGTATCGATACATTAAAAAATGTATCGATACATCTGGGTAAAAAGACAGA
Found at i:1747631 original size:11 final size:12
Alignment explanation
Indices: 1747609--1747635 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1747599 CAAAAGGTTT
1747609 AAAAAGGAAAAA
1 AAAAAGGAAAAA
1747621 AAAAAGGAAAAA
1 AAAAAGGAAAAA
1747633 AAA
1 AAA
1747636 TTCTTGGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (12 bp):
AAAAAGGAAAAA
Found at i:1749337 original size:50 final size:49
Alignment explanation
Indices: 1749280--1749448 Score: 151
Period size: 50 Copynumber: 3.6 Consensus size: 49
1749270 ATTTTTACTC
1749280 AGATGTATCGATACATTTTTCAAAGTATTGATACATTCTGTCTTTAACCT
1 AGATGTATCGATACATTTTTCAAAGTATTGATACATTCTGTCTTTAA-CT
* * * *
1749330 AGATGTATCGATATATTTTTCAATA-TATCGATACA---TGT-ATGAA-T
1 AGATGTATCGATACATTTTTCAA-AGTATTGATACATTCTGTCTTTAACT
* * *
1749374 -G-TG--TCGATACATTTTTCAATGTATTGATACATTCTATCTTTTTATCT
1 AGATGTATCGATACATTTTTCAAAGTATTGATACATTCTGTC--TTTAACT
* *
1749421 AGATGTATTGATACATTTTTCAATGTAT
1 AGATGTATCGATACATTTTTCAAAGTAT
1749449 CGATTCATCT
Statistics
Matches: 94, Mismatches: 12, Indels: 25
0.72 0.09 0.19
Matches are distributed among these distances:
40 24 0.26
42 2 0.02
43 3 0.03
44 1 0.01
46 5 0.05
47 4 0.04
48 1 0.01
49 2 0.02
50 31 0.33
51 21 0.22
ACGTcount: A:0.30, C:0.12, G:0.12, T:0.45
Consensus pattern (49 bp):
AGATGTATCGATACATTTTTCAAAGTATTGATACATTCTGTCTTTAACT
Found at i:1749394 original size:20 final size:20
Alignment explanation
Indices: 1749332--1749406 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1749322 TTTAACCTAG
*
1749332 ATGTATCGATATATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
1749352 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
1749372 ATGTGTCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
*
1749392 ATGTATTGATACATT
1 ATGTATCGATACATT
1749407 CTATCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1756690 original size:13 final size:13
Alignment explanation
Indices: 1756672--1756697 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1756662 TACAGCAAGT
1756672 ATGTATCGATACA
1 ATGTATCGATACA
1756685 ATGTATCGATACA
1 ATGTATCGATACA
1756698 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1758066 original size:21 final size:21
Alignment explanation
Indices: 1758042--1758083 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1758032 GTGAATGAAG
1758042 ACGCTAAAGATGTAAAAGCAT
1 ACGCTAAAGATGTAAAAGCAT
1758063 ACGCTAAAGATGTAAAAGCAT
1 ACGCTAAAGATGTAAAAGCAT
1758084 TTGTGCCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (21 bp):
ACGCTAAAGATGTAAAAGCAT
Found at i:1761199 original size:49 final size:49
Alignment explanation
Indices: 1761076--1762154 Score: 971
Period size: 49 Copynumber: 22.9 Consensus size: 49
1761066 ATGAGAAGAA
* * * **
1761076 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATT-GGACTTAAAGAT---GAAGG
*
1761129 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
1761178 TGCCAATATGCTGATTAAAGGCCAGCGACATTGGACTTAAAGATGACGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT---GAAGG
* * * *
1761230 CGCCAATATACTGATTCAAGGCCAGCAATATTGGACTTAAAGATTAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
1761279 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT---GAAGG
* * *
1761331 CGCCAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
1761380 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT---GAAGG
* *
1761432 CGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
1761481 TGCCAATGTGCTGATTGAAGGCCAGCGACATTGGACTTAAAGATGACGAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT---GAAGG
* *
1761533 CGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGATG-AGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * *
1761581 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
** *
1761629 TGCCAATATGCTGATTCAAGGCCAGAAATATTGGGCTT--A-A--AA-G
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
1761672 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGGC-T-----T--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * * *
1761711 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAGGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* ** *
1761759 TGCTAATATGCTGATTCAAGGCCAGTAATATTGGGC-T-----T--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
1761798 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
1761846 TGCCAATATGCTGATTCAAGGCTAGCAATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* *
1761889 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGGC-T-----T--A--
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
** * * *
1761928 TGCCAACGTGTTGATTCAAGGCTAGTGATATTGGACTT----A--AAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * **
1761971 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
** *
1762020 CACCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----TCAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
* * * *
1762063 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGG
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
1762111 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAAGA
1 TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGA
1762155 AGATGCCACC
Statistics
Matches: 863, Mismatches: 109, Indels: 112
0.80 0.10 0.10
Matches are distributed among these distances:
39 91 0.11
40 4 0.00
41 3 0.00
42 2 0.00
43 141 0.16
44 4 0.00
45 1 0.00
46 3 0.00
47 2 0.00
48 183 0.21
49 216 0.25
52 185 0.21
53 28 0.03
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (49 bp):
TGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
Found at i:1761245 original size:101 final size:101
Alignment explanation
Indices: 1761076--1761697 Score: 1005
Period size: 101 Copynumber: 6.3 Consensus size: 101
1761066 ATGAGAAGAA
* **
1761076 TGCCAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGCCAATATGCT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGACGAAGGCGCCAATATGCT
*
1761141 GATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGG
65 GATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGG
* * *
1761178 TGCCAATATGCTGATTAAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATACTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
*
1761243 ATTCAAGGCCAGCAATATTGGACTTAAAGATTAAGG
66 ATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGG
*
1761279 TGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
*
1761344 ATTCAAGGCCAGCAATATTAGACTTAAAGATGAAGG
66 ATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGG
1761380 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
1761445 ATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGG
66 ATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGG
*
1761481 TGCCAATGTGCTGATTGAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
* *
1761546 ATTCAAGGCCAGCGATATTGGACTTAGAGATG-AGG
66 ATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGG
*
1761581 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AA-A-GAC-AAGGTGCCAATATGCTG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
* *
1761642 ATTCAAGGCCAGAAATATTGGGCTT--A-A--AA-G
66 ATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGG
*
1761672 TGCCAATATGCTGATTCAAGGCCAGC
1 TGCCAATGTGCTGATTCAAGGCCAGC
1761698 AATATTGGGC
Statistics
Matches: 494, Mismatches: 25, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
91 26 0.05
92 1 0.00
93 1 0.00
94 1 0.00
96 38 0.08
97 3 0.01
98 1 0.00
99 2 0.00
100 40 0.08
101 352 0.71
102 29 0.06
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.23
Consensus pattern (101 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTG
ATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGG
Found at i:1761251 original size:52 final size:52
Alignment explanation
Indices: 1761026--1761653 Score: 767
Period size: 52 Copynumber: 12.4 Consensus size: 52
1761016 AAAAGGATGT
* * * * * * *
1761026 CAATGTGCTAATTCATGGTCAGCGACATTTAGACTTGAAGATGA-GAAGAATGC
1 CAATATGCTGATTCAAGGCCAGCGACA-TTGGACTTAAAGATGACGAAG-GTGC
* * ** *
1761079 CAATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGATGACGAAGGTGC
*
1761132 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT---GAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGTGC
* *
1761181 CAATATGCTGATTAAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGTGC
* * * *
1761233 CAATATACTGATTCAAGGCCAGCAATATTGGACTTAAAGAT---TAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGTGC
* * *
1761282 CAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAAGATGACGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGTGC
* * *
1761334 CAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAGAT---GAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGTGC
* *
1761383 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGTGC
* *
1761435 CAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGAT---GAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGTGC
* * *
1761484 CAATGTGCTGATTGAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGTGC
* *
1761536 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT--AGA-GATG-AGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGTGC
*
1761584 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AA-A-GAC-AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGTGC
1761632 CAATATGCTGATTCAAGGCCAG
1 CAATATGCTGATTCAAGGCCAG
1761654 AAATATTGGG
Statistics
Matches: 498, Mismatches: 61, Indels: 37
0.84 0.10 0.06
Matches are distributed among these distances:
48 68 0.14
49 180 0.36
50 3 0.01
52 182 0.37
53 61 0.12
54 4 0.01
ACGTcount: A:0.33, C:0.18, G:0.26, T:0.23
Consensus pattern (52 bp):
CAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGTGC
Found at i:1761797 original size:87 final size:89
Alignment explanation
Indices: 1761628--1762149 Score: 630
Period size: 87 Copynumber: 6.0 Consensus size: 89
1761618 TAAAGACAAG
* ** * *
1761628 GTGCCAATATGCTGATTCAAGGCCAGAAATATTGGGCTT--A-A-AA-GTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
1761688 CAAGGCCAGCAATATTGGGCTT-A
66 CAAGGCCAGCAATATTGGACTTAA
* *
1761711 -TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAGGACAAGGTGCTAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
* *
1761775 CAAGGCCAGTAATATTGGGCTT-A
66 CAAGGCCAGCAATATTGGACTTAA
1761798 -TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
*
1761862 CAAGGCTAGCAATATTGGACTTAAA
66 CAAGGCCAGCAATATTGGACTT-AA
* * * * ** *
1761887 GGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTT-------A--TGCCAACGTGTTGAT
1 -GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGAT
* **
1761943 TCAAGGCTAGTGATATTGGACTTAAA
65 TCAAGGCCAGCAATATTGGACTT-AA
**
1761969 GGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGCACCAATATGCTGA
1 -GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAC-AAGGTGCCAATATGCTGA
*
1762034 TTCAAGGCCAGCGATATTGGACTTCAA
64 TTCAAGGCCAGCAATATTGGACTT-AA
1762061 GGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGAT
1 -GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGAT
*
1762126 TCAAGGCCAGCGATATTGGACTTA
65 TCAAGGCCAGCAATATTGGACTTA
1762150 GAAGAAGATG
Statistics
Matches: 384, Mismatches: 36, Indels: 31
0.85 0.08 0.07
Matches are distributed among these distances:
82 105 0.27
84 1 0.00
85 1 0.00
86 2 0.01
87 119 0.31
89 1 0.00
90 2 0.01
91 74 0.19
92 79 0.21
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (89 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCAATATTGGACTTAA
Found at i:1761875 original size:22 final size:22
Alignment explanation
Indices: 1761849--1761919 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
1761839 GACAAGGTGC
1761849 CAATATGCTGATTCAAGGCTAG
1 CAATATGCTGATTCAAGGCTAG
*
1761871 CAATAT--TGGACTTAAAGG-T-G
1 CAATATGCT-GA-TTCAAGGCTAG
*
1761891 CCAATATGCTGATTCAAGGCCAG
1 -CAATATGCTGATTCAAGGCTAG
1761914 CAATAT
1 CAATAT
1761920 TGGGCTTATG
Statistics
Matches: 39, Mismatches: 3, Indels: 14
0.70 0.05 0.25
Matches are distributed among these distances:
20 2 0.05
21 15 0.38
22 20 0.51
23 2 0.05
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (22 bp):
CAATATGCTGATTCAAGGCTAG
Found at i:1761909 original size:21 final size:21
Alignment explanation
Indices: 1761841--1761909 Score: 72
Period size: 21 Copynumber: 3.2 Consensus size: 21
1761831 GTCTTAAAGA
1761841 CAAGGTGCCAATATGCTGATT
1 CAAGGTGCCAATATGCTGATT
1761862 CAAGGCTAG-CAATAT--TGGACTT
1 CAAGG-T-GCCAATATGCT-GA-TT
*
1761884 AAAGGTGCCAATATGCTGATT
1 CAAGGTGCCAATATGCTGATT
1761905 CAAGG
1 CAAGG
1761910 CCAGCAATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
20 2 0.05
21 20 0.51
22 15 0.38
23 2 0.05
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (21 bp):
CAAGGTGCCAATATGCTGATT
Found at i:1761921 original size:217 final size:220
Alignment explanation
Indices: 1761332--1762149 Score: 811
Period size: 217 Copynumber: 3.6 Consensus size: 220
1761322 TGACGAAGGC
* * * * *
1761332 GCCAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAGATGAAGGTGCCAATGTGCTGATTC
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGA-CAAGGTGCCAATATGCTGATTC
* *
1761397 AAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTGATTCAAGGCCAGCAATA
65 AAGGCCAGCAACATTGGACTT----A--AC-AAGGTGCCAATATGCTGATTCAAGGCCAGCAATA
*
1761462 TTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTGAAGGCCAGCGACATTGGACTTAAAGATGA
123 TTGGAC-T-----T--A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT-AAG--GA
*
1761527 CGAAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGATGAGGT
175 C-AAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--A--T
*
1761582 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTGCCAATATGCTGATTCA
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTGCCAATATGCTGATTCA
* * * *
1761647 AGGCCAGAAATATTGGGCTTAA-AA-GTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTT
66 AGGCCAGCAACATTGGACTTAACAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT
* *
1761710 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAGGACAAGGTGCTAATATGCTGATT
131 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGGACAAGGTGCCAATATGCTGATT
** *
1761775 CAAGGCCAGTAATATTGGGCTT-AT
196 CAAGGCCAGCGATATTGGACTTAAT
* *
1761799 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCA
1 GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTGCCAATATGCTGATTCA
* * *
1761864 AGGCTAGCAATATTGGACTT-A-AAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTT
66 AGGCCAGCAACATTGGACTTAACAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT
* * * * * *
1761927 ATGCCAACGTGTTGATTCAAGGCTAGTGATATTGGACTT----A-AAGGTGCCAATGTGCTGATT
131 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGGACAAGGTGCCAATATGCTGATT
* * *
1761987 CAAGGCCAGCGACATTGGTCTTAAAGACAAAG
196 CAAGGCCAGCGATATTGGACTT-------AAT
* *
1762019 GCACCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-----CAAGGTGCCAATGTGCTGATT
1 G--CCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTGCCAATATGCTGATT
* * *
1762079 CAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
64 CAAGGCCAGCAACATTGGACTT--A-ACAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTG
1762144 GACTTA
126 GACTTA
1762150 GAAGAAGATG
Statistics
Matches: 506, Mismatches: 46, Indels: 60
0.83 0.08 0.10
Matches are distributed among these distances:
212 36 0.07
213 1 0.00
216 3 0.01
217 192 0.38
219 1 0.00
220 2 0.00
221 1 0.00
222 74 0.15
226 37 0.07
227 3 0.01
229 3 0.01
230 36 0.07
232 1 0.00
234 1 0.00
239 1 0.00
240 35 0.07
241 2 0.00
243 1 0.00
245 1 0.00
249 37 0.07
250 38 0.08
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.25
Consensus pattern (220 bp):
GCCAATATGCTGATTCAAGGCCAGCGACATTGGACTTAAAGACAAGGTGCCAATATGCTGATTCA
AGGCCAGCAACATTGGACTTAACAAGGTGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT
ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAGGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGACTTAAT
Found at i:1762087 original size:265 final size:266
Alignment explanation
Indices: 1761125--1762149 Score: 945
Period size: 265 Copynumber: 3.7 Consensus size: 266
1761115 AAAGATGACG
* * * * *
1761125 AAGGCGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATATGCT
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCT
* * * * *
1761190 GATTAAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATACTGATTCAAGGCCAG
65 GATTCAAGGCCAGCGATATTGGAC-T-----T--C-AAGGTGCCAATGTGCTGATTCAAGGCCAG
* * * * * * *
1761255 CAATATTGGACTTAAAGATTAAGGTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGACTTAAA
121 CGACATTGGTCTTAAAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T---
* * * *
1761320 GATGACGAAGGCGCCAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAGATGAAGGTGCCA
181 --T-AC-AAGGTGCCAATATGCTGATTCAAGGCCAGAAATATTGGGC-T-----T-AA-GTGCCA
** * *
1761385 ATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT
234 ACATGCTGATTCAAGGCCAGCAATATTGGAC-T-----T
* * * * * * *
1761424 GACGAAGGCGCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGGTGCCAATG
1 ----AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGA-CAAGGTGCCAATA
* * * *
1761489 TGCTGATTGAAGGCCAGCGACATTGGACTTAAAGATGACGAAGGCGCCAATATGCTGATTCAAGG
61 TGCTGATTCAAGGCCAGCGATATTGGAC-T-----T--C-AAGGTGCCAATGTGCTGATTCAAGG
* * * ** * *
1761554 CCAGCGATATTGGACTTAGAGATGAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTT
117 CCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
*
1761619 AAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGAAATATTGGGCTTAAAAGTGCCAATATGCT
182 ----ACAAGGTGCCAATATGCTGATTCAAGGCCAGAAATATTGGGCTT--AAGTGCCAACATGCT
*
1761684 GATTCAAGGCCAGCAATATTGGGCTT
241 GATTCAAGGCCAGCAATATTGGACTT
* *
1761710 -A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAGGACAAGGTGCTAATATGCTG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTG
** *
1761772 ATTCAAGGCCAGTAATATTGGGCTT--A--TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
66 ATTCAAGGCCAGCGATATTGGACTTCAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
* *
1761833 CTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCTAGCAATATTGGACTTA-AAGGTGCCAATA
131 CTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTACAAGGTGCCAATA
* * * * **
1761897 TGCTGATTCAAGGCCAGCAATATTGGGCTT-A-TGCCAACGTGTTGATTCAAGGCTAGTGATATT
196 TGCTGATTCAAGGCCAGAAATATTGGGCTTAAGTGCCAACATGCTGATTCAAGGCCAGCAATATT
1761960 GGACTT
261 GGACTT
**
1761966 AAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAAGGCACCAATATGC
1 -AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAC-AAGGTGCCAATATGC
1762031 TGATTCAAGGCCAGCGATATTGGACTTCAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
64 TGATTCAAGGCCAGCGATATTGGACTTCAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
1762096 GTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
129 GTCTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1762150 GAAGAAGATG
Statistics
Matches: 650, Mismatches: 59, Indels: 64
0.84 0.08 0.08
Matches are distributed among these distances:
256 31 0.05
257 1 0.00
258 1 0.00
260 84 0.13
261 37 0.06
263 1 0.00
265 160 0.25
267 1 0.00
272 1 0.00
277 1 0.00
278 33 0.05
279 37 0.06
281 1 0.00
286 1 0.00
291 1 0.00
292 34 0.05
293 2 0.00
296 1 0.00
297 1 0.00
298 36 0.06
299 3 0.00
301 1 0.00
302 39 0.06
303 142 0.22
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (266 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTG
ATTCAAGGCCAGCGATATTGGACTTCAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGT
CTTAAAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTACAAGGTGCCAATA
TGCTGATTCAAGGCCAGAAATATTGGGCTTAAGTGCCAACATGCTGATTCAAGGCCAGCAATATT
GGACTT
Found at i:1762096 original size:92 final size:91
Alignment explanation
Indices: 1761939--1762149 Score: 368
Period size: 92 Copynumber: 2.3 Consensus size: 91
1761929 GCCAACGTGT
* *
1761939 TGATTCAAGGCTAGTGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
1 TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
1762004 GTCTTAAAGACAAAGGCACCAATATGC
66 GTCTTAAAGAC-AAGGCACCAATATGC
*
1762031 TGATTCAAGGCCAGCGATATTGGACTTCAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
1 TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
**
1762096 GTCTTAAAGACAAGGTGCCAATATGC
66 GTCTTAAAGACAAGGCACCAATATGC
1762122 TGATTCAAGGCCAGCGATATTGGACTTA
1 TGATTCAAGGCCAGCGATATTGGACTTA
1762150 GAAGAAGATG
Statistics
Matches: 113, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
91 40 0.35
92 73 0.65
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (91 bp):
TGATTCAAGGCCAGCGATATTGGACTTAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
GTCTTAAAGACAAGGCACCAATATGC
Found at i:1762237 original size:33 final size:33
Alignment explanation
Indices: 1762199--1762347 Score: 210
Period size: 33 Copynumber: 4.5 Consensus size: 33
1762189 TTGTACCAAC
* *
1762199 TTGTGGGCTTAAAAGGAGA-AAGATGCCACGGAG
1 TTGTGGACTTAAAAGGA-ACAAGATGCCACAGAG
*
1762232 TTGTGGACTTAAAAGGAACAAGGTGCCACAGAG
1 TTGTGGACTTAAAAGGAACAAGATGCCACAGAG
*
1762265 TTGTGGACTTAAAAGGAAAAAGATGCCACAGAG
1 TTGTGGACTTAAAAGGAACAAGATGCCACAGAG
* * * *
1762298 GTGTGGACTTAAAAAGAACAAGGTGCCACGGAG
1 TTGTGGACTTAAAAGGAACAAGATGCCACAGAG
1762331 TTGTGGACTTAAAAGGA
1 TTGTGGACTTAAAAGGA
1762348 TACCACGAAG
Statistics
Matches: 103, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
32 1 0.01
33 102 0.99
ACGTcount: A:0.37, C:0.13, G:0.32, T:0.19
Consensus pattern (33 bp):
TTGTGGACTTAAAAGGAACAAGATGCCACAGAG
Found at i:1762280 original size:66 final size:66
Alignment explanation
Indices: 1762199--1762347 Score: 244
Period size: 66 Copynumber: 2.3 Consensus size: 66
1762189 TTGTACCAAC
* * * * *
1762199 TTGTGGGCTTAAAAGGAGAAAGATGCCACGGAGTTGTGGACTTAAAAGGAACAAGGTGCCACAGA
1 TTGTGGACTTAAAAGGAAAAAGATGCCACAGAGGTGTGGACTTAAAAAGAACAAGGTGCCACAGA
1762264 G
66 G
*
1762265 TTGTGGACTTAAAAGGAAAAAGATGCCACAGAGGTGTGGACTTAAAAAGAACAAGGTGCCACGGA
1 TTGTGGACTTAAAAGGAAAAAGATGCCACAGAGGTGTGGACTTAAAAAGAACAAGGTGCCACAGA
1762330 G
66 G
1762331 TTGTGGACTTAAAAGGA
1 TTGTGGACTTAAAAGGA
1762348 TACCACGAAG
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 77 1.00
ACGTcount: A:0.37, C:0.13, G:0.32, T:0.19
Consensus pattern (66 bp):
TTGTGGACTTAAAAGGAAAAAGATGCCACAGAGGTGTGGACTTAAAAAGAACAAGGTGCCACAGA
G
Found at i:1762381 original size:28 final size:28
Alignment explanation
Indices: 1762319--1762452 Score: 155
Period size: 28 Copynumber: 4.8 Consensus size: 28
1762309 AAAAGAACAA
* *
1762319 GGTGCCACGGAGTTGTGGAC-TTAAAAG
1 GGTGCCACGAAGTTGTGGGCTTTAAAAG
* *
1762346 GATACCACGAAGTTGTGGGCTTTAAAAG
1 GGTGCCACGAAGTTGTGGGCTTTAAAAG
*
1762374 GGTGCCACGAAGTTGTGAGCTTTAAAAG
1 GGTGCCACGAAGTTGTGGGCTTTAAAAG
* *
1762402 AGTACCAC-AGAGTTGTGGGCTTTAAAAG
1 GGTGCCACGA-AGTTGTGGGCTTTAAAAG
* * *
1762430 AGTGCCACGGAGTTGTGGACTTT
1 GGTGCCACGAAGTTGTGGGCTTT
1762453 GGAGAAAAAA
Statistics
Matches: 91, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
27 17 0.19
28 74 0.81
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (28 bp):
GGTGCCACGAAGTTGTGGGCTTTAAAAG
Found at i:1762416 original size:56 final size:55
Alignment explanation
Indices: 1762319--1762451 Score: 191
Period size: 56 Copynumber: 2.4 Consensus size: 55
1762309 AAAAGAACAA
1762319 GGTGCCACGGAGTTGTGGACTTAAAAGGATACCACGAAGTTGTGGGCTTTAAAAG
1 GGTGCCACGGAGTTGTGGACTTAAAAGGATACCACGAAGTTGTGGGCTTTAAAAG
*
1762374 GGTGCCACGAAGTTGT-GAGCTTTAAAA-GAGTACCAC-AGAGTTGTGGGCTTTAAAAG
1 GGTGCCACGGAGTTGTGGA-C-TTAAAAGGA-TACCACGA-AGTTGTGGGCTTTAAAAG
*
1762430 AGTGCCACGGAGTTGTGGACTT
1 GGTGCCACGGAGTTGTGGACTT
1762452 TGGAGAAAAA
Statistics
Matches: 70, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
54 2 0.03
55 21 0.30
56 45 0.64
57 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (55 bp):
GGTGCCACGGAGTTGTGGACTTAAAAGGATACCACGAAGTTGTGGGCTTTAAAAG
Found at i:1762479 original size:31 final size:31
Alignment explanation
Indices: 1762432--1762514 Score: 114
Period size: 31 Copynumber: 2.7 Consensus size: 31
1762422 TTTAAAAGAG
* *
1762432 TGCCACGGAGTTGTGGACTTTGGAGAA-AAAA
1 TGCCACTGAGTCGTGGACTTTGG-GAAGAAAA
* *
1762463 TGCCACTGAGTCGTGGACTTTGGGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTGGGAAGAAAA
1762494 TGCCACTGAGTCGTGGACTTT
1 TGCCACTGAGTCGTGGACTTT
1762515 AAGAAGGTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
30 3 0.06
31 44 0.94
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.27
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGGGAAGAAAA
Found at i:1771173 original size:13 final size:13
Alignment explanation
Indices: 1771145--1771183 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
1771135 CAATTTACCA
1771145 TTTGTCAAGAAATT
1 TTTGTCAAG-AATT
*
1771159 TTTGTCCAGAATT
1 TTTGTCAAGAATT
*
1771172 TTTGTCTAGAAT
1 TTTGTCAAGAAT
1771184 GTTCATTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.65
14 8 0.35
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.46
Consensus pattern (13 bp):
TTTGTCAAGAATT
Found at i:1771229 original size:28 final size:28
Alignment explanation
Indices: 1771193--1771714 Score: 514
Period size: 28 Copynumber: 18.5 Consensus size: 28
1771183 TGTTCATTTC
1771193 TTCAAAGCCCACAAGTCAGTGGCATCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCTT
* *
1771221 TTCAGAGCCCACAAGTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCTT
* * * * *
1771249 TTCAAAGCCCATAAATTAGTGGTATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCTT
* * *
1771277 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCTT
* * *
1771305 TTCAAAGCTCACAAGTCAGTGGCACCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCTT
* * *
1771333 TTCAAAGCCCATAAGTCAGTGGCACCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCTT
* *
1771361 TTCAAAGCCCATAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCTT
*
1771389 TTCAAAGCCCACAAGTCAGTGGGCATCTC
1 TTCAAAGCCCACAAGTCAGT-GGCATCTT
* * *
1771418 TTCAAAGCCCATAAGTCACTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCTT
* *
1771446 TTCAAAGGCCACAAGTAAGT-GCATCTCT
1 TTCAAAGCCCACAAGTCAGTGGCATCT-T
* * * *
1771474 TT-AAAGACCATAAGTCACTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCATCTT
* *
1771501 TTTAAAGCCCACAAGTCAGTGGCATCCAT
1 TTCAAAGCCCACAAGTCAGTGGCAT-CTT
* * *
1771530 TT-AAAGTCCACAAGTTAGTGGCA-CATG
1 TTCAAAGCCCACAAGTCAGTGGCATC-TT
* *
1771557 TTGAAAGCCCACAAGTCAGTGGCATCCAT
1 TTCAAAGCCCACAAGTCAGTGGCAT-CTT
* * * *
1771586 TT-AAAGCCCACAACTTAGTGGCACCTA
1 TTCAAAGCCCACAAGTCAGTGGCATCTT
* * * *
1771613 TTCAAAGCTCACAAGTTAGTGGCACCAT
1 TTCAAAGCCCACAAGTCAGTGGCATCTT
*
1771641 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCATCTT
* *
1771669 TTCAAAGCCCACACAAGTTAGTGGCAACTT
1 TTCAAAG-CC-CACAAGTCAGTGGCATCTT
1771699 TCTCTAAAGCCCACAA
1 T-TC-AAAGCCCACAA
1771715 AAGTTGGTGG
Statistics
Matches: 414, Mismatches: 66, Indels: 26
0.82 0.13 0.05
Matches are distributed among these distances:
26 1 0.00
27 26 0.06
28 324 0.78
29 32 0.08
30 23 0.06
31 4 0.01
32 4 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCATCTT
Found at i:1772510 original size:20 final size:20
Alignment explanation
Indices: 1772485--1772559 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
1772475 TTTTACCTAG
* *
1772485 ATGTATCAATACATTTTTTA
1 ATGTATCGATACATTTTTCA
* * *
1772505 ATGTATCGATACATATATGA
1 ATGTATCGATACATTTTTCA
*
1772525 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
1772545 ATGTATCGATACATT
1 ATGTATCGATACATT
1772560 CTATCCTTTT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1772601 original size:91 final size:90
Alignment explanation
Indices: 1772442--1772609 Score: 228
Period size: 91 Copynumber: 1.9 Consensus size: 90
1772432 CAGATATATT
* * * * ****
1772442 GATACATTTTTCAATGTATCGATATATTCTGTCTTTTACCTAGATGTATCAATACATTTTTTAAT
1 GATACATTCTTCAATGTATCGATACATTCTATCTTTTACCCAGATGTATCAATACATTGAAAAAT
*
1772507 GTATCGATACATATATGAATGTATC
66 GTATCGAAACATATATGAATGTATC
* *
1772532 GATACATTCTTCAATGTATCGATACATTCTATCCTTTTACCCAGCTGTATCGATACATTGAAAAA
1 GATACATTCTTCAATGTATCGATACATTCTAT-CTTTTACCCAGATGTATCAATACATTGAAAAA
1772597 TGTATCGAAACAT
65 TGTATCGAAACAT
1772610 CTAGTTAAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
90 29 0.44
91 37 0.56
ACGTcount: A:0.32, C:0.17, G:0.11, T:0.40
Consensus pattern (90 bp):
GATACATTCTTCAATGTATCGATACATTCTATCTTTTACCCAGATGTATCAATACATTGAAAAAT
GTATCGAAACATATATGAATGTATC
Found at i:1780068 original size:13 final size:13
Alignment explanation
Indices: 1780050--1780077 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1780040 ATTACTCAAA
1780050 TGTATCGATACAT
1 TGTATCGATACAT
1780063 TGTATCGATACAT
1 TGTATCGATACAT
1780076 TG
1 TG
1780078 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1783448 original size:9 final size:9
Alignment explanation
Indices: 1783430--1783482 Score: 60
Period size: 9 Copynumber: 6.2 Consensus size: 9
1783420 CTTAATTCTT
*
1783430 TTCTTCTTC
1 TTCTTTTTC
1783439 TTCTTTTTC
1 TTCTTTTTC
1783448 TT-TTTCTT-
1 TTCTTT-TTC
1783456 TT-TTTTTC
1 TTCTTTTTC
1783464 -TCTTTTTC
1 TTCTTTTTC
1783472 TTCTTTTTC
1 TTCTTTTTC
1783481 TT
1 TT
1783483 GTGTTATTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
7 3 0.08
8 14 0.36
9 22 0.56
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (9 bp):
TTCTTTTTC
Found at i:1783454 original size:33 final size:33
Alignment explanation
Indices: 1783417--1783482 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1783407 TTGCTTTCAA
1783417 TTTCTTAATTCTTT-TCTTCTTCTTCTTTTTCTT
1 TTTCTT-ATTCTTTCTCTTCTTCTTCTTTTTCTT
* * *
1783450 TTTCTTTTTTTTTCTCTTTTTCTTCTTTTTCTT
1 TTTCTTATTCTTTCTCTTCTTCTTCTTTTTCTT
1783483 GTGTTATTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.03, C:0.20, G:0.00, T:0.77
Consensus pattern (33 bp):
TTTCTTATTCTTTCTCTTCTTCTTCTTTTTCTT
Found at i:1783666 original size:18 final size:18
Alignment explanation
Indices: 1783643--1783678 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1783633 TTGTGACTAG
1783643 GGCAACGATTTTACCTTA
1 GGCAACGATTTTACCTTA
1783661 GGCAACGATTTTACCTTA
1 GGCAACGATTTTACCTTA
1783679 CACTACAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (18 bp):
GGCAACGATTTTACCTTA
Found at i:1786486 original size:33 final size:33
Alignment explanation
Indices: 1786449--1786512 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
1786439 ACAAGAAATG
**
1786449 TATCGATACAAT-TCATTATGTATCGATACAATA
1 TATCGATACAATAT-ACCATGTATCGATACAATA
*
1786482 TATCGATATAATATACCATGTATCGATACAA
1 TATCGATACAATATACCATGTATCGATACAA
1786513 ATAGTGGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
33 26 0.96
34 1 0.04
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (33 bp):
TATCGATACAATATACCATGTATCGATACAATA
Found at i:1786595 original size:19 final size:18
Alignment explanation
Indices: 1786540--1786596 Score: 78
Period size: 19 Copynumber: 3.1 Consensus size: 18
1786530 ATTGCCAGTT
*
1786540 TCATGTTTCGATACAATTG
1 TCATGTATCGATACAA-TG
1786559 TCATGTATCGATACAATG
1 TCATGTATCGATACAATG
*
1786577 ATCATGTATCGATCCAATG
1 -TCATGTATCGATACAATG
1786596 T
1 T
1786597 ATCGATACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
18 3 0.09
19 32 0.91
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.37
Consensus pattern (18 bp):
TCATGTATCGATACAATG
Found at i:1786602 original size:32 final size:33
Alignment explanation
Indices: 1786561--1786622 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
1786551 TACAATTGTC
* *
1786561 ATGTATCGATACAATG-ATCATGTATCGATCCA
1 ATGTATCGATACAAAGCATAATGTATCGATCCA
1786593 ATGTATCGATACAAAGCATAATGTATCGAT
1 ATGTATCGATACAAAGCATAATGTATCGAT
1786623 ACATCTGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 15 0.56
33 12 0.44
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.31
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATCGATCCA
Found at i:1787944 original size:25 final size:24
Alignment explanation
Indices: 1787894--1787939 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
1787884 GATAGCAAAT
1787894 TTCCTTTTTTTTTCTCTCTCTTTC
1 TTCCTTTTTTTTTCTCTCTCTTTC
1787918 TTCCTTTTTTTTT-TCTCTCTTT
1 TTCCTTTTTTTTTCTCTCTCTTT
1787940 TTCTTTCACT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 9 0.41
24 13 0.59
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (24 bp):
TTCCTTTTTTTTTCTCTCTCTTTC
Found at i:1788519 original size:166 final size:163
Alignment explanation
Indices: 1788359--1789160 Score: 720
Period size: 165 Copynumber: 4.9 Consensus size: 163
1788349 GAAAAATCCC
* *
1788359 CCTTCCCGAGAACACTTATGAAATAGAAAACTCA-ATTTCA-AAAATAGAAAAATTCAAAGAAAA
1 CCTT-CCGAAAACATTTATGAAATAGAAAACTCATATTT-AGAAAATAGAAAAATTCAAAGAAAA
*
1788422 AATTCAAACTCATGAAAATAAAAGAATTTTTGAAAACTGATTTAATATAAATTAAATAATAATAT
64 AATTCAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATAAATTAAATAATAATAT
* * *
1788487 ATT-AGGAATTTCAAAAATTAAAAACCGAGAAAAAT
129 -TTGAGAAATTTTAAAAATTAAAAACCAAGAAAAAT
* * * * *
1788522 TC-TCCGAAAAACATTTATGGAGTAGAAAACTCCATATTTAGGAAACAT-GAAAAGTTTAAAGAA
1 CCTTCCG-AAAACATTTATGAAATAGAAAACT-CATATTTA-GAAA-ATAGAAAAATTCAAAGAA
* * * * *
1788585 AAAATTCAAAACTAATGAAAATAAATGAATTTTTAAAAAATAATTTAAAATAAATTAAATAA-AA
62 AAAATTC-AAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATAAATTAAATAATAA
*
1788649 TATTTGATGAAA-TTTAAAAATTAAAAAACAAGAAAAAT
126 TATTTGA-GAAATTTTAAAAATTAAAAACCAAGAAAAAT
* * * * * * * * *
1788687 TCTTCTGAAAATATTTACGGAGTAGAAAACTCTTTATTTAGGAAATAGGAAAATTTCAAAGAAAA
1 CCTTCCGAAAACATTTATGAAATAGAAAACTC-ATATTTAGAAAATA-GAAAAATTCAAAGAAAA
* * *
1788752 AAATCAAAGTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATAT
64 AATTCAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATAAATTAAATAATAATAT
* *
1788817 TTGAAAAAAATTTTAAAAATTAAAAACTAAG-AAAAT
129 TTG--AGAAATTTTAAAAATTAAAAACCAAGAAAAAT
* * * * **
1788853 CCTTTCGAAAATATTTATGGAAA-AGAAAACTTAGTATTTTA-AAAATAGAAGAATTTTAAGAAA
1 CCTTCCGAAAACATTTAT-GAAATAGAAAACTCA-TA-TTTAGAAAATAGAAAAATTCAAAGAAA
** *
1788916 AAATAAAAAAAACTCATGAAAATAAATGAATTTTTGAGAAA-TGATTTAATATGAATTAAATAAT
63 AAAT---TCAAACTCATGAAAATAAATGAATTTTTGA-AAACTGATTTAATATAAATTAAATAAT
*
1788980 AATATTTGATG-AATTTTAAAAATTAAAAA-CAAAAAAAAT
124 AATATTTGA-GAAATTTTAAAAATTAAAAACCAAGAAAAAT
* * * * * *
1789019 CCCT-CGAAAATATTTATGGAAA-AGAAAACTCAGTATTTTA-AAATTAGGAAAATTTTAAGGAA
1 CCTTCCGAAAACATTTAT-GAAATAGAAAACTCA-TA-TTTAGAAAATA-GAAAAATTCAAAGAA
** * * * * * * *
1789081 AAAATAAAAAACTCATGAAAATGAATTAATTTTTGAAAATTAATTTGATAGT-AATTAAATGATG
62 AAAAT-TCAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATA-TAAATTAAATAATA
* *
1789145 ATATTTAAAAAATTTT
125 ATATTTGAGAAATTTT
1789161 GATACTTGAA
Statistics
Matches: 539, Mismatches: 70, Indels: 59
0.81 0.10 0.09
Matches are distributed among these distances:
161 3 0.01
162 21 0.04
163 9 0.02
164 117 0.22
165 167 0.31
166 136 0.25
167 25 0.05
168 58 0.11
169 3 0.01
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (163 bp):
CCTTCCGAAAACATTTATGAAATAGAAAACTCATATTTAGAAAATAGAAAAATTCAAAGAAAAAA
TTCAAACTCATGAAAATAAATGAATTTTTGAAAACTGATTTAATATAAATTAAATAATAATATTT
GAGAAATTTTAAAAATTAAAAACCAAGAAAAAT
Found at i:1788687 original size:165 final size:163
Alignment explanation
Indices: 1788374--1789150 Score: 776
Period size: 166 Copynumber: 4.7 Consensus size: 163
1788364 CCGAGAACAC
* * *
1788374 TTAT-GAAATAGAAAACTCA--ATTTCAAAAATAGAAAAATTCAAAGAAAAAATTC-AAACTCAT
1 TTATGGAAA-AGAAAACTCAGTATTT-TAAAATAGGAAAATTTAAAGAAAAAATTCAAAACTCAT
* * *
1788435 GAAAATAAAAGAATTTTTGAAAACTGATTTAATATAAATTAAATAATAATATATT-A-GGAATTT
64 GAAAATAAATGAATTTTTGAAAAATGATTTAATATAAATTAAATAATAATAT-TTGATGAAATTT
* *
1788498 CAAAAATTAAAAACCGAGAAAAATTC-TCCGAAAAACAT
128 -AAAAATTAAAAA-CAAGAAAAATTCTTCCG-AAAATAT
** * * *
1788536 TTATGGAGTAGAAAACTCCA-TA-TTTAGGAAACATGAAAAGTTTAAAGAAAAAATTCAAAACTA
1 TTATGGAAAAGAAAACT-CAGTATTTTA--AAATAGGAAAA-TTTAAAGAAAAAATTCAAAACTC
* * *
1788599 ATGAAAATAAATGAATTTTTAAAAAATAATTTAAAATAAATTAAATAA-AATATTTGATGAAATT
62 ATGAAAATAAATGAATTTTTGAAAAATGATTTAATATAAATTAAATAATAATATTTGATGAAATT
*
1788663 TAAAAATTAAAAAACAAGAAAAATTCTTCTGAAAATAT
127 TAAAAATT-AAAAACAAGAAAAATTCTTCCGAAAATAT
* ** ** * *
1788701 TTACGGAGTAGAAAACTCTTTA-TTTAGGAAATAGGAAAATTTCAAAGAAAAAAATC-AAAGTCA
1 TTATGGAAAAGAAAACTCAGTATTTTA--AAATAGGAAAATTT-AAAGAAAAAATTCAAAACTCA
* * **
1788764 TGAAAATAAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTGAAAAAAATT
63 TGAAAATAAATGAATTTTTGAAAAATGATTTAATATAAATTAAATAATAATATTTG-ATGAAA-T
* *
1788829 TTAAAAATTAAAAACTAAG-AAAATCCTTTCGAAAATAT
126 TTAAAAATTAAAAAC-AAGAAAAATTCTTCCGAAAATAT
* * **
1788867 TTATGGAAAAGAAAACTTAGTATTTTAAAAATA-GAAGAATTTTAAGAAAAAATAAAAAAAACTC
1 TTATGGAAAAGAAAACTCAGTATTTT-AAAATAGGAA-AATTTAAAGAAAAAAT--TCAAAACTC
* * *
1788931 ATGAAAATAAATGAATTTTTGAGAAATGATTTAATATGAATTAAATAATAATATTTGATGAATTT
62 ATGAAAATAAATGAATTTTTGAAAAATGATTTAATATAAATTAAATAATAATATTTGATGAAATT
* * *
1788996 TAAAAATTAAAAACAAAAAAAATCCCT-CGAAAATAT
127 TAAAAATTAAAAACAAGAAAAATTCTTCCGAAAATAT
* **
1789032 TTATGGAAAAGAAAACTCAGTATTTTAAAATTAGGAAAATTTTAAGGAAAAAATAAAAAACTCAT
1 TTATGGAAAAGAAAACTCAGTATTTTAAAA-TAGGAAAA-TTTAAAGAAAAAATTCAAAACTCAT
* * * * * * *
1789097 GAAAATGAATTAATTTTTGAAAATTAATTTGATAGT-AATTAAATGATGATATTT
64 GAAAATAAATGAATTTTTGAAAAATGATTTAATA-TAAATTAAATAATAATATTT
1789151 AAAAAATTTT
Statistics
Matches: 524, Mismatches: 63, Indels: 54
0.82 0.10 0.08
Matches are distributed among these distances:
162 13 0.02
163 6 0.01
164 121 0.23
165 151 0.29
166 153 0.29
167 19 0.04
168 61 0.12
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.30
Consensus pattern (163 bp):
TTATGGAAAAGAAAACTCAGTATTTTAAAATAGGAAAATTTAAAGAAAAAATTCAAAACTCATGA
AAATAAATGAATTTTTGAAAAATGATTTAATATAAATTAAATAATAATATTTGATGAAATTTAAA
AATTAAAAACAAGAAAAATTCTTCCGAAAATAT
Found at i:1789114 original size:332 final size:328
Alignment explanation
Indices: 1788378--1789160 Score: 865
Period size: 332 Copynumber: 2.4 Consensus size: 328
1788368 GAACACTTAT
* * ***
1788378 GAAATAGAAAACTCA--ATTTCAAAAATA-GAAAAATTCAAAGAAAAAATTCAAACTCATGAAAA
1 GAAA-AGAAAACTCAGTATTT-AGAAATAGGAAAATTTCAAAGAAAAAAAAAAAACTCATGAAAA
* * ** *
1788440 TAAAAGAATTTTTGAAAACTGATTTAATATAAATTAAATAATAATATATT-AGGAATTTCAAAAA
64 TAAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATAT-TTAAAAAATTTTAAAAA
* * **
1788504 TTAAAAACCGAGAAAAATTCTCCGAAAAACATTTATGGAGTAGAAAACTCCATATTTAGGAAACA
128 TTAAAAACCAAGAAAAATCCTCCGAAAAACATTTATGGAAAAGAAAACTCCATATTTA-GAAACA
**
1788569 TGAAAAGTTTAAAGAAAAAATTCAAAACTAATGAAAATAAATGAATTTTTAAAAAATAATTTAAA
192 TGAAAAGTTTAAAGAAAAAATAAAAAACTAATGAAAATAAATGAATTTTTAAAAAATAATTTAAA
* * *
1788634 ATAAATTAAATAAAATATTTGATGAAATTTAAAAATTAAAAAACAAGAAAAATTCTTCTGAAAAT
257 ATAAATTAAATAAAATATTTGATGAAATTTAAAAATTAAAAAACAAAAAAAATCCCTCTGAAAAT
1788699 ATTTACG
322 ATTTACG
** ** ** *
1788706 GAGTAGAAAACTCTTTATTTAGGAAATAGGAAAATTTCAAAGAAAAAAATCAAAGTCATGAAAAT
1 GAAAAGAAAACTCAGTATTTA-GAAATAGGAAAATTTCAAAGAAAAAAAAAAAACTCATGAAAAT
1788771 AAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTGAAAAAAATTTTAAAAA
65 AAATGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTT--AAAAAATTTTAAAAA
* * * *
1788836 TTAAAAACTAAG-AAAATCCTTTCG-AAAATATTTATGGAAAAGAAAACT-TAGTATTTTA-AAA
128 TTAAAAACCAAGAAAAATCC-TCCGAAAAACATTTATGGAAAAGAAAACTCCA-TA-TTTAGAAA
* * * * *
1788897 -ATAGAAGAA-TTTTAAGAAAAAATAAAAAAAACTCATGAAAATAAATGAATTTTTGAGAAATGA
190 CAT-GAA-AAGTTTAAAGAAAAAAT--AAAAAACTAATGAAAATAAATGAATTTTTAAAAAATAA
* * *
1788960 TTTAATATGAATTAAATAATAATATTTGATGAATTTTAAAAATT-AAAAACAAAAAAAATCCCTC
251 TTTAAAATAAATTAAATAA-AATATTTGATGAAATTTAAAAATTAAAAAACAAAAAAAATCCCTC
*
1789024 -GAAAATATTTATG
315 TGAAAATATTTACG
* *
1789037 GAAAAGAAAACTCAGTATTTTA-AAATTAGGAAAATTTTAAGGAAAAAATAAAAAACTCATGAAA
1 GAAAAGAAAACTCAGTA-TTTAGAAA-TAGGAAAATTTCAAAGAAAAAA-AAAAAACTCATGAAA
* * * * * * *
1789101 ATGAATTAATTTTTGAAAATTAATTTGATA-GTAATTAAATGATGATATTTAAAAAATTTT
63 ATAAATGAATTTTTGAAAACTGATTTAATATG-AATTAAATAATAATATTTAAAAAATTTT
1789161 GATACTTGAA
Statistics
Matches: 386, Mismatches: 50, Indels: 36
0.82 0.11 0.08
Matches are distributed among these distances:
327 9 0.02
328 3 0.01
329 13 0.03
330 110 0.28
331 77 0.20
332 151 0.39
333 23 0.06
ACGTcount: A:0.54, C:0.06, G:0.10, T:0.30
Consensus pattern (328 bp):
GAAAAGAAAACTCAGTATTTAGAAATAGGAAAATTTCAAAGAAAAAAAAAAAACTCATGAAAATA
AATGAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTAAAAAATTTTAAAAATTA
AAAACCAAGAAAAATCCTCCGAAAAACATTTATGGAAAAGAAAACTCCATATTTAGAAACATGAA
AAGTTTAAAGAAAAAATAAAAAACTAATGAAAATAAATGAATTTTTAAAAAATAATTTAAAATAA
ATTAAATAAAATATTTGATGAAATTTAAAAATTAAAAAACAAAAAAAATCCCTCTGAAAATATTT
ACG
Found at i:1790124 original size:25 final size:26
Alignment explanation
Indices: 1790090--1790139 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
1790080 AAATGCTTTT
1790090 TAAATTAATT-TT-TATTAATTTTAG
1 TAAATTAATTATTATATTAATTTTAG
*
1790114 TAAATTTAATTATTATATTACTTTTA
1 TAAA-TTAATTATTATATTAATTTTA
1790140 TTTTGTATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 4 0.18
25 6 0.27
26 2 0.09
27 10 0.45
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (26 bp):
TAAATTAATTATTATATTAATTTTAG
Found at i:1790540 original size:20 final size:20
Alignment explanation
Indices: 1790512--1790586 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
1790502 TTTTACCCAG
*
1790512 ATGTATCGATACATTTTTTA
1 ATGTATCGATACATTTTTCA
* * * *
1790532 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
1790552 ATGTATCGATATATTCTTCA
1 ATGTATCGATACATTTTTCA
1790572 ATGTATCGATACATT
1 ATGTATCGATACATT
1790587 ATGTCTTTTT
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1790579 original size:40 final size:39
Alignment explanation
Indices: 1790512--1790589 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1790502 TTTTACCCAG
* *
1790512 ATGTATCGATACATTTTTTAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATATATCGATACAT-TATGA
* *
1790552 ATGTATCGATATATTCTTCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTTCAATATATCGATACATTATG
1790590 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (39 bp):
ATGTATCGATACATTCTTCAATATATCGATACATTATGA
Found at i:1794180 original size:18 final size:17
Alignment explanation
Indices: 1794153--1794186 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1794143 GTTGTCGTCT
*
1794153 TCATTTTCATCTTTCTTC
1 TCATTATCAT-TTTCTTC
1794171 TCATTATCATTTTCTT
1 TCATTATCATTTTCTT
1794187 GAAGTACCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.62
Consensus pattern (17 bp):
TCATTATCATTTTCTTC
Found at i:1796034 original size:16 final size:16
Alignment explanation
Indices: 1796013--1796051 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
1796003 AAATTACATC
1796013 GTAAATAATTTAAAAG
1 GTAAATAATTTAAAAG
* *
1796029 GTAAATTATTTAATAG
1 GTAAATAATTTAAAAG
*
1796045 GAAAATA
1 GTAAATA
1796052 CATGAATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.13, T:0.33
Consensus pattern (16 bp):
GTAAATAATTTAAAAG
Found at i:1800494 original size:94 final size:93
Alignment explanation
Indices: 1800389--1800569 Score: 317
Period size: 94 Copynumber: 1.9 Consensus size: 93
1800379 ATTTAATCTT
*
1800389 TTATATATAACAAATGTTATTGAAATTCATTATAACAAATATTAATAACAAAAGAAGACAAGAAA
1 TTATATATAACAAATATTATTGAAATTCATTATAACAAATATTAATAACAAAAGAAGACAAGAAA
*
1800454 TTACAAAAAAAATGATTGTATATTTGCTC
66 TTAC-AAAAAAACGATTGTATATTTGCTC
* *
1800483 TTATATATAACAAATATTATTGAAATTCATTATAATAAATATTAATAACAAAAGAAGTCAAGAAA
1 TTATATATAACAAATATTATTGAAATTCATTATAACAAATATTAATAACAAAAGAAGACAAGAAA
1800548 TTACAAAAAAACGATTGTATAT
66 TTACAAAAAAACGATTGTATAT
1800570 AACTTCCATT
Statistics
Matches: 83, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
93 17 0.20
94 66 0.80
ACGTcount: A:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (93 bp):
TTATATATAACAAATATTATTGAAATTCATTATAACAAATATTAATAACAAAAGAAGACAAGAAA
TTACAAAAAAACGATTGTATATTTGCTC
Found at i:1800737 original size:18 final size:19
Alignment explanation
Indices: 1800682--1800738 Score: 59
Period size: 18 Copynumber: 3.1 Consensus size: 19
1800672 ATATTTTATT
*
1800682 ATATTATAATCATATTAA-A
1 ATATTTTAAT-ATATTAATA
1800701 ATATTTT-ATAT-TTATATA
1 ATATTTTAATATATTA-ATA
1800719 A-ATTTTAATATATTAATA
1 ATATTTTAATATATTAATA
1800737 AT
1 AT
1800739 TCATATAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 10
0.74 0.02 0.23
Matches are distributed among these distances:
16 3 0.09
17 8 0.25
18 12 0.38
19 9 0.28
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (19 bp):
ATATTTTAATATATTAATA
Found at i:1800792 original size:5 final size:5
Alignment explanation
Indices: 1800762--1800829 Score: 56
Period size: 5 Copynumber: 14.2 Consensus size: 5
1800752 ATTTAAAACA
* * *
1800762 TATATT TATAT CATAT AATAT T-TAT TATATT TATAT TATTT TATA- T-TAT
1 TATA-T TATAT TATAT TATAT TATAT TATA-T TATAT TATAT TATAT TATAT
1800811 TATAT TATA- TA-AT TATAT T
1 TATAT TATAT TATAT TATAT T
1800830 TAATATTATC
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
3 3 0.06
4 10 0.20
5 29 0.57
6 9 0.18
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Done.