Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007956.1 Hibiscus syriacus cultivar Beakdansim tig00110383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 3102597
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 14
Found at i:1578560 original size:19 final size:18
Alignment explanation
Indices: 1578538--1578629 Score: 74
Period size: 19 Copynumber: 5.4 Consensus size: 18
1578528 AAAATCGTAA
1578538 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
1578557 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
1578571 TGAGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
1578590 TGCGATTCT-TTT---GT
1 TGCGATTTTGTTTCGCGT
*
1578604 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
1578623 TGCGATT
1 TGCGATT
1578630 CTCTCGTTGC
Statistics
Matches: 59, Mismatches: 4, Indels: 20
0.71 0.05 0.24
Matches are distributed among these distances:
14 21 0.36
15 1 0.02
16 4 0.07
17 4 0.07
18 1 0.02
19 28 0.47
ACGTcount: A:0.09, C:0.15, G:0.27, T:0.49
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:1578583 original size:33 final size:32
Alignment explanation
Indices: 1578538--1578661 Score: 149
Period size: 33 Copynumber: 3.8 Consensus size: 32
1578528 AAAATCGTAA
1578538 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTT-TCGT
* *
1578571 TGAGATTTTGGTTTCGCGTTGCGATTCTTTTGT
1 TGCGATTTTGGTTTCGCGTTGCGATT-TTTCGT
** *
1578604 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATT-TTTCGT
* *
1578637 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
1578662 AAGTAAACTA
Statistics
Matches: 79, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
33 65 0.82
34 14 0.18
ACGTcount: A:0.10, C:0.16, G:0.27, T:0.48
Consensus pattern (32 bp):
TGCGATTTTGGTTTCGCGTTGCGATTTTTCGT
Found at i:1578825 original size:93 final size:93
Alignment explanation
Indices: 1578709--1579177 Score: 904
Period size: 93 Copynumber: 5.1 Consensus size: 93
1578699 ATGGATTGCA
1578709 TTAC-TTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1578773 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1578801 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1578866 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1578894 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1578959 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1578987 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1579052 TAGCAGAATTGGCAGCAACCGAACAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1579080 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
1 TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
* * *
1579145 TAGCAGAATTGGTAGCTACCGAATAAAT
66 TAGCAGAATTGGCAGCAACCGAACAAAT
1579173 TTACT
1 TTACT
1579178 AAGCAATCTA
Statistics
Matches: 373, Mismatches: 3, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 4 0.01
93 369 0.99
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
TTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACACAGTT
TAGCAGAATTGGCAGCAACCGAACAAAT
Found at i:1580895 original size:20 final size:20
Alignment explanation
Indices: 1580864--1580960 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
1580854 TTTTGGTTGA
1580864 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
1580884 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
1580904 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
1580923 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
1580938 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
1580958 AAT
1 AAT
1580961 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
19 15 0.24
20 20 0.32
21 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:1580916 original size:21 final size:21
Alignment explanation
Indices: 1580862--1580926 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
1580852 TCTTTTGGTT
1580862 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
1580883 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
1580903 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
1580924 GAA
1 GAA
1580927 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:1580930 original size:14 final size:14
Alignment explanation
Indices: 1580911--1580967 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1580901 GAGAAATGAA
1580911 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
1580925 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
1580944 AATCGCAACGAGAG
1 AATCGCAACGAGAG
1580958 AATCGCAACG
1 AATCGCAACG
1580968 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:1580943 original size:33 final size:33
Alignment explanation
Indices: 1580862--1580984 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
1580852 TCTTTTGGTT
*
1580862 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
1580903 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1580936 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1580969 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
1580985 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
33 50 0.62
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.27
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:1581020 original size:14 final size:14
Alignment explanation
Indices: 1581001--1581057 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
1580991 TTTGGTTTCG
1581001 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
1581015 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
1581034 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
1581048 CGTTGCGATT
1 CGTTGCGATT
1581058 TTCATTTTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:1581033 original size:33 final size:33
Alignment explanation
Indices: 1580985--1581064 Score: 142
Period size: 33 Copynumber: 2.4 Consensus size: 33
1580975 AAAATCGCAA
**
1580985 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1581018 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1581051 TGCGATTTTCATTT
1 TGCGATTTTCATTT
1581065 TTCTCGTTGC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 45 1.00
ACGTcount: A:0.09, C:0.21, G:0.23, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:1581070 original size:21 final size:21
Alignment explanation
Indices: 1581045--1581118 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
1581035 GTTGCGATTC
1581045 TCTCGTTGCGATTTTCATTTT
1 TCTCGTTGCGATTTTCATTTT
**
1581066 TCTCGTTGCAGATAGTCA-TTT
1 TCTCGTTGC-GATTTTCATTTT
* *
1581087 TCACGTTGCGATTTTCATTTA
1 TCTCGTTGCGATTTTCATTTT
1581108 TCTCGTTGCGA
1 TCTCGTTGCGA
1581119 CTCTTCTGCA
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.14
21 32 0.73
22 6 0.14
ACGTcount: A:0.15, C:0.20, G:0.18, T:0.47
Consensus pattern (21 bp):
TCTCGTTGCGATTTTCATTTT
Found at i:1581240 original size:33 final size:33
Alignment explanation
Indices: 1581198--1581268 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
1581188 AATACTAACT
*
1581198 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACAAGAGAATAGCAACGCGAAA
* *
1581231 TGAAAATCGCAACAAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACAAGAGAATAGCAACGCGAAA
1581264 TGAAA
1 TGAAA
1581269 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.49, C:0.17, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACAAGAGAATAGCAACGCGAAA
Found at i:1581673 original size:20 final size:20
Alignment explanation
Indices: 1581648--1581800 Score: 175
Period size: 20 Copynumber: 7.6 Consensus size: 20
1581638 CTTTAAAAAT
1581648 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
1581668 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
1581688 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
1581709 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
1581729 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
1581749 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
1581769 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
1581789 CGCGTTGCGATT
1 CGCGTTGCGATT
1581801 CTGTAAAATC
Statistics
Matches: 114, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
20 96 0.84
21 18 0.16
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:1581818 original size:21 final size:20
Alignment explanation
Indices: 1581794--1581843 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
1581784 ATATTCGCGT
1581794 TGCGATTCTGTAAAATCGCAA
1 TGCGATT-TGTAAAATCGCAA
** *
1581815 TGCGAATTTGTACTATCGCAT
1 TGCG-ATTTGTAAAATCGCAA
1581836 TGCGATTT
1 TGCGATTT
1581844 TCAAGAATCG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 4 0.16
21 18 0.72
22 3 0.12
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (20 bp):
TGCGATTTGTAAAATCGCAA
Found at i:1589052 original size:23 final size:23
Alignment explanation
Indices: 1589002--1589052 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
1588992 GTAGTTTTTT
* *
1589002 TTTCATGTTTTTTTACATAATTA
1 TTTCATGTTTTTTAACATAATAA
* **
1589025 GTTCATGTTTTTTAATTTAATAA
1 TTTCATGTTTTTTAACATAATAA
1589048 TTTCA
1 TTTCA
1589053 AGTCATATAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.27, C:0.08, G:0.06, T:0.59
Consensus pattern (23 bp):
TTTCATGTTTTTTAACATAATAA
Found at i:1591976 original size:39 final size:39
Alignment explanation
Indices: 1591907--1592555 Score: 824
Period size: 39 Copynumber: 16.6 Consensus size: 39
1591897 CATACATGTC
*
1591907 TGTCCAAGTAAGTTTATATTTGACGTGTGTATAAATGTCTA
1 TGTCCAAGTAAGTTTATATTTGAC--GTGTATAAATATCTA
*
1591948 TGTCCAAGTAAATTTATATTTGACGTGTATAAATATCTA
1 TGTCCAAGTAAGTTTATATTTGACGTGTATAAATATCTA
* * * * *
1591987 TATCCAAGTAAATTTAGATTTTACGTGTATAAATGTC--
1 TGTCCAAGTAAGTTTATATTTGACGTGTATAAATATCTA
* *
1592024 TGTCCAAGTAAGTTTATATTTGACGTATTAAAAATATCTA
1 TGTCCAAGTAAGTTTATATTTGACGT-GTATAAATATCTA
1592064 TGTCCAAGTAAGTTTATATTTGACGTGTATAAATATCTA
1 TGTCCAAGTAAGTTTATATTTGACGTGTATAAATATCTA
* * * * *
1592103 TATCCAAGTAAATTTAGATTTTACGTGTAT-AA-ATGTA
1 TGTCCAAGTAAGTTTATATTTGACGTGTATAAATATCTA
* * *
1592140 TGTCCAAGTAAGTTTATATTTGAGGTATTAAAAATATCTA
1 TGTCCAAGTAAGTTTATATTTGACGT-GTATAAATATCTA
1592180 TGTCCAAGTAAGTTTATATTTGACGTGTATAAATATCTA
1 TGTCCAAGTAAGTTTATATTTGACGTGTATAAATATCTA
* * * *
1592219 TGTCCAAGTAAATTTATATTTGACATGTATAAATATGTT
1 TGTCCAAGTAAGTTTATATTTGACGTGTATAAATATCTA
* * *
1592258 TGTCCAAGTAAGTTTATATTTGACGTATTAAAAATATATA
1 TGTCCAAGTAAGTTTATATTTGACGT-GTATAAATATCTA
* * * *
1592298 TGTCCAAGTAAGTTTATATTTGAAGTATTAAAAATATCTT
1 TGTCCAAGTAAGTTTATATTTGACGT-GTATAAATATCTA
1592338 TGTCCAAGTAAGTTTATATTTGACGTGTATAAATATCTA
1 TGTCCAAGTAAGTTTATATTTGACGTGTATAAATATCTA
* * * *
1592377 --TCCAAGTAAGTTTATATTTGACATATTAAAAATATATA
1 TGTCCAAGTAAGTTTATATTTGACGT-GTATAAATATCTA
1592415 TGTCCAAGTAAGTTTATATTTGACGTGTATAAATATCTA
1 TGTCCAAGTAAGTTTATATTTGACGTGTATAAATATCTA
* * * * *
1592454 TGTCCAAGTCAGCTTATATTTGACATATTAAAAATATCTA
1 TGTCCAAGTAAGTTTATATTTGACGT-GTATAAATATCTA
* *
1592494 TGTCCGAGTAACTTTATATTTGACGTGTATAAATATCTA
1 TGTCCAAGTAAGTTTATATTTGACGTGTATAAATATCTA
*
1592533 TGTCCGAGTAAGTTTATATTTGA
1 TGTCCAAGTAAGTTTATATTTGA
1592556 AGTATTAATC
Statistics
Matches: 528, Mismatches: 69, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
37 70 0.13
38 22 0.04
39 232 0.44
40 181 0.34
41 23 0.04
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (39 bp):
TGTCCAAGTAAGTTTATATTTGACGTGTATAAATATCTA
Found at i:1592086 original size:116 final size:116
Alignment explanation
Indices: 1591902--1592555 Score: 914
Period size: 116 Copynumber: 5.6 Consensus size: 116
1591892 ATATACATAC
* * * *
1591902 ATGTCTGTCCAAGTAAGTTTATATTTGACGTGTGTATAAATGTCTATGTCCAAGTAAATTTATAT
1 ATGTCTGTCCAAGTAAGTTTATATTTGACGTAT-TAAAAATATCTATGTCCAAGTAAGTTTATAT
* * *
1591967 TTGACGTGTATAAATATCTATATCCAAGTAAATTTAGATTTTACGTGTATAA
65 TTGACGTGTATAAATATCTATGTCCAAGTAAATTTATATTTGACGTGTATAA
1592019 ATGTCTGTCCAAGTAAGTTTATATTTGACGTATTAAAAATATCTATGTCCAAGTAAGTTTATATT
1 ATGTCTGTCCAAGTAAGTTTATATTTGACGTATTAAAAATATCTATGTCCAAGTAAGTTTATATT
* * *
1592084 TGACGTGTATAAATATCTATATCCAAGTAAATTTAGATTTTACGTGTATAA
66 TGACGTGTATAAATATCTATGTCCAAGTAAATTTATATTTGACGTGTATAA
* *
1592135 ATGTATGTCCAAGTAAGTTTATATTTGAGGTATTAAAAATATCTATGTCCAAGTAAGTTTATATT
1 ATGTCTGTCCAAGTAAGTTTATATTTGACGTATTAAAAATATCTATGTCCAAGTAAGTTTATATT
*
1592200 TGACGTGTATAAATATCTATGTCCAAGTAAATTTATATTTGACATGTATAAA
66 TGACGTGTATAAATATCTATGTCCAAGTAAATTTATATTTGACGTGTAT-AA
* *
1592252 TATGTTTGTCCAAGTAAGTTTATATTTGACGTATTAAAAATATATATGTCCAAGTAAGTTTATAT
1 -ATGTCTGTCCAAGTAAGTTTATATTTGACGTATTAAAAATATCTATGTCCAAGTAAGTTTATAT
* * * * *
1592317 TTGAAGTATTAAAAATATCTTTGTCCAAGTAAGTTTATATTTGACGTGTATAA
65 TTGACGT-GTATAAATATCTATGTCCAAGTAAATTTATATTTGACGTGTATAA
* * * *
1592370 ATATCTATCCAAGTAAGTTTATATTTGACATATTAAAAATATATATGTCCAAGTAAGTTTATATT
1 ATGTCTGTCCAAGTAAGTTTATATTTGACGTATTAAAAATATCTATGTCCAAGTAAGTTTATATT
* ** * * *
1592435 TGACGTGTATAAATATCTATGTCCAAGTCAGCTTATATTTGACATATTAAAA
66 TGACGTGTATAAATATCTATGTCCAAGTAAATTTATATTTGACGT-GTATAA
* * * * * *
1592487 ATATCTATGTCCGAGTAACTTTATATTTGACGT-GTATAAATATCTATGTCCGAGTAAGTTTATA
1 ATGTC--TGTCCAAGTAAGTTTATATTTGACGTATTAAAAATATCTATGTCCAAGTAAGTTTATA
1592551 TTTGA
64 TTTGA
1592556 AGTATTAATC
Statistics
Matches: 491, Mismatches: 40, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
116 221 0.45
117 109 0.22
118 101 0.21
119 60 0.12
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (116 bp):
ATGTCTGTCCAAGTAAGTTTATATTTGACGTATTAAAAATATCTATGTCCAAGTAAGTTTATATT
TGACGTGTATAAATATCTATGTCCAAGTAAATTTATATTTGACGTGTATAA
Found at i:1592562 original size:79 final size:79
Alignment explanation
Indices: 1591907--1592563 Score: 827
Period size: 79 Copynumber: 8.4 Consensus size: 79
1591897 CATACATGTC
* * * * *
1591907 TGTCCAAGTAAGTTTATATTTGACGTGTGTATAAATGTCTATGTCCAAGTAAATTTATATTTGAC
1 TGTCCAAGTAAGTTTATATTTGAAGTAT-TAAAAATATCTATGTCCAAGTAAGTTTATATTTGAC
1591972 GTGTATAAATATCTA
65 GTGTATAAATATCTA
* * * * * * * *
1591987 TATCCAAGTAAATTTAGATTTTACGT-GTATAAATGTC--TGTCCAAGTAAGTTTATATTTGACG
1 TGTCCAAGTAAGTTTATATTTGAAGTATTAAAAATATCTATGTCCAAGTAAGTTTATATTTGACG
* *
1592049 TATTAAAAATATCTA
66 T-GTATAAATATCTA
* * * * * * *
1592064 TGTCCAAGTAAGTTTATATTTGACGT-GTATAAATATCTATATCCAAGTAAATTTAGATTTTACG
1 TGTCCAAGTAAGTTTATATTTGAAGTATTAAAAATATCTATGTCCAAGTAAGTTTATATTTGACG
*
1592128 TGTAT-AA-ATGTA
66 TGTATAAATATCTA
*
1592140 TGTCCAAGTAAGTTTATATTTGAGGTATTAAAAATATCTATGTCCAAGTAAGTTTATATTTGACG
1 TGTCCAAGTAAGTTTATATTTGAAGTATTAAAAATATCTATGTCCAAGTAAGTTTATATTTGACG
1592205 TGTATAAATATCTA
66 TGTATAAATATCTA
* * *
1592219 TGTCCAAGTAAATTTATATTTGACATGTA-T--AAATATGTTTGTCCAAGTAAGTTTATATTTGA
1 TGTCCAAGTAAGTTTATATTTGA-A-GTATTAAAAATATCTATGTCCAAGTAAGTTTATATTTGA
* * *
1592281 CGTATTAAAAATATATA
64 CGT-GTATAAATATCTA
*
1592298 TGTCCAAGTAAGTTTATATTTGAAGTATTAAAAATATCTTTGTCCAAGTAAGTTTATATTTGACG
1 TGTCCAAGTAAGTTTATATTTGAAGTATTAAAAATATCTATGTCCAAGTAAGTTTATATTTGACG
1592363 TGTATAAATATCTA
66 TGTATAAATATCTA
*
1592377 --TCCAAGTAAGTTTATATTTGACA-TATTAAAAATATATATGTCCAAGTAAGTTTATATTTGAC
1 TGTCCAAGTAAGTTTATATTTGA-AGTATTAAAAATATCTATGTCCAAGTAAGTTTATATTTGAC
1592439 GTGTATAAATATCTA
65 GTGTATAAATATCTA
* * * *
1592454 TGTCCAAGTCAGCTTATATTTGACA-TATTAAAAATATCTATGTCCGAGTAACTTTATATTTGAC
1 TGTCCAAGTAAGTTTATATTTGA-AGTATTAAAAATATCTATGTCCAAGTAAGTTTATATTTGAC
1592518 GTGTATAAATATCTA
65 GTGTATAAATATCTA
*
1592533 TGTCCGAGTAAGTTTATATTTGAAGTATTAA
1 TGTCCAAGTAAGTTTATATTTGAAGTATTAA
1592564 TCATCTAATT
Statistics
Matches: 511, Mismatches: 50, Indels: 33
0.86 0.08 0.06
Matches are distributed among these distances:
76 54 0.11
77 158 0.31
78 51 0.10
79 188 0.37
80 57 0.11
81 3 0.01
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.41
Consensus pattern (79 bp):
TGTCCAAGTAAGTTTATATTTGAAGTATTAAAAATATCTATGTCCAAGTAAGTTTATATTTGACG
TGTATAAATATCTA
Found at i:1601785 original size:3 final size:3
Alignment explanation
Indices: 1601779--1601815 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
1601769 TACCCATATC
*
1601779 ATT ATT ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1601816 AATATATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:1602206 original size:21 final size:22
Alignment explanation
Indices: 1602154--1602207 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
1602144 ATAGCTACGG
1602154 GGTGAGTCACCACTGGCAGTCC
1 GGTGAGTCACCACTGGCAGTCC
1602176 GGTGAGTCACCACTGGCAGTCC
1 GGTGAGTCACCACTGGCAGTCC
*
1602198 -GTGACTCACC
1 GGTGAGTCACC
1602208 GAGACCCCCT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 9 0.29
22 22 0.71
ACGTcount: A:0.19, C:0.33, G:0.30, T:0.19
Consensus pattern (22 bp):
GGTGAGTCACCACTGGCAGTCC
Found at i:1614580 original size:25 final size:23
Alignment explanation
Indices: 1614548--1614619 Score: 60
Period size: 25 Copynumber: 3.1 Consensus size: 23
1614538 ATTATGCTTG
*
1614548 AAGAA-AAAAATGAAGAAAAAAA
1 AAGAAGAAAAAAGAAGAAAAAAA
* * *
1614570 AAGAAGTAAAAAAAAAAGGAAAAGA
1 AAGAAG--AAAAAAGAAGAAAAAAA
1614595 AAGAA-AAAAAAGAA-AAAAAGAA
1 AAGAAGAAAAAAGAAGAAAAA-AA
1614617 AAG
1 AAG
1614620 GGGGTCAAGG
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
21 4 0.10
22 17 0.44
25 18 0.46
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (23 bp):
AAGAAGAAAAAAGAAGAAAAAAA
Found at i:1614592 original size:9 final size:8
Alignment explanation
Indices: 1614565--1614618 Score: 56
Period size: 8 Copynumber: 6.5 Consensus size: 8
1614555 AAATGAAGAA
1614565 AAAAAAAG
1 AAAAAAAG
*
1614573 AAGTAAAA-
1 AA-AAAAAG
*
1614581 AAAAAAGG
1 AAAAAAAG
1614589 AAAAGAAAG
1 AAAA-AAAG
1614598 AAAAAAAAG
1 -AAAAAAAG
1614607 AAAAAAAG
1 AAAAAAAG
1614615 AAAA
1 AAAA
1614619 GGGGGTCAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
7 3 0.08
8 20 0.53
9 11 0.29
10 4 0.11
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:1614595 original size:31 final size:32
Alignment explanation
Indices: 1614560--1614620 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 32
1614550 GAAAAAAATG
*
1614560 AAGAAA-AAAAAAGAAGTAAAAAA-AAAAGGAA
1 AAGAAAGAAAAAA-AAGAAAAAAAGAAAAGGAA
1614591 AAGAAAGAAAAAAAAGAAAAAAAGAAAAGG
1 AAGAAAGAAAAAAAAGAAAAAAAGAAAAGG
1614621 GGGTCAAGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (32 bp):
AAGAAAGAAAAAAAAGAAAAAAAGAAAAGGAA
Found at i:1614619 original size:13 final size:13
Alignment explanation
Indices: 1614548--1614619 Score: 67
Period size: 13 Copynumber: 5.2 Consensus size: 13
1614538 ATTATGCTTG
1614548 AAGAAAAAAATGAA
1 AAGAAAAAAA-GAA
1614562 GAA-AAAAAAAGAA
1 -AAGAAAAAAAGAA
*
1614575 GTAAAAAAAAAAGGAA
1 --AAGAAAAAAA-GAA
1614591 AAGAAAGAAAA-AA
1 AAGAAA-AAAAGAA
1614604 AAGAAAAAAAGAA
1 AAGAAAAAAAGAA
1614617 AAG
1 AAG
1614620 GGGGTCAAGG
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
12 4 0.08
13 16 0.32
14 14 0.28
15 13 0.26
16 3 0.06
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.03
Consensus pattern (13 bp):
AAGAAAAAAAGAA
Found at i:1617145 original size:111 final size:113
Alignment explanation
Indices: 1616710--1617264 Score: 940
Period size: 113 Copynumber: 5.0 Consensus size: 113
1616700 CAAAGATTCA
* ** *
1616710 AATCTATCATTTGAAAGATTAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1616775 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
1616823 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1616888 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
*
1616936 AATCCATCATTTGAGGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1617001 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC-ACCTTTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
*
1617048 AATCCATCATTTGA-GGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
*
1617112 AGGAAGAAGAAGTTCATAATTAGAAGAATTTGTTCAACC-TTTACCTG
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
* * * * *
1617159 AATTCATCAATTGATGGATTATCTTTTCCGGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGA
1 AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
* * *
1617223 AGAAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA-CTTTT
66 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
1617265 GCATAATTCT
Statistics
Matches: 425, Mismatches: 14, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
110 1 0.00
111 171 0.40
112 45 0.11
113 208 0.49
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
AATCCATCATTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGA
AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACCTG
Found at i:1617378 original size:95 final size:92
Alignment explanation
Indices: 1617255--1617432 Score: 205
Period size: 95 Copynumber: 1.9 Consensus size: 92
1617245 GAAGAACTTG
* * * * * * * *
1617255 TTCAACTTTTGCATAATTCTATCGCAGAAGGAGATAGATTAGCATCAGCCTTTCTAG-AGAAAGT
1 TTCAACTTTTGAATAACTCTATCACAGAAAGAAAGAGATCAGCATCAGCC---CCAGCAGAAAGT
1617319 TCATAATGAGAAGAACTCATCAAGAGATTA
63 TCATAATGAGAAGAACTCATCAAGAGATTA
* * * *
1617349 TTCAACCTTTTGAATGACTCTATCACAGAAAGAAAGAGGTCAGTATCATCCCCAGCAGAAAGTTC
1 TTCAA-CTTTTGAATAACTCTATCACAGAAAGAAAGAGATCAGCATCAGCCCCAGCAGAAAGTTC
1617414 ATAATGAGAAGAACTCATC
65 ATAATGAGAAGAACTCATC
1617433 TGAAGAAAGA
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
92 3 0.04
93 28 0.40
94 5 0.07
95 34 0.49
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (92 bp):
TTCAACTTTTGAATAACTCTATCACAGAAAGAAAGAGATCAGCATCAGCCCCAGCAGAAAGTTCA
TAATGAGAAGAACTCATCAAGAGATTA
Found at i:1617600 original size:3 final size:3
Alignment explanation
Indices: 1617586--1617693 Score: 150
Period size: 3 Copynumber: 36.3 Consensus size: 3
1617576 TACCCATATC
*
1617586 ATT ATC ATT ATT ATT ATT ATT ATT ATT A-T ATT ATAT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT ATT
*
1617631 ATT ATT ATT -TAT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
1617676 ATT -TA ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
1617694 ATACATATAA
Statistics
Matches: 94, Mismatches: 6, Indels: 10
0.85 0.05 0.09
Matches are distributed among these distances:
2 4 0.04
3 86 0.91
4 4 0.04
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:1630301 original size:19 final size:19
Alignment explanation
Indices: 1630277--1630318 Score: 68
Period size: 19 Copynumber: 2.2 Consensus size: 19
1630267 CTTGAAGAAA
1630277 AAAAGAAAA-AAAAAAAGAG
1 AAAAGAAAAGAAAAAAA-AG
1630296 AAAAGAAAAGAAAAAAAAG
1 AAAAGAAAAGAAAAAAAAG
1630315 AAAA
1 AAAA
1630319 AAAGGGGGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (19 bp):
AAAAGAAAAGAAAAAAAAG
Found at i:1630321 original size:12 final size:12
Alignment explanation
Indices: 1630274--1630313 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
1630264 ATGCTTGAAG
1630274 AAAAAAAGAAAA
1 AAAAAAAGAAAA
*
1630286 AAAAAAAGAGAA
1 AAAAAAAGAAAA
*
1630298 AAGAAAAGAAAA
1 AAAAAAAGAAAA
1630310 AAAA
1 AAAA
1630314 GAAAAAAAGG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAAA
Found at i:1632759 original size:112 final size:112
Alignment explanation
Indices: 1632432--1633086 Score: 1021
Period size: 112 Copynumber: 5.8 Consensus size: 112
1632422 ATTCAAATCT
* *
1632432 ATCATTTGATGGATTATCTTTT-CCAGAGAAGTTCATAATGAGAAGAACTCATCTTAAGAAGGAA
1 ATCACTTGATGGATTAT-TTTTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
1632496 TAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATTTGAATTC
65 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
* * *
1632544 ATCAAATTGATGGATTAGCTTTT-CCAGAGAAGGTTCATAATGAGAAGAACTCATCATCTGAAGG
1 ATC-ACTTGATGGATTA-TTTTTGCCAGAGAA-GTTCATAATGAGAAGAA--C-TCATCTGAAGA
1632608 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
60 AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
1632661 ATCACTTGATGGATTATTTTTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 ATCACTTGATGGATTATTTTTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
*
1632726 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
66 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
*
1632773 ATCACTTGATGGATTATTTTTGCCAGAGAAGTTCATAATGAGAAGAACTCATATGAAGAAGGAAG
1 ATCACTTGATGGATTATTTTTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
*
1632838 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGTCTGAATTC
66 AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
1632885 ATCACTTGATGGATTATTTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
1 ATCACTTGATGGATTATTTTTGCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA
* *
1632950 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-TGCTCAAATC
65 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTAT-CTGAATTC
* * ** *
1632998 TATTACTTGATGGGTTATTTTTTTCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAAGA
1 -ATCACTTGATGGATTATTTTTGCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGA
1633063 AG-AGAAAGTTCATAATGAGAAGAA
64 AGAAG-AAGTTCATAATGAGAAGAA
1633087 CTCATCAAAA
Statistics
Matches: 513, Mismatches: 19, Indels: 20
0.93 0.03 0.04
Matches are distributed among these distances:
112 205 0.40
113 106 0.21
114 97 0.19
115 21 0.04
116 21 0.04
117 63 0.12
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (112 bp):
ATCACTTGATGGATTATTTTTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
AAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTATCTGAATTC
Found at i:1633347 original size:3 final size:3
Alignment explanation
Indices: 1633341--1633424 Score: 152
Period size: 3 Copynumber: 28.3 Consensus size: 3
1633331 TTTTTACTCA
1633341 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
1633389 TAT TAT TAT TAT TAT TAT TAT TAT TAA TA- TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1633425 TAAAATTACA
Statistics
Matches: 79, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
2 2 0.03
3 77 0.97
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:1633903 original size:15 final size:15
Alignment explanation
Indices: 1633883--1633918 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
1633873 AGAGAGATAC
1633883 AAAGAAACAG-AAAAG
1 AAAGAAA-AGAAAAAG
1633898 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
1633913 AAAGAA
1 AAAGAA
1633919 GATAAACTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.78, C:0.03, G:0.19, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:1634794 original size:13 final size:13
Alignment explanation
Indices: 1634778--1634823 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
1634768 ATATAATAAA
1634778 TAAATATTTATTT
1 TAAATATTTATTT
*
1634791 TAAATAAATTATTT
1 TAAAT-ATTTATTT
1634805 T-AATATTTATTT
1 TAAATATTTATTT
*
1634817 TTAATAT
1 TAAATAT
1634824 CGAAGAAAAG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
12 8 0.28
13 13 0.45
14 8 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
TAAATATTTATTT
Found at i:1635702 original size:7 final size:7
Alignment explanation
Indices: 1635690--1635721 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
1635680 AAACTGCAGA
1635690 ATTCTAT
1 ATTCTAT
1635697 ATTCTAT
1 ATTCTAT
*
1635704 ACTCTAT
1 ATTCTAT
1635711 ATTCTAT
1 ATTCTAT
1635718 ATTC
1 ATTC
1635722 GTTTTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.28, C:0.19, G:0.00, T:0.53
Consensus pattern (7 bp):
ATTCTAT
Found at i:1641051 original size:18 final size:19
Alignment explanation
Indices: 1641007--1641058 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
1640997 ACTCTTGTGG
*
1641007 TGAGTATCAATACTCTGCCA
1 TGAGTATCGATACTC-GCCA
1641027 T-AGGTATCGATACTC-CCA
1 TGA-GTATCGATACTCGCCA
1641045 TGAGTATCGATACT
1 TGAGTATCGATACT
1641059 AAATTTGGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
18 15 0.52
19 2 0.07
20 12 0.41
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (19 bp):
TGAGTATCGATACTCGCCA
Found at i:1645377 original size:18 final size:19
Alignment explanation
Indices: 1645328--1645377 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
1645318 TACTCTTGGA
1645328 TGAGTATCGA-ACTGGCAC
1 TGAGTATCGATACTGGCAC
*
1645346 TGGGGTATCGATACTGGC-C
1 T-GAGTATCGATACTGGCAC
*
1645365 TGAGTATCAATAC
1 TGAGTATCGATAC
1645378 CAAATTTAGG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 11 0.41
19 10 0.37
20 6 0.22
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (19 bp):
TGAGTATCGATACTGGCAC
Found at i:1656743 original size:60 final size:60
Alignment explanation
Indices: 1656673--1656788 Score: 151
Period size: 60 Copynumber: 1.9 Consensus size: 60
1656663 ATTATAGAAG
* *
1656673 ATACAAGCATCCATAAGGACTTACCCTAAACCCTTAGGATATGGGAGTCCATTATGAAAA
1 ATACAAGCATCCATAAGGACCTACCCTAAACCCTTAGGATATAGGAGTCCATTATGAAAA
* * * * * * *
1656733 ATACATGCATCCATATGGACCTACCCTAGACTCTTTGGATCTAGGAGTTCATTATG
1 ATACAAGCATCCATAAGGACCTACCCTAAACCCTTAGGATATAGGAGTCCATTATG
1656789 GAATATCAAA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.28
Consensus pattern (60 bp):
ATACAAGCATCCATAAGGACCTACCCTAAACCCTTAGGATATAGGAGTCCATTATGAAAA
Found at i:1663160 original size:22 final size:22
Alignment explanation
Indices: 1663132--1663183 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
1663122 TACATTTCCC
*
1663132 ACAAGCCTACAAATTCTATAAT
1 ACAAGCCCACAAATTCTATAAT
1663154 ACAAGCCCACAAATTCTATAAT
1 ACAAGCCCACAAATTCTATAAT
1663176 ACAAGCCC
1 ACAAGCCC
1663184 TTAGCATGTC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.44, C:0.29, G:0.06, T:0.21
Consensus pattern (22 bp):
ACAAGCCCACAAATTCTATAAT
Found at i:1663933 original size:20 final size:20
Alignment explanation
Indices: 1663908--1663946 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
1663898 CAATGCAGGT
1663908 TTAATTTAAAGTTCTACCAA
1 TTAATTTAAAGTTCTACCAA
1663928 TTAATTTAAAGTTCTACCA
1 TTAATTTAAAGTTCTACCA
1663947 CTAGTCCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.15, G:0.05, T:0.41
Consensus pattern (20 bp):
TTAATTTAAAGTTCTACCAA
Found at i:1665358 original size:13 final size:13
Alignment explanation
Indices: 1665340--1665364 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1665330 ATAGTACAAC
1665340 AAATAAATAATAT
1 AAATAAATAATAT
1665353 AAATAAATAATA
1 AAATAAATAATA
1665365 ATACTCAATG
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATAAATAATAT
Found at i:1667896 original size:18 final size:17
Alignment explanation
Indices: 1667863--1667899 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
1667853 CATATTATTA
1667863 ATAAAAAATATAAAAAT
1 ATAAAAAATATAAAAAT
*
1667880 ATAAAAGAATTTAAAAAT
1 ATAAAA-AATATAAAAAT
1667898 AT
1 AT
1667900 TAGGTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (17 bp):
ATAAAAAATATAAAAAT
Found at i:1685187 original size:12 final size:12
Alignment explanation
Indices: 1685170--1685194 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1685160 TTCCATTCAT
1685170 CAATGGCTCGAA
1 CAATGGCTCGAA
1685182 CAATGGCTCGAA
1 CAATGGCTCGAA
1685194 C
1 C
1685195 CTTGTCCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.28, G:0.24, T:0.16
Consensus pattern (12 bp):
CAATGGCTCGAA
Found at i:1688380 original size:23 final size:23
Alignment explanation
Indices: 1688354--1688400 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
1688344 TGGTAATTAA
*
1688354 TAATATTTTTATAT-TTATAAATT
1 TAATATTTATATATCTT-TAAATT
1688377 TAATATTTATATATCTTTAAATT
1 TAATATTTATATATCTTTAAATT
1688400 T
1 T
1688401 GATCTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 20 0.91
24 2 0.09
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TAATATTTATATATCTTTAAATT
Found at i:1691988 original size:20 final size:19
Alignment explanation
Indices: 1691965--1692016 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
1691955 AGAGTTTTAA
*
1691965 GTTAGAGTTTTGGGGTTAGG
1 GTTAGAGTTTAGGGGTT-GG
1691985 GTTATGA-TTTAGGGGTTGG
1 GTTA-GAGTTTAGGGGTTGG
*
1692004 GTTAGGGTTTAGG
1 GTTAGAGTTTAGG
1692017 ATTTAAGGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 1 0.04
19 12 0.43
20 13 0.46
21 2 0.07
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.40
Consensus pattern (19 bp):
GTTAGAGTTTAGGGGTTGG
Found at i:1692014 original size:19 final size:20
Alignment explanation
Indices: 1691965--1692016 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 20
1691955 AGAGTTTTAA
* *
1691965 GTTAGAGTTTTGGGGTTAGG
1 GTTAGGGTTTAGGGGTTAGG
* *
1691985 GTTATGATTTAGGGGTT-GG
1 GTTAGGGTTTAGGGGTTAGG
1692004 GTTAGGGTTTAGG
1 GTTAGGGTTTAGG
1692017 ATTTAAGGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.40
Consensus pattern (20 bp):
GTTAGGGTTTAGGGGTTAGG
Found at i:1692026 original size:25 final size:25
Alignment explanation
Indices: 1691977--1692026 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
1691967 TAGAGTTTTG
* *
1691977 GGGTTAGGGTTATGATTTAGGGGTT
1 GGGTTAGGGTTAGGATTTAGAGGTT
1692002 GGGTTAGGGTTTAGGATTTA-AGGTT
1 GGGTTAGGG-TTAGGATTTAGAGGTT
1692027 TTAAGTTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.18, C:0.00, G:0.42, T:0.40
Consensus pattern (25 bp):
GGGTTAGGGTTAGGATTTAGAGGTT
Found at i:1692395 original size:30 final size:30
Alignment explanation
Indices: 1692354--1692415 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
1692344 AATAATCAAA
*
1692354 AATAAAATATTATATGCAGA-AGCGTACTTG
1 AATAAAATATTATATGCA-ACAACGTACTTG
*
1692384 AATAAACTATTATATGCAACAACGTACTTG
1 AATAAAATATTATATGCAACAACGTACTTG
1692414 AA
1 AA
1692416 ATATTATATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (30 bp):
AATAAAATATTATATGCAACAACGTACTTG
Found at i:1693739 original size:31 final size:29
Alignment explanation
Indices: 1693678--1693739 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
1693668 AAAATTTTTG
**
1693678 TAGTGACCAAAATATAAATTTTGAAAGTT
1 TAGTGACCAAAATATAAATTAGGAAAGTT
*
1693707 TAGTGACCAAAGTATAAAATTAGGAAAAGTT
1 TAGTGACCAAAATAT-AAATTAGG-AAAGTT
1693738 TA
1 TA
1693740 AAGATCAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 14 0.50
30 6 0.21
31 8 0.29
ACGTcount: A:0.47, C:0.06, G:0.16, T:0.31
Consensus pattern (29 bp):
TAGTGACCAAAATATAAATTAGGAAAGTT
Found at i:1701998 original size:15 final size:15
Alignment explanation
Indices: 1701978--1702036 Score: 118
Period size: 15 Copynumber: 3.9 Consensus size: 15
1701968 ACTTAGGAAA
1701978 CTACTATTCATTCAC
1 CTACTATTCATTCAC
1701993 CTACTATTCATTCAC
1 CTACTATTCATTCAC
1702008 CTACTATTCATTCAC
1 CTACTATTCATTCAC
1702023 CTACTATTCATTCA
1 CTACTATTCATTCA
1702037 TAGTAATGTC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 44 1.00
ACGTcount: A:0.27, C:0.32, G:0.00, T:0.41
Consensus pattern (15 bp):
CTACTATTCATTCAC
Found at i:1702754 original size:28 final size:28
Alignment explanation
Indices: 1702717--1702785 Score: 70
Period size: 28 Copynumber: 2.4 Consensus size: 28
1702707 TGCACTCTAG
*
1702717 GTGCCTTCATATATCAAT-TGCACTCGAAA
1 GTGCC-TCATATAT-AATATACACTCGAAA
*
1702746 GTGCCTCATCA-GTAATATACACTCGAAA
1 GTGCCTCAT-ATATAATATACACTCGAAA
*
1702774 GTGTCTCATATA
1 GTGCCTCATATA
1702786 ACTTGCACCA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
27 4 0.12
28 23 0.70
29 6 0.18
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.30
Consensus pattern (28 bp):
GTGCCTCATATATAATATACACTCGAAA
Found at i:1705974 original size:89 final size:88
Alignment explanation
Indices: 1705869--1706041 Score: 310
Period size: 89 Copynumber: 2.0 Consensus size: 88
1705859 ATATGTTTTA
* *
1705869 ATATTTAATTTCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAATCCCTAATATGA
1 ATATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAA-CCCTAATATGA
1705934 TTAGGGTAACTTGGATATAAGAGG
65 TTAGGGTAACTTGGATATAAGAGG
1705958 ATATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGAT
1 ATATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGAT
*
1706023 TAGGGTAACTTGGCTATAA
66 TAGGGTAACTTGGATATAA
1706042 AAGGGTGTGT
Statistics
Matches: 81, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
88 30 0.37
89 51 0.63
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.38
Consensus pattern (88 bp):
ATATTAAATTCCAATTAATTAAATATAGATTTAATTAATTTGAAATAATAAAACCCTAATATGAT
TAGGGTAACTTGGATATAAGAGG
Found at i:1712944 original size:81 final size:81
Alignment explanation
Indices: 1712828--1713320 Score: 614
Period size: 81 Copynumber: 6.1 Consensus size: 81
1712818 AAGCATTTAG
* * * * * * * * *
1712828 TCTTTTACCCAAAGGCATTTAGCCTATCATTTAACTTGTATGATTGACACCTTTCTG-CTAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACATTTCTGTC-AAATG
* *
1712892 CATAGCTAGG-CATTTTA
65 CACAGCTAGGCCA-TTAA
* * * *
1712909 TCTTTCACTCAAAGGCATTTAGCCTTTCATCTAACTAGCATGATTGACACATTTCTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACATTTCTGTCAAATGC
1712974 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* ** *
1712990 TCTTTTACTTAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACATTTTTCTGTCAATTGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACATTTCTGTCAAATGC
* *
1713055 ACAACTATGCCATTAA
66 ACAGCTAGGCCATTAA
* *
1713071 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTTTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACATTTCTGTCAAATGC
1713136 ACAGCTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * * *
1713152 TATTTTACTTAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTTTGTCAAATGC
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACATTTCTGTCAAATGC
* *
1713217 ATAACTAGGCCATTAA
66 ACAGCTAGGCCATTAA
* * * *
1713233 TCTTTTACTCAAAGGTATTTAACCTTTCTTCTAACT-GCAATAATTTACACCTTTTTGTCAAATG
1 TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGC-ATAATTGACACATTTCTGTCAAATG
* *
1713297 CAAAACTAGGCCATTAA
65 CACAGCTAGGCCATTAA
1713314 TCTTTTA
1 TCTTTTA
1713321 TTTAAAACAT
Statistics
Matches: 372, Mismatches: 37, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
80 2 0.01
81 367 0.99
82 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (81 bp):
TCTTTTACTCAAAGGTATTTAACCTTTCATCTAACTAGCATAATTGACACATTTCTGTCAAATGC
ACAGCTAGGCCATTAA
Found at i:1718204 original size:19 final size:20
Alignment explanation
Indices: 1718180--1718228 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
1718170 TACATAAAGG
1718180 GTATCGATACAAA-GGGGTA
1 GTATCGATACAAAGGGGGTA
1718199 GTATCGATACAAAGGGGGTA
1 GTATCGATACAAAGGGGGTA
1718219 GTATCGATAC
1 GTATCGATAC
1718229 TCCCCATAGA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (20 bp):
GTATCGATACAAAGGGGGTA
Found at i:1718360 original size:18 final size:19
Alignment explanation
Indices: 1718321--1718362 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
1718311 ACTGAAGAGG
*
1718321 GTGAGTATCGATAGTACCAT
1 GTGAGTATCAATAG-ACCAT
1718341 GTGAGTATCAATAG-CCAT
1 GTGAGTATCAATAGACCAT
1718359 GTGA
1 GTGA
1718363 AAATTTGGGC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.38
20 13 0.62
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (19 bp):
GTGAGTATCAATAGACCAT
Found at i:1722819 original size:30 final size:30
Alignment explanation
Indices: 1722783--1722842 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
1722773 GTTTACCATA
* *
1722783 TGCACTAACAGTCTTTACACACTACAGTGC
1 TGCACTAACAGTCCTTACACACTAAAGTGC
**
1722813 TGCACTAAGTGTCCTTACACACTAAAGTGC
1 TGCACTAACAGTCCTTACACACTAAAGTGC
1722843 CAATACACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (30 bp):
TGCACTAACAGTCCTTACACACTAAAGTGC
Found at i:1725142 original size:171 final size:171
Alignment explanation
Indices: 1724825--1725159 Score: 528
Period size: 171 Copynumber: 2.0 Consensus size: 171
1724815 CATTCCCACG
*
1724825 AAAACGTCATTCTTGGGGGTAAACTACTCATTTATGAAATAAAAATTCTTTTTGAGAAAATAACC
1 AAAACGTCATTCTTGGGGATAAACTACTCATTTATGAAATAAAAATTCTTTTTGAGAAAATAACC
* * *
1724890 AATTTGGTCCCTAAAATTTTTCTAATTTAAACTTTGCCCACTAACTTTCAAAATTTATATTTTGG
66 AATTTGATCCCTAAAATTTTCCTAATTTAAACTTTACCCACTAACTTTCAAAATTTATATTTTGG
*
1724955 TCACTAACCAAAATTTGGGGTGTTAAAGTTCTCCTACTTTT
131 TCACTAACCAAAATTTGGGGTATTAAAGTTCTCCTACTTTT
* * * *
1724996 AAAACGTCATTCTTGGGGATAAACTACTCATTTATGACATAAAAATTCTTTTTGGGAAAATTACT
1 AAAACGTCATTCTTGGGGATAAACTACTCATTTATGAAATAAAAATTCTTTTTGAGAAAATAACC
* * * * *
1725061 ACTTTGATCCCTAAAATTTTCCTAATTTATACTTTATCCACTAAACTTTCAAATTTTATGTTTTG
66 AATTTGATCCCTAAAATTTTCCTAATTTAAACTTTACCCACT-AACTTTCAAAATTTATATTTTG
1725126 GTCACTAACC-AAATTTGGGGTATTAAAGTTCTCC
130 GTCACTAACCAAAATTTGGGGTATTAAAGTTCTCC
1725160 CCCTTAAGGA
Statistics
Matches: 149, Mismatches: 14, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
171 119 0.80
172 30 0.20
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (171 bp):
AAAACGTCATTCTTGGGGATAAACTACTCATTTATGAAATAAAAATTCTTTTTGAGAAAATAACC
AATTTGATCCCTAAAATTTTCCTAATTTAAACTTTACCCACTAACTTTCAAAATTTATATTTTGG
TCACTAACCAAAATTTGGGGTATTAAAGTTCTCCTACTTTT
Found at i:1728902 original size:57 final size:57
Alignment explanation
Indices: 1728815--1729284 Score: 656
Period size: 57 Copynumber: 8.4 Consensus size: 57
1728805 ATGGCATTGA
*
1728815 GTGTGCAAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTT
* * *
1728871 GTGTGCAAAAAGCTAAGAAATTCATAATAAGTTTATAAATTTCCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTT
* * * * *
1728928 GTGTGCAAAAAGTTAAGAAATTCATAATTATTTTAT-AAATTTCTATATGGTCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTTC-GTATGGGCACTTT
1728985 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAA-TTTCTGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTTC-GTATGGGCACTTT
* * * * *
1729042 TTGTGCAAAAAGTTAAGAAATTCATAATTAG-TT-T--A-TTCCGTATAGGTACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTT
* *
1729094 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTTCATATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTT
*
1729151 -TGTGCAAAAAGTTAAGAATTTCATAATAAGTTTATGAATTTTCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTT
*
1729207 GTGTGCAAAAAGTTAAGAAATTCATAATTAA-TTTATGAATTTACGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAA-TAAGTTTATGAATTTTCGTATGGGCACTTT
* *
1729264 ATGTGCAAAAA-CTAAGAAATT
1 GTGTGCAAAAAGTTAAGAAATT
1729285 ATATGAATTT
Statistics
Matches: 374, Mismatches: 30, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
52 41 0.11
53 6 0.02
54 1 0.00
55 1 0.00
56 81 0.22
57 239 0.64
58 5 0.01
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (57 bp):
GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTT
Found at i:1735456 original size:19 final size:19
Alignment explanation
Indices: 1735428--1735467 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
1735418 GTAAAAATGA
*
1735428 TATCGATACCGTAATAGAG
1 TATCGATACCATAATAGAG
* *
1735447 TATCGGTACCATAATATAG
1 TATCGATACCATAATAGAG
1735466 TA
1 TA
1735468 GTATCGATAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.30
Consensus pattern (19 bp):
TATCGATACCATAATAGAG
Found at i:1735912 original size:57 final size:57
Alignment explanation
Indices: 1735828--1736303 Score: 749
Period size: 57 Copynumber: 8.4 Consensus size: 57
1735818 ATGGCACTGA
*
1735828 GTGTGCAAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
* *
1735884 GTGTGCAAAAAGCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
* *
1735941 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGAATGGGCAATTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
*
1735998 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGAATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
* * * *
1736055 CTGTGCAAAAAGTTAAGAGATTCATAATGAGTTTATGAATTTTCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
* * * *
1736112 GTGTGCAAAAAGTTAAGAAATTAATAATTAGTTTATGAATTTTCGTATGAGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
*
1736169 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTACGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
* * * *
1736226 CTGTGCAAAAAGTTAAAAAATTCATAATTAGTTTATGAATTTTCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
* *
1736283 ATGTGCAAAAA-CTAAGAAATT
1 GTGTGCAAAAAGTTAAGAAATT
1736304 ATATGAATTT
Statistics
Matches: 390, Mismatches: 29, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
56 19 0.05
57 371 0.95
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.35
Consensus pattern (57 bp):
GTGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTT
Found at i:1745127 original size:21 final size:21
Alignment explanation
Indices: 1745102--1745144 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1745092 AAATAATATA
1745102 TATAAAAG-AAATAGATTTATT
1 TATAAAAGTAAA-AGATTTATT
*
1745123 TATAAAAGTAAAATATTTATT
1 TATAAAAGTAAAAGATTTATT
1745144 T
1 T
1745145 TTATTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (21 bp):
TATAAAAGTAAAAGATTTATT
Found at i:1745306 original size:23 final size:23
Alignment explanation
Indices: 1745278--1745353 Score: 68
Period size: 26 Copynumber: 3.3 Consensus size: 23
1745268 TTAATAGAAA
*
1745278 TAAAATAAATAAATATTATTTAT
1 TAAAATAAATATATATTATTTAT
*
1745301 TAAAAT-TATATATATGTATTTATGAT
1 TAAAATAAATATATAT-TA-TT-T-AT
*
1745327 TAAAATACATATATATTA--TAT
1 TAAAATAAATATATATTATTTAT
1745348 TAAAAT
1 TAAAAT
1745354 TGAAATACAA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
21 8 0.18
22 8 0.18
23 8 0.18
24 2 0.04
25 1 0.02
26 10 0.22
27 8 0.18
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (23 bp):
TAAAATAAATATATATTATTTAT
Found at i:1746808 original size:3 final size:3
Alignment explanation
Indices: 1746800--1746838 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
1746790 ATATTTATTA
1746800 AAT AAT AAT AAT AAT ATAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AA
1746839 AAGAAAAAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1747179 original size:73 final size:73
Alignment explanation
Indices: 1747023--1747439 Score: 708
Period size: 73 Copynumber: 5.7 Consensus size: 73
1747013 CATCTTCCAA
* * * *
1747023 TGTATGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAACTCCCGAAGCCTTTTTTAAAAAC
1 TGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGC-TTTTTGAAAAC
1747088 ATCATGCAC
65 ATCATGCAC
* *
1747097 TGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAATCTCCAGAAGGCTTTTTGAAAACA
1 TGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACA
1747162 TCATGCAC
66 TCATGCAC
* * *
1747170 TGTAGGTCTTACAAATGACCCTGAGGCTTTAAGATCAAAAAGATCCCTAAGGCTTTTTGAAAACA
1 TGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACA
1747235 TCATGCAC
66 TCATGCAC
* *
1747243 TGTAGGTCTTATAGATGACCCTGAGGCTTTAAGATCAAAAAGATCCCGAAGGCTTTTTGAAAACA
1 TGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACA
1747308 TCATGCAC
66 TCATGCAC
*
1747316 TGTAGGTCTTATAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACA
1 TGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACA
1747381 TCATGCAC
66 TCATGCAC
*
1747389 TGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTTCCGAAG
1 TGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAG
1747440 TGTTGAAAAC
Statistics
Matches: 327, Mismatches: 16, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
73 278 0.85
74 49 0.15
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (73 bp):
TGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACA
TCATGCAC
Found at i:1747808 original size:65 final size:62
Alignment explanation
Indices: 1747684--1747893 Score: 183
Period size: 65 Copynumber: 3.3 Consensus size: 62
1747674 TGTTTCAGAG
* * ** ** *
1747684 TGATGCACCGATGCACCAATCCATGCATCGATGCACCATGAATTAAATTG-AACAGCGAATGCAT
1 TGATGCATCGATGCA-CAA-CCATGCACCGATGCACC-TG-GCTATTTTGAAACATCGAATGCAT
1747748 T
62 T
*
1747749 TCATGCATCGATGCACATACCATGCACCGATGCA-CTGAG-TAATTTATGAAAACATCGAATGCA
1 TGATGCATCGATGCACA-ACCATGCACCGATGCACCTG-GCT-ATTT-TG-AAACATCGAATGCA
1747812 TT
61 TT
* * * * *
1747814 TGACGCATCGATGTACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCACT
1 TGATGCATCGATGCA-CAACCATGCACCGATGCAC-CTGGCTATTTTGAAACATCGAATGCATT
1747878 TGATGCATCGATGCAC
1 TGATGCATCGATGCAC
1747894 TCTTAGTGCA
Statistics
Matches: 121, Mismatches: 15, Indels: 20
0.78 0.10 0.13
Matches are distributed among these distances:
61 1 0.01
62 5 0.04
63 4 0.03
64 44 0.36
65 56 0.46
66 7 0.06
67 4 0.03
ACGTcount: A:0.31, C:0.25, G:0.19, T:0.25
Consensus pattern (62 bp):
TGATGCATCGATGCACAACCATGCACCGATGCACCTGGCTATTTTGAAACATCGAATGCATT
Found at i:1749865 original size:21 final size:21
Alignment explanation
Indices: 1749840--1749879 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1749830 AAGACTCTAT
1749840 TTTCAAAATACAAAAATGATA
1 TTTCAAAATACAAAAATGATA
**
1749861 TTTCAAAATTGAAAAATGA
1 TTTCAAAATACAAAAATGA
1749880 AAATAGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.30
Consensus pattern (21 bp):
TTTCAAAATACAAAAATGATA
Found at i:1755359 original size:21 final size:21
Alignment explanation
Indices: 1755317--1755360 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1755307 ACTCCGGGAG
* *
1755317 CTAGTTCCTCACGAGCTGCTC
1 CTAGCTCCTCACGAGCTCCTC
* *
1755338 CTAGCTCCTCTCGTGCTCCTC
1 CTAGCTCCTCACGAGCTCCTC
1755359 CT
1 CT
1755361 CCGGCTCCAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.43, G:0.16, T:0.32
Consensus pattern (21 bp):
CTAGCTCCTCACGAGCTCCTC
Found at i:1757231 original size:73 final size:73
Alignment explanation
Indices: 1757110--1757665 Score: 977
Period size: 73 Copynumber: 7.6 Consensus size: 73
1757100 TAACTCAACA
*
1757110 CGAAGTCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAA
1 CGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAA
*
1757175 AAAGCTAC
66 AAAGCTCC
* * *
1757183 CGAAGGCGTTTTGAAAACATCATGCATTGTAGGTCTTACAGATAACCCTGAGGCTTTAAGATCAA
1 CGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAA
1757248 AAAGCTCC
66 AAAGCTCC
*
1757256 CGAAGGCTTTTTGGAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAA
1 CGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAA
1757321 AAAGCTCC
66 AAAGCTCC
*
1757329 CGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGATTTAAGATCAA
1 CGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAA
1757394 AAAGCTCC
66 AAAGCTCC
1757402 CGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAA
1 CGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAA
1757467 AAAGCTCC
66 AAAGCTCC
* * * *
1757475 CAAAGGCTTTTTGGAAACATCATGCACTGTAGGTCTTATAGATGGCCCTGAGGCTTTAAGATCAA
1 CGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAA
*
1757540 AAAGCTGC
66 AAAGCTCC
*
1757548 CGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGGGGCTTTAAGATCAA
1 CGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATC-A
1757613 AAAAGCTCC
65 AAAAGCTCC
*
1757622 CGAAGGCTTTTTGAAAACATCATGCAATGTAGGTCTTACAGATG
1 CGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATG
1757666 TTGGAAATAG
Statistics
Matches: 458, Mismatches: 24, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
73 406 0.89
74 52 0.11
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.27
Consensus pattern (73 bp):
CGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAA
AAAGCTCC
Found at i:1763080 original size:8 final size:8
Alignment explanation
Indices: 1763067--1763112 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
1763057 CTTGATTCAA
1763067 TTTTTTTC
1 TTTTTTTC
1763075 TTTTTTTCC
1 TTTTTTT-C
1763084 TTTTTTTC
1 TTTTTTTC
*
1763092 CTTTTTTC
1 TTTTTTTC
* *
1763100 CTTTTTCC
1 TTTTTTTC
1763108 TTTTT
1 TTTTT
1763113 CATTTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
8 26 0.76
9 8 0.24
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTTC
Found at i:1763087 original size:17 final size:17
Alignment explanation
Indices: 1763067--1763121 Score: 71
Period size: 17 Copynumber: 3.4 Consensus size: 17
1763057 CTTGATTCAA
*
1763067 TTTTTTTCTTTTTTTCC
1 TTTTTTTCCTTTTTTCC
1763084 TTTTTTTCCTTTTTTCC
1 TTTTTTTCCTTTTTTCC
*
1763101 --TTTTTCC-TTTTTCA
1 TTTTTTTCCTTTTTTCC
1763115 TTTTTTT
1 TTTTTTT
1763122 TATGAATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
14 6 0.18
15 7 0.21
16 5 0.15
17 16 0.47
ACGTcount: A:0.02, C:0.18, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTTTTCCTTTTTTCC
Found at i:1763113 original size:7 final size:7
Alignment explanation
Indices: 1763086--1763119 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
1763076 TTTTTTCCTT
1763086 TTTTTCC
1 TTTTTCC
1763093 TTTTTTCC
1 -TTTTTCC
1763101 TTTTTCC
1 TTTTTCC
*
1763108 TTTTTCA
1 TTTTTCC
1763115 TTTTT
1 TTTTT
1763120 TTTATGAATG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 18 0.72
8 7 0.28
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTTTCC
Found at i:1763121 original size:9 final size:9
Alignment explanation
Indices: 1763067--1763105 Score: 64
Period size: 8 Copynumber: 4.6 Consensus size: 9
1763057 CTTGATTCAA
1763067 TTTTTTT-C
1 TTTTTTTCC
1763075 TTTTTTTCC
1 TTTTTTTCC
1763084 TTTTTTTCC
1 TTTTTTTCC
1763093 -TTTTTTCC
1 TTTTTTTCC
1763101 TTTTT
1 TTTTT
1763106 CCTTTTTCAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
8 15 0.52
9 14 0.48
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTTTTCC
Found at i:1763600 original size:193 final size:195
Alignment explanation
Indices: 1763271--1763661 Score: 750
Period size: 193 Copynumber: 2.0 Consensus size: 195
1763261 ATTCATGAAG
1763271 ATTTGTCTTTGTAATTGACAATCTTTATCCCTATGAGCAGATATTCTTCTTCTTGCCCCCCAATA
1 ATTTGTCTTTGTAATTGACAATCTTTATCCCTATGAGCAGATATTCTTCTTCTTGCCCCCCAATA
1763336 TGGAGGGTGATCCTTGGTTAAGGTTGAATCAGAAAAAATATTATAGGCTTAAAAGGGGACAACAA
66 TGGAGGGTGATCCTTGGTTAAGGTTGAATCAGAAAAAATATTATAGGCTTAAAAGGGGACAACAA
1763401 GGG-ATATATAC-ATATATTTGAAAGTATAAATGAAACAATTTCGTTCGTCATCTCATACACAGA
131 GGGAATATATACAATATATTTGAAAGTATAAATGAAACAATTTCGTTCGTCATCTCATACACAGA
1763464 ATTTGTCTTTGTAATTGACAATCTTTATCCCTATGAGCAGATATTCTTCTTCTTGCCCCCCAATA
1 ATTTGTCTTTGTAATTGACAATCTTTATCCCTATGAGCAGATATTCTTCTTCTTGCCCCCCAATA
1763529 TGGAGGGTGATCCTTGGTTAAGGTTGAATCAGAAAAAATATTATAGGCTTAAAAGGGGACAACAA
66 TGGAGGGTGATCCTTGGTTAAGGTTGAATCAGAAAAAATATTATAGGCTTAAAAGGGGACAACAA
1763594 GGGATATATATACATATATATTTGAAAGTATAAATGAAACAATTTCGTTCGTCATCTCATACACA
131 GGGA-ATATATACA-ATATATTTGAAAGTATAAATGAAACAATTTCGTTCGTCATCTCATACACA
1763659 GA
194 GA
1763661 A
1 A
1763662 GCCTTTGTAA
Statistics
Matches: 194, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
193 133 0.69
195 8 0.04
197 53 0.27
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Consensus pattern (195 bp):
ATTTGTCTTTGTAATTGACAATCTTTATCCCTATGAGCAGATATTCTTCTTCTTGCCCCCCAATA
TGGAGGGTGATCCTTGGTTAAGGTTGAATCAGAAAAAATATTATAGGCTTAAAAGGGGACAACAA
GGGAATATATACAATATATTTGAAAGTATAAATGAAACAATTTCGTTCGTCATCTCATACACAGA
Found at i:1767649 original size:2 final size:2
Alignment explanation
Indices: 1767632--1767688 Score: 84
Period size: 2 Copynumber: 30.0 Consensus size: 2
1767622 ACTAATAAAC
*
1767632 AT AT A- AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1767672 AT A- AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT
1767689 TTTGAAGAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
1 3 0.06
2 47 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1768358 original size:21 final size:21
Alignment explanation
Indices: 1768333--1768375 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
1768323 AAATAATATA
1768333 TATAAAAG-AAATAGATTTATT
1 TATAAAAGTAAA-AGATTTATT
*
1768354 TATAAAAGTAAAATATTTATT
1 TATAAAAGTAAAAGATTTATT
1768375 T
1 T
1768376 TTATTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (21 bp):
TATAAAAGTAAAAGATTTATT
Found at i:1768534 original size:22 final size:23
Alignment explanation
Indices: 1768509--1768559 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 23
1768499 TTAATAGAAA
*
1768509 TAAAATTAATAAATAT-TATTAT
1 TAAAATTAATAAATATGTATGAT
* *
1768531 TAAAATTATTATATATGTATGAT
1 TAAAATTAATAAATATGTATGAT
1768554 TAAAAT
1 TAAAAT
1768560 ACATATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
22 14 0.56
23 11 0.44
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (23 bp):
TAAAATTAATAAATATGTATGAT
Found at i:1770020 original size:3 final size:3
Alignment explanation
Indices: 1770012--1770050 Score: 69
Period size: 3 Copynumber: 12.7 Consensus size: 3
1770002 ATATTTATTA
1770012 AAT AAT AAT AAT ATAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA
1770051 AGGAAAAAGG
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 32 0.91
4 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1771332 original size:22 final size:23
Alignment explanation
Indices: 1771284--1771332 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 23
1771274 AGAGGGGCCA
*
1771284 TAAAACCCTATGGTGATGGCATC
1 TAAAACCCTATGGTGATGGCAAC
* *
1771307 -AAAA-CCTATTGTGGTGGCAAC
1 TAAAACCCTATGGTGATGGCAAC
1771328 TAAAA
1 TAAAA
1771333 TGGAGGCGGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 14 0.64
22 8 0.36
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (23 bp):
TAAAACCCTATGGTGATGGCAAC
Found at i:1775116 original size:13 final size:13
Alignment explanation
Indices: 1775100--1775129 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
1775090 TTTAATTGCG
1775100 AAAATTAAAATTT
1 AAAATTAAAATTT
1775113 AAAATTAAAATTT
1 AAAATTAAAATTT
1775126 AAAA
1 AAAA
1775130 ACTCGATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:1775407 original size:15 final size:16
Alignment explanation
Indices: 1775376--1775422 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
1775366 AAAAGAAATC
*
1775376 AACGAAA-AAAGAAAA
1 AACGAAATAAATAAAA
* *
1775391 AA-GAACTAGATAAAA
1 AACGAAATAAATAAAA
1775406 AACGAAATAAATAAAA
1 AACGAAATAAATAAAA
1775422 A
1 A
1775423 CCTTTTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
14 3 0.12
15 10 0.40
16 12 0.48
ACGTcount: A:0.74, C:0.06, G:0.11, T:0.09
Consensus pattern (16 bp):
AACGAAATAAATAAAA
Found at i:1776761 original size:37 final size:37
Alignment explanation
Indices: 1776720--1777010 Score: 304
Period size: 38 Copynumber: 7.5 Consensus size: 37
1776710 TATAATATGG
* *
1776720 ACTATATAATATATATATTTCAAAAAATATTTTTAAA
1 ACTATATAATATATATATTTCAAAAAATGTTTTAAAA
*
1776757 ACTATATAATATATATATTTTAAAAAGGAT-TTTTAAAA
1 ACTATATAATATATATATTTCAAAAA--ATGTTTTAAAA
*
1776795 ACTATATATTATATATAAGTTTTC-AAAAATGTTTTTAAAA
1 ACTATATAATATATAT-A--TTTCAAAAAATG-TTTTAAAA
*
1776835 ATTATATAATATATATATTTTCAAAAAATGTTTTAAAA
1 ACTATATAATATATATA-TTTCAAAAAATGTTTTAAAA
*
1776873 ACTATATATTATATA-AGTTTC-AAAAATGTTTTAAAAA
1 ACTATATAATATATATA-TTTCAAAAAATGTTTT-AAAA
*
1776910 ACTATATAATATATATATGTT-TAAAAATGTTTTAAAA
1 ACTATATAATATATATAT-TTCAAAAAATGTTTTAAAA
*
1776947 ACTATATTATATATATATATATATATATTAAAAATGTTTTCAAAA
1 ACTATA-TA-ATATATATAT-T-T-CA--AAAAATGTTTT-AAAA
1776992 ACTATATATATATATATAT
1 ACTATATA-ATATATATAT
1777011 ATATATTTGA
Statistics
Matches: 222, Mismatches: 12, Indels: 33
0.83 0.04 0.12
Matches are distributed among these distances:
36 11 0.05
37 59 0.27
38 66 0.30
39 22 0.10
40 27 0.12
41 3 0.01
44 24 0.11
45 10 0.05
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (37 bp):
ACTATATAATATATATATTTCAAAAAATGTTTTAAAA
Found at i:1776808 original size:38 final size:38
Alignment explanation
Indices: 1776720--1777010 Score: 287
Period size: 37 Copynumber: 7.5 Consensus size: 38
1776710 TATAATATGG
*
1776720 ACTATATAATATATATATTTCAAAAAAT-ATTTTT-AAA
1 ACTATATAATATATATATTT-TAAAAATGATTTTTAAAA
*
1776757 ACTATATAATATATATATTTTAAAAAGGATTTTTAAAA
1 ACTATATAATATATATATTTTAAAAATGATTTTTAAAA
*
1776795 ACTATATATTATATATAAGTTTTCAAAAATG-TTTTTAAAA
1 ACTATATAATATATAT-A-TTTT-AAAAATGATTTTTAAAA
*
1776835 ATTATATAATATATATATTTTCAAAAA--ATGTTTTAAAA
1 ACTATATAATATATATATTTT-AAAAATGAT-TTTTAAAA
* * *
1776873 ACTATATATTATATA-AGTTTCAAAAATG-TTTTAAAAA
1 ACTATATAATATATATA-TTTTAAAAATGATTTTTAAAA
1776910 ACTATATAATATATATATGTTTAAAAATG--TTTTAAAA
1 ACTATATAATATATATAT-TTTAAAAATGATTTTTAAAA
*
1776947 ACTATATTATATATATATATATATATATTAAAAATG-TTTTCAAAA
1 AC-----TATATA-ATATATATAT-T-TTAAAAATGATTTTTAAAA
1776992 ACTATATATATATATATAT
1 ACTATATA-ATATATATAT
1777011 ATATATTTGA
Statistics
Matches: 219, Mismatches: 15, Indels: 37
0.81 0.06 0.14
Matches are distributed among these distances:
36 5 0.02
37 64 0.29
38 63 0.29
39 2 0.01
40 44 0.20
41 6 0.03
42 6 0.03
43 11 0.05
44 9 0.04
45 9 0.04
ACGTcount: A:0.49, C:0.04, G:0.03, T:0.44
Consensus pattern (38 bp):
ACTATATAATATATATATTTTAAAAATGATTTTTAAAA
Found at i:1777031 original size:44 final size:41
Alignment explanation
Indices: 1776722--1777050 Score: 152
Period size: 38 Copynumber: 8.2 Consensus size: 41
1776712 TAATATGGAC
**
1776722 TATATA-ATATATATATTTCAAAAAATATTTTTAAAAC--TATA
1 TATATATATATATATATTT--AAAAAT-TTTCAAAAACTATATA
* *
1776763 TA-ATATATATAT-T-TTAAAAAGGATTTTTAAAAACTATATA
1 TATATATATATATATATTTAAAA--ATTTTCAAAAACTATATA
* *
1776803 T-TATATATA-AGT-T-TTCAAAAATGTTTTTAAAAA-T-TATA
1 TATATATATATA-TATATTTAAAAA--TTTTCAAAAACTATATA
* *
1776841 TA-ATATATATAT-T-TTCAAAAAATGTTTTAAAAAC--TATA
1 TATATATATATATATATT-TAAAAAT-TTTCAAAAACTATATA
* * * *
1776879 TAT-TATATA-A-GT-TTCAAAAATGTTTTAAAAA--A-CTA
1 TATATATATATATATATTTAAAAAT-TTTCAAAAACTATATA
* *
1776914 TATA-ATATATATATGTTTAAAAATGTTTTAAAAACTATATTA
1 TATATATATATATATATTTAAAAAT-TTTCAAAAACTATA-TA
1776956 TATATATATATATATATATTAAAAATGTTTTCAAAAACTATATA
1 TATATATATATATATAT-TTAAAAA--TTTTCAAAAACTATATA
* *
1777000 TATATATATATATATATTTGAAAACCATTTTCTGAAAATTATATA
1 TATATATATATATATATTT-AAAA--ATTTTC-AAAAACTATATA
1777045 T-TATAT
1 TATATAT
1777051 TTTTCAAAAG
Statistics
Matches: 242, Mismatches: 13, Indels: 63
0.76 0.04 0.20
Matches are distributed among these distances:
35 10 0.04
36 17 0.07
37 10 0.04
38 65 0.27
39 12 0.05
40 35 0.14
41 8 0.03
42 6 0.02
43 13 0.05
44 40 0.17
45 24 0.10
46 2 0.01
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.44
Consensus pattern (41 bp):
TATATATATATATATATTTAAAAATTTTCAAAAACTATATA
Found at i:1777851 original size:80 final size:80
Alignment explanation
Indices: 1777647--1778746 Score: 874
Period size: 80 Copynumber: 13.4 Consensus size: 80
1777637 ATTTTGTTAA
* * * * * * * *
1777647 CAGATAACCCTTCTTGCTTTGAGCTATGCTGTAAATTTGATTTGCCTCTGAGTTGAATGTAATCG
1 CAGATAGCCCTTCTTGCCTTGAGTTATGCTGCAAA--TGATGTGCCTTTGAGCTGAGTGTAATCG
*
1777712 AACTAGAAGGTCTTTTGTTGG
64 AACTCGAAGGTC---T-TTGG
* * * *
1777733 CAGATAACACTTCTCGCCTTGAGTTATGTTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
1 CAGATAGCCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
1777798 CTCGAAGGTCTTTGG
66 CTCGAAGGTCTTTGG
* * * * * *
1777813 CAGATAGCCCTTTTTTCCTTGAGCTATACTGCAAATGATGTGCCTTTGAGTTGAGTGTAATCAAA
1 CAGATAGCCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
* *
1777878 CTTGAAAGTCTTTGG
66 CTCGAAGGTCTTTGG
* *
1777893 CAGATAGCCCTTCTTACCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAA
1 CAGATAGCCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
1777958 CTCGAAGGTCTTTGG
66 CTCGAAGGTCTTTGG
* * * * *
1777973 TAGATAGCCCTTCTTGCCTTGAGTTATGCTACAAATGATATGCCTTTGAGCTAAGTGTAATCAAA
1 CAGATAGCCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
1778038 CTCGAAGGTCTTTTGATG
66 CTCGAAGGTC-TTTG--G
* * * * *
1778056 ACAGATAACCCTTCTAGCCTTGAGTTATACTACAAATGATGTGCCTTTGAGCTGAGTGTAATCAA
1 -CAGATAGCCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGA
*
1778121 ACTCAAAGGTCTTTGG
65 ACTCGAAGGTCTTTGG
* * * *
1778137 CAGATAGCCCTTCTTGCATTGAGTTATGTTACAAATGATGTGCCTTTGAGTTGAGTGTAATCGAA
1 CAGATAGCCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
*
1778202 CTCGAAGGTCTTTGA
66 CTCGAAGGTCTTTGG
* * * * *
1778217 CGGATAGCTCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTTAATGTAATCGAA
1 CAGATAGCCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
1778282 CTCGAAGGTCTTTTGATG
66 CTCGAAGGTC-TTTG--G
* * * * * * *
1778300 ATAGATAACCCTT-TTAACATTGAGTTATGCTACAAATGATGTGCCTATAAGCTGAGTGTAATCG
1 -CAGATAGCCCTTCTT-GCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCG
** ** *
1778364 CCCTTTTAA---CATT-G
64 AAC-TCGAAGGTCTTTGG
* * ** * * * * * * *** * *
1778378 -AGTTATGCTACAAATGATGTGCATATAACCCTTTTGATG-ATA-GATAACCCTTTTAACTCGAA
1 CAGATA-GC--C--CTTCT-TGCCT-TGA--GTTATGCTGCAAATGATGTGCCTTTGAGCT-G-A
** * * * ** *
1778440 G-GTCTTTG-GC-AGATAGCCCTTCGG
55 GTGTAATCGAACTCGA-AGGTCTTTGG
* * * *
1778464 CAGATAGCCCTTCTTGCCTTGAGCTACGCTGCAAATGATGTACCTTTGAGCTGAGTGTAATAGAA
1 CAGATAGCCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
*
1778529 CTCGAAGGTCTTGGTTGA
66 CTCGAAGGTC-T--TTGG
* * * * * * * * *
1778547 CAGATAACCTTTCTCGCCTTGTGTTGTGCTGTAAATGATATGCC-TAGAAGCTGAGTGTAATCAA
1 CAGATAGCCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTG-AGCTGAGTGTAATCGA
*
1778611 ACTTGAAGGTCTTGTGTTGG
65 ACTCGAAGGTC---T-TTGG
* *
1778631 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAATCGAA
1 CAGATAGCCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
1778696 CTCGAAGGTCTTTTGTTG
66 CTCGAAGGTC-TTTG--G
* *
1778714 ACAGATAACCCTTCTAGCCTTGAGTTATGCTGC
1 -CAGATAGCCCTTCTTGCCTTGAGTTATGCTGC
1778747 CAATAGTTTC
Statistics
Matches: 811, Mismatches: 160, Indels: 88
0.77 0.15 0.08
Matches are distributed among these distances:
76 4 0.00
77 1 0.00
78 7 0.01
79 8 0.01
80 369 0.45
81 24 0.03
82 11 0.01
83 82 0.10
84 254 0.31
85 15 0.02
86 32 0.04
87 4 0.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (80 bp):
CAGATAGCCCTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAA
CTCGAAGGTCTTTGG
Found at i:1778135 original size:244 final size:244
Alignment explanation
Indices: 1777647--1778362 Score: 949
Period size: 244 Copynumber: 2.9 Consensus size: 244
1777637 ATTTTGTTAA
* * * * * * *
1777647 CAGATAACCCTTCTTGCTTTGAGCTATGCTGTAAATTTGATTTGCCTCTGAGTTGAATGTAATCG
1 CAGATAGCCCTTCTTGCATTGAGTTATGCTGCAAA--TGATGTGCCTTTGAGTTGAGTGTAATCG
* * * *
1777712 AACTAGAAGGTCTTTTGTTGGCAGATAACACTTCTCGCCTTGAGTTATGTTGCAAATGATGTGCC
64 AACTCGAAGGTC---T-TTGGCAGATAGCACTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCC
* * ** *
1777777 TTTGAGCTGAGTGTAATCGAACTCGAAGGTC-TTTG--G-CAGATAGCCCTTTTTTCCTTGAGCT
125 TTTGAGCTAAGTGTAATCGAACTCGAAGGTCTTTTGATGACAGATAACCCTTTTAACCTTGAGTT
* * *
1777838 ATACTGCAAATGATGTGCCTTTGAGTTGAGTGTAATCAAACTTGAAAGTCTTTGG
190 ATACTACAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTTCAAAGTCTTTGG
* * * *
1777893 CAGATAGCCCTTCTTACCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAA
1 CAGATAGCCCTTCTTGCATTGAGTTATGCTGCAAATGATGTGCCTTTGAGTTGAGTGTAATCGAA
* * * *
1777958 CTCGAAGGTCTTTGGTAGATAGCCCTTCTTGCCTTGAGTTATGCTACAAATGATATGCCTTTGAG
66 CTCGAAGGTCTTTGGCAGATAGCACTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAG
* * *
1778023 CTAAGTGTAATCAAACTCGAAGGTCTTTTGATGACAGATAACCCTTCTAGCCTTGAGTTATACTA
131 CTAAGTGTAATCGAACTCGAAGGTCTTTTGATGACAGATAACCCTTTTAACCTTGAGTTATACTA
1778088 CAAATGATGTGCCTTTGAGCTGAGTGTAATCAAAC-TCAAAGGTCTTTGG
196 CAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTTCAAA-GTCTTTGG
* *
1778137 CAGATAGCCCTTCTTGCATTGAGTTATGTTACAAATGATGTGCCTTTGAGTTGAGTGTAATCGAA
1 CAGATAGCCCTTCTTGCATTGAGTTATGCTGCAAATGATGTGCCTTTGAGTTGAGTGTAATCGAA
* * * *
1778202 CTCGAAGGTCTTTGACGGATAGCTCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTTGAG
66 CTCGAAGGTCTTTGGCAGATAGCACTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAG
* * *
1778267 CTTAA-TGTAATCGAACTCGAAGGTCTTTTGATGATAGATAACCCTTTTAACATTGAGTTATGCT
131 C-TAAGTGTAATCGAACTCGAAGGTCTTTTGATGACAGATAACCCTTTTAACCTTGAGTTATACT
* *
1778331 ACAAATGATGTGCCTATAAGCTGAGTGTAATC
195 ACAAATGATGTGCCTTTGAGCTGAGTGTAATC
1778363 GCCCTTTTAA
Statistics
Matches: 415, Mismatches: 49, Indels: 14
0.87 0.10 0.03
Matches are distributed among these distances:
240 70 0.17
241 5 0.01
243 5 0.01
244 302 0.73
245 3 0.01
246 30 0.07
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (244 bp):
CAGATAGCCCTTCTTGCATTGAGTTATGCTGCAAATGATGTGCCTTTGAGTTGAGTGTAATCGAA
CTCGAAGGTCTTTGGCAGATAGCACTTCTTGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAG
CTAAGTGTAATCGAACTCGAAGGTCTTTTGATGACAGATAACCCTTTTAACCTTGAGTTATACTA
CAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTTCAAAGTCTTTGG
Found at i:1778293 original size:324 final size:327
Alignment explanation
Indices: 1777648--1778362 Score: 963
Period size: 324 Copynumber: 2.2 Consensus size: 327
1777638 TTTTGTTAAC
* * ** * * * *
1777648 AGATAACCCTTCTTGCTTTGAGCTATGCTGTAAATTTGATTTGCCTCTGAGTTGAA-TGTAATCG
1 AGATAACCCTTCTTGCATTGAGTTATGCTACAAA--TGATATGCCTATGAGCT-AAGTGTAATCA
* * * ** *
1777712 AACTAGAAGGTCTTTTGTTGGCAGATAACACTTCTCGCCTTGAGTTATGTTGCAAATGATGTGCC
63 AACTAGAAGGTCTTTTGATGACAGATAACACTTCTAGCCTTGAGTTATACTACAAATGATGTGCC
* * * * *
1777777 TTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTTTTTCCTTGAGCTATAC
128 TTTGAGCTGAGTGTAATCAAACTCAAAGGTCTTTGGCAGATAGCCCTTCTTGCATTGAGCTATAC
* * *
1777842 TGCAAATGATGTGCCTTTGAGTTGAGTGTAATCAAACTTGAAAGTCTTTGGCAGATAGCCCTTCT
193 TACAAATGATGTGCCTTTGAGTTGAGTGTAATCAAACTCGAAAGTCTTTGACAGATAGCCCTTCT
* *
1777907 TACCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTC-TTT
258 TACCTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTTT
1777971 G-G-T
323 GAGAT
* * *
1777974 AGATAGCCCTTCTTGCCTTGAGTTATGCTACAAATGATATGCCTTTGAGCTAAGTGTAATCAAAC
1 AGATAACCCTTCTTGCATTGAGTTATGCTACAAATGATATGCCTATGAGCTAAGTGTAATCAAAC
* *
1778039 TCGAAGGTCTTTTGATGACAGATAACCCTTCTAGCCTTGAGTTATACTACAAATGATGTGCCTTT
66 TAGAAGGTCTTTTGATGACAGATAACACTTCTAGCCTTGAGTTATACTACAAATGATGTGCCTTT
* **
1778104 GAGCTGAGTGTAATCAAACTCAAAGGTCTTTGGCAGATAGCCCTTCTTGCATTGAGTTATGTTAC
131 GAGCTGAGTGTAATCAAACTCAAAGGTCTTTGGCAGATAGCCCTTCTTGCATTGAGCTATACTAC
* * * * *
1778169 AAATGATGTGCCTTTGAGTTGAGTGTAATCGAACTCGAAGGTCTTTGACGGATAGCTCTTCTTGC
196 AAATGATGTGCCTTTGAGTTGAGTGTAATCAAACTCGAAAGTCTTTGACAGATAGCCCTTCTTAC
* *
1778234 CTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTTAATGTAATCGAACTCGAAGGTCTTTTGAT
261 CTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTTTGA-
1778299 GAT
325 GAT
* * * *
1778302 AGATAACCCTT-TTAACATTGAGTTATGCTACAAATGATGTGCCTATAAGCTGAGTGTAATC
1 AGATAACCCTTCTT-GCATTGAGTTATGCTACAAATGATATGCCTATGAGCTAAGTGTAATC
1778363 GCCCTTTTAA
Statistics
Matches: 339, Mismatches: 44, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
323 2 0.01
324 249 0.73
325 4 0.01
326 29 0.09
327 3 0.01
328 52 0.15
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (327 bp):
AGATAACCCTTCTTGCATTGAGTTATGCTACAAATGATATGCCTATGAGCTAAGTGTAATCAAAC
TAGAAGGTCTTTTGATGACAGATAACACTTCTAGCCTTGAGTTATACTACAAATGATGTGCCTTT
GAGCTGAGTGTAATCAAACTCAAAGGTCTTTGGCAGATAGCCCTTCTTGCATTGAGCTATACTAC
AAATGATGTGCCTTTGAGTTGAGTGTAATCAAACTCGAAAGTCTTTGACAGATAGCCCTTCTTAC
CTTGAGCTATGCTGCAAATGATGTGCCTTTGAGCTGAATGTAATCAAACTCGAAGGTCTTTTGAG
AT
Found at i:1778467 original size:15 final size:15
Alignment explanation
Indices: 1778447--1778476 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1778437 GAAGGTCTTT
1778447 GGCAGATAGCCCTTC
1 GGCAGATAGCCCTTC
1778462 GGCAGATAGCCCTTC
1 GGCAGATAGCCCTTC
1778477 TTGCCTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.33, G:0.27, T:0.20
Consensus pattern (15 bp):
GGCAGATAGCCCTTC
Found at i:1778668 original size:84 final size:83
Alignment explanation
Indices: 1778464--1778746 Score: 354
Period size: 84 Copynumber: 3.4 Consensus size: 83
1778454 AGCCCTTCGG
* * *
1778464 CAGATAGCCCTTCTTGCCTTGAGCTACGCTGCAAATGATGTACCTTTGAGCTGAGTGTAAT-AGA
1 CAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCC-TTGAGCTGAGTGTAATCA-A
1778528 ACTCGAAGGTCTTG-GTTGA
64 ACTCGAAGGTCTTGTGTTGA
* * * * * * * *
1778547 CAGATAACCTTTCTCGCCTTGTGTTGTGCTGTAAATGATATGCCTAGAAGCTGAGTGTAATCAAA
1 CAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTG-AGCTGAGTGTAATCAAA
* *
1778612 CTTGAAGGTCTTGTGTTGG
65 CTCGAAGGTCTTGTGTTGA
* *
1778631 CAGATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAATCGAA
1 CAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTT-GAGCTGAGTGTAATCAAA
*
1778696 CTCGAAGGTCTTTTGTTGA
65 CTCGAAGGTCTTGTGTTGA
* *
1778715 CAGATAACCCTTCTAGCCTTGAGTTATGCTGC
1 CAGATAACCCTTCTTGCCTTGAGCTATGCTGC
1778747 CAATAGTTTC
Statistics
Matches: 167, Mismatches: 29, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
82 2 0.01
83 61 0.37
84 103 0.62
85 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (83 bp):
CAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTGAGCTGAGTGTAATCAAAC
TCGAAGGTCTTGTGTTGA
Found at i:1780093 original size:95 final size:94
Alignment explanation
Indices: 1779909--1780249 Score: 504
Period size: 95 Copynumber: 3.6 Consensus size: 94
1779899 AAGTTTGGGC
* * * *
1779909 GTTTAACCAATTGCTCTAGATGGACAACTCAATATCGTTGTA-TATATATTATAATCACCTTTAT
1 GTTTAACCAATTGCTCTAGAGGGACAACTC-A-AGC-TT-TATTGTATATTATAATCGCCTTTAT
* * *
1779973 CAGGCTAGATGAATATTATCCATAAAGCCGAGGG
62 CAGGCTTGCTGAATCTTATCCATAAAGCCG-GGG
1780007 GTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTATAATCGCCTTTATCAGG
1 GTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTATAATCGCCTTTATCAGG
1780072 CTTGCTGAATCTTATCCATAAAGCCGGGGG
66 CTTGCTGAATCTTATCCATAAAGCC-GGGG
*
1780102 GTTTAACCAATTGTTCTAGAGGGACAACTCAAGCTTTATTGTATATTATAATCGCCTTTATCAGG
1 GTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTATAATCGCCTTTATCAGG
*
1780167 CTTGCTGAATCTTATCCATAAAGTCGGGG
66 CTTGCTGAATCTTATCCATAAAGCCGGGG
* *
1780196 CGTTTAACCAATTGCCCTAGAGAGACAACTCAAGCTTTATTGTATATATATAAT
1 -GTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATAT-TATAAT
1780250 ATTATAATCT
Statistics
Matches: 227, Mismatches: 12, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
94 6 0.03
95 182 0.80
96 9 0.04
97 1 0.00
98 29 0.13
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (94 bp):
GTTTAACCAATTGCTCTAGAGGGACAACTCAAGCTTTATTGTATATTATAATCGCCTTTATCAGG
CTTGCTGAATCTTATCCATAAAGCCGGGG
Found at i:1782669 original size:12 final size:13
Alignment explanation
Indices: 1782652--1782680 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
1782642 TTTAATTGTG
1782652 AAAATTAAAA-TT
1 AAAATTAAAATTT
1782664 AAAATTAAAATTT
1 AAAATTAAAATTT
1782677 AAAA
1 AAAA
1782681 ACTCGATTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:1782858 original size:5 final size:5
Alignment explanation
Indices: 1782849--1782889 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
1782839 AAAAATAAAG
* *
1782849 AAATA GAATA GAATA AAATA AAATA AAATA AAATA AAATA A
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA A
1782890 TATATTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:1785447 original size:19 final size:19
Alignment explanation
Indices: 1785423--1785464 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
1785413 TCATCACATC
1785423 TTCATACATACTCTGTCTT
1 TTCATACATACTCTGTCTT
1785442 TTCATACATACTCTGTCTT
1 TTCATACATACTCTGTCTT
1785461 TTCA
1 TTCA
1785465 ATATTGATCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.21, C:0.26, G:0.05, T:0.48
Consensus pattern (19 bp):
TTCATACATACTCTGTCTT
Found at i:1786234 original size:39 final size:39
Alignment explanation
Indices: 1786167--1786377 Score: 146
Period size: 38 Copynumber: 5.4 Consensus size: 39
1786157 AACTCTCTCC
* * *
1786167 ACTATATATTATATGTAAGTTTTAAAAAATGTTTTTTAAAA
1 ACTATATAATATATAT-A-TTTTTAAAAATGTTTTTTAAAA
* * * * *
1786208 ATTATATAATACACATATTTTTAAAAA-ATATTTTAAAA
1 ACTATATAATATATATATTTTTAAAAATGTTTTTTAAAA
* * *
1786246 CCTATATATTATATA-AGTTTTCAAAAATG--TTTTAAAA
1 ACTATATAATATATATA-TTTTTAAAAATGTTTTTTAAAA
* * *
1786283 ACTATATATTATATATATATTTT--AATTTTTTTTTCAAAA
1 ACTATATAATATATATAT-TTTTAAAAATGTTTTTT-AAAA
* *
1786322 ACTATATAATATATATATATTTTTGAAAATCGTTTTTAAAAA
1 ACTATAT-A-ATATATATATTTTTAAAAAT-GTTTTTTAAAA
* *
1786364 ATTATATATTATAT
1 ACTATATAATATAT
1786378 TTTTTCAAAA
Statistics
Matches: 133, Mismatches: 25, Indels: 25
0.73 0.14 0.14
Matches are distributed among these distances:
36 3 0.02
37 24 0.18
38 36 0.27
39 20 0.15
40 11 0.08
41 21 0.16
42 13 0.10
43 5 0.04
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (39 bp):
ACTATATAATATATATATTTTTAAAAATGTTTTTTAAAA
Found at i:1786281 original size:37 final size:37
Alignment explanation
Indices: 1786167--1786297 Score: 145
Period size: 37 Copynumber: 3.4 Consensus size: 37
1786157 AACTCTCTCC
1786167 ACTATATATTATATGTAAGTTTTAAAAAATGTTTTTTAAAA
1 ACTATATATTATA--TAAGTTTTAAAAAATG--TTTTAAAA
* * * * * *
1786208 ATTATATAATACACATATTTTTAAAAAATATTTTAAAA
1 ACTATATATTATATA-AGTTTTAAAAAATGTTTTAAAA
* *
1786246 CCTATATATTATATAAGTTTTCAAAAATGTTTTAAAA
1 ACTATATATTATATAAGTTTTAAAAAATGTTTTAAAA
1786283 ACTATATATTATATA
1 ACTATATATTATATA
1786298 TATATTTTAA
Statistics
Matches: 74, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
37 33 0.45
38 18 0.24
39 1 0.01
40 12 0.16
41 10 0.14
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (37 bp):
ACTATATATTATATAAGTTTTAAAAAATGTTTTAAAA
Found at i:1796800 original size:184 final size:184
Alignment explanation
Indices: 1796433--1796820 Score: 638
Period size: 184 Copynumber: 2.1 Consensus size: 184
1796423 ATTAAATTTT
*
1796433 AAATATTAAATATATTATATATAACATATGAGCTTAACCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTAAACCCAAACCATTTAAAACCCAATTAATAA
* *
1796498 TTTAAGATCTAATAACTTTTAAACCTAAATTAATATTAATTAATTAAAAATATTATATAAAATTT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAATATTATATAAAATTT
*
1796563 TTATTTTATAATTATATATTATTTAAATTAATTGTAAACTATTTTTTAATTAAA
131 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTATTTTTTAATTAAA
*
1796617 AAATATTAAATATATTATATATAACATATGGGCTAAACCCAAACCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAACATATGAGCTAAACCCAAACCATTTAAAACCCAATTAATAA
* *
1796682 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATT-ATTAATTAAAAA-ATTTATCTGAAATT
66 TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAATA-TTATATAAAATT
*
1796745 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTTGAATTAAA
130 TTTATTTTATAATTATATATTATTTAAATTAATTATAAACTATTTTTT-AATTAAA
* * *
1796801 AAACATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
1796821 AATTAGAAAA
Statistics
Matches: 191, Mismatches: 11, Indels: 5
0.92 0.05 0.02
Matches are distributed among these distances:
182 1 0.01
183 76 0.40
184 114 0.60
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (184 bp):
AAATATTAAATATATTATATATAACATATGAGCTAAACCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAATATTATATAAAATTT
TTATTTTATAATTATATATTATTTAAATTAATTATAAACTATTTTTTAATTAAA
Found at i:1798653 original size:36 final size:35
Alignment explanation
Indices: 1798613--1798722 Score: 105
Period size: 36 Copynumber: 3.1 Consensus size: 35
1798603 CAAGGGATAC
1798613 AGTTTATGCTAGCTATAGAAAGAAACCAGTGCAGAT
1 AGTTTATGCTAGC-ATAGAAAGAAACCAGTGCAGAT
** * *
1798649 AGTTTATGCCCGGCGTAGAAAGAACCCAGTGCAGAT
1 AGTTTATG-CTAGCATAGAAAGAAACCAGTGCAGAT
* * * *
1798685 TGTTTATGCTCGGCGTAGAAAGAAAGCATGTG-AGAT
1 AGTTTATGCT-AGCATAGAAAGAAACCA-GTGCAGAT
1798721 AG
1 AG
1798723 CTGATGAACA
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
35 1 0.02
36 55 0.89
37 6 0.10
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (35 bp):
AGTTTATGCTAGCATAGAAAGAAACCAGTGCAGAT
Found at i:1800965 original size:20 final size:21
Alignment explanation
Indices: 1800940--1800983 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
1800930 AAGTTAAAAT
1800940 AATGTAAACAAAA-TTTAATA
1 AATGTAAACAAAATTTTAATA
* *
1800960 AATGTAGATAAAATTTTAATA
1 AATGTAAACAAAATTTTAATA
1800981 AAT
1 AAT
1800984 AAAAATAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.57, C:0.02, G:0.07, T:0.34
Consensus pattern (21 bp):
AATGTAAACAAAATTTTAATA
Found at i:1800991 original size:21 final size:20
Alignment explanation
Indices: 1800949--1800992 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
1800939 TAATGTAAAC
** *
1800949 AAAATTTAATAAATGTAGAT
1 AAAATTTAATAAATAAAAAT
1800969 AAAATTTTAATAAATAAAAAT
1 AAAA-TTTAATAAATAAAAAT
1800990 AAA
1 AAA
1800993 TCATTGTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.32
Consensus pattern (20 bp):
AAAATTTAATAAATAAAAAT
Found at i:1801240 original size:44 final size:47
Alignment explanation
Indices: 1801177--1801269 Score: 165
Period size: 47 Copynumber: 2.0 Consensus size: 47
1801167 AACGGGCAGC
1801177 AATCAAAGCTTCAAT-AA-AG-AGTGTAGGGAACCAAAGCAAAAAGA
1 AATCAAAGCTTCAATAAAGAGTAGTGTAGGGAACCAAAGCAAAAAGA
1801221 AATCAAAGCTTCAATAAAGAGTAGTGTAGGGAACCAAAGCAAAAAGA
1 AATCAAAGCTTCAATAAAGAGTAGTGTAGGGAACCAAAGCAAAAAGA
1801268 AA
1 AA
1801270 GAAATAATCC
Statistics
Matches: 46, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
44 15 0.33
45 2 0.04
46 2 0.04
47 27 0.59
ACGTcount: A:0.53, C:0.13, G:0.20, T:0.14
Consensus pattern (47 bp):
AATCAAAGCTTCAATAAAGAGTAGTGTAGGGAACCAAAGCAAAAAGA
Found at i:1816202 original size:8 final size:8
Alignment explanation
Indices: 1816191--1816326 Score: 167
Period size: 8 Copynumber: 17.1 Consensus size: 8
1816181 TGAATGAATG
1816191 AATGAAAA
1 AATGAAAA
1816199 AATGAAAA
1 AATGAAAA
1816207 TAA--AAATA
1 -AATGAAA-A
1816215 AAT--AAA
1 AATGAAAA
*
1816221 AATAAAAA
1 AATGAAAA
1816229 ACATG-AAA
1 A-ATGAAAA
*
1816237 AATAAAAA
1 AATGAAAA
1816245 ACATGAAAAA
1 A-ATG-AAAA
1816255 AATGAAAA
1 AATGAAAA
1816263 AATGAAAA
1 AATGAAAA
1816271 AATGAAAA
1 AATGAAAA
1816279 AATGAAAA
1 AATGAAAA
1816287 AATGAAAA
1 AATGAAAA
1816295 AATGAAAA
1 AATGAAAA
1816303 AATGAAAA
1 AATGAAAA
1816311 AATGAAAA
1 AATGAAAA
1816319 AA-GAAAA
1 AATGAAAA
1816326 A
1 A
1816327 GAAAAGAAAA
Statistics
Matches: 116, Mismatches: 3, Indels: 19
0.84 0.02 0.14
Matches are distributed among these distances:
6 4 0.03
7 15 0.13
8 83 0.72
9 9 0.08
10 5 0.04
ACGTcount: A:0.76, C:0.01, G:0.10, T:0.12
Consensus pattern (8 bp):
AATGAAAA
Found at i:1816333 original size:11 final size:11
Alignment explanation
Indices: 1816317--1816361 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
1816307 AAAAAATGAA
1816317 AAAAGAAAAAG
1 AAAAGAAAAAG
1816328 AAAAGAAAAAAG
1 AAAAG-AAAAAG
*
1816340 AAATA-AAAATG
1 AAA-AGAAAAAG
1816351 AAAAGAAAAAG
1 AAAAGAAAAAG
1816362 GAGGGTTCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
10 1 0.03
11 18 0.62
12 9 0.31
13 1 0.03
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (11 bp):
AAAAGAAAAAG
Found at i:1817490 original size:99 final size:103
Alignment explanation
Indices: 1817316--1817557 Score: 366
Period size: 99 Copynumber: 2.4 Consensus size: 103
1817306 AAGGTGAACT
* * *
1817316 AACATTTCCAAAAGAGTTCATAATGAGAAGAATTCATCCTAAAGGAGAAGGTTCGTAATGAGAAG
1 AACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAGGTTCGTAATGAGAAG
1817381 AGCTTGTTCCTTTCAAATTCACCCC-AA-AA-TG-ATC
66 AGCTTGTTCCTTTCAAATTCACCCCAAAGAAGTGAATC
* * * *
1817415 AATATTTCTAGAAGAGTTCATAATGAGTAGAACTCGTCATAAAGGAGAAGGTTCGTAATGAGAAG
1 AACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAGGTTCGTAATGAGAAG
*
1817480 AGTTTGTTCCTTTCAAATTCACCCCAGAAGGAAGTGAATC
66 AGCTTGTTCCTTTCAAATTCACCCCA-AA-GAAGTGAATC
1817520 AACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATC
1 AACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATC
1817558 CAACAAAAGG
Statistics
Matches: 125, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
99 82 0.66
101 2 0.02
103 2 0.02
104 2 0.02
105 37 0.30
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (103 bp):
AACATTTCCAGAAGAGTTCATAATGAGAAGAACTCATCATAAAGGAGAAGGTTCGTAATGAGAAG
AGCTTGTTCCTTTCAAATTCACCCCAAAGAAGTGAATC
Found at i:1820585 original size:23 final size:23
Alignment explanation
Indices: 1820555--1820604 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
1820545 TAAGGTTTAA
1820555 GGTTTAAGGTTTAGTTAGAACCG
1 GGTTTAAGGTTTAGTTAGAACCG
1820578 GGTTTAAGGTTTAGTTAGAACCG
1 GGTTTAAGGTTTAGTTAGAACCG
1820601 GGTT
1 GGTT
1820605 GGGCTTGTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.24, C:0.08, G:0.32, T:0.36
Consensus pattern (23 bp):
GGTTTAAGGTTTAGTTAGAACCG
Found at i:1820724 original size:22 final size:22
Alignment explanation
Indices: 1820699--1820753 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
1820689 TTATTTATTT
*
1820699 AATAATAATAAT-ATTAAAACAA
1 AATAATAATAATAAATAAAAC-A
1820721 AATAATAATAATAAATAAAACA
1 AATAATAATAATAAATAAAACA
*
1820743 AATAAAAATAA
1 AATAATAATAA
1820754 AAAAAACTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 23 0.77
23 7 0.23
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.24
Consensus pattern (22 bp):
AATAATAATAATAAATAAAACA
Found at i:1820746 original size:19 final size:19
Alignment explanation
Indices: 1820724--1820760 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1820714 AAAACAAAAT
* *
1820724 AATAATAATAAATAAAACA
1 AATAAAAATAAAAAAAACA
1820743 AATAAAAATAAAAAAAAC
1 AATAAAAATAAAAAAAAC
1820761 TAGTATCTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.16
Consensus pattern (19 bp):
AATAAAAATAAAAAAAACA
Found at i:1821334 original size:112 final size:113
Alignment explanation
Indices: 1821087--1821348 Score: 386
Period size: 113 Copynumber: 2.3 Consensus size: 113
1821077 TTGAACAAGT
* *
1821087 TCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTCTCTCTGGAAAAGTTGATCCATCAAGTG
1 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAGATGATCCATCAAGTG
* * *
1821152 ATGAATTCGAGCAAAAAGTTGAACAAGTTCATCTCATTATGAACTTCT
66 ATGAATTCAAACAAAAAGTTGAACAAGTTCATCTCATTATGAACTTCA
* * *
1821200 TCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTCTAC-CTGGTAATGATGATCCATCGAA-
1 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCT-CTCTGGAAAAGATGATCCATC-AAG
* *
1821263 TGATGAATTCAAATAAAAAG-TGAACAAGTTCTTCTCATTATGAACTTCA
64 TGATGAATTCAAACAAAAAGTTGAACAAGTTCATCTCATTATGAACTTCA
*
1821312 TCTTCCTTCTTCATATGAGTTCTTCTCATTATGAACT
1 TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
1821349 TCTTCTTCTT
Statistics
Matches: 135, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
112 62 0.46
113 70 0.52
114 3 0.02
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.37
Consensus pattern (113 bp):
TCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTCTCTCTGGAAAAGATGATCCATCAAGTG
ATGAATTCAAACAAAAAGTTGAACAAGTTCATCTCATTATGAACTTCA
Found at i:1821372 original size:39 final size:40
Alignment explanation
Indices: 1821288--1821385 Score: 162
Period size: 39 Copynumber: 2.5 Consensus size: 40
1821278 AAAAGTGAAC
*
1821288 AAGTTCTTCTCATTATGAACTTCATCTTCCTTCTTCATAT
1 AAGTTCTTCTCATTATGAACTTCATCTTCCTTCTTCAGAT
* *
1821328 GAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGAT
1 AAGTTCTTCTCATTATGAACTTCATCTTCCTTCTTCAGAT
1821367 AAGTTCTTCTCATTATGAA
1 AAGTTCTTCTCATTATGAA
1821386 GTTTCTCTGG
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
39 28 0.52
40 26 0.48
ACGTcount: A:0.22, C:0.22, G:0.08, T:0.47
Consensus pattern (40 bp):
AAGTTCTTCTCATTATGAACTTCATCTTCCTTCTTCAGAT
Found at i:1821455 original size:152 final size:152
Alignment explanation
Indices: 1821177--1821501 Score: 422
Period size: 152 Copynumber: 2.1 Consensus size: 152
1821167 AAGTTGAACA
* *
1821177 AGTTCATCTCATTATGAACTTCTTCTTCATTCTTCAGATGAGTTCTTCTCATTATGAACTCTACC
1 AGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATAAGTTCTTCTCATTATGAACTCTACC
* * *
1821242 TGGTAATGATGATCCATCGAATGATGAATTCAAATAAAAAGTGAACAAGTTCTTCTCATTATGAA
66 TGGAAAAGATGATCCATCGAATGATGAATTCAAACAAAAAGTGAACAAGTTCTTCTCATTATGAA
* *
1821307 CTTCATCTTCCTTCTTCATATG
131 CTTCATATTCCTTCTTCAGATG
* *
1821329 AGTTCTTCTCATTATGAACTTCTTCTTC-TTCTTCAGATAAGTTCTTCTCATTATGAAGT-TTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATAAGTTCTTCTCATTATGAACTCTAC-
* * * ** * * *
1821392 CTGGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAA-TCTTTTCTCATTAT
65 CTGGAAAAGATGATCCATCGAATGATGAATTCAAACAAAAAG-TGAACAAGT-TCTTCTCATTAT
*
1821456 GAACTTCTTATTCCTTCTTCAGATG
128 GAACTTCATATTCCTTCTTCAGATG
* *
1821481 TGTTCTTATCATTATGAACTT
1 AGTTCTTCTCATTATGAACTT
1821502 TCTCTGTAAA
Statistics
Matches: 150, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
150 2 0.01
151 62 0.41
152 86 0.57
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (152 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCATTCTTCAGATAAGTTCTTCTCATTATGAACTCTACC
TGGAAAAGATGATCCATCGAATGATGAATTCAAACAAAAAGTGAACAAGTTCTTCTCATTATGAA
CTTCATATTCCTTCTTCAGATG
Found at i:1821493 original size:113 final size:113
Alignment explanation
Indices: 1821332--1821972 Score: 871
Period size: 113 Copynumber: 5.7 Consensus size: 113
1821322 TCATATGAGT
* *
1821332 TCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATAAGTTCTTCTCATTATGAAGTTTCTCTGG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* *
1821396 AAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAATC
66 AAATGATGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAATC
* * * * *
1821444 TTTTCTCATTATGAACTTCTTATTCCTTCTTCAGATGTGTTCTTATCATTATGAACTTTCTCTGT
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* * ** *
1821509 AAATGATGATCCATCGAATGATGAATTCAAAG-AAAAAGTTGAACAAGT-
66 AAATGATGATCCATCGAGTGATGGATT-TGAGCAAAAGGTTGAACAA-TC
*
1821557 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTGAC-CTG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTT-TCTCTG
* * * * ** *
1821621 GCAATGTTGATCCATCGGGTGATGAATTAAAGTAAAAGGTTGAACAAGT-
65 GAAATGATGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAA-TC
* *
1821670 TCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTAG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
* * *
1821735 AAATGATGATCCATCAAGTGATGGATTTGAGCAAAAGATTGAACAAGC
66 AAATGATGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAATC
*
1821783 TCTTCTCATTATGAATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTTCTG
1 TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTC-TCTG
* * *
1821847 GAAATGTTGATCCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAGC
65 GAAATGATGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAATC
* *
1821896 TCTTCTCATTATGAACTTCTTCTTCTTCTTCTTCAGATAAGTTCTTCTAATTATGAACTTTCTCT
1 TCTTCTCATTATGAACTTCTTCTTC--CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCT
*
1821961 GGAAATGCTGAT
64 GGAAATGATGAT
1821973 GACCCGAAGG
Statistics
Matches: 471, Mismatches: 47, Indels: 19
0.88 0.09 0.04
Matches are distributed among these distances:
112 30 0.06
113 391 0.83
114 4 0.01
115 43 0.09
116 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (113 bp):
TCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTCTGG
AAATGATGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAATC
Found at i:1821732 original size:339 final size:339
Alignment explanation
Indices: 1821329--1821955 Score: 974
Period size: 339 Copynumber: 1.8 Consensus size: 339
1821319 TCTTCATATG
*
1821329 AGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAAGTTTCTCT
1 AGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCT
* * * * * *
1821394 GGAAAAGCTGATCCATCGAGTGATGGATTTGAGCAAAAGGTTGAACAATCTTTTCTCATTATGAA
66 AGAAAAGATGATCCATCAAGTGATGGATTTGAGCAAAAGATTGAACAAGCTCTTCTCATTATGAA
* *
1821459 CTTCTTATTCCTTCTTCAGATGTGTTCTTATCATTATGAACTT-TCTCTGTAAATGATGATCCAT
131 CTTCTTATTCCTTCTTCAGATGAGTTCTTATCATTATGAACTTCT-TCTGGAAATGATGATCCAT
*
1821523 CGAA-TGATGAATTCAAAG-AAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTC-CTT
195 C-AAGTGATGAATT-AAAGCAAAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTCTT
* *
1821585 CTTCAGATGAGTTCTTCTCATTATGAACTTGACCTGGCAATGTTGATCCATCGGGTGATGAATTA
258 CTTCAGATAAGTTCTTCTAATTATGAACTTGACCTGGCAATGTTGATCCATCGGGTGATGAATTA
1821650 AAGTAAAAGGTTGAACA
323 AAGTAAAAGGTTGAACA
* *
1821667 AGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTCTC
1 AGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTC
*
1821732 TAGAAATGATGATCCATCAAGTGATGGATTTGAGCAAAAGATTGAACAAGCTCTTCTCATTATGA
65 TAGAAAAGATGATCCATCAAGTGATGGATTTGAGCAAAAGATTGAACAAGCTCTTCTCATTATGA
* * * *
1821797 ATTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCTGGAAATGTTGATCCAT
130 ACTTCTTATTCCTTCTTCAGATGAGTTCTTATCATTATGAACTTCTTCTGGAAATGATGATCCAT
* ** *
1821862 CAAGTGATGGATTTGAGCAAAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTTCTTC
195 CAAGTGATGAATTAAAGCAAAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTC-TCTTC
1821927 TTCAGATAAGTTCTTCTAATTATGAACTT
259 TTCAGATAAGTTCTTCTAATTATGAACTT
1821956 TCTCTGGAAA
Statistics
Matches: 260, Mismatches: 23, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
338 30 0.12
339 198 0.76
340 1 0.00
341 31 0.12
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.39
Consensus pattern (339 bp):
AGTTCTTCTCATTATGAACTTCTTCTTCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCT
AGAAAAGATGATCCATCAAGTGATGGATTTGAGCAAAAGATTGAACAAGCTCTTCTCATTATGAA
CTTCTTATTCCTTCTTCAGATGAGTTCTTATCATTATGAACTTCTTCTGGAAATGATGATCCATC
AAGTGATGAATTAAAGCAAAAAGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCTCTTCTT
CAGATAAGTTCTTCTAATTATGAACTTGACCTGGCAATGTTGATCCATCGGGTGATGAATTAAAG
TAAAAGGTTGAACA
Found at i:1822096 original size:76 final size:76
Alignment explanation
Indices: 1821970--1822201 Score: 394
Period size: 76 Copynumber: 3.1 Consensus size: 76
1821960 TGGAAATGCT
* *
1821970 GATGACCCGAAGGT-TTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAATATCATGCACT
1 GATGACCCTAA-GTCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACT
1822034 GTAGGACTTACA
65 GTAGGACTTACA
1822046 GATGACCCTAAGTCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1 GATGACCCTAAGTCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1822111 TAGGACTTACA
66 TAGGACTTACA
* * * *
1822122 GATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGATGTCTTTTTCGAAACATCATGCACTG
1 GATGACCCTAAGTCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
1822187 TAGGACTTACA
66 TAGGACTTACA
1822198 GATG
1 GATG
1822202 TGGGAAATAG
Statistics
Matches: 149, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
75 2 0.01
76 147 0.99
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (76 bp):
GATGACCCTAAGTCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTG
TAGGACTTACA
Found at i:1822477 original size:166 final size:165
Alignment explanation
Indices: 1822204--1822529 Score: 528
Period size: 166 Copynumber: 2.0 Consensus size: 165
1822194 TACAGATGTG
* * *
1822204 GGAAATAGTTTACTAAGTAAGAAACTATGGAAATCGTTTTCTTACTATTCAACAATTTCATTTTC
1 GGAAATAGTTTACTAAGTAAAAAACTAAGAAAATCGTTTTCTTACTATTCAACAATTTCATTTTC
** *
1822269 AGAAAAGATTGAATGAGAAACTATGAAAATCGTTTTCTCATTATTTTTCAAAATAACATGTTGAT
66 AGAAAAGATAAAATGAGAAACTATGAAAATCATTTTCTCATTATTTTTCAAAATAACATGTTGAT
*
1822334 TGGGTAACATGCCCCAATCTCAAGATAATGTTGTT
131 TGGGTAACATGACCCAATCTCAAGATAATGTTGTT
* *
1822369 GGAAATAGTTTACTAAGTAAAAAAAACTAAGAAAATTGTTTTCTTACTTTTCAACAATTTCATTT
1 GGAAATAGTTTACTAAGT--AAAAAACTAAGAAAATCGTTTTCTTACTATTCAACAATTTCATTT
* *
1822434 TC-GAAAAGATAAAATGAGAAACTATGGAAATCATTTTCTCATTATTTTTCAAAATATCATGTTG
64 TCAGAAAAGATAAAATGAGAAACTATGAAAATCATTTTCTCATTATTTTTCAAAATAACATGTTG
1822498 ATTGGGTAACATGACCCAATCTCAAGATAATG
129 ATTGGGTAACATGACCCAATCTCAAGATAATG
1822530 CTCATTATTG
Statistics
Matches: 148, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
165 18 0.12
166 88 0.59
167 42 0.28
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (165 bp):
GGAAATAGTTTACTAAGTAAAAAACTAAGAAAATCGTTTTCTTACTATTCAACAATTTCATTTTC
AGAAAAGATAAAATGAGAAACTATGAAAATCATTTTCTCATTATTTTTCAAAATAACATGTTGAT
TGGGTAACATGACCCAATCTCAAGATAATGTTGTT
Found at i:1823069 original size:22 final size:22
Alignment explanation
Indices: 1823044--1823098 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
1823034 AATAAAGCTT
1823044 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
1823066 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
1823088 TCATCTTTGAA
1 TCATCTTTGAA
1823099 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:1825754 original size:114 final size:114
Alignment explanation
Indices: 1825554--1825773 Score: 343
Period size: 114 Copynumber: 1.9 Consensus size: 114
1825544 GATCATGCAG
* * * * *
1825554 TTCATCTTTTAATTCTAATGATTGGTTTTGGGGTTCCTACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGATTCATACCAAACCAGATCAGATAACTCAAAGA
1825619 ACACTTTCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
66 ACACTTTCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
* *
1825668 TTCATCTTTCAAATCCAATGATTGGTTTTGGGATTCATACCAAATCAGTTCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGATTCATACCAAACCAGATCAGATAACTCAAAGA
* *
1825733 ACA-TTTCCAGAATATTCTATTGGGTCTCCTTATTTCTACTA
66 ACACTTT-CAGAAGATGCTATTGGGTCTCCTTATTTCTACTA
1825774 CGAGAACGTG
Statistics
Matches: 96, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
113 3 0.03
114 93 0.97
ACGTcount: A:0.30, C:0.20, G:0.14, T:0.36
Consensus pattern (114 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTGGGATTCATACCAAACCAGATCAGATAACTCAAAGA
ACACTTTCAGAAGATGCTATTGGGTCTCCTTATTTCTACTATGAGCAAA
Found at i:1830114 original size:20 final size:20
Alignment explanation
Indices: 1830091--1830129 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1830081 CAAACATAAA
*
1830091 AATGCAAATATAAAAATGTG
1 AATGCAAACATAAAAATGTG
* *
1830111 AATGTAACCATAAAAATGT
1 AATGCAAACATAAAAATGT
1830130 AAATTGTGCA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.08, G:0.13, T:0.26
Consensus pattern (20 bp):
AATGCAAACATAAAAATGTG
Found at i:1831774 original size:28 final size:27
Alignment explanation
Indices: 1831723--1831776 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
1831713 ATATTAATAA
* *
1831723 AATAATATATATAAATACTATGAAAAT
1 AATAATATATATAAAAAATATGAAAAT
*
1831750 AATAAGTATATATAAAAAATTTGAAAA
1 AATAA-TATATATAAAAAATATGAAAA
1831777 GAAAGAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (27 bp):
AATAATATATATAAAAAATATGAAAAT
Found at i:1832287 original size:30 final size:30
Alignment explanation
Indices: 1832248--1832306 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
1832238 ATTTCAAAAT
1832248 TATAATTATAAA-AAAATATATTAATTTATA
1 TATAATTATAAATAAAATAT-TTAATTTATA
* *
1832278 TATATTTATAAATAAAATATTTTATTTAT
1 TATAATTATAAATAAAATATTTAATTTAT
1832307 TTAGAAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
TATAATTATAAATAAAATATTTAATTTATA
Found at i:1832514 original size:120 final size:121
Alignment explanation
Indices: 1832274--1832507 Score: 271
Period size: 120 Copynumber: 2.0 Consensus size: 121
1832264 TATATTAATT
* * *
1832274 TATATATATTTATAAATAAAATATTTTATTTATTTAGAAATATCAGAAAAGGACTTCTAGGCGCC
1 TATATATATTTATAAATAAAATATTTTATTTATTTAAAAATATCAAAAAAGGACATCTAGGCGCC
* * * *
1832339 TTAAGACAGTTCTTTTCTTCGATATTAAAAAATAAACAATTAATTAAAACAATTAA
66 TTAAGACAGTCCATTTCTTCAATATTAAAAAATAAACAAATAATTAAAACAATTAA
** **
1832395 TATATA-ATTTATAAAATAGGATA-TTTATTTATTTAAAAATATCAAAAAATGGACATCTAGTTG
1 TATATATATTTAT-AAATAAAATATTTTATTTATTTAAAAATATCAAAAAA-GGACATCTAGGCG
** * * *
1832458 TTTTAAGACTG-CCATTTCTT-AATATTGAAAAATAAATAAAT-ATTAAAACA
64 CCTTAAGACAGTCCATTTCTTCAATATTAAAAAATAAACAAATAATTAAAACA
1832508 GGATTAAAAT
Statistics
Matches: 95, Mismatches: 16, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
118 9 0.09
119 17 0.18
120 37 0.39
121 32 0.34
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.38
Consensus pattern (121 bp):
TATATATATTTATAAATAAAATATTTTATTTATTTAAAAATATCAAAAAAGGACATCTAGGCGCC
TTAAGACAGTCCATTTCTTCAATATTAAAAAATAAACAAATAATTAAAACAATTAA
Found at i:1834064 original size:3 final size:3
Alignment explanation
Indices: 1834058--1834107 Score: 54
Period size: 3 Copynumber: 18.0 Consensus size: 3
1834048 ATTATTTATT
* *
1834058 TAA TAA TAA TAA T-A TAA T-A TAA TAA TAA TAT TAA -AA CAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1834102 TAA TAA
1 TAA TAA
1834108 AAAACAAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 8 0.20
3 33 0.80
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:1834080 original size:19 final size:19
Alignment explanation
Indices: 1834058--1834118 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 19
1834048 ATTATTTATT
* *
1834058 TAATAATAATAATATAATA
1 TAATAATAATAATAAAACA
*
1834077 TAATAATAATATTAAAACA
1 TAATAATAATAATAAAACA
*
1834096 AAATAATAATAA-AAAACA
1 TAATAATAATAATAAAACA
1834114 -AATAA
1 TAATAA
1834119 ATAAAAAAAC
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
17 5 0.14
18 6 0.16
19 26 0.70
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (19 bp):
TAATAATAATAATAAAACA
Found at i:1834083 original size:22 final size:21
Alignment explanation
Indices: 1834036--1834107 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
1834026 TGTAAAAATG
* * *
1834036 TAATAATAATAAATTATTTATT
1 TAATAATAATAAATAATATA-A
1834058 TAATAATAATAATATAATATAA
1 TAATAATAATAA-ATAATATAA
* * *
1834080 TAATAATATTAAAACAAAATAA
1 TAATAATAAT-AAATAATATAA
1834102 TAATAA
1 TAATAA
1834108 AAAACAAATA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
22 34 0.81
23 8 0.19
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (21 bp):
TAATAATAATAAATAATATAA
Found at i:1834127 original size:17 final size:18
Alignment explanation
Indices: 1834059--1834126 Score: 61
Period size: 19 Copynumber: 3.8 Consensus size: 18
1834049 TTATTTATTT
* * *
1834059 AATAATAATAATATAATAT
1 AATAATAATAA-AAAACAA
*
1834078 AATAATAATATTAAAACAA
1 AATAATAATA-AAAAACAA
1834097 AATAATAATAAAAAAC-A
1 AATAATAATAAAAAACAA
1834114 AAT-A-AATAAAAAA
1 AATAATAATAAAAAA
1834127 ACTAGTGTCT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
15 9 0.21
16 1 0.02
17 4 0.09
18 5 0.12
19 24 0.56
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (18 bp):
AATAATAATAAAAAACAA
Done.