Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008504.1 Hibiscus syriacus cultivar Beakdansim tig00111356_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: 2056749
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 10
Found at i:1904541 original size:18 final size:19
Alignment explanation
Indices: 1904423--1904535 Score: 114
Period size: 19 Copynumber: 6.3 Consensus size: 19
1904413 TAGTTTACTT
* *
1904423 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
1904443 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
1904462 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
* *
1904481 TCGTAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
1904495 TCGCAACGCG-AACCAAAA
1 TCGCAACGCGAAACCAAAA
1904513 TCGCAACGCGAAACC-AAA
1 TCGCAACGCGAAACCAAAA
1904531 TCGCA
1 TCGCA
1904536 TTGCGATTTT
Statistics
Matches: 79, Mismatches: 9, Indels: 12
0.79 0.09 0.12
Matches are distributed among these distances:
14 8 0.10
15 1 0.01
16 2 0.03
17 3 0.04
18 22 0.28
19 30 0.38
20 13 0.16
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:1904558 original size:19 final size:19
Alignment explanation
Indices: 1904531--1904665 Score: 101
Period size: 19 Copynumber: 7.6 Consensus size: 19
1904521 CGAAACCAAA
*
1904531 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
1904550 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
1904566 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* ** *
1904583 TTGTATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
*
1904599 T--CGTTGCAATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
1904616 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
1904635 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
1904655 TCGTGTTGCGA
1 TCGCGTTGCGA
1904666 AAGTAAACTA
Statistics
Matches: 91, Mismatches: 14, Indels: 21
0.72 0.11 0.17
Matches are distributed among these distances:
14 13 0.14
16 11 0.12
17 11 0.12
19 44 0.48
20 12 0.13
ACGTcount: A:0.12, C:0.18, G:0.23, T:0.47
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:1904578 original size:33 final size:33
Alignment explanation
Indices: 1904536--1904628 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 33
1904526 CCAAATCGCA
*
1904536 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
* **
1904569 TTGCGATTTTCATTTTGTATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
1904602 TTGCAATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
1904629 TTGGTTTCGC
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 52 1.00
ACGTcount: A:0.12, C:0.18, G:0.20, T:0.49
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:1906602 original size:14 final size:14
Alignment explanation
Indices: 1906583--1906618 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1906573 ATTGTTTAAT
1906583 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
1906597 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
1906611 TGATTTGT
1 TGATTTGT
1906619 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:1906748 original size:19 final size:19
Alignment explanation
Indices: 1906724--1906820 Score: 134
Period size: 19 Copynumber: 5.4 Consensus size: 19
1906714 AAAATTGACT
1906724 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
1906743 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
1906762 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
1906776 ATCGCAATGCGAAATG-AA
1 ATCGCAATGCGAAATGAAA
1906794 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
1906814 ATCGCAA
1 ATCGCAA
1906821 CGGGAGAATC
Statistics
Matches: 69, Mismatches: 2, Indels: 13
0.82 0.02 0.15
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 12 0.17
19 33 0.48
20 9 0.13
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:1906809 original size:52 final size:52
Alignment explanation
Indices: 1906724--1906839 Score: 207
Period size: 52 Copynumber: 2.2 Consensus size: 52
1906714 AAAATTGACT
1906724 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
1906776 ATCGCAATGCGAAATG-AAATCGCAATGCGGAAATGAAAATCGCAACGGGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1906828 ATCGCAATGCGA
1 ATCGCAATGCGA
1906840 TTTTAATTTC
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
51 12 0.19
52 50 0.81
ACGTcount: A:0.43, C:0.18, G:0.25, T:0.14
Consensus pattern (52 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:1906857 original size:19 final size:19
Alignment explanation
Indices: 1906829--1907052 Score: 259
Period size: 19 Copynumber: 12.7 Consensus size: 19
1906819 AACGGGAGAA
* *
1906829 TCGCAATGCGATTTTAATT
1 TCGCATTGCGATTTTCATT
*
1906848 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
1906864 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1906881 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1906900 TCGCATTGCGA-TTTCA-T
1 TCGCATTGCGATTTTCATT
1906917 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
1906936 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
*
1906952 TCG--TTGTGATTTTCATT
1 TCGCATTGCGATTTTCATT
1906969 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1906988 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
1907007 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
1907025 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
1907041 TCGCA-TGCGATT
1 TCGCATTGCGATT
1907053 CTCTCGTTGC
Statistics
Matches: 177, Mismatches: 10, Indels: 37
0.79 0.04 0.17
Matches are distributed among these distances:
14 22 0.12
16 16 0.09
17 26 0.15
18 17 0.10
19 80 0.45
20 16 0.09
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.46
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:1906885 original size:52 final size:52
Alignment explanation
Indices: 1906829--1907052 Score: 248
Period size: 52 Copynumber: 4.2 Consensus size: 52
1906819 AACGGGAGAA
* *
1906829 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTC-TCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATT-TCATCGTTGCGATTTTCATT
1906881 TCGCATTGCGATTTTCATTTCGCATTGCGATTTCATTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTTCA-TCG--TTGCGATTTTCATT
* *
1906936 TCGCATTGCGA--TTC-TCTCG--TTGTGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGA-TTTCA--TCG--TTGCGATTTTCATT
*
1906988 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTCATT
1 TCGCATTGCGATTTTCATTT-CGCATTGCGA-TTTCATCGTTGCGATTTTCATT
1907041 TCGCA-TGCGATT
1 TCGCATTGCGATT
1907053 CTCTCGTTGC
Statistics
Matches: 153, Mismatches: 7, Indels: 24
0.83 0.04 0.13
Matches are distributed among these distances:
50 5 0.03
51 7 0.05
52 72 0.47
53 24 0.16
54 3 0.02
55 28 0.18
56 3 0.02
58 11 0.07
ACGTcount: A:0.16, C:0.21, G:0.18, T:0.46
Consensus pattern (52 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTTCATCGTTGCGATTTTCATT
Found at i:1906937 original size:88 final size:90
Alignment explanation
Indices: 1906829--1907025 Score: 344
Period size: 88 Copynumber: 2.2 Consensus size: 90
1906819 AACGGGAGAA
* *
1906829 TCGCAATGCGATTTTAATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1906894 TTCATTTCGCATTGCGA-TTTCA-T
66 TTCATTTCGCATTGCGATTTTCATT
*
1906917 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGTGATTTTCATTTCGCATTGCGATT
1 TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
1906982 TTCATTTCGCATTGCGATTTTCATT
66 TTCATTTCGCATTGCGATTTTCATT
1907007 TCCGCATTGCGATTTTCAT
1 T-CGCATTGCGATTTTCAT
1907026 GTTGGGATTT
Statistics
Matches: 103, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
88 79 0.77
89 5 0.05
90 2 0.02
91 17 0.17
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.46
Consensus pattern (90 bp):
TCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATT
TTCATTTCGCATTGCGATTTTCATT
Found at i:1909505 original size:24 final size:24
Alignment explanation
Indices: 1909471--1909517 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
1909461 CTGAAACATC
1909471 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
1909495 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
1909518 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:1910469 original size:20 final size:20
Alignment explanation
Indices: 1910199--1910468 Score: 281
Period size: 20 Copynumber: 13.5 Consensus size: 20
1910189 AAATTTCAGT
* * *
1910199 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1910219 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1910239 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
* **
1910259 GTTGCGATTTACAGATTATC
1 GTTGCGATTTACGGATTCGC
* *
1910279 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
1910299 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
1910319 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1910339 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
1910359 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
1910379 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
1910399 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
1910419 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
1910439 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
1910459 GTTGCGATTT
1 GTTGCGATTT
1910469 TGGAAAATCG
Statistics
Matches: 222, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 221 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:1910485 original size:21 final size:21
Alignment explanation
Indices: 1910455--1910537 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
1910445 ATTTTCATAT
*
1910455 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
1910476 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
1910497 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
1910518 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
1910538 CTGATTTGCA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:1910528 original size:42 final size:43
Alignment explanation
Indices: 1910435--1910533 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
1910425 ATTTATGTGT
* *
1910435 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
1910476 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
1910518 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
1910534 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:1910841 original size:13 final size:13
Alignment explanation
Indices: 1910823--1910859 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
1910813 CAGAAGTTAA
1910823 AATTATAAAATTT
1 AATTATAAAATTT
1910836 AATTATAAAA-TT
1 AATTATAAAATTT
1910848 AATTTATAAAAT
1 AA-TTATAAAAT
1910860 ATATCACATT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AATTATAAAATTT
Found at i:1912611 original size:3 final size:3
Alignment explanation
Indices: 1912603--1912635 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1912593 ATTCCGTTGC
*
1912603 TCT TCT TCT TCT TCT TCT TCT TCT TAT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1912636 ACTTTTCCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:1919109 original size:21 final size:22
Alignment explanation
Indices: 1919062--1919122 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
1919052 TCCCCCCTGA
**
1919062 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCCCAT-AAG
1919085 GGGAACCGATTCCCCCCAT-AG
1 GGGAACCGATTCCCCCCATAAG
* *
1919106 GGGAATCGATACCCCCC
1 GGGAACCGATTCCCCCC
1919123 TGGGGTTCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 17 0.50
23 17 0.50
ACGTcount: A:0.23, C:0.36, G:0.25, T:0.16
Consensus pattern (22 bp):
GGGAACCGATTCCCCCCATAAG
Found at i:1921092 original size:17 final size:17
Alignment explanation
Indices: 1921066--1921101 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1921056 TGTTTCAACA
*
1921066 TTTTGAATTGTTTGATT
1 TTTTGAATTGTTGGATT
*
1921083 TTTTGGATTGTTGGATT
1 TTTTGAATTGTTGGATT
1921100 TT
1 TT
1921102 GGAATGGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.22, T:0.64
Consensus pattern (17 bp):
TTTTGAATTGTTGGATT
Found at i:1924203 original size:22 final size:22
Alignment explanation
Indices: 1924177--1924223 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
1924167 GTTTAGTTTG
1924177 AAAAATTCAATTTCTTAATAAA
1 AAAAATTCAATTTCTTAATAAA
*
1924199 AAAAATTCAATTTCTTAATGAA
1 AAAAATTCAATTTCTTAATAAA
1924221 AAA
1 AAA
1924224 GGGGGAGCTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (22 bp):
AAAAATTCAATTTCTTAATAAA
Found at i:1924481 original size:31 final size:31
Alignment explanation
Indices: 1924383--1924473 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
1924373 CAATTTAAGG
1924383 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1924414 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1924445 CAAAAT-GTTTTTGGACTT-AATTGAATTTA
1 CAAAATGGTTTTTGGACTTGAATTGAATTTA
1924474 TTCAAAATTT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.18
30 12 0.20
31 37 0.62
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (31 bp):
CAAAATGGTTTTTGGACTTGAATTGAATTTA
Found at i:1924571 original size:19 final size:19
Alignment explanation
Indices: 1924538--1924604 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
1924528 AATGTTTTTA
* *
1924538 TGAATAGTAATTTACTATT
1 TGAACAGTAAATTACTATT
*
1924557 TGAACAGTTAATTACTATT
1 TGAACAGTAAATTACTATT
* *
1924576 TGAACAGTAAATCACTGTT
1 TGAACAGTAAATTACTATT
1924595 TGAACAGTAA
1 TGAACAGTAA
1924605 CCCGAGGCTC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 42 1.00
ACGTcount: A:0.39, C:0.10, G:0.13, T:0.37
Consensus pattern (19 bp):
TGAACAGTAAATTACTATT
Found at i:1924734 original size:21 final size:21
Alignment explanation
Indices: 1924710--1924751 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1924700 ATTTGAATAT
**
1924710 TATGAAGGGGTATTGATTCCC
1 TATGAAGGGGTACCGATTCCC
1924731 TATGAAGGGGTACCGATTCCC
1 TATGAAGGGGTACCGATTCCC
1924752 CCCATTCTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (21 bp):
TATGAAGGGGTACCGATTCCC
Found at i:1924814 original size:21 final size:21
Alignment explanation
Indices: 1924780--1924819 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
1924770 TTTGAGTAGA
*
1924780 AAAATCATTCCCAAACGGCTCC
1 AAAATCA-TCCCCAACGGCTCC
1924802 AAAAT-ATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
1924820 AGATACGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 1 0.06
22 5 0.29
ACGTcount: A:0.38, C:0.35, G:0.10, T:0.17
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:1925073 original size:34 final size:32
Alignment explanation
Indices: 1925034--1925103 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
1925024 TTTTGTAAAG
*
1925034 GGGAAAGGTTCTAGCTTAGCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
* *
1925068 GGGAAATGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
1925100 GGGA
1 GGGA
1925104 GTTTGTAAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 11 0.33
33 1 0.03
34 21 0.64
ACGTcount: A:0.31, C:0.16, G:0.30, T:0.23
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:1926349 original size:15 final size:15
Alignment explanation
Indices: 1926329--1926361 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
1926319 GTGGCAGATC
*
1926329 AAAATCCAGAAGGGG
1 AAAATCCAGAACGGG
1926344 AAAATCCAGAACGGG
1 AAAATCCAGAACGGG
1926359 AAA
1 AAA
1926362 TAAAGATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.15, G:0.27, T:0.06
Consensus pattern (15 bp):
AAAATCCAGAACGGG
Found at i:1934479 original size:19 final size:19
Alignment explanation
Indices: 1934457--1934508 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
1934447 AACCTGACTT
**
1934457 GTTGACTTTGACTTGACCC
1 GTTGACTTTGACTAAACCC
* *
1934476 GTTGATTTTGACCAAACCC
1 GTTGACTTTGACTAAACCC
*
1934495 ATTGACTTTGACTA
1 GTTGACTTTGACTA
1934509 GAGTTGATAG
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (19 bp):
GTTGACTTTGACTAAACCC
Found at i:1937512 original size:34 final size:32
Alignment explanation
Indices: 1937459--1937528 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
1937449 CCTTACAAAC
*
1937459 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
1937491 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
1937525 TCCC
1 TCCC
1937529 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:1937769 original size:20 final size:22
Alignment explanation
Indices: 1937744--1937783 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
1937734 AGTCGTATAT
1937744 AGCCG-TTGGGGATG-TTTTGG
1 AGCCGTTTGGGGATGATTTTGG
1937764 AGCCGTTTGGGGATGATTTT
1 AGCCGTTTGGGGATGATTTT
1937784 TATACTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.12, C:0.10, G:0.40, T:0.38
Consensus pattern (22 bp):
AGCCGTTTGGGGATGATTTTGG
Found at i:1937838 original size:21 final size:21
Alignment explanation
Indices: 1937812--1937853 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1937802 CCAGAATGGG
* *
1937812 GGGAATCGGTACCTCTTCATA
1 GGGAATCGATACCGCTTCATA
1937833 GGGAATCGATACCGCTTCATA
1 GGGAATCGATACCGCTTCATA
1937854 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.26
Consensus pattern (21 bp):
GGGAATCGATACCGCTTCATA
Found at i:1937982 original size:19 final size:18
Alignment explanation
Indices: 1937958--1938024 Score: 89
Period size: 19 Copynumber: 3.6 Consensus size: 18
1937948 GAGCCTCGGG
*
1937958 TTACTGTTCAAACAGTGAA
1 TTACTGTTCAAATAGT-AA
1937977 TTACTGTTCAAATAGTAA
1 TTACTGTTCAAATAGTAA
1937995 TTTACTGTTCAAATAGTAAA
1 -TTACTGTTCAAATAGT-AA
*
1938015 TTACTATTCA
1 TTACTGTTCA
1938025 TAAAAACATT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.05
19 40 0.91
20 2 0.05
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.39
Consensus pattern (18 bp):
TTACTGTTCAAATAGTAA
Found at i:1938121 original size:29 final size:31
Alignment explanation
Indices: 1938089--1938148 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
1938079 AAATTTTGAA
*
1938089 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAATCATTTTG
1938118 TAAATTCAATTCAAGTCCAAAAATCATTTTG
1 TAAATTCAATTCAAGTCCAAAAATCATTTTG
1938149 CCTTAATTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAATCATTTTG
Found at i:1939494 original size:23 final size:23
Alignment explanation
Indices: 1939468--1939515 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
1939458 ATAAAGTACA
*
1939468 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
1939491 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
1939514 AT
1 AT
1939516 TTACTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:1939929 original size:20 final size:21
Alignment explanation
Indices: 1939891--1939930 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1939881 TCCACAGTGA
* *
1939891 AAAAAGTATGGACACTTTTAT
1 AAAAAGGATAGACACTTTTAT
1939912 AAAAAGGATAGACA-TTTTA
1 AAAAAGGATAGACACTTTTA
1939931 CAATATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (21 bp):
AAAAAGGATAGACACTTTTAT
Found at i:1939969 original size:23 final size:23
Alignment explanation
Indices: 1939943--1940005 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1939933 ATATAACCAC
1939943 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1939966 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1939989 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1940006 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1940464 original size:39 final size:39
Alignment explanation
Indices: 1940405--1940491 Score: 131
Period size: 39 Copynumber: 2.2 Consensus size: 39
1940395 TCAACTTGTA
*
1940405 GATTTTGATTTCCTTCTGCTT-GACATCATATGAGATTTG
1 GATTTTGATTTCCTTCTGCTTCG-CACCATATGAGATTTG
* *
1940444 GATTTTGATTTCCTTTTGCTTCGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTCTGCTTCGCACCATATGAGATTTG
1940483 GATTTTGAT
1 GATTTTGAT
1940492 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
39 43 0.98
40 1 0.02
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.47
Consensus pattern (39 bp):
GATTTTGATTTCCTTCTGCTTCGCACCATATGAGATTTG
Found at i:1940771 original size:18 final size:18
Alignment explanation
Indices: 1940748--1940784 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1940738 CGAAATATAT
1940748 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
1940766 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
1940784 A
1 A
1940785 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:1941207 original size:25 final size:25
Alignment explanation
Indices: 1941173--1941223 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
1941163 TTTTTCCAAA
*
1941173 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
1941198 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
1941223 T
1 T
1941224 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:1941525 original size:23 final size:23
Alignment explanation
Indices: 1941499--1941561 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1941489 ATATAACCAC
1941499 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1941522 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1941545 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1941562 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1942015 original size:23 final size:23
Alignment explanation
Indices: 1941989--1942051 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
1941979 ATATAACCAC
1941989 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
1942012 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
1942035 TACCTATTACATCATAT
1 TACCTATTACATTATAT
1942052 GTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:1942283 original size:490 final size:490
Alignment explanation
Indices: 1941324--1942882 Score: 2967
Period size: 490 Copynumber: 3.2 Consensus size: 490
1941314 AATATTTAGA
*
1941324 ATTTTTAATTTAATAATAATATATATCGTAACGT-AAAAA-AAATCATTAGACGCCTATAATTAC
1 ATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
*
1941387 TAAATTAATATTTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
66 TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
1941452 GTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATA
131 GTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATA
1941517 AACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAA
196 AACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAA
*
1941582 GTGTCCATACTTTTTATAAAAATGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAAT
261 GTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAAT
1941647 TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
326 TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
1941712 ATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAACATTAACCA
391 ATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAACATTAACCA
1941777 AAGATAATAATAAATATGTAATATATATGTTTATT
456 AAGATAATAATAAATATGTAATATATATGTTTATT
1941812 ATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
1 ATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
*
1941877 TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACTGTGAAAAAA
66 TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
1941942 GTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATA
131 GTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATA
1942007 AACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAA
196 AACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAA
1942072 GTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAAT
261 GTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAAT
1942137 TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
326 TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
1942202 ATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAACATTAACCA
391 ATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAACATTAACCA
1942267 AAGATAATAATAAATATGT-A-ATATATGTTTATT
456 AAGATAATAATAAATATGTAATATATATGTTTATT
1942300 ATTTTTAA-TT--TAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
1 ATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
1942362 TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
66 TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
*
1942427 GTATGGACACTTTTAT-AAAAGGATAGACACTTTACAATATAACCACTACATATTACATTATATA
131 GTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATA
1942491 AACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAA
196 AACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAA
1942556 GTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAAT
261 GTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAAT
1942621 TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
326 TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
*
1942686 ATTA-TTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAACATTAACC-
391 ATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAACATTAACCA
1942749 AAGATAATAATAAATATGTAATATATATATGTTTATT
456 AAGATAATAATAAATATGT-A-ATATATATGTTTATT
*
1942786 GTTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
1 ATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
1942851 TAAATTAATATCTTAAAACTCACTCAAAAGAT
66 TAAATTAATATCTTAAAACTCACTCAAAAGAT
1942883 GTATATACCT
Statistics
Matches: 1054, Mismatches: 8, Indels: 17
0.98 0.01 0.02
Matches are distributed among these distances:
482 19 0.02
483 58 0.06
484 246 0.23
485 133 0.13
486 20 0.02
487 4 0.00
488 54 0.05
489 90 0.09
490 430 0.41
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (490 bp):
ATTTTTAATTTAATAATAATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTAC
TAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAA
GTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATA
AACGATACCTATTACATTATATAAGCGCTACCTATTACATCATATGTTTACCTATTATATTGAAA
GTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAAT
TTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACAAAAA
ATTATTTGATTGTTTTGATATTTTATAAAATAATATTTAGAATTTAAATTTAACAACATTAACCA
AAGATAATAATAAATATGTAATATATATGTTTATT
Found at i:1942503 original size:23 final size:23
Alignment explanation
Indices: 1942477--1942535 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
1942467 AACCACTACA
1942477 TATTACATTATATAAACGATACC
1 TATTACATTATATAAACGATACC
* *
1942500 TATTACATTATATAAGCGCTACC
1 TATTACATTATATAAACGATACC
*
1942523 TATTACATCATAT
1 TATTACATTATAT
1942536 GTTTACCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.39, C:0.19, G:0.05, T:0.37
Consensus pattern (23 bp):
TATTACATTATATAAACGATACC
Found at i:1942938 original size:25 final size:25
Alignment explanation
Indices: 1942881--1942946 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
1942871 CACTCAAAAG
*
1942881 ATGTATATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
***
1942906 ACAAACATACCTAAATATGTAGTTA
1 ATGTACATACCTAAATATGTAGTTA
*
1942931 TTGTACATACCTAAAT
1 ATGTACATACCTAAAT
1942947 TTAATGATAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.35
Consensus pattern (25 bp):
ATGTACATACCTAAATATGTAGTTA
Found at i:1946172 original size:23 final size:23
Alignment explanation
Indices: 1946100--1946164 Score: 96
Period size: 23 Copynumber: 2.8 Consensus size: 23
1946090 ATACTTTACA
1946100 ATAT-AACGACTACCTATTACATT
1 ATATAAACG-CTACCTATTACATT
* *
1946123 ATATAAACGATACATATTACATT
1 ATATAAACGCTACCTATTACATT
1946146 ATATAAACGCTACCTATTA
1 ATATAAACGCTACCTATTA
1946165 AATCATATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
23 33 0.89
24 4 0.11
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (23 bp):
ATATAAACGCTACCTATTACATT
Found at i:1946978 original size:18 final size:18
Alignment explanation
Indices: 1946951--1947028 Score: 85
Period size: 18 Copynumber: 4.6 Consensus size: 18
1946941 GACCGGTCAC
1946951 AACCCGACCCGACCCGTT
1 AACCCGACCCGACCCGTT
*
1946969 AACCCAACCCGACCCGTT
1 AACCCGACCCGACCCGTT
*
1946987 -----TACCCGACCCGTT
1 AACCCGACCCGACCCGTT
*
1947000 GACCCGACCCGACCCGTT
1 AACCCGACCCGACCCGTT
*
1947018 GACCCGACCCG
1 AACCCGACCCG
1947029 TTGACCGTTG
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
13 12 0.23
18 40 0.77
ACGTcount: A:0.21, C:0.50, G:0.18, T:0.12
Consensus pattern (18 bp):
AACCCGACCCGACCCGTT
Found at i:1946991 original size:13 final size:13
Alignment explanation
Indices: 1946975--1947034 Score: 66
Period size: 13 Copynumber: 4.2 Consensus size: 13
1946965 CGTTAACCCA
*
1946975 ACCCGACCCGTTT
1 ACCCGACCCGTTG
1946988 ACCCGACCCGTTGACCCG
1 ACCCGACCCGTT-----G
1947006 ACCCGACCCGTTG
1 ACCCGACCCGTTG
1947019 ACCCGACCCGTTG
1 ACCCGACCCGTTG
1947032 ACC
1 ACC
1947035 GTTGACCGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
13 29 0.71
18 12 0.29
ACGTcount: A:0.17, C:0.48, G:0.20, T:0.15
Consensus pattern (13 bp):
ACCCGACCCGTTG
Found at i:1947031 original size:31 final size:31
Alignment explanation
Indices: 1946956--1947034 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
1946946 GTCACAACCC
*
1946956 GACCCGACCCGTTAACCCAACCCGACCCGTT
1 GACCCGACCCGTTGACCCAACCCGACCCGTT
* *
1946987 TACCCGACCCGTTGACCCGACCCGACCCGTT
1 GACCCGACCCGTTGACCCAACCCGACCCGTT
1947018 GACCCGACCCGTTGACC
1 GACCCGACCCGTTGACC
1947035 GTTGACCGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.19, C:0.48, G:0.19, T:0.14
Consensus pattern (31 bp):
GACCCGACCCGTTGACCCAACCCGACCCGTT
Found at i:1948383 original size:18 final size:18
Alignment explanation
Indices: 1948357--1948392 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1948347 TCGAAAGGAC
*
1948357 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1948375 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
1948393 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1949612 original size:24 final size:24
Alignment explanation
Indices: 1949516--1949624 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 24
1949506 GAATATTTTA
* *
1949516 TCTGATTTCTGATTTGAATTATGT
1 TCTGATATCTGATCTGAATTATGT
* * * *
1949540 TTTGACATCTGATCTGAAATCTGT
1 TCTGATATCTGATCTGAATTATGT
* * * *
1949564 TCTGAT-TCCTAACCTGGATTCTGT
1 TCTGATAT-CTGATCTGAATTATGT
1949588 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTATGT
* *
1949612 TTTGATTTCTGAT
1 TCTGATATCTGAT
1949625 ATCTCCGTTT
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
23 1 0.02
24 63 0.97
25 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTATGT
Found at i:1949792 original size:2 final size:2
Alignment explanation
Indices: 1949785--1949819 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
1949775 CGGATGGGGG
1949785 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1949820 GTTTTAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1951794 original size:18 final size:18
Alignment explanation
Indices: 1951768--1951824 Score: 105
Period size: 18 Copynumber: 3.2 Consensus size: 18
1951758 ACCGGTCACA
1951768 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
*
1951786 ACCCAACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
1951804 ACCCGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTG
1951822 ACC
1 ACC
1951825 GTTGACCCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.19, C:0.51, G:0.19, T:0.11
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTG
Found at i:1951828 original size:7 final size:7
Alignment explanation
Indices: 1951816--1951847 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
1951806 CCGACCCGAC
1951816 CCGTTGA
1 CCGTTGA
1951823 CCGTTGA
1 CCGTTGA
1951830 CCCGTTGA
1 -CCGTTGA
1951838 CCGTTGA
1 CCGTTGA
1951845 CCG
1 CCG
1951848 GAGTTGACCA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.12, C:0.34, G:0.28, T:0.25
Consensus pattern (7 bp):
CCGTTGA
Found at i:1951833 original size:15 final size:15
Alignment explanation
Indices: 1951813--1951846 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
1951803 GACCCGACCC
1951813 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
1951828 GACCCGTTGACCGTT
1 GACCCGTTGACCGTT
1951843 GACC
1 GACC
1951847 GGAGTTGACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.15, C:0.35, G:0.26, T:0.24
Consensus pattern (15 bp):
GACCCGTTGACCGTT
Found at i:1953183 original size:18 final size:18
Alignment explanation
Indices: 1953157--1953192 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
1953147 TCGAAAGGAC
*
1953157 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
1953175 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
1953193 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:1954410 original size:24 final size:24
Alignment explanation
Indices: 1954314--1954422 Score: 94
Period size: 24 Copynumber: 4.5 Consensus size: 24
1954304 TGTATATTTA
* *
1954314 TCTGATTTCTGATTTGAATTATGT
1 TCTGATATCTGATCTGAATTATGT
* * * *
1954338 TTTGACATCTGATCTGAAATCTGT
1 TCTGATATCTGATCTGAATTATGT
* * * *
1954362 TCTGAT-TCCTAACCTGGATTCTGT
1 TCTGATAT-CTGATCTGAATTATGT
1954386 TCTGATATCTGATCTGAATTATGT
1 TCTGATATCTGATCTGAATTATGT
* *
1954410 TTTGATTTCTGAT
1 TCTGATATCTGAT
1954423 ATCTCCGTTT
Statistics
Matches: 65, Mismatches: 18, Indels: 4
0.75 0.21 0.05
Matches are distributed among these distances:
23 1 0.02
24 63 0.97
25 1 0.02
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.48
Consensus pattern (24 bp):
TCTGATATCTGATCTGAATTATGT
Found at i:1954589 original size:2 final size:2
Alignment explanation
Indices: 1954582--1954614 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1954572 ACGGATGGGG
1954582 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1954615 GTTTTAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1956772 original size:3 final size:3
Alignment explanation
Indices: 1956764--1956829 Score: 51
Period size: 3 Copynumber: 22.0 Consensus size: 3
1956754 ACTTGTTTGG
* * * * * * *
1956764 ATC ATC ATC TTC ATC ATC ATC ATC TTT ATC GTC AGC TTC ATC GTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* *
1956812 ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC
1956830 GTCAGCTTCA
Statistics
Matches: 45, Mismatches: 18, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.23, C:0.32, G:0.06, T:0.39
Consensus pattern (3 bp):
ATC
Found at i:1956781 original size:12 final size:12
Alignment explanation
Indices: 1956777--1956841 Score: 85
Period size: 12 Copynumber: 5.4 Consensus size: 12
1956767 ATCATCTTCA
*
1956777 TCATCATCATCT
1 TCATCGTCATCT
* *
1956789 TTATCGTCAGCT
1 TCATCGTCATCT
*
1956801 TCATCGTCATCA
1 TCATCGTCATCT
1956813 TCATCGTCATCT
1 TCATCGTCATCT
*
1956825 TCATCGTCAGCT
1 TCATCGTCATCT
1956837 TCATC
1 TCATC
1956842 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.20, C:0.32, G:0.09, T:0.38
Consensus pattern (12 bp):
TCATCGTCATCT
Found at i:1956814 original size:36 final size:36
Alignment explanation
Indices: 1956765--1956841 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
1956755 CTTGTTTGGA
* *
1956765 TCATCATCTTCATCATCATCATCTTTATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
* *
1956801 TCATCGTCATCATCATCGTCATCTTCATCGTCAGCT
1 TCATCATCATCATCATCATCATCTTCATCGTCAGCT
1956837 TCATC
1 TCATC
1956842 TTCTGCGACC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.21, C:0.32, G:0.08, T:0.39
Consensus pattern (36 bp):
TCATCATCATCATCATCATCATCTTCATCGTCAGCT
Found at i:1956844 original size:6 final size:6
Alignment explanation
Indices: 1956777--1956844 Score: 55
Period size: 6 Copynumber: 11.3 Consensus size: 6
1956767 ATCATCTTCA
* * * * * * *
1956777 TCATCA TCATCT TTATCG TCAGCT TCATCG TCATCA TCATCG TCATCT
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* *
1956825 TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TC
1956845 TGCGACCGCT
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.19, C:0.32, G:0.09, T:0.40
Consensus pattern (6 bp):
TCATCT
Found at i:1958897 original size:200 final size:200
Alignment explanation
Indices: 1958307--1959670 Score: 2522
Period size: 200 Copynumber: 6.9 Consensus size: 200
1958297 TTTAAATTAG
1958307 TATCGACACAAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
1958371 TTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATG-TTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
1958434 TCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
*
1958498 AAAAT
196 AAAAA
1958503 TATCGACACAAACT-AAATAGTGTCGACACATTA-TTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
1958566 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATATTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
1958630 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
1958695 AAAAA
196 AAAAA
1958700 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1958765 CTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
1958830 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
1958895 AAAAA
196 AAAAA
*
1958900 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATG
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1958964 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
1959028 TCGACAC-TTTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
1959091 AAAAA
196 AAAAA
1959096 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1959161 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
* *
1959226 TCGACACTTTTTATATATAGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
1959291 AAAAA
196 AAAAA
*
1959296 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATG
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1959361 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
1959426 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCA-CCTGTTTTCCATTCATTCTGGAAC
131 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
1959490 AAAAA
196 AAAAA
1959495 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1959560 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTTGGG
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTTGGG
1959625 ATCGACAC-TTTT-TATATGGATCGACACTTTATGGTTGCACCCTGTT
130 ATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTT
1959671 GGCCATATTG
Statistics
Matches: 1139, Mismatches: 17, Indels: 21
0.97 0.01 0.02
Matches are distributed among these distances:
195 86 0.08
196 153 0.13
197 145 0.13
198 76 0.07
199 303 0.27
200 376 0.33
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (200 bp):
TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
AAAAA
Found at i:1959121 original size:396 final size:398
Alignment explanation
Indices: 1958307--1959667 Score: 2519
Period size: 396 Copynumber: 3.4 Consensus size: 398
1958297 TTTAAATTAG
1958307 TATCGACACAAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
1958371 TTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATG-TTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
1958434 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACA
131 TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGAACA
*
1958499 AAATTATCGACACAAACT-AAATAGTGTCGACACATTA-TTAGACATATTCTCTCATAAAACCGG
196 AAAATATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
* * *
1958562 TATACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATATTTTT
261 TATGCTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGAT-GTTTT
1958626 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTG
325 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTG
1958691 GAACAAAAA
390 GAACAAAAA
1958700 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
1958765 CTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
1958830 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGAAC
131 TCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGAAC
1958895 AAAAATATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCG
195 AAAAATATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
1958959 GTATGCTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
260 GTATGCTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
1959024 GGGATCGACAC-TTTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTG
325 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTG
1959087 GAACAAAAA
390 GAACAAAAA
1959096 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1959161 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
*
1959226 TCGACACTTTTTATATATAGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGAAC
131 TCGACAC-TTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGAAC
1959291 AAAAATATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
195 AAAAATATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
1959356 GTATGCTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
260 GTATGCTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTT
1959421 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCA-CCTGTTTTCCATTCATTCT
324 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCT
1959485 GGAACAAAAA
389 GGAACAAAAA
1959495 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1959560 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTTGGG
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG-TTTTTGGG
1959625 ATCGACACTTTT-TATATGGATCGACACTTTATGGTTGCACCCT
130 ATCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCT
1959668 GTTGGCCATA
Statistics
Matches: 945, Mismatches: 11, Indels: 19
0.97 0.01 0.02
Matches are distributed among these distances:
393 18 0.02
394 91 0.10
395 7 0.01
396 323 0.34
397 145 0.15
398 136 0.14
399 182 0.19
400 43 0.05
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (398 bp):
TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
TCGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGAACA
AAAATATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
TATGCTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTG
GGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGG
AACAAAAA
Found at i:1959436 original size:596 final size:593
Alignment explanation
Indices: 1958307--1959670 Score: 2545
Period size: 596 Copynumber: 2.3 Consensus size: 593
1958297 TTTAAATTAG
1958307 TATCGACACAAACTAAAA-AGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
1958371 TTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTGGGAT
1958435 CGACACTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
131 CGACACTTTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAA
*
1958500 AATTATCGACACAAACTAAATAGTGTCGACACATTATTAGACATATTCTCTCATAAAACCGGTAT
195 AAATATCGACACAAACTAAATAGTGTCGACACATTATTAGACATATTCTCTCATAAAACCGGTAT
1958565 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATATTTTTGGGA
260 ACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATATTTTTGGGA
* *
1958630 TCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAAC
325 TCGACACTTTTTATATATAGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGAAC
1958695 AAAAATATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
390 AAAAATATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
1958760 GTATACTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
455 GTATACTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTT
1958825 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCT
520 TGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCA-CCTATTTTCCATTCATTCT
1958890 GGAACAAAAA
584 GGAACAAAAA
*
1958900 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATG
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1958964 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTGGGAT
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTGGGAT
1959029 CGACACTTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAA
131 CGACACTTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAA
1959094 AATATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTA
196 AATATCGACACAAACT-AAATAGTGTCGACACATTA-TTAGACATATTCTCTCATAAAACCGGTA
* *
1959159 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGG
259 TACTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATATTTTTGG
1959224 GATCGACACTTTTTATATATAGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGA
323 GATCGACACTTTTTATATATAGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGA
1959289 ACAAAAATATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAAC
388 ACAAAAATATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAAC
* *
1959354 CGGTATGCTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTT
453 CGGTATACTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTT
*
1959419 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCTGTTTTCCATTCATTC
518 TTTGGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCTATTTTCCATTCATTC
1959484 TGGAACAAAAA
583 TGGAACAAAAA
1959495 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1959560 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTTGGG
66 CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATG--TTTTGGG
1959625 ATCGACACTTTTTATATGGATCGACACTTTATGGTTGCACCCTGTT
129 ATCGACACTTTTTATATGGATCGACACTTTATGGTTGCACCCTGTT
1959671 GGCCATATTG
Statistics
Matches: 751, Mismatches: 12, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
593 144 0.19
594 79 0.11
595 158 0.21
596 317 0.42
598 53 0.07
ACGTcount: A:0.31, C:0.17, G:0.15, T:0.37
Consensus pattern (593 bp):
TATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTGGGAT
CGACACTTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTTCCATTCATTCTGGAACAAA
AATATCGACACAAACTAAATAGTGTCGACACATTATTAGACATATTCTCTCATAAAACCGGTATA
CTTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATATTTTTGGGAT
CGACACTTTTTATATATAGATCGACACTTTATGGTTGCACCCTATTTTCCATTCATTCTGGAACA
AAAATATCGACACAAACTAAAATAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
TATACTTATACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTT
GGGATCGACACTTTTTATATATGGATCGACACTTTATGGTTGCACCTATTTTCCATTCATTCTGG
AACAAAAA
Found at i:1959835 original size:19 final size:19
Alignment explanation
Indices: 1959789--1959837 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1959779 TTATATTCAC
*
1959789 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
1959808 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
1959827 ATACAAAATTA
1 ATACAAAATTA
1959838 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:1961661 original size:33 final size:33
Alignment explanation
Indices: 1961624--1961687 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
1961614 CATCTTAATA
*
1961624 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
1961657 TCACCCCTCAACACCTCTACTTCTTTCACCA
1 TCACCCCTCAACACCCCAACTTCTTTCACCA
1961688 ATCCATCTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.28
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:1961748 original size:21 final size:21
Alignment explanation
Indices: 1961723--1961766 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1961713 CCCCTTATGC
1961723 CTCTCAAGTGTATCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
* *
1961744 CTCTCAAGTTTCTCTTCGACT
1 CTCTCAAGTGTATCTTCGACT
1961765 CT
1 CT
1961767 TGATTGTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.32, G:0.11, T:0.41
Consensus pattern (21 bp):
CTCTCAAGTGTATCTTCGACT
Found at i:1964018 original size:20 final size:20
Alignment explanation
Indices: 1963986--1964042 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
1963976 ATCCGGTATC
*
1963986 ATTT-TACCGGTTTTATCAT
1 ATTTATACCTGTTTTATCAT
1964005 -TTTGATACCTGTTTTATCAT
1 ATTT-ATACCTGTTTTATCAT
* *
1964025 ATTTTTACCTGTTATATC
1 ATTTATACCTGTTTTATC
1964043 GTTGTGGATC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
18 3 0.09
20 26 0.81
21 3 0.09
ACGTcount: A:0.21, C:0.16, G:0.09, T:0.54
Consensus pattern (20 bp):
ATTTATACCTGTTTTATCAT
Found at i:1964194 original size:20 final size:20
Alignment explanation
Indices: 1964167--1964213 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1964157 TCCGGTAACG
1964167 TTTTACCGGTTTTATCAT-T
1 TTTTACCGGTTTTATCATAT
1964186 TTGTTACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCATAT
1964207 TTTTACC
1 TTTTACC
1964214 TGGTATATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTACCGGTTTTATCATAT
Found at i:1965152 original size:229 final size:229
Alignment explanation
Indices: 1964262--1965896 Score: 3028
Period size: 229 Copynumber: 7.1 Consensus size: 229
1964252 ACTTTTATAC
*
1964262 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1964327 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
*
1964392 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
1964457 GATAATAATAAATATGTTTTCCACAGTGAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
**
1964491 GTATAAACACTTTTATAAAAATGATATATACTTTTTTTTAAAGTTATGTAATTTATGTTTCAATT
1 GTATGGACACTTTTATAAAAATGATATATAC-TTTTTTTAAAGTTATGTAATTTATGTTTCAATT
1964556 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAA
65 TTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAA
1964621 ATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
130 ATTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAA
* *
1964686 AGATAATAATAAATATATTTTCCACAGTGAAATAC
195 AGATAATAATAAATATGTTTTCCACAGTGAAATAA
*
1964721 GTATGGACACTTTTATAAAAATGATATATATTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1964785 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
*
1964850 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
1964915 GATAATAATAAATATGTTTTCCACAGTGAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
*
1964949 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
1965014 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAG
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
*
1965079 TTATTTGATTTTTTTATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
1965144 GATAATAATAAATATGTTTTCCACAGTGAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
*
1965178 GTATGTACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
1965243 TTTTTAATAGTGTTTCATG-TTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAG
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
*
1965307 TTATTTGATTTTTTTATATTTTATAAAATATTA-TTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
1965371 GATAATAATAAATATGTTTTCCACAGTGAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
1965405 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1965470 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
*
1965535 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
*
1965600 GATAATAATAAATATGTTTTCCACAATGAAATAA
196 GATAATAATAAATATGTTTTCCACAGTGAAATAA
1965634 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TT
1 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1965698 TTTTTAATAGTGTTTCATGTTTTCCACCTACAAATATTAATTTAATAATTTCATTTACACACAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTAC-AATATTAATTTAATAATTTCATTTACACACAAA
1965763 ATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
130 ATTATTTGATT-TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
* *
1965828 AAGATAATAATAAATATATTTT-CACAATGAAATAA
194 AAGATAATAATAAATATGTTTTCCACAGTGAAATAA
* *
1965863 GTATGGACACTTTTATAAAAAGGATAGATACTTT
1 GTATGGACACTTTTATAAAAATGATATATACTTT
1965897 ACAATATAAC
Statistics
Matches: 1375, Mismatches: 25, Indels: 12
0.97 0.02 0.01
Matches are distributed among these distances:
227 148 0.11
228 409 0.30
229 522 0.38
230 296 0.22
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (229 bp):
GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
GATAATAATAAATATGTTTTCCACAGTGAAATAA
Found at i:1965650 original size:685 final size:686
Alignment explanation
Indices: 1964262--1965896 Score: 3053
Period size: 685 Copynumber: 2.4 Consensus size: 686
1964252 ACTTTTATAC
1964262 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1964327 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
*
1964392 TTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
*
1964457 GATAATAATAAATATGTTTTCCACAGTGAAATAAGTATAAACACTTTTATAAAAATGATATATAC
196 GATAATAATAAATATGTTTTCCACAGTGAAATAAGTATGAACACTTTTATAAAAATGATATATAC
1964522 TTTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTA
261 -TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTA
1964587 CAATATTAATTTAATAATTTCATTTACACACAAAATTATTTGATTTTTTGATATTTTATAAAATA
325 CAATATTAATTTAATAATTTCATTTACACACAAAATTATTTGATTTTTTGATATTTTATAAAATA
1964652 TTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCCACAGTGAA
390 TTATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCCACAGTGAA
* *
1964717 ATACGTATGGACACTTTTATAAAAATGATATATATTTTTTTTAAAGTTATGTAATTTATGTTTCA
455 ATAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCA
1964782 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACA
520 ATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACA
1964847 AAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACC
585 AAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACC
*
1964912 AAAGATAATAATAAATATGTTTTCCACAGTGAAATAA
650 AAAGATAATAATAAATATGTTTTCCACAATGAAATAA
1964949 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
*
1965014 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAG
66 TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
*
1965079 TTATTTGATTTTTTTATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
131 TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
*
1965144 GATAATAATAAATATGTTTTCCACAGTGAAATAAGTATGTACACTTTTATAAAAATGATATATAC
196 GATAATAATAAATATGTTTTCCACAGTGAAATAAGTATGAACACTTTTATAAAAATGATATATAC
1965209 TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATG-TTTCCACCTAC
261 TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTAC
* *
1965273 AATATTAATTTAATAATTTCATTTACACACAAAGTTATTTGATTTTTTTATATTTTATAAAATAT
326 AATATTAATTTAATAATTTCATTTACACACAAAATTATTTGATTTTTTGATATTTTATAAAATAT
*
1965338 TA-TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATGTTTTCCACAGTGAAA
391 TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCCACAGTGAAA
1965402 TAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA
456 TAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA
1965467 TTTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACA
521 -TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACA
1965532 AAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACC
585 AAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACC
1965597 AAAGATAATAATAAATATGTTTTCCACAATGAAATAA
650 AAAGATAATAATAAATATGTTTTCCACAATGAAATAA
*
1965634 GTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA-TT
1 GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
1965698 TTTTTAATAGTGTTTCATGTTTTCCACCTACAAATATTAATTTAATAATTTCATTTACACACAAA
66 TTTTTAATAGTGTTTCATGTTTTCCACCTAC-AATATTAATTTAATAATTTCATTTACACACAAA
1965763 ATTATTTGATTGTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
130 ATTATTTGATT-TTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
* * * * *
1965828 AAGATAATAATAAATATATTTT-CACAATGAAATAAGTATGGACACTTTTATAAAAAGGATAGAT
194 AAGATAATAATAAATATGTTTTCCACAGTGAAATAAGTATGAACACTTTTATAAAAATGATATAT
1965892 ACTTT
259 ACTTT
1965897 ACAATATAAC
Statistics
Matches: 926, Mismatches: 19, Indels: 8
0.97 0.02 0.01
Matches are distributed among these distances:
684 157 0.17
685 388 0.42
686 126 0.14
687 255 0.28
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (686 bp):
GTATGAACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAATTT
TTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAAAA
TTATTTGATTTTTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCAAA
GATAATAATAAATATGTTTTCCACAGTGAAATAAGTATGAACACTTTTATAAAAATGATATATAC
TTTTTTTAAAGTTATGTAATTTATGTTTCAATTTTTTTTAATAGTGTTTCATGTTTTCCACCTAC
AATATTAATTTAATAATTTCATTTACACACAAAATTATTTGATTTTTTGATATTTTATAAAATAT
TATTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCCACAGTGAAA
TAAGTATGGACACTTTTATAAAAATGATATATACTTTTTTTAAAGTTATGTAATTTATGTTTCAA
TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTTACACACAA
AATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTAAATTTAACAATATTAACCA
AAGATAATAATAAATATGTTTTCCACAATGAAATAA
Found at i:1971563 original size:3 final size:3
Alignment explanation
Indices: 1971555--1971597 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
1971545 TCAAATATGT
* * *
1971555 TTC TTC TTC CTC TTC CTC TTC CTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1971598 GTCGTTTTTG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (3 bp):
TTC
Found at i:1971594 original size:12 final size:12
Alignment explanation
Indices: 1971555--1971597 Score: 68
Period size: 12 Copynumber: 3.6 Consensus size: 12
1971545 TCAAATATGT
1971555 TTCTTCTTCCTC
1 TTCTTCTTCCTC
*
1971567 TTCCTCTTCCTC
1 TTCTTCTTCCTC
*
1971579 TTCTTCTTCTTC
1 TTCTTCTTCCTC
1971591 TTCTTCT
1 TTCTTCT
1971598 GTCGTTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (12 bp):
TTCTTCTTCCTC
Found at i:1973374 original size:20 final size:20
Alignment explanation
Indices: 1973338--1973380 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
1973328 TAAAATATAT
*
1973338 AAATTTAAAATTTATTTTTA
1 AAATTTAAAATTAATTTTTA
1973358 AAATTATAAAA-TAATTTTTA
1 AAATT-TAAAATTAATTTTTA
1973378 AAA
1 AAA
1973381 ATAACGAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AAATTTAAAATTAATTTTTA
Found at i:1973584 original size:20 final size:19
Alignment explanation
Indices: 1973561--1973610 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
1973551 TTTATATTTT
1973561 ATTTAAAAAGTTTAAATATA
1 ATTTAAAAA-TTTAAATATA
* **
1973581 ATTTAAAGATTTATTTATA
1 ATTTAAAAATTTAAATATA
1973600 ATTTCAAAAAT
1 ATTT-AAAAAT
1973611 GTATAGTGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.44
Consensus pattern (19 bp):
ATTTAAAAATTTAAATATA
Found at i:1976645 original size:27 final size:29
Alignment explanation
Indices: 1976615--1976679 Score: 100
Period size: 27 Copynumber: 2.3 Consensus size: 29
1976605 CCTAAACCCG
*
1976615 AACCCGACCCA-AATATCACACTT-AAAA
1 AACCCGACCCAGAATATCAAACTTAAAAA
1976642 AACCCGA-CCAGAATATCAAACTTAAAAA
1 AACCCGACCCAGAATATCAAACTTAAAAA
1976670 AACCCGACCC
1 AACCCGACCC
1976680 GACTCGACCC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
26 3 0.09
27 18 0.53
28 11 0.32
29 2 0.06
ACGTcount: A:0.48, C:0.34, G:0.06, T:0.12
Consensus pattern (29 bp):
AACCCGACCCAGAATATCAAACTTAAAAA
Found at i:1980320 original size:2 final size:2
Alignment explanation
Indices: 1980315--1980359 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
1980305 CCTTATAACT
1980315 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1980356 TA TA
1 TA TA
1980360 ATGTACGAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1981442 original size:143 final size:144
Alignment explanation
Indices: 1981138--1981443 Score: 454
Period size: 143 Copynumber: 2.1 Consensus size: 144
1981128 TTTGAAGTAT
* * * *
1981138 TGATCGGAGATCCCGATCGCCGGCAAAAGGCTAAAAACCTTTCGACTTATTTTCTCCGATCTGCC
1 TGATCGGAGATCCCGATCGCAGGCAAAAGACCAAAAACCGTTCGACTTATTTTCTCCGATC-GCC
*
1981203 ATCGTCCACCGTCTGATCGTTCTGAATTTTCAGTATGTTGTTCGTGATGGTCTCGCGCAACTTTT
65 ATCGTCCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCGTGATGGTCTCGCGCAACTTTT
* *
1981268 GACCGTTCGGAATGT
130 GACAGTTCGGAATGG
* * * *
1981283 TAATCGGCA-CTCCCGATCGCAGGCAAGAGACCAAAAACCGTTCGGCTTATTTTCTCCGATC-CC
1 TGATCGG-AGATCCCGATCGCAGGCAAAAGACCAAAAACCGTTCGACTTATTTTCTCCGATCGCC
* *
1981346 CTCGTCCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCGTGATGGTCTTGCGCAACTTTT
65 ATCGTCCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCGTGATGGTCTCGCGCAACTTTT
1981411 GACAGTTCGGAATGG
130 GACAGTTCGGAATGG
*
1981426 TGATCGGAGATTCCGATC
1 TGATCGGAGATCCCGATC
1981444 ATCGACAAGA
Statistics
Matches: 143, Mismatches: 16, Indels: 6
0.87 0.10 0.04
Matches are distributed among these distances:
142 1 0.01
143 90 0.63
145 51 0.36
146 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (144 bp):
TGATCGGAGATCCCGATCGCAGGCAAAAGACCAAAAACCGTTCGACTTATTTTCTCCGATCGCCA
TCGTCCACCGTCTGATCGTCCTGAATTTTCAGTATGTTGTTCGTGATGGTCTCGCGCAACTTTTG
ACAGTTCGGAATGG
Found at i:1982535 original size:15 final size:15
Alignment explanation
Indices: 1982487--1982535 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
1982477 TTTGACCGGT
1982487 CCTTCTTCAACCCAA
1 CCTTCTTCAACCCAA
* **
1982502 TCCCTCCTTCAACTAAA
1 --CCTTCTTCAACCCAA
1982519 CCTTCTTCAACCCAA
1 CCTTCTTCAACCCAA
1982534 CC
1 CC
1982536 CTTTCTTCTC
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 14 0.54
17 12 0.46
ACGTcount: A:0.27, C:0.47, G:0.00, T:0.27
Consensus pattern (15 bp):
CCTTCTTCAACCCAA
Found at i:1982543 original size:17 final size:16
Alignment explanation
Indices: 1982487--1982543 Score: 62
Period size: 17 Copynumber: 3.5 Consensus size: 16
1982477 TTTGACCGGT
1982487 CCTTCTTCAACCCAATC
1 CCTTCTTCAACCCAA-C
* * *
1982504 CCTCCTTCAA-CTAAA
1 CCTTCTTCAACCCAAC
1982519 CCTTCTTCAACCCAAC
1 CCTTCTTCAACCCAAC
1982535 CCTTTCTTC
1 CC-TTCTTC
1982544 TCCTTTTTCA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
15 9 0.28
16 8 0.25
17 15 0.47
ACGTcount: A:0.23, C:0.46, G:0.00, T:0.32
Consensus pattern (16 bp):
CCTTCTTCAACCCAAC
Found at i:1984839 original size:20 final size:20
Alignment explanation
Indices: 1984811--1984860 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1984801 ACATTTTCTA
*
1984811 TAATTATTTATACAAGAAAC
1 TAATCATTTATACAAGAAAC
* *
1984831 TAATCATTTATACAATAAAT
1 TAATCATTTATACAAGAAAC
*
1984851 TAACCATTTA
1 TAATCATTTA
1984861 AGATCATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (20 bp):
TAATCATTTATACAAGAAAC
Found at i:1988407 original size:20 final size:20
Alignment explanation
Indices: 1988382--1988444 Score: 56
Period size: 20 Copynumber: 3.2 Consensus size: 20
1988372 AGTAAAAGGT
1988382 TGAACAAGTTCTTCTTATTA
1 TGAACAAGTTCTTCTTATTA
** * *
1988402 TGAACATCTTCTTCCTCTT-
1 TGAACAAGTTCTTCTTATTA
* * *
1988421 CGAACGAGTTCTTCTCATTA
1 TGAACAAGTTCTTCTTATTA
1988441 TGAA
1 TGAA
1988445 TTCTTCCATT
Statistics
Matches: 30, Mismatches: 12, Indels: 2
0.68 0.27 0.05
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.25, C:0.22, G:0.11, T:0.41
Consensus pattern (20 bp):
TGAACAAGTTCTTCTTATTA
Found at i:1988989 original size:28 final size:29
Alignment explanation
Indices: 1988949--1989013 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
1988939 ATTATTTTAA
* *
1988949 ATTTATTACTATAATTTTAAT-AA-AATAT
1 ATTTATTTCTAT-ATTTTAATAAATAAGAT
* *
1988977 ATTTATTTTTATATTTTTATAAATAAGAT
1 ATTTATTTCTATATTTTAATAAATAAGAT
1989006 ATTTATTT
1 ATTTATTT
1989014 ATTTAGAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
27 7 0.23
28 12 0.39
29 12 0.39
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (29 bp):
ATTTATTTCTATATTTTAATAAATAAGAT
Found at i:1989335 original size:3 final size:3
Alignment explanation
Indices: 1989327--1989359 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
1989317 AATATGACTA
1989327 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1989360 TAAATATATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1990678 original size:3 final size:3
Alignment explanation
Indices: 1990670--1990771 Score: 100
Period size: 3 Copynumber: 34.0 Consensus size: 3
1990660 CCGTAATATG
* * *
1990670 TAA TAA TAA TATC TAT TAT TAA TAA T-A TAA -ATA TAA TAA TAA TAA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA
* * * *
1990715 TAA TAA TAA TAA TAA TTA TAA CAA TTA TAA TAA TTA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1990763 TAA AAA TAA
1 TAA TAA TAA
1990772 AACGGGAAAA
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
2 3 0.04
3 76 0.93
4 3 0.04
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:1991161 original size:139 final size:139
Alignment explanation
Indices: 1990857--1991244 Score: 569
Period size: 139 Copynumber: 2.8 Consensus size: 139
1990847 AGTCGAGCAA
* * * ** *
1990857 AAGGTTGAACAAGCTCTTCTCATTATGAACGTCTTCTCCCTCAACGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* *
1990922 GAACTCTTCTACTGAAAATGTTGATCCCTCGAGTGAGGGAGGGGTCGCTGATTCAACTCCATATA
66 GAACTC-TCCACTGGAAATGTTGATCCCTCGAGTGAGGGA----TCGCTGATTCAACTCCATATA
*
1990987 CGATGAATCGAGCT
126 CAATGAATCGAGCT
*
1991001 AAGGTTGTACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
* * * *
1991066 GAACTCTCCACTGGAAATGCTGATCCCTCGAGTGATGGATCGCTGATTCAACTCTATATGCAATG
66 GAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGGATCGCTGATTCAACTCCATATACAATG
1991131 AATCGAGCT
131 AATCGAGCT
* * *
1991140 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTTTTCCTTTTCAGATTAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
*
1991205 GAACTCTCCACTGGAAATGTTGATCTCTCGAGTGAGGGAT
66 GAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGGAT
1991245 TCAAATTTTT
Statistics
Matches: 223, Mismatches: 21, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
139 130 0.58
143 29 0.13
144 64 0.29
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.35
Consensus pattern (139 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTAT
GAACTCTCCACTGGAAATGTTGATCCCTCGAGTGAGGGATCGCTGATTCAACTCCATATACAATG
AATCGAGCT
Found at i:1992727 original size:37 final size:39
Alignment explanation
Indices: 1992650--1992734 Score: 111
Period size: 37 Copynumber: 2.2 Consensus size: 39
1992640 GGCCTTCAGC
* * *
1992650 ATGCCCCAACATTTGTTTCTTATTGAAGTGAGCCTTTAAA
1 ATGCCCCAACA-TTGTTTCATACTGAAGTGAGCCTCTAAA
*
1992690 ATGCCCCAACA-T-TTTCATACTGACGTGAGCCTCTAAA
1 ATGCCCCAACATTGTTTCATACTGAAGTGAGCCTCTAAA
1992727 ATGCCCCA
1 ATGCCCCA
1992735 CATGGCTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
37 29 0.71
38 1 0.02
40 11 0.27
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (39 bp):
ATGCCCCAACATTGTTTCATACTGAAGTGAGCCTCTAAA
Found at i:1996827 original size:20 final size:20
Alignment explanation
Indices: 1996802--1996840 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1996792 TATAACTATA
1996802 CAAAGATGC-ACATGCAAATG
1 CAAAGATGCGA-ATGCAAATG
1996822 CAAAGATGCGAATGCAAAT
1 CAAAGATGCGAATGCAAAT
1996841 ACAACGAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (20 bp):
CAAAGATGCGAATGCAAATG
Found at i:2000153 original size:22 final size:22
Alignment explanation
Indices: 2000125--2000166 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
2000115 GAGGCATGTG
2000125 ATAATAATAT-TTAATAATAATA
1 ATAATAATATATTAA-AATAATA
2000147 ATAATAATATATTAAAATAA
1 ATAATAATATATTAAAATAA
2000167 AATGGGACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAATAATATATTAAAATAATA
Found at i:2000165 original size:19 final size:19
Alignment explanation
Indices: 2000125--2000166 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
2000115 GAGGCATGTG
*
2000125 ATAATAATATTTAATAATA
1 ATAATAATATATAATAATA
*
2000144 ATAATAATAATATATTAA-A
1 ATAATAAT-ATATAATAATA
2000163 ATAA
1 ATAA
2000167 AATGGGACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
ATAATAATATATAATAATA
Found at i:2001100 original size:20 final size:20
Alignment explanation
Indices: 2001075--2001123 Score: 98
Period size: 20 Copynumber: 2.5 Consensus size: 20
2001065 GGTCGTTTCT
2001075 AGCCGTTGGGGATGTTTTGG
1 AGCCGTTGGGGATGTTTTGG
2001095 AGCCGTTGGGGATGTTTTGG
1 AGCCGTTGGGGATGTTTTGG
2001115 AGCCGTTGG
1 AGCCGTTGG
2001124 TGATTAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.10, C:0.12, G:0.45, T:0.33
Consensus pattern (20 bp):
AGCCGTTGGGGATGTTTTGG
Found at i:2001271 original size:21 final size:21
Alignment explanation
Indices: 2001247--2001319 Score: 146
Period size: 21 Copynumber: 3.5 Consensus size: 21
2001237 GGGCTTGACC
2001247 AGTATCGATACTATGCTTCCT
1 AGTATCGATACTATGCTTCCT
2001268 AGTATCGATACTATGCTTCCT
1 AGTATCGATACTATGCTTCCT
2001289 AGTATCGATACTATGCTTCCT
1 AGTATCGATACTATGCTTCCT
2001310 AGTATCGATA
1 AGTATCGATA
2001320 TCACTTGTAA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (21 bp):
AGTATCGATACTATGCTTCCT
Found at i:2004654 original size:29 final size:29
Alignment explanation
Indices: 2004597--2004663 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
2004587 AGGGATCCCA
* * *
2004597 ATTTTTTCGTCTTTATAATTAGTGTCTCT-
1 ATTTTTT-ATCTTTATAATTAGGGCCTCTG
2004626 AGTTTTTTATCTTTATAATTAGGGCCTCTG
1 A-TTTTTTATCTTTATAATTAGGGCCTCTG
2004656 ATTTTTTA
1 ATTTTTTA
2004664 AATTTTATCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 26 0.79
30 7 0.21
ACGTcount: A:0.19, C:0.12, G:0.12, T:0.57
Consensus pattern (29 bp):
ATTTTTTATCTTTATAATTAGGGCCTCTG
Found at i:2004802 original size:41 final size:41
Alignment explanation
Indices: 2004729--2004811 Score: 105
Period size: 41 Copynumber: 2.0 Consensus size: 41
2004719 ATCTTGATAG
* *
2004729 TTGAAGTATCTAATTTTCCAATCCCATTTTTTTAAACTTTA
1 TTGAAGTACCTAATTTTCCAATCCCATCTTTTTAAACTTTA
** *
2004770 TTGAAGTACCTAATTTTTTTAATCCCA-CTTTTTAAATTTTA
1 TTGAAGTACCTAA-TTTTCCAATCCCATCTTTTTAAACTTTA
2004811 T
1 T
2004812 AATTGAGGCC
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 25 0.69
42 11 0.31
ACGTcount: A:0.29, C:0.16, G:0.05, T:0.51
Consensus pattern (41 bp):
TTGAAGTACCTAATTTTCCAATCCCATCTTTTTAAACTTTA
Found at i:2006264 original size:15 final size:16
Alignment explanation
Indices: 2006234--2006264 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2006224 AGTCTGAAAA
2006234 TTAATTAAACATGAGT
1 TTAATTAAACATGAGT
2006250 TTAATTAAA-ATGAGT
1 TTAATTAAACATGAGT
2006265 GCAACATCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.45, C:0.03, G:0.13, T:0.39
Consensus pattern (16 bp):
TTAATTAAACATGAGT
Found at i:2007036 original size:20 final size:20
Alignment explanation
Indices: 2007011--2007049 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
2007001 CCACTTAGTC
*
2007011 TTGTAAGTATAGCTAAAGAG
1 TTGTAAGTATAACTAAAGAG
2007031 TTGTAAGTATAACTAAAGA
1 TTGTAAGTATAACTAAAGA
2007050 TTTTTTTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.44, C:0.05, G:0.21, T:0.31
Consensus pattern (20 bp):
TTGTAAGTATAACTAAAGAG
Found at i:2008088 original size:20 final size:21
Alignment explanation
Indices: 2008049--2008088 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
2008039 TATTTTGTTA
2008049 TAATGAAAACATGATAATAAT
1 TAATGAAAACATGATAATAAT
* *
2008070 TAATGTAAA-ATGATCATAA
1 TAATGAAAACATGATAATAA
2008089 ATAAAGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.55, C:0.05, G:0.10, T:0.30
Consensus pattern (21 bp):
TAATGAAAACATGATAATAAT
Found at i:2015724 original size:257 final size:256
Alignment explanation
Indices: 2015211--2016401 Score: 1708
Period size: 257 Copynumber: 4.6 Consensus size: 256
2015201 AACCCGAAAA
** * * *
2015211 CATCATGCTCGAAAGACTTACTGATGGCTTGAAGGACTTACTAATTTTGGAAATAATTTACTGGG
1 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTGGGAAATAGTTTACTGGG
* * * * *
2015276 TAAGAAACTTTGAAAATCACTTTCTTACTTTTCAAAATTTTCATTTTTTAGAAAATATTTAAATG
66 TAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCT-GAAAATA-CTAAATG
* * * *
2015341 AGAAACTTTGAAAATAGTTTTCTCATTTTTCAAAAT-ATTGTGAAAACATCCTACCCGAAGGTCT
129 AGAAACTTTGGAAATCGCTTTCTCA-TTTTCAAATTCA-TGTGAAAACATCCTACCCGAAGGTCT
* * * *
2015405 TACGGATTGTCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGATGGATTTAAT
192 TACGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAT
*
2015470 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTGGGAAATAATTTACTGGG
1 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTGGGAAATAGTTTACTGGG
*
2015535 TAAGAAACTTTGGAAATTGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATGAG
66 TAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATGAG
* * *
2015600 AAACTTTAGAAATCGCTTTCTCATATTTCAATTTCATGTGAAAACATCCTACCCAAAGGTCTTAC
131 AAACTTTGGAAATCGCTTTCTCAT-TTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTAC
* * * *
2015665 GGATGGCCCGAGGGACTTATAATCTTGCTCGAAAGACTTACTGATGACCTGAAGGATTTAAT
195 GGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAT
2015727 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTT-GGAGAATAGTTTACTGG
1 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTGGGA-AATAGTTTACTGG
* * *
2015791 GTAAGAAACTTTGGAAATCGTTTTCTTACTCTTCAAAAATTTCATTTTCTGAAATTACTAAATGA
65 GTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATGA
*
2015856 GAAACTTTGGAAATCGCTTTCTTACTTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTA
130 GAAACTTTGGAAATCGCTTTCTCA-TTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTA
* * * *
2015921 CGGATGGCCCGAATGACTTATCATCTTGCTCAAAAGACTTACAGATGACTCGAAGGATTTAGT
194 CGGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAT
** * * * ** **
2015984 CATCATGCTTAAAAGACTTACTAATGG-CAGAAGAACTTACCAATTTAAGAAATAGTTTACTTAG
1 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTGGGAAATAGTTTACTGGG
* *
2016048 TAAGAAACTTTGGAAATCTCTTTTTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATGAG
66 TAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATGAG
* *
2016113 AAACTTTGGAAATCGCTTTCTCACTTTTCAAATTCATGTGAAAACATCCTACCTGAAGGTTTTAC
131 AAACTTTGGAAATCGCTTTCTCA-TTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTAC
** ** * *
2016178 GGATGGCTTGAAGGACTTATCATCTTATTCGAAAGACTTACAGATGACCCAAATGATTTAAT
195 GGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAT
* * *
2016240 CATCATGTTCGAAATACTTACTGATGGGCCGAAGGACTTACCAATTTGGGAAATAGTTTACTGGG
1 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTGGGAAATAGTTTACTGGG
* *
2016305 TAAGAAACTTTGGAAATCG-TTTCCTTACTTTTCAAAAATTTCATTTTCAGAAAA-ATTTAAATG
66 TAAGAAACTTTGGAAATCGCTTT-CTTACTTTTCAAAAATTTCATTTTCTGAAAATA-CTAAATG
*
2016368 AGAAACTTTGGAAATCACTTTCTCATTTTTCAAA
129 AGAAACTTTGGAAATCGCTTTCTCA-TTTTCAAA
2016402 ATAACTTAAT
Statistics
Matches: 839, Mismatches: 85, Indels: 18
0.89 0.09 0.02
Matches are distributed among these distances:
256 233 0.28
257 492 0.59
258 9 0.01
259 105 0.13
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
Consensus pattern (256 bp):
CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTGGGAAATAGTTTACTGGG
TAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATGAG
AAACTTTGGAAATCGCTTTCTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTACG
GATGGCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCCGAAGGATTTAAT
Found at i:2016181 original size:513 final size:513
Alignment explanation
Indices: 2015211--2016404 Score: 1727
Period size: 513 Copynumber: 2.3 Consensus size: 513
2015201 AACCCGAAAA
** * *
2015211 CATCATGCTCGAAAGACTTACTGATGGCTTGAAGGACTTACTAATTTTGGA-AATAATTTACTGG
1 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAA-TTTGGAGAATAGTTTACTGG
* ** * * *
2015275 GTAAGAAACTTTGAAAATCACTTTCTTACTTTTCAAAATTTTCATTTTTTAGAAAATATTTAAAT
65 GTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCT-G-AAAT-TATAAAT
* * *
2015340 GAGAAACTTTGAAAATAGTTTTCTCATTTTTCAAAATATTGTGAAAACATCCTACCCGAAGGTCT
127 GAGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAATATTGTGAAAACATCCTACCCGAAGGTCT
* * * * *
2015405 TACGGATTGTCCGAAGGACTTATCATCTTGCTCGAAAGACTTATAGATGACCCGATGGATTTAAT
192 TACGGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCGAAGGATTTAAT
* * * * ** *
2015470 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTGGGAAATAATTTACTGGG
257 CATCATGCTCAAAAGACTTACTAATGGCCAGAAGAACTTACCAATTTAAGAAATAATTTACTGAG
2015535 TAAGAAACTTTGGAAATTGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATGAG
322 TAAGAAACTTTGGAAATTGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATGAG
*
2015600 AAACTTTAGAAATCGCTTTCTCATATTTCAATTTCATGTGAAAACATCCTACCCAAAGGTCTTAC
387 AAACTTTAGAAATCGCTTTCTCATATTTCAAATTCATGTGAAAACATCCTACCCAAAGGTCTTAC
* * * **
2015665 GGATGGCCCGAGGGACTTATAATCTTGCTCGAAAGACTTACTGATGACCTGAAGGATTTAAT
452 GGATGGCCCGAAGGACTTATAATCTTACTCGAAAGACTTACAGATGACCCAAAGGATTTAAT
2015727 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTGGAGAATAGTTTACTGGG
1 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTGGAGAATAGTTTACTGGG
*
2015792 TAAGAAACTTTGGAAATCGTTTTCTTACTCTTCAAAAATTTCATTTTCTGAAATTACTAAATGAG
66 TAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTGAAATTA-TAAATGAG
* * *
2015857 AAACTTTGGAAATCGCTTTCTTACTTTTCAAATTCA-TGTGAAAACATCCTACCCGAAGGTCTTA
130 AAACTTTGGAAATCGCTTTCTCATTTTTCAAAAT-ATTGTGAAAACATCCTACCCGAAGGTCTTA
* * *
2015921 CGGATGGCCCGAATGACTTATCATCTTGCTCAAAAGACTTACAGATGACTCGAAGGATTTAGTCA
194 CGGATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCGAAGGATTTAATCA
* * *
2015986 TCATGCTTAAAAGACTTACTAATGG-CAGAAGAACTTACCAATTTAAGAAATAGTTTACTTAGTA
259 TCATGCTCAAAAGACTTACTAATGGCCAGAAGAACTTACCAATTTAAGAAATAATTTACTGAGTA
*
2016050 AGAAACTTTGGAAATCT-CTTTTTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATGAGA
324 AGAAACTTTGGAAAT-TGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATGAGA
* ** *
2016114 AACTTTGGAAATCGCTTTCTCACT-TTTCAAATTCATGTGAAAACATCCTACCTGAAGGTTTTAC
388 AACTTTAGAAATCGCTTTCTCA-TATTTCAAATTCATGTGAAAACATCCTACCCAAAGGTCTTAC
** * * *
2016178 GGATGGCTTGAAGGACTTATCATCTTATTCGAAAGACTTACAGATGACCCAAATGATTTAAT
452 GGATGGCCCGAAGGACTTATAATCTTACTCGAAAGACTTACAGATGACCCAAAGGATTTAAT
* * *
2016240 CATCATGTTCGAAATACTTACTGATGGGCCGAAGGACTTACCAATTTGG-GAAATAGTTTACTGG
1 CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTGGAG-AATAGTTTACTGG
* *
2016304 GTAAGAAACTTTGGAAATCGTTTCCTTACTTTTCAAAAATTTCATTTTCAGAAAAATT-TAAATG
65 GTAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTG--AAATTATAAATG
*
2016368 AGAAACTTTGGAAATCACTTTCTCATTTTTCAAAATA
128 AGAAACTTTGGAAATCGCTTTCTCATTTTTCAAAATA
2016405 ACTTAATGGT
Statistics
Matches: 609, Mismatches: 61, Indels: 20
0.88 0.09 0.03
Matches are distributed among these distances:
512 2 0.00
513 348 0.57
514 149 0.24
515 13 0.02
516 97 0.16
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.34
Consensus pattern (513 bp):
CATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACCAATTTGGAGAATAGTTTACTGGG
TAAGAAACTTTGGAAATCGTTTTCTTACTTTTCAAAAATTTCATTTTCTGAAATTATAAATGAGA
AACTTTGGAAATCGCTTTCTCATTTTTCAAAATATTGTGAAAACATCCTACCCGAAGGTCTTACG
GATGGCCCGAAGGACTTATCATCTTGCTCAAAAGACTTACAGATGACCCGAAGGATTTAATCATC
ATGCTCAAAAGACTTACTAATGGCCAGAAGAACTTACCAATTTAAGAAATAATTTACTGAGTAAG
AAACTTTGGAAATTGCTTTCTTACTTTTCAAAAATTTCATTTTCTGAAAATACTAAATGAGAAAC
TTTAGAAATCGCTTTCTCATATTTCAAATTCATGTGAAAACATCCTACCCAAAGGTCTTACGGAT
GGCCCGAAGGACTTATAATCTTACTCGAAAGACTTACAGATGACCCAAAGGATTTAAT
Found at i:2018556 original size:17 final size:16
Alignment explanation
Indices: 2018515--2018556 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 16
2018505 AAATATATTT
2018515 TAAAATAATTTTAAGA
1 TAAAATAATTTTAAGA
2018531 -AAAATAATTTTAAAAGA
1 TAAAATAATTTT--AAGA
2018548 TAAAA-AATT
1 TAAAATAATT
2018557 GATTTGCGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
15 11 0.48
17 8 0.35
18 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (16 bp):
TAAAATAATTTTAAGA
Found at i:2019153 original size:15 final size:16
Alignment explanation
Indices: 2019124--2019157 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
2019114 AACCAATATT
2019124 ATTAAAAATATTTAAA
1 ATTAAAAATATTTAAA
2019140 ATTAAAAATA-TTAAA
1 ATTAAAAATATTTAAA
2019155 ATT
1 ATT
2019158 TGGAGATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTAAAAATATTTAAA
Found at i:2020446 original size:3 final size:3
Alignment explanation
Indices: 2020440--2020508 Score: 77
Period size: 3 Copynumber: 22.7 Consensus size: 3
2020430 TTAATTATTA
* * *
2020440 AAT AAT AAT AAT AAT AAT CAT AAT AAT AAG AATT AA- AAT AAT ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT
*
2020485 AACT AAT AAT AAT AAC AAT AAT AA
1 AA-T AAT AAT AAT AAT AAT AAT AA
2020509 AATGGGACAA
Statistics
Matches: 55, Mismatches: 8, Indels: 6
0.80 0.12 0.09
Matches are distributed among these distances:
2 2 0.04
3 48 0.87
4 5 0.09
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2020898 original size:82 final size:83
Alignment explanation
Indices: 2020647--2020915 Score: 359
Period size: 83 Copynumber: 3.3 Consensus size: 83
2020637 CGACTCTTCT
* * * * *
2020647 TTCA-GGAAAGATCAGACTTGATCTGCT-CCATTTTTTTTGGATATTCAGATCAATTTTGGAAGA
1 TTCATGGAGAGATCAGACTTGATCT-ATGCC-TCTTTTTTGGGTAGTCAGATCAATTTTGGAAGA
*
2020710 CATGTCTTCTCCACTATTCA
64 CGTGTCTTCTCCACTATTCA
* * *
2020730 TTCATGGA-AAATCAGATTTGATCTGTGCCTCTTTTTTCGGGTAGTCAGATCAATTTTGGAAGAC
1 TTCATGGAGAGATCAGACTTGATCTATGCCTCTTTTTT-GGGTAGTCAGATCAATTTTGGAAGAC
2020794 GTGTCTTCTCCACTATTCA
65 GTGTCTTCTCCACTATTCA
* *
2020813 TTCA-GGAGAGATCAGACTTGATATATGCCTCTTTTTTGGGTAGTCAGATCAAATTTGGAAGACG
1 TTCATGGAGAGATCAGACTTGATCTATGCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGACG
* *
2020877 TGTATGCTCCACTATTCA
66 TGTCTTCTCCACTATTCA
2020895 TTCATGG-GAGATCAGACTTGA
1 TTCATGGAGAGATCAGACTTGA
2020916 AATTGATTTG
Statistics
Matches: 167, Mismatches: 14, Indels: 11
0.87 0.07 0.06
Matches are distributed among these distances:
82 71 0.43
83 93 0.56
84 3 0.02
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (83 bp):
TTCATGGAGAGATCAGACTTGATCTATGCCTCTTTTTTGGGTAGTCAGATCAATTTTGGAAGACG
TGTCTTCTCCACTATTCA
Found at i:2021316 original size:42 final size:41
Alignment explanation
Indices: 2021237--2021337 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 41
2021227 AGATCTTACG
* * * *
2021237 GATGGCCCGAAGGACTTATCATCTTGCTTGAAAGACTTAAA
1 GATGACCCGAAGGACTTAGCATCATGCTCGAAAGACTTAAA
* **
2021278 GATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACT
1 GATGACCCGAAGGACTT-AGCATCATGCTCGAAAGACTTAAA
2021320 GAATGA-CCGAAGGACTTA
1 G-ATGACCCGAAGGACTTA
2021338 AAAATTCTAG
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
41 16 0.32
42 30 0.60
43 4 0.08
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.24
Consensus pattern (41 bp):
GATGACCCGAAGGACTTAGCATCATGCTCGAAAGACTTAAA
Found at i:2021421 original size:250 final size:250
Alignment explanation
Indices: 2020973--2021452 Score: 757
Period size: 250 Copynumber: 1.9 Consensus size: 250
2020963 GGTGAATATG
* * * *
2020973 CCGAAGGTCTTACGGATGGTCGGAAGGACTTATCATCTTGCTTGAAAGACTAACTGATGACCCAA
1 CCGAAGATCTTACGGATGGCCCGAAGGACTTATCATCTTGCTTGAAAGACTAACAGATGACCCAA
* * * * *
2021038 AAGATTTAATCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTACAAATTTTGGAAATA
66 AAGATTTAAGCATCATGCTCAAAAGACTTACTGATGGACCGAAGGACTTAAAAATTCTAGAAATA
* * * *
2021103 ATTTACTGGGTAAGAAACTTTGGTAATCGCTTTCTTACTTTTCAAGAATTTCATTTTTTCAAAAC
131 ATTTAATGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAGAATTTCATTTTCTAAAAAC
**
2021168 ATTAAATGAGAAACTTTGGTAATCGCTTTCTCATTTTCATGTGAAAACATCCTAC
196 ATTAAATGAGAAACTTTGGTAATCAATTTCTCATTTTCATGTGAAAACATCCTAC
*
2021223 CCGAAGATCTTACGGATGGCCCGAAGGACTTATCATCTTGCTTGAAAGACTTAA-AGATGACCCG
1 CCGAAGATCTTACGGATGGCCCGAAGGACTTATCATCTTGCTTGAAAGAC-TAACAGATGACCCA
* *
2021287 AAGGATTTAAGCATCATGCTCGAAAGACTTACTGAAT-GACCGAAGGACTTAAAAATTCTAGAAA
65 AAAGATTTAAGCATCATGCTCAAAAGACTTACTG-ATGGACCGAAGGACTTAAAAATTCTAGAAA
2021351 TAATTTAATGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAGAATTTCATTTTCTAAAA
129 TAATTTAATGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAGAATTTCATTTTCTAAAA
*
2021416 ACATTAAATTAGAAACTTTGGTAATCAATTTCTCATT
194 ACATTAAATGAGAAACTTTGGTAATCAATTTCTCATT
2021453 ATTTTTAAAG
Statistics
Matches: 209, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
250 204 0.98
251 5 0.02
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (250 bp):
CCGAAGATCTTACGGATGGCCCGAAGGACTTATCATCTTGCTTGAAAGACTAACAGATGACCCAA
AAGATTTAAGCATCATGCTCAAAAGACTTACTGATGGACCGAAGGACTTAAAAATTCTAGAAATA
ATTTAATGGGTAAGAAACTTTGGAAATCGCTTTCTTACTTTTCAAGAATTTCATTTTCTAAAAAC
ATTAAATGAGAAACTTTGGTAATCAATTTCTCATTTTCATGTGAAAACATCCTAC
Found at i:2023955 original size:105 final size:105
Alignment explanation
Indices: 2023777--2024006 Score: 340
Period size: 105 Copynumber: 2.2 Consensus size: 105
2023767 TTATTGTGTG
* * *
2023777 TATATATATATATATATTATAATCATCTTTATCTGGCTAGCTGAATCTTATCCATAAAGCTAGGG
1 TATATATATATATATATTATAATCACCTTTACCAGGCTAGCTGAATCTTATCCATAAAGCTAGGG
2023842 CATGTAACCAATTACTCTATAGGGACAACTT-AAGCTTTAT
66 CATGTAACCAATTACTCTATAGGGA-AACTTCAAGCTTTAT
2023882 TATATATATATATATATTATAATCACCTTTACCAGGCTAGCTGAATCTTATCCATAAAGCT-GGG
1 TATATATATATATATATTATAATCACCTTTACCAGGCTAGCTGAATCTTATCCATAAAGCTAGGG
* * * *
2023946 TCATTTAACCAATTGCTCTATAGGGATAGTTCAAGCTTTAT
66 -CATGTAACCAATTACTCTATAGGGAAACTTCAAGCTTTAT
* *
2023987 TGTATACATATA-ATATTATA
1 TATATATATATATATATTATA
2024007 TTCTGGGTAT
Statistics
Matches: 114, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
104 14 0.12
105 100 0.88
ACGTcount: A:0.34, C:0.16, G:0.12, T:0.38
Consensus pattern (105 bp):
TATATATATATATATATTATAATCACCTTTACCAGGCTAGCTGAATCTTATCCATAAAGCTAGGG
CATGTAACCAATTACTCTATAGGGAAACTTCAAGCTTTAT
Found at i:2029452 original size:16 final size:15
Alignment explanation
Indices: 2029431--2029460 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
2029421 AATATTATTA
2029431 AAAATATTTAAAATTT
1 AAAATA-TTAAAATTT
2029447 AAAATATTAAAATT
1 AAAATATTAAAATT
2029461 CAGGGATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAATATTAAAATTT
Found at i:2030231 original size:25 final size:25
Alignment explanation
Indices: 2030203--2030250 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
2030193 TTGTGGACTT
*
2030203 TTTGGCTGCTAT-TTTTTTGTTGCTC
1 TTTGGCT-CTATCTTTTTTCTTGCTC
*
2030228 TTTGTCTCTATCTTTTTTCTTGC
1 TTTGGCTCTATCTTTTTTCTTGC
2030251 AGGTGATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.04, C:0.19, G:0.15, T:0.62
Consensus pattern (25 bp):
TTTGGCTCTATCTTTTTTCTTGCTC
Found at i:2030778 original size:3 final size:3
Alignment explanation
Indices: 2030770--2030811 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
2030760 TTATTTATTA
*
2030770 AAT AAT AAT AAT AAT AAT AAT ATT AACT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AA
2030812 AACATGACAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:2036169 original size:13 final size:13
Alignment explanation
Indices: 2036153--2036185 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
2036143 ATTACCTTTT
2036153 AAAATAATTTTAA
1 AAAATAATTTTAA
2036166 AAAATAATTTTAA
1 AAAATAATTTTAA
*
2036179 AAGATAA
1 AAAATAA
2036186 AAAATGATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (13 bp):
AAAATAATTTTAA
Found at i:2039553 original size:2 final size:2
Alignment explanation
Indices: 2039546--2039583 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
2039536 TCTTGCTTTC
2039546 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2039584 CATGCTTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2048575 original size:31 final size:31
Alignment explanation
Indices: 2048517--2048576 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
2048507 TGGTATACAA
* **
2048517 AGGAAGGAAGCAGAGCTAGCCGCATATTATG
1 AGGAAGGAAGCAAAGCTAGCCAAATATTATG
*
2048548 AGGAAGTAAGCAAAGCTAGCCAAATATTA
1 AGGAAGGAAGCAAAGCTAGCCAAATATTA
2048577 AGGGAAGCTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.17
Consensus pattern (31 bp):
AGGAAGGAAGCAAAGCTAGCCAAATATTATG
Found at i:2048716 original size:22 final size:22
Alignment explanation
Indices: 2048688--2048729 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
2048678 TAATCTTCAA
* *
2048688 ACTCTGGGAATGTTGTTTTGAT
1 ACTCTGGGAATATTATTTTGAT
2048710 ACTCTGGGAATATTATTTTG
1 ACTCTGGGAATATTATTTTG
2048730 GTGTGATATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.21, C:0.10, G:0.24, T:0.45
Consensus pattern (22 bp):
ACTCTGGGAATATTATTTTGAT
Done.