Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003106.1 Hibiscus syriacus cultivar Beakdansim tig00006489_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: 148070
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:3584 original size:13 final size:13
Alignment explanation
Indices: 3566--3593 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3556 AGTATTTTAT
3566 CCGAATAATTTCA
1 CCGAATAATTTCA
3579 CCGAATAATTTCA
1 CCGAATAATTTCA
3592 CC
1 CC
3594 CAACATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.29, G:0.07, T:0.29
Consensus pattern (13 bp):
CCGAATAATTTCA
Found at i:3735 original size:13 final size:13
Alignment explanation
Indices: 3696--3753 Score: 66
Period size: 13 Copynumber: 4.5 Consensus size: 13
3686 ATTTCTATAT
3696 AAAT-AATTAATC
1 AAATCAATTAATC
*
3708 AAATCAAATT-TTC
1 AAATC-AATTAATC
3721 AAATCAATTAATC
1 AAATCAATTAATC
* *
3734 AAATTAATTGATC
1 AAATCAATTAATC
3747 AAATCAA
1 AAATCAA
3754 CTACTGAATT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
12 8 0.21
13 26 0.68
14 4 0.11
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (13 bp):
AAATCAATTAATC
Found at i:3748 original size:26 final size:26
Alignment explanation
Indices: 3696--3753 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
3686 ATTTCTATAT
*
3696 AAAT-AATTAATCAAATCAAATTTTC
1 AAATCAATTAATCAAATCAAATTATC
*
3721 AAATCAATTAATCAAAT-TAATTGATC
1 AAATCAATTAATCAAATCAAATT-ATC
3747 AAATCAA
1 AAATCAA
3754 CTACTGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 8 0.28
26 21 0.72
ACGTcount: A:0.53, C:0.12, G:0.02, T:0.33
Consensus pattern (26 bp):
AAATCAATTAATCAAATCAAATTATC
Found at i:14748 original size:19 final size:20
Alignment explanation
Indices: 14714--14752 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
14704 AAATCAATTG
14714 ATATTTTAATTTTTTTAATA
1 ATATTTTAATTTTTTTAATA
14734 ATATTTTAA-TTTTTTAATA
1 ATATTTTAATTTTTTTAATA
14753 CAAATAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
ATATTTTAATTTTTTTAATA
Found at i:28886 original size:20 final size:20
Alignment explanation
Indices: 28861--28915 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
28851 GCGAAATAAA
28861 AATCGCAACGCGATAT-CCAG
1 AATCGCAACGCGAT-TCCCAG
**
28881 AATCGCAAATC-AGTTCCCAG
1 AATCGCAACGCGA-TTCCCAG
28901 AATCGCAACGCGATT
1 AATCGCAACGCGATT
28916 ATGAATAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
19 2 0.07
20 25 0.89
21 1 0.04
ACGTcount: A:0.35, C:0.29, G:0.18, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGATTCCCAG
Found at i:28989 original size:20 final size:20
Alignment explanation
Indices: 28964--29259 Score: 158
Period size: 20 Copynumber: 14.7 Consensus size: 20
28954 GATTTTCCAG
*
28964 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATACGAA
*
28984 AATCGCAACGC-AA-ACATATA
1 AATCGCAACGCGAATAC-GA-A
* *
29004 AATCGCAACGCGAACA-TATA
1 AATCGCAACGCGAATACGA-A
* *
29024 AATCGCAACGCG-ATTCTGAC
1 AATCGCAACGCGAATAC-GAA
* * * *
29044 TATCGCAACGAGTATCCGTAA
1 AATCGCAACGCGAATACG-AA
* * *
29065 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
*
29085 AATCGCAACGAC-AATATGTAA
1 AATCGCAACG-CGAATACG-AA
* * *
29106 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
* * *
29126 AATCACAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* * *
29146 AATCGCAATGCGTAT-CTGTA
1 AATCGCAACGCGAATAC-GAA
* *
29166 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATACGAA
* * * *
29186 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGAATACGAA
29206 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATACG-AA
* *
29227 AATCGCAACGCGTAT-CCATA
1 AATCGCAACGCGAATACGA-A
29247 AATCGCAACGCGA
1 AATCGCAACGCGA
29260 TTTTTAAAGC
Statistics
Matches: 216, Mismatches: 43, Indels: 34
0.74 0.15 0.12
Matches are distributed among these distances:
18 1 0.00
19 6 0.03
20 155 0.72
21 53 0.25
22 1 0.00
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAATACGAA
Found at i:29160 original size:40 final size:41
Alignment explanation
Indices: 29045--29256 Score: 320
Period size: 41 Copynumber: 5.2 Consensus size: 41
29035 GATTCTGACT
* *
29045 ATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
29086 ATCGCAACGACAATATGTAAAATCGCAACGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* * *
29127 ATCACAACGAGAATACGT-AAATCGCAATGCGTATCTGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
*
29167 ATCGCAACGAGAATACGT-AAATCGCAATGCGTATCCGTAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
* *
29207 ATCGCAACGACAATACGTAAAATCGCAACGCGTATCCATAA
1 ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
29248 ATCGCAACG
1 ATCGCAACG
29257 CGATTTTTAA
Statistics
Matches: 156, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 75 0.48
41 81 0.52
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.19
Consensus pattern (41 bp):
ATCGCAACGAGAATACGTAAAATCGCAACGCGTATCCGTAA
Found at i:29877 original size:21 final size:21
Alignment explanation
Indices: 29816--29893 Score: 92
Period size: 20 Copynumber: 3.9 Consensus size: 21
29806 TTCTAAACTT
*
29816 AAAATCGCAAC-ATGAAAATG
1 AAAATCGCAACGACGAAAATG
29836 AAAATCGCAAC-ACGAAAATG
1 AAAATCGCAACGACGAAAATG
**
29856 ACTATCGCAACGA-GAGAAATG
1 AAAATCGCAACGACGA-AAATG
29877 AAAATCGCAACG-CGAAA
1 AAAATCGCAACGACGAAA
29894 CCAAAATCGC
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
20 32 0.64
21 18 0.36
ACGTcount: A:0.51, C:0.19, G:0.18, T:0.12
Consensus pattern (21 bp):
AAAATCGCAACGACGAAAATG
Found at i:29903 original size:40 final size:40
Alignment explanation
Indices: 29816--29904 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
29806 TTCTAAACTT
**
29816 AAAATCGCAACATGAAAATGAAAATCGCAACACGAAAATG
1 AAAATCGCAACATGAAAATGAAAATCGCAACACGAAAACC
** *
29856 ACTATCGCAACGA-GAGAAATGAAAATCGCAACGCG-AAACC
1 AAAATCGCAAC-ATGA-AAATGAAAATCGCAACACGAAAACC
29896 AAAATCGCA
1 AAAATCGCA
29905 TTGCGATTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
40 21 0.52
41 19 0.47
ACGTcount: A:0.51, C:0.21, G:0.17, T:0.11
Consensus pattern (40 bp):
AAAATCGCAACATGAAAATGAAAATCGCAACACGAAAACC
Found at i:29922 original size:19 final size:19
Alignment explanation
Indices: 29900--29978 Score: 113
Period size: 19 Copynumber: 4.1 Consensus size: 19
29890 GAAACCAAAA
*
29900 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
29919 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
29938 TCGCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
29957 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
29977 TC
1 TC
29979 AACCAAAAGA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
19 37 0.70
20 16 0.30
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:29972 original size:39 final size:38
Alignment explanation
Indices: 29900--29978 Score: 113
Period size: 39 Copynumber: 2.1 Consensus size: 38
29890 GAAACCAAAA
**
29900 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCATTGCGATAGTCATTTCGCGTTGCGATTTTCATT
* *
29938 TCGCGTTGCGATAGTCATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATAGTCATT-TCGCGTTGCGATTTTCATT
29977 TC
1 TC
29979 AACCAAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
38 16 0.44
39 20 0.56
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.46
Consensus pattern (38 bp):
TCGCATTGCGATAGTCATTTCGCGTTGCGATTTTCATT
Found at i:31829 original size:94 final size:93
Alignment explanation
Indices: 31668--32047 Score: 589
Period size: 94 Copynumber: 4.1 Consensus size: 93
31658 TAGATTGCTT
* * * * *
31668 AGTAAATTTATTCGGTTACTGCCAATACTGCTAATCTGTTTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
31733 ATTTTTCTTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
* * *
31762 AGTAAATTTATTCGGTTGCTGTCAATTCTACTAAACTGTATATTCTTTAACAATGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
31827 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
*
31856 AGTAAATTTGTTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
31921 ATTTGTCTTTGTTTTGTCTTTTGGTTAAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTT-GA
* * * * *
31950 AGTAAATTTGTTTGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
32015 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
32043 AGTAA
1 AGTAA
32048 TGCAATCCAT
Statistics
Matches: 266, Mismatches: 18, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
93 26 0.10
94 240 0.90
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTACTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:32173 original size:14 final size:14
Alignment explanation
Indices: 32154--32207 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
32144 CGAAATGAAA
32154 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
32168 CGCAACGAGAAATGAAAAT
1 CGCAACGAG--A-G--AAT
32187 CGCAACGAGAGAAT
1 CGCAACGAGAGAAT
32201 CGCAACG
1 CGCAACG
32208 CGAAATGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 19 0.54
16 2 0.06
17 2 0.06
19 12 0.34
ACGTcount: A:0.44, C:0.22, G:0.26, T:0.07
Consensus pattern (14 bp):
CGCAACGAGAGAAT
Found at i:32187 original size:19 final size:19
Alignment explanation
Indices: 32111--32224 Score: 81
Period size: 19 Copynumber: 6.5 Consensus size: 19
32101 CACGAAACTT
*
32111 AAAATCGCAACGTGAAAAATG
1 AAAATCGCAAC--GAGAAATG
** *
32132 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGAGAAATG
32151 -AAA-CGCAACGAG--A-G
1 AAAATCGCAACGAGAAATG
32165 --AATCGCAACGAGAAATG
1 AAAATCGCAACGAGAAATG
32182 AAAATCGCAACGAG--A-G
1 AAAATCGCAACGAGAAATG
*
32198 --AATCGCAACGCGAAATG
1 AAAATCGCAACGAGAAATG
32215 AAAATCGCAA
1 AAAATCGCAA
32225 TGACAAAATC
Statistics
Matches: 74, Mismatches: 8, Indels: 24
0.70 0.08 0.23
Matches are distributed among these distances:
13 2 0.03
14 21 0.28
15 1 0.01
16 3 0.04
17 11 0.15
18 1 0.01
19 26 0.35
21 9 0.12
ACGTcount: A:0.47, C:0.20, G:0.22, T:0.11
Consensus pattern (19 bp):
AAAATCGCAACGAGAAATG
Found at i:32196 original size:33 final size:33
Alignment explanation
Indices: 32135--32245 Score: 172
Period size: 33 Copynumber: 3.4 Consensus size: 33
32125 AAAAATGACT
32135 ATCGCAACGCGAAATG-AAA-CGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
*
32166 ATCGCAACGAGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
* * *
32199 ATCGCAACGCGAAATGAAAATCGCAATGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
32232 ATCGCAACGCGAAA
1 ATCGCAACGCGAAA
32246 CTATAATCAC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
31 15 0.21
32 3 0.04
33 55 0.75
ACGTcount: A:0.47, C:0.22, G:0.23, T:0.09
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGAGAGA
Found at i:32321 original size:19 final size:17
Alignment explanation
Indices: 32255--32313 Score: 70
Period size: 17 Copynumber: 3.5 Consensus size: 17
32245 ACTATAATCA
32255 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTCATTTCG
*
32274 CGTTGCGATTC---TCT
1 CGTTGCGATTCATTTCG
32288 CGTTGCGATTCATTTCG
1 CGTTGCGATTCATTTCG
32305 CGTTGCGAT
1 CGTTGCGAT
32314 AGTCATTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
14 13 0.37
17 14 0.40
19 8 0.23
ACGTcount: A:0.10, C:0.24, G:0.24, T:0.42
Consensus pattern (17 bp):
CGTTGCGATTCATTTCG
Found at i:34227 original size:14 final size:14
Alignment explanation
Indices: 34208--34243 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
34198 ATTGTTTAAT
34208 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
34222 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
34236 TGATTTGT
1 TGATTTGT
34244 TTAATTGATG
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:34372 original size:19 final size:19
Alignment explanation
Indices: 34350--34408 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
34340 AAAAATGACT
34350 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
34369 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
34383 ATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
34402 ATCGCAA
1 ATCGCAA
34409 CGACAAAATC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 9 0.29
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 16 0.52
ACGTcount: A:0.47, C:0.19, G:0.20, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:34396 original size:33 final size:33
Alignment explanation
Indices: 34354--34429 Score: 116
Period size: 33 Copynumber: 2.3 Consensus size: 33
34344 ATGACTATCG
* *
34354 CAATGCGAAATGAAAATCGCAACGAGAGAATCA
1 CAATGCGAAATGAAAATCGCAACGACAAAATCA
*
34387 CAATGCGAAATGAAAATCGCAACGACAAAATCG
1 CAATGCGAAATGAAAATCGCAACGACAAAATCA
*
34420 CAACGCGAAA
1 CAATGCGAAA
34430 CTAAATTCGC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.49, C:0.21, G:0.20, T:0.11
Consensus pattern (33 bp):
CAATGCGAAATGAAAATCGCAACGACAAAATCA
Found at i:34551 original size:20 final size:19
Alignment explanation
Indices: 34472--34577 Score: 96
Period size: 20 Copynumber: 5.7 Consensus size: 19
34462 ACAATTCCCT
*
34472 CGTTGCGATTTTCATTTCG
1 CGTTGCGATATTCATTTCG
* *
34491 CATTGCG--ATTC---TCT
1 CGTTGCGATATTCATTTCG
*
34505 CGTTGCGATTTTCATTTCG
1 CGTTGCGATATTCATTTCG
* *
34524 CATTGCGATAGTCATTTCCG
1 CGTTGCGATATTCATTT-CG
34544 CGTTGCGATATTCATATTCG
1 CGTTGCGATATTCAT-TTCG
*
34564 CGTTGCGATTTTCA
1 CGTTGCGATATTCA
34578 CATTGCGATT
Statistics
Matches: 68, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
14 8 0.12
16 3 0.04
17 3 0.04
19 22 0.32
20 30 0.44
21 2 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (19 bp):
CGTTGCGATATTCATTTCG
Found at i:34628 original size:33 final size:33
Alignment explanation
Indices: 34439--34619 Score: 209
Period size: 33 Copynumber: 5.3 Consensus size: 33
34429 ACTAAATTCG
* * * *
34439 CGTTGCGATTTTCATTTCGCTTTACAATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
34472 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
34505 CGTTGCGATTTTCATTTCGCATTGCGATAGTCATTTCCG
1 CGTTGCGATTTTCATTTCGCATTGCGAT--TC---T-CT
* * * *
34544 CGTTGCGATATTCATATTCGCGTTGCGATTTTCA
1 CGTTGCGATTTTCAT-TTCGCATTGCGATTCTCT
*
34578 CATTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
34611 CGTTGCGAT
1 CGTTGCGAT
34620 AGTAATTTCC
Statistics
Matches: 126, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
33 80 0.63
34 14 0.11
35 3 0.02
38 2 0.02
39 15 0.12
40 12 0.10
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:37181 original size:24 final size:24
Alignment explanation
Indices: 37147--37200 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
37137 CTGAAAAATC
37147 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
37171 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
37195 ATCAAA
1 ATCAAA
37201 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:37214 original size:24 final size:24
Alignment explanation
Indices: 37147--37214 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
37137 CTGAAAAATC
* * *
37147 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
37171 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
37195 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
37215 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:37862 original size:20 final size:20
Alignment explanation
Indices: 37839--38086 Score: 245
Period size: 20 Copynumber: 12.4 Consensus size: 20
37829 CAGAATCTCG
**
37839 TTGCGATTTACAAATTCGCA
1 TTGCGATTTACGTATTCGCA
*
37859 TTGCAATTTACGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
37879 TTGCGATTTAGGTATTCGCA
1 TTGCGATTTACGTATTCGCA
*
37899 TTGCGATTTAGGTATTCGCA
1 TTGCGATTTACGTATTCGCA
37919 TTGCGATTTACGTATTCG--
1 TTGCGATTTACGTATTCGCA
* *
37937 TTGCGATTTACGGATACGCA
1 TTGCGATTTACGTATTCGCA
* *
37957 TTGCGATTTACGTATTCTCG
1 TTGCGATTTACGTATTCGCA
* *
37977 TTGAGATTTACAG-ATAT-GCG
1 TTGCGATTTAC-GTAT-TCGCA
* *
37997 TTGCGATTTACGTATTCTCG
1 TTGCGATTTACGTATTCGCA
* * *
38017 TTGCGATTTACGGATACGCG
1 TTGCGATTTACGTATTCGCA
*
38037 TTGCGATTTTACGTATT-GTCG
1 TTGCGA-TTTACGTATTCG-CA
* * *
38058 TTGCGATTTACGGATACGCG
1 TTGCGATTTACGTATTCGCA
38078 TTGCGATTT
1 TTGCGATTT
38087 TACGGATACT
Statistics
Matches: 196, Mismatches: 23, Indels: 18
0.83 0.10 0.08
Matches are distributed among these distances:
18 16 0.08
19 2 0.01
20 159 0.81
21 19 0.10
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.39
Consensus pattern (20 bp):
TTGCGATTTACGTATTCGCA
Found at i:37885 original size:60 final size:58
Alignment explanation
Indices: 37818--37967 Score: 137
Period size: 60 Copynumber: 2.5 Consensus size: 58
37808 GAAATTCAGT
37818 ATTGCGATAGTCA-GAATCTCG-TTGCGATTTACAAATTCGCATTGCAATTTACGTATTCG
1 ATTGCGAT--TCAGGAAT-TCGATTGCGATTTACAAATTCGCATTGCAATTTACGTATTCG
* * *** *
37877 CATTGCGATTTAGGTATTCGCATTGCGATTTAGGTATTCGCATTGCGATTTACGTATTCG
1 -ATTGCGATTCAGGAATTCG-ATTGCGATTTACAAATTCGCATTGCAATTTACGTATTCG
* *
37937 -TTGCGATTTACGG-ATACGCATTGCGATTTAC
1 ATTGCGATTCA-GGAATTCG-ATTGCGATTTAC
37968 GTATTCTCGT
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
58 31 0.40
59 5 0.06
60 42 0.54
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (58 bp):
ATTGCGATTCAGGAATTCGATTGCGATTTACAAATTCGCATTGCAATTTACGTATTCG
Found at i:37957 original size:98 final size:98
Alignment explanation
Indices: 37836--38028 Score: 246
Period size: 98 Copynumber: 2.0 Consensus size: 98
37826 AGTCAGAATC
* * *
37836 TCGTTGCGATTTACAAATTCGCATTGCAATTTACGTATTCGCATTGCGATTT--AGGTATTCGCA
1 TCGTTGCGATTTACAAATACGCATTGCAATTTACGTATTCGCATTGAGATTTACAGATA-T-GCA
*
37899 TTGCGATTTAGGTATTCGCATTGCGATTTACGTAT
64 TTGCGATTTACGTATTCGCATTGCGATTTACGTAT
** * * * *
37934 TCGTTGCGATTTACGGATACGCATTGCGATTTACGTATTCTCGTTGAGATTTACAGATATGCGTT
1 TCGTTGCGATTTACAAATACGCATTGCAATTTACGTATTCGCATTGAGATTTACAGATATGCATT
* *
37999 GCGATTTACGTATTCTCGTTGCGATTTACG
66 GCGATTTACGTATTCGCATTGCGATTTACG
38029 GATACGCGTT
Statistics
Matches: 81, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
98 76 0.94
99 1 0.01
100 4 0.05
ACGTcount: A:0.21, C:0.18, G:0.22, T:0.39
Consensus pattern (98 bp):
TCGTTGCGATTTACAAATACGCATTGCAATTTACGTATTCGCATTGAGATTTACAGATATGCATT
GCGATTTACGTATTCGCATTGCGATTTACGTAT
Found at i:38060 original size:41 final size:40
Alignment explanation
Indices: 37839--38105 Score: 306
Period size: 40 Copynumber: 6.7 Consensus size: 40
37829 CAGAATCTCG
** * * * * *
37839 TTGCGATTTACAAATTCGCATTGCAATTTACGTATTCGCA
1 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCA
* * * *
37879 TTGCGATTTAGGTATTCGCATTGCGATTTA-GGTATTCGCA
1 TTGCGATTTACGTATTCTCGTTGCGATTTACGG-ATACGCA
37919 TTGCGATTTACGTA-T-TCGTTGCGATTTACGGATACGCA
1 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCA
* * * *
37957 TTGCGATTTACGTATTCTCGTTGAGATTTACAGATATGCG
1 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCA
*
37997 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCG
1 TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCA
* *
38037 TTGCGATTTTACGTATTGTCGTTGCGATTTACGGATACGCG
1 TTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATACGCA
* *
38078 TTGCGATTTTACGGATACTCGTTGCGAT
1 TTGCGA-TTTACGTATTCTCGTTGCGAT
38106 AGTCAGAATC
Statistics
Matches: 202, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
38 31 0.15
39 5 0.02
40 108 0.53
41 58 0.29
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.39
Consensus pattern (40 bp):
TTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCA
Found at i:38137 original size:20 final size:20
Alignment explanation
Indices: 38114--38166 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
38104 ATAGTCAGAA
*
38114 TCGCGTTGCGATTTAT-ATGT
1 TCGCGTTGCGATTT-TCATAT
*
38134 TCGCGTTTCGATTTTCATAT
1 TCGCGTTGCGATTTTCATAT
*
38154 TCGCGTTGTGATT
1 TCGCGTTGCGATT
38167 CTGGAAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.13, C:0.17, G:0.23, T:0.47
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCATAT
Found at i:38139 original size:61 final size:60
Alignment explanation
Indices: 37994--38148 Score: 143
Period size: 61 Copynumber: 2.5 Consensus size: 60
37984 TTACAGATAT
* * * * * * *
37994 GCGTTGCGATTTACGTATTCTCGTTGCGA-TTTACGGATACGCGTTGCGATTTTACGTATT
1 GCGTTGCGATTTA-ATGTTCGCGTTGCGATTTTACGGATACGCGTTGCGATGTCACGAATC
** * *
38054 GTCGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACTCGTTGCGATAGTCA-GAATC
1 G-CGTTGCGATTTAATG-TTCGCGTTGCGATTTTACGGATACGCGTTGCGAT-GTCACGAATC
*
38116 GCGTTGCGATTTATATGTTCGCGTTTCGATTTT
1 GCGTTGCGATTTA-ATGTTCGCGTTGCGATTTT
38149 CATATTCGCG
Statistics
Matches: 76, Mismatches: 14, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
60 1 0.01
61 48 0.63
62 25 0.33
63 2 0.03
ACGTcount: A:0.17, C:0.18, G:0.26, T:0.39
Consensus pattern (60 bp):
GCGTTGCGATTTAATGTTCGCGTTGCGATTTTACGGATACGCGTTGCGATGTCACGAATC
Found at i:38265 original size:20 final size:19
Alignment explanation
Indices: 38216--38269 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
38206 ATTATTCATA
38216 ATCGCGTTGCGATTCTGAG
1 ATCGCGTTGCGATTCTGAG
* **
38235 AACTGATTTGCGATTCTGGAG
1 ATC-GCGTTGCGATTCT-GAG
38256 ATCGCGTTGCGATT
1 ATCGCGTTGCGATT
38270 TTGTTGGTCA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 2 0.07
20 20 0.74
21 5 0.19
ACGTcount: A:0.19, C:0.19, G:0.30, T:0.33
Consensus pattern (19 bp):
ATCGCGTTGCGATTCTGAG
Found at i:40229 original size:20 final size:20
Alignment explanation
Indices: 40206--40247 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
40196 CAACGCGAAC
*
40206 TCCAATTTCGCAACACAGTT
1 TCCAAATTCGCAACACAGTT
*
40226 TCCAAATTCGCAACTCAGTT
1 TCCAAATTCGCAACACAGTT
40246 TC
1 TC
40248 TGCGCGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.31
Consensus pattern (20 bp):
TCCAAATTCGCAACACAGTT
Found at i:40399 original size:20 final size:20
Alignment explanation
Indices: 40337--40405 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
40327 ATTTTCTAAA
**
40337 TCGCAACACGAATTTTGTTT
1 TCGCAACACGAATTTTAATT
* * *
40357 TCACAACTCGATTTTCTAA-T
1 TCGCAACACGAATTT-TAATT
40377 TCGCAACACGAATTTTAATT
1 TCGCAACACGAATTTTAATT
40397 TCGCAACAC
1 TCGCAACAC
40406 AAATGTTTTG
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 3 0.08
20 35 0.90
21 1 0.03
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (20 bp):
TCGCAACACGAATTTTAATT
Found at i:41356 original size:24 final size:24
Alignment explanation
Indices: 41329--41382 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
41319 GTATTCAAAA
41329 TTTGATATTAGTCAATACCCGGAC
1 TTTGATATTAGTCAATACCCGGAC
* * * *
41353 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATATTAGTCAATACCCGGAC
41377 TTTGAT
1 TTTGAT
41383 GATATTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATATTAGTCAATACCCGGAC
Found at i:42651 original size:65 final size:65
Alignment explanation
Indices: 42491--42651 Score: 204
Period size: 64 Copynumber: 2.5 Consensus size: 65
42481 TTATTTAAGG
* * * **
42491 TGCATCGATGCACATGCAGTGCATCGATGCAT--GAATTTAAATAGAAAACATCGAATAGGATTT
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA-TTAAATAGAAAACATCGAATAGGATTT
42554 A
65 A
*
42555 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-CAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
*
42619 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
42652 ACCTTCATTA
Statistics
Matches: 86, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
63 1 0.01
64 62 0.72
65 22 0.26
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.27
Consensus pattern (65 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
Found at i:43166 original size:18 final size:18
Alignment explanation
Indices: 43143--43177 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
43133 CTAGGAGATT
43143 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
43161 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
43178 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:43311 original size:2 final size:2
Alignment explanation
Indices: 43304--43337 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
43294 CAGATTAGAT
43304 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43338 AAGAAATAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43536 original size:2 final size:2
Alignment explanation
Indices: 43529--43578 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
43519 GAACATGTGA
43529 AT AT 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 AT AT
43571 AT AT AT AT
1 AT AT AT AT
43579 CTAAGAGAAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44436 original size:149 final size:149
Alignment explanation
Indices: 44123--44437 Score: 535
Period size: 149 Copynumber: 2.1 Consensus size: 149
44113 GAGTCGAGGG
* **
44123 TCTACGCGGTCCTTCGGGATATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACACAT
44188 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
66 ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
44253 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
* *
44272 TCTACACGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
44337 ACT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATT
66 A-TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
*
44401 ATATGGTACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
44421 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
44438 TGCAATTATA
Statistics
Matches: 156, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
148 1 0.01
149 154 0.99
150 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACACAT
ATATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:47741 original size:65 final size:65
Alignment explanation
Indices: 47581--47741 Score: 195
Period size: 64 Copynumber: 2.5 Consensus size: 65
47571 TTGTTTAAGG
* * * **
47581 TGCATCGATGCACATGCAGTGCATCGATGCAT--GAATTTAAATAGAAAACATCGAATAGGATTT
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA-TTAAATAGAAAACATCGAATAGGATTT
47644 A
65 A
*
47645 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-CAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
* *
47709 TGTATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
47742 ACCTTCATTA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
63 1 0.01
64 61 0.72
65 22 0.26
66 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (65 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
Found at i:48256 original size:18 final size:18
Alignment explanation
Indices: 48233--48269 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
48223 CTAGGAGATT
48233 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
48251 TGAACATATAAGATAAGA
1 TGAACATATAAGATAAGA
48269 T
1 T
48270 AGATGGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.89
19 2 0.11
ACGTcount: A:0.54, C:0.05, G:0.16, T:0.24
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:49334 original size:149 final size:149
Alignment explanation
Indices: 49161--49475 Score: 553
Period size: 149 Copynumber: 2.1 Consensus size: 149
49151 GAGTCGAGGG
* **
49161 TCTACGCGGTCCTTCGGGATATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACACAT
49226 A-TATGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
66 ACT-TGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATT
49290 ATATGGCACTACGGTGCAAT
130 ATATGGCACTACGGTGCAAT
*
49310 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
49375 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
49440 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
49459 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
49476 TGCAATTATA
Statistics
Matches: 159, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
148 1 0.01
149 157 0.99
150 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:49476 original size:23 final size:23
Alignment explanation
Indices: 49443--49487 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
49433 ATTATTATAT
*
49443 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
49466 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
49488 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:52351 original size:20 final size:20
Alignment explanation
Indices: 52326--52371 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
52316 TTGCGATTGT
* *
52326 TGCGAAAGTCAAATTCGAAA
1 TGCGAAAGTAAAAATCGAAA
52346 TGCGAAAGTAAAAATCGAAA
1 TGCGAAAGTAAAAATCGAAA
*
52366 TACGAA
1 TGCGAA
52372 TTTGACTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.13, G:0.20, T:0.17
Consensus pattern (20 bp):
TGCGAAAGTAAAAATCGAAA
Found at i:53970 original size:21 final size:21
Alignment explanation
Indices: 53868--53985 Score: 110
Period size: 21 Copynumber: 5.6 Consensus size: 21
53858 GTGAATCGGG
* *
53868 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAATGATGGGAGGGGC
* * **
53889 CTTTTGAACGATGGGAGGTAC
1 CTCTTGAATGATGGGAGGGGC
* * *
53910 CTCTTAAATGATGGGAGAGAC
1 CTCTTGAATGATGGGAGGGGC
* *
53931 CTCTTGAACGATGAGAGGGGC
1 CTCTTGAATGATGGGAGGGGC
* *
53952 CTCTTGAATGATAGGAGGGGA
1 CTCTTGAATGATGGGAGGGGC
*
53973 CTATTGAATGATG
1 CTCTTGAATGATG
53986 ACAGGTGAAT
Statistics
Matches: 77, Mismatches: 20, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 77 1.00
ACGTcount: A:0.25, C:0.14, G:0.36, T:0.25
Consensus pattern (21 bp):
CTCTTGAATGATGGGAGGGGC
Found at i:54351 original size:21 final size:21
Alignment explanation
Indices: 54327--54375 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
54317 GAGCACCATT
* *
54327 CTCATCGCGTAAAAGATC-TAC
1 CTCATCACGT-AAAGACCGTAC
*
54348 CTCACCACGTAAAGACCGTAC
1 CTCATCACGTAAAGACCGTAC
54369 CTCATCA
1 CTCATCA
54376 TGCCATGCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.33, C:0.35, G:0.12, T:0.20
Consensus pattern (21 bp):
CTCATCACGTAAAGACCGTAC
Found at i:54373 original size:42 final size:43
Alignment explanation
Indices: 54282--54375 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 43
54272 GTAGAGCGGC
* *
54282 TACCTCATCACGTAAAATAGATACCTCACCACGTAGAGCACCA
1 TACCTCATCACGTAAAAGAGATACCTCACCACGTAAAGCACCA
* * ** *
54325 T-TCTCATCGCGTAAAAGATCTACCTCACCACGTAAAG-ACCG
1 TACCTCATCACGTAAAAGAGATACCTCACCACGTAAAGCACCA
54366 TACCTCATCA
1 TACCTCATCA
54376 TGCCATGCAC
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
41 4 0.10
42 36 0.88
43 1 0.02
ACGTcount: A:0.34, C:0.33, G:0.12, T:0.21
Consensus pattern (43 bp):
TACCTCATCACGTAAAAGAGATACCTCACCACGTAAAGCACCA
Found at i:54386 original size:63 final size:63
Alignment explanation
Indices: 54319--54438 Score: 147
Period size: 63 Copynumber: 1.9 Consensus size: 63
54309 ACCACGTAGA
*
54319 GCACCATTCTCATCGCGTAAAAG-ATCT-ACCTCACCACGTAAAG-ACCGTACCTCATCATGCCA
1 GCACCATTCTCATCACGT-AAAGTA-CTGACCTCACCACGTAAAGCACCG-ACCTCATCATGCCA
54381 T
63 T
* * * *
54382 GCACCATTGTCGTCACGTAAAGTACTGACCTCATCACGTAAAGCACTGACCTCATCA
1 GCACCATTCTCATCACGTAAAGTACTGACCTCACCACGTAAAGCACCGACCTCATCA
54439 CGTAACTCCC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
62 6 0.12
63 40 0.82
64 3 0.06
ACGTcount: A:0.30, C:0.33, G:0.14, T:0.23
Consensus pattern (63 bp):
GCACCATTCTCATCACGTAAAGTACTGACCTCACCACGTAAAGCACCGACCTCATCATGCCAT
Found at i:54420 original size:21 final size:21
Alignment explanation
Indices: 54394--54443 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
54384 ACCATTGTCG
*
54394 TCACGTAAAGTACTGACCTCA
1 TCACGTAAAGCACTGACCTCA
54415 TCACGTAAAGCACTGACCTCA
1 TCACGTAAAGCACTGACCTCA
54436 TCACGTAA
1 TCACGTAA
54444 CTCCCCTAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.22
Consensus pattern (21 bp):
TCACGTAAAGCACTGACCTCA
Found at i:54621 original size:42 final size:42
Alignment explanation
Indices: 54548--54644 Score: 140
Period size: 42 Copynumber: 2.3 Consensus size: 42
54538 GCTCGATGAT
* * * *
54548 GTGATGGATCTCAGTGTGGAGGTGTATAATCGGCCCGATCAG
1 GTGATGGCTCTCAGTGTCGAGCTGTAGAATCGGCCCGATCAG
* *
54590 GTGATGGCTCTCAGTTTCGAGCTGTAGAATCGGCTCGATCAG
1 GTGATGGCTCTCAGTGTCGAGCTGTAGAATCGGCCCGATCAG
54632 GTGATGGCTCTCA
1 GTGATGGCTCTCA
54645 AAGTGGGGGG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.20, C:0.20, G:0.33, T:0.28
Consensus pattern (42 bp):
GTGATGGCTCTCAGTGTCGAGCTGTAGAATCGGCCCGATCAG
Found at i:56583 original size:22 final size:22
Alignment explanation
Indices: 56553--56664 Score: 152
Period size: 22 Copynumber: 5.1 Consensus size: 22
56543 GGGGGGTCAT
* *
56553 CGGATATGGGGACGGATGTCGT
1 CGGAGATGGGGACGGATGTCGC
**
56575 CGGAGATGGGGATAGATGTCGC
1 CGGAGATGGGGACGGATGTCGC
*
56597 TGGAGATGGGGACGGATGTCGC
1 CGGAGATGGGGACGGATGTCGC
* *
56619 CGGAGATTGGGACGGATGTTGC
1 CGGAGATGGGGACGGATGTCGC
*
56641 CGGAGATGGGCACGGATGTCGC
1 CGGAGATGGGGACGGATGTCGC
56663 CG
1 CG
56665 TACAGAGTGA
Statistics
Matches: 77, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 77 1.00
ACGTcount: A:0.19, C:0.16, G:0.46, T:0.19
Consensus pattern (22 bp):
CGGAGATGGGGACGGATGTCGC
Found at i:57562 original size:20 final size:20
Alignment explanation
Indices: 57539--57618 Score: 126
Period size: 20 Copynumber: 4.0 Consensus size: 20
57529 ACTATCACAT
* *
57539 TGCGATTACGTAAATTGCAA
1 TGCGAATACGTAAATCGCAA
57559 TGCGAATACGTAAATCGCAA
1 TGCGAATACGTAAATCGCAA
57579 TGCGAATACGTAAATCGCAA
1 TGCGAATACGTAAATCGCAA
57599 TGCGAAT-CTGTAAATCGCAA
1 TGCGAATAC-GTAAATCGCAA
57619 CGAGATTCTG
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
19 1 0.02
20 56 0.98
ACGTcount: A:0.38, C:0.19, G:0.20, T:0.24
Consensus pattern (20 bp):
TGCGAATACGTAAATCGCAA
Found at i:57628 original size:20 final size:20
Alignment explanation
Indices: 57568--57628 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
57558 ATGCGAATAC
* *
57568 GTAAATCGCAATGCGAATAC-
1 GTAAATCGCAACGAGAAT-CT
* *
57588 GTAAATCGCAATGCGAATCT
1 GTAAATCGCAACGAGAATCT
*
57608 GTAAATCGCAACGAGATTCT
1 GTAAATCGCAACGAGAATCT
57628 G
1 G
57629 ACTATCGCAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
19 1 0.03
20 36 0.97
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (20 bp):
GTAAATCGCAACGAGAATCT
Found at i:58531 original size:24 final size:24
Alignment explanation
Indices: 58480--58533 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
58470 GTATTCGAAA
*
58480 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
58504 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACCCAGAC
58528 TTTGAT
1 TTTGAT
58534 GATTTTTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:61002 original size:20 final size:20
Alignment explanation
Indices: 60965--61053 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
60955 CAACGCGGAA
60965 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
* *
60985 ATCGTAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
* *
61005 ATCGCAATGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
61025 ATCGCAACGCGGAAATGACT
1 ATCGCAACGCGGAAATGACT
61045 ATCGCAACG
1 ATCGCAACG
61054 AGAGAATCGC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
20 57 0.95
21 3 0.05
ACGTcount: A:0.35, C:0.24, G:0.22, T:0.19
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:61086 original size:19 final size:19
Alignment explanation
Indices: 61058--61145 Score: 96
Period size: 19 Copynumber: 4.8 Consensus size: 19
61048 GCAACGAGAG
61058 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
* *
61077 AATTGCAATGCGAAATAAA
1 AATCGCAATGCGAAATGAA
*
61096 AATCGCAA--CG-AGTG--
1 AATCGCAATGCGAAATGAA
61110 AATCGCAATGCGAAAATGAA
1 AATCGCAATGCG-AAATGAA
*
61130 AATCGCAACGCGAAAT
1 AATCGCAATGCGAAAT
61146 TAGTTTTGCG
Statistics
Matches: 56, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
14 8 0.14
16 4 0.07
17 2 0.04
18 3 0.05
19 28 0.50
20 11 0.20
ACGTcount: A:0.47, C:0.17, G:0.20, T:0.16
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:61102 original size:52 final size:53
Alignment explanation
Indices: 61005--61145 Score: 176
Period size: 53 Copynumber: 2.7 Consensus size: 53
60995 GGAAATGACT
* * ** * **
61005 ATCGCAATGCGGAATTGACTATCGCAACGCGGAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGC-GAAATAAAAATCGCAACGAGAGA
* * *
61059 ATCGCAATGCG-AAATGAAAATTGCAATGCGAAATAAAAATCGCAACGAGTGA
1 ATCGCAATGCGAAAATGAAAATCGCAACGCGAAATAAAAATCGCAACGAGAGA
61111 ATCGCAATGCGAAAATGAAAATCGCAACGCGAAAT
1 ATCGCAATGCGAAAATGAAAATCGCAACGCGAAAT
61146 TAGTTTTGCG
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
52 30 0.40
53 34 0.45
54 11 0.15
ACGTcount: A:0.42, C:0.19, G:0.23, T:0.16
Consensus pattern (53 bp):
ATCGCAATGCGAAAATGAAAATCGCAACGCGAAATAAAAATCGCAACGAGAGA
Found at i:61181 original size:20 final size:19
Alignment explanation
Indices: 61156--61235 Score: 71
Period size: 20 Copynumber: 4.4 Consensus size: 19
61146 TAGTTTTGCG
61156 TTGCGATTTTCATTTTCGCA
1 TTGCGATTTTCA-TTTCGCA
*
61176 TTGCGA--TTCA-CTCG--
1 TTGCGATTTTCATTTCGCA
61190 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
** *
61209 TTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTT-CGCA
61229 TTGCGAT
1 TTGCGAT
61236 AGTCTGTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
14 6 0.12
16 7 0.14
17 3 0.06
18 4 0.08
19 13 0.27
20 16 0.33
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.42
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:61236 original size:20 final size:19
Alignment explanation
Indices: 61188--61239 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
61178 GCGATTCACT
**
61188 CGTTGCGATTTTCATTTCG
1 CGTTGCGATAGTCATTTCG
*
61207 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTT-CG
61227 CGTTGCGATAGTC
1 CGTTGCGATAGTC
61240 TGTTTTGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (19 bp):
CGTTGCGATAGTCATTTCG
Found at i:61356 original size:14 final size:14
Alignment explanation
Indices: 61337--61373 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
61327 CATTAATTAA
61337 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
61351 ACAAATCATCTTTT
1 ACAAATCAACATTT
61365 ACAAATCAA
1 ACAAATCAA
61374 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:62782 original size:21 final size:22
Alignment explanation
Indices: 62758--62809 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
62748 TAACAGTGGC
62758 CTCTTGAACGG-TGAGAGGGGA
1 CTCTTGAACGGATGAGAGGGGA
* * *
62779 CTCTTG-AGGGATGATAGGGGC
1 CTCTTGAACGGATGAGAGGGGA
62800 CTCTTGAACG
1 CTCTTGAACG
62810 ATAGGGGAGG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 3 0.12
21 20 0.80
22 2 0.08
ACGTcount: A:0.21, C:0.17, G:0.38, T:0.23
Consensus pattern (22 bp):
CTCTTGAACGGATGAGAGGGGA
Found at i:63395 original size:20 final size:20
Alignment explanation
Indices: 63369--63548 Score: 194
Period size: 20 Copynumber: 9.3 Consensus size: 20
63359 GAAACTTAAA
* *
63369 ATCGCAACGCGAAAATAACT
1 ATCGCAATGCGAAAATGACT
*
63389 ATTGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
63409 ATCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
63429 ATTGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
** *
63449 ATCGCAATGCGAATTTGGCT
1 ATCGCAATGCGAAAATGACT
*
63469 ATCGCAA--CG-AGA-GA--
1 ATCGCAATGCGAAAATGACT
**
63483 ATCGCAATGCG-AAATGAAA
1 ATCGCAATGCGAAAATGACT
*
63502 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
63522 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
63542 ATCGCAA
1 ATCGCAA
63549 CGAGAGAATC
Statistics
Matches: 135, Mismatches: 19, Indels: 12
0.81 0.11 0.07
Matches are distributed among these distances:
14 7 0.05
16 5 0.04
17 3 0.02
18 2 0.01
19 10 0.07
20 108 0.80
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.21
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:63492 original size:34 final size:34
Alignment explanation
Indices: 63449--63567 Score: 132
Period size: 34 Copynumber: 3.4 Consensus size: 34
63439 GAAAATGACT
*
63449 ATCGCAATGCGAATTTGGCTATCGCAACGAGAGA
1 ATCGCAATGCGAATTTGACTATCGCAACGAGAGA
* ** *
63483 ATCGCAATGCGAA-ATGAAAATCGCAACGCGAAAATGA
1 ATCGCAATGCGAATTTGACTATCGCAA--CG-AGA-GA
63520 CTATCGCAATGCGAATTTGACTATCGCAACGAGAGA
1 --ATCGCAATGCGAATTTGACTATCGCAACGAGAGA
63556 ATCGCAATGCGA
1 ATCGCAATGCGA
63568 TTTTCATTTT
Statistics
Matches: 69, Mismatches: 9, Indels: 14
0.75 0.10 0.15
Matches are distributed among these distances:
33 9 0.13
34 25 0.36
35 2 0.03
36 4 0.06
37 4 0.06
38 2 0.03
39 13 0.19
40 10 0.14
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (34 bp):
ATCGCAATGCGAATTTGACTATCGCAACGAGAGA
Found at i:63529 original size:73 final size:73
Alignment explanation
Indices: 63409--63567 Score: 264
Period size: 73 Copynumber: 2.2 Consensus size: 73
63399 GAAAATGACT
** * * *
63409 ATCGCAATGCGAAAATGACTATTGCAATGCGAAAATGACTATCGCAATGCGAATTTGGCTATCGC
1 ATCGCAATGCG-AAATGAAAATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACTATCGC
63474 AACGAGAGA
65 AACGAGAGA
63483 ATCGCAATGCGAAATGAAAATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCA
1 ATCGCAATGCGAAATGAAAATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCA
63548 ACGAGAGA
66 ACGAGAGA
63556 ATCGCAATGCGA
1 ATCGCAATGCGA
63568 TTTTCATTTT
Statistics
Matches: 80, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
73 69 0.86
74 11 0.14
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.19
Consensus pattern (73 bp):
ATCGCAATGCGAAATGAAAATCGCAACGCGAAAATGACTATCGCAATGCGAATTTGACTATCGCA
ACGAGAGA
Found at i:63603 original size:20 final size:20
Alignment explanation
Indices: 63557--63703 Score: 175
Period size: 20 Copynumber: 7.8 Consensus size: 20
63547 AACGAGAGAA
* **
63557 TCGCAATGCGATTTTCATTT
1 TCGCATTGCGATAGTCATTT
63577 T-GCATTGCGATAGTCATTT
1 TCGCATTGCGATAGTCATTT
63596 TCGCATTGCGATAGTCATTT
1 TCGCATTGCGATAGTCATTT
*
63616 TCACATTGCGATAGTCA-TT
1 TCGCATTGCGATAGTCATTT
*
63635 TCGCATTGCGAT--TC--TC
1 TCGCATTGCGATAGTCATTT
63651 TCG--TTGCGATAGTCATTT
1 TCGCATTGCGATAGTCATTT
*
63669 TCGCGTTGCGATAGTCATTT
1 TCGCATTGCGATAGTCATTT
*
63689 TCGCGTTGCGATAGT
1 TCGCATTGCGATAGT
63704 AAACTATTCT
Statistics
Matches: 113, Mismatches: 7, Indels: 14
0.84 0.05 0.10
Matches are distributed among these distances:
14 7 0.06
16 6 0.05
17 2 0.02
18 4 0.04
19 29 0.26
20 65 0.58
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATAGTCATTT
Found at i:66089 original size:22 final size:22
Alignment explanation
Indices: 66028--66089 Score: 62
Period size: 18 Copynumber: 3.0 Consensus size: 22
66018 TGACCGTGAA
* *
66028 TGATTTCGCCGGAGATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
66050 TG-TTATCGTC---G-TGGGGAC
1 TGATT-TCGTCGGAGATGGGGAC
66068 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
66090 GGATGTCGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
18 13 0.41
19 3 0.09
21 3 0.09
22 13 0.41
ACGTcount: A:0.18, C:0.16, G:0.39, T:0.27
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:66307 original size:20 final size:20
Alignment explanation
Indices: 66284--66357 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
66274 TGATAGTCAG
66284 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
* **
66304 ATTCGCATTGCGATTTTCCAA
1 ATTCGCATTGCGA-TTTACGT
* *
66325 ATTCGCGTTGCAATTTACGT
1 ATTCGCATTGCGATTTACGT
66345 ATTCGCATTGCGA
1 ATTCGCATTGCGA
66358 ATTAGGAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:66371 original size:21 final size:21
Alignment explanation
Indices: 66347--66399 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
66337 ATTTACGTAT
*
66347 TCGCATTGCGAA-TTAGGAAAA
1 TCGCAATGCGAATTTAGG-AAA
*
66368 TCGCAACGCGAATTTAGGAAA
1 TCGCAATGCGAATTTAGGAAA
66389 TCGCAATGCGA
1 TCGCAATGCGA
66400 TAGTCAGAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 23 0.82
22 5 0.18
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (21 bp):
TCGCAATGCGAATTTAGGAAA
Found at i:73575 original size:7 final size:8
Alignment explanation
Indices: 73544--73574 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
73534 CTAGAAGCCT
73544 TCGAAAAA
1 TCGAAAAA
73552 TCGAAAAA
1 TCGAAAAA
73560 TCGAAAAA
1 TCGAAAAA
73568 TCGAAAA
1 TCGAAAA
73575 TACGATTAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (8 bp):
TCGAAAAA
Found at i:74639 original size:24 final size:24
Alignment explanation
Indices: 74589--74638 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
74579 ATAACATAAA
*
74589 TTTCATAATTATTAGATATTAATT
1 TTTCATAATTATTAAATATTAATT
74613 TTTC-TAATTACTTAAATA-TAATT
1 TTTCATAATTA-TTAAATATTAATT
74636 TTT
1 TTT
74639 TTGACATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTCATAATTATTAAATATTAATT
Found at i:74677 original size:2 final size:2
Alignment explanation
Indices: 74670--74705 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
74660 ATTGAAGATA
74670 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
74706 TTATTTAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76351 original size:21 final size:21
Alignment explanation
Indices: 76325--76370 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
76315 ATCTCCGTAG
* *
76325 GGTTACATTCCTAGCCCGCCA
1 GGTTACATGCCTAGCCCGCAA
76346 GGTTACATGCCTAGCCCGCAA
1 GGTTACATGCCTAGCCCGCAA
76367 GGTT
1 GGTT
76371 TTATACCATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.33, G:0.24, T:0.24
Consensus pattern (21 bp):
GGTTACATGCCTAGCCCGCAA
Found at i:77063 original size:14 final size:14
Alignment explanation
Indices: 77044--77073 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
77034 TTTTATCATT
77044 AACATATATATTAA
1 AACATATATATTAA
77058 AACATATATATTAA
1 AACATATATATTAA
77072 AA
1 AA
77074 TCAACTTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (14 bp):
AACATATATATTAA
Found at i:77584 original size:127 final size:127
Alignment explanation
Indices: 77359--77679 Score: 529
Period size: 127 Copynumber: 2.5 Consensus size: 127
77349 ACGCTTTAAA
* * *
77359 GTCCCCTAGGAAATAGTAGGTATTGACATGAATAGTTACCGGGGGACATAAGTGACATAATAGGG
1 GTCCCCTAAGAAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
*
77424 CAATGATAACATATTCTCAGACAAAATAATAGAAGGCGC-CCCCCAGGAACGCGCCTTCACG
66 CAATGATAACATATTCTCAGACAAAATAATAGAAGGCGCGCCCCCAGGAACGCACCTTCACG
77485 GTCCCCTAAGAAATAATAGGTATTGACATGAATAGTTCCCGAGGGGACATAAGTGACATAATAGG
1 GTCCCCTAAGAAATAATAGGTATTGACATGAATAGTTCCCG-GGGGACATAAGTGACATAATAGG
* * *
77550 GCAATGATAACATATTCTCTGACAAAATAATAGAAGGTGCGCCCCCGGGAACGCACCTTCACG
65 GCAATGATAACATATTCTCAGACAAAATAATAGAAGGCGCGCCCCCAGGAACGCACCTTCACG
* *
77613 GTCCCCTAA-AGAATAATAGGTATTAATATGAATAGTTCCCGGGGGACATAAGTGACATAATAGG
1 GTCCCCTAAGA-AATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGG
77677 GCA
65 GCA
77680 TCCCCTAAAA
Statistics
Matches: 183, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
126 38 0.21
127 88 0.48
128 57 0.31
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (127 bp):
GTCCCCTAAGAAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
CAATGATAACATATTCTCAGACAAAATAATAGAAGGCGCGCCCCCAGGAACGCACCTTCACG
Found at i:77698 original size:65 final size:66
Alignment explanation
Indices: 77614--77744 Score: 219
Period size: 65 Copynumber: 2.0 Consensus size: 66
77604 ACCTTCACGG
* *
77614 TCCCCTAAAGAATAATAGGTATTAATATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGGC
1 TCCCCTAAAGAATAATAGGTATTAACATGAATAATTCCCGGGGGACATAAGTGACATAATAGGGC
77679 A
66 A
* *
77680 TCCCCTAAA-AATAGTAGGTATTGACATGAATAATTCCCGGGGGACATAAGTGACATAATAGGGC
1 TCCCCTAAAGAATAATAGGTATTAACATGAATAATTCCCGGGGGACATAAGTGACATAATAGGGC
77744 A
66 A
77745 ATGATAACAT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
65 52 0.85
66 9 0.15
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.24
Consensus pattern (66 bp):
TCCCCTAAAGAATAATAGGTATTAACATGAATAATTCCCGGGGGACATAAGTGACATAATAGGGC
A
Found at i:78176 original size:127 final size:127
Alignment explanation
Indices: 77680--78319 Score: 1011
Period size: 127 Copynumber: 5.0 Consensus size: 127
77670 TAATAGGGCA
* *
77680 TCCCCTAAA-AATAGTAGGTATTGACATGAATAATTCCCGGGGGACATAAGTGACATAATAGGGC
1 TCCCCTAAAGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGGC
* * * *
77744 AATGATAACATATTCTCTGACAAAATAATGAAATGTGCGCCCCCGGGAACGCGCATTCACGG
66 AATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACGG
77806 TCCCCT-AAGAAATAATAGGTATTGACATGAATAGTTCCC-GGGGACATAAGTGACATAATAGGG
1 TCCCCTAAAG-AATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
* *
77869 CAATGATAACATATTCTCTGACAAAATAATGGAAGGCGC-CCCCCGGGAACGTGCATTCACGG
65 CAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACGG
* *
77931 TTCCCTAAGGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGGC
1 TCCCCTAAAGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGGC
* * *
77996 AATGATAACATATTCTCTGACAAAATAATGGAAGGCGCCCCCCCCCCCCCCCCGAGAATGCGCCT
66 AATGATAACATATTCTCTGACAAAATAATGGAAGGCG---------CGCCCCCGGGAACGCGCCT
78061 TCACGG
122 TCACGG
78067 TCCCCTAAAGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGGC
1 TCCCCTAAAGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGGC
78132 AATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACGG
66 AATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACGG
*
78194 TCCCCT-AAGAAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAAGG
1 TCCCCTAAAG-AATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGG
*
78258 CAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCACCTTCACG
65 CAATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACG
78320 TGAATAGTAC
Statistics
Matches: 480, Mismatches: 19, Indels: 29
0.91 0.04 0.05
Matches are distributed among these distances:
125 58 0.12
126 133 0.28
127 169 0.35
135 1 0.00
136 119 0.25
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.21
Consensus pattern (127 bp):
TCCCCTAAAGAATAATAGGTATTGACATGAATAGTTCCCGGGGGACATAAGTGACATAATAGGGC
AATGATAACATATTCTCTGACAAAATAATGGAAGGCGCGCCCCCGGGAACGCGCCTTCACGG
Found at i:81830 original size:21 final size:21
Alignment explanation
Indices: 81800--81997 Score: 124
Period size: 21 Copynumber: 9.6 Consensus size: 21
81790 GATTTACATA
*
81800 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
81821 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* ** * *
81842 TTCACGTTGCGATTTTCTAAA
1 TTCGCGTTGCGATAGTCCAAG
* ** *
81863 TT--CATTGCGATTTTCCAAA
1 TTCGCGTTGCGATAGTCCAAG
*
81882 TT--CGTTGTGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
81901 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
81924 TT--TGTTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* * * *
81943 TTCGCTTTGCAATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
81966 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
81985 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
81998 TTATTCAAAA
Statistics
Matches: 137, Mismatches: 30, Indels: 20
0.73 0.16 0.11
Matches are distributed among these distances:
19 48 0.35
21 71 0.52
23 18 0.13
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:81854 original size:42 final size:40
Alignment explanation
Indices: 81806--82025 Score: 219
Period size: 42 Copynumber: 5.3 Consensus size: 40
81796 CATATTCGCA
* * *
81806 TTGCGATAGTCCAAGTTCGCGTTGCGATAGTCGAAGTTCACG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATATTCCAAATT--CG
** * * * *
81848 TTGCGATTTTCTAAATT--CATTGCGATTTTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATATTCCAAATTCG
* *
81886 TTGTGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTTG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA--TATTCCAAATTCG
* *
81928 TTGCGATAGTCCAAGTTCGCTTTGCAATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA--TATTCCAAATTCG
* *
81970 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCAAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGA--TATTCCAAATTCG
82012 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
82026 AATCGCAACG
Statistics
Matches: 148, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
38 14 0.09
40 21 0.14
42 113 0.76
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (40 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATATTCCAAATTCG
Found at i:81898 original size:19 final size:19
Alignment explanation
Indices: 81806--82026 Score: 118
Period size: 21 Copynumber: 10.8 Consensus size: 19
81796 CATATTCGCA
*
81806 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAATT--CG
* *
81827 TTGCGATAGTCGAAGTTCACG
1 TTGCGATAGTCCAAATT--CG
** * *
81848 TTGCGATTTTCTAAATTCA
1 TTGCGATAGTCCAAATTCG
**
81867 TTGCGATTTTCCAAATTCG
1 TTGCGATAGTCCAAATTCG
* *
81886 TTGTGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAATT--CG
* *
81907 TTGCGATTTATTCCAAATTTG
1 TTGCGA--TAGTCCAAATTCG
*
81928 TTGCGATAGTCCAAGTTCG
1 TTGCGATAGTCCAAATTCG
* *
81947 CTTTGCAATTTATTCCAAATTCG
1 --TTGCGA--TAGTCCAAATTCG
* *
81970 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAATT--CG
* *
81991 TTGCGATTTATTCAAAATTCG
1 TTGCGA--TAGTCCAAATTCG
82012 TTGCGATAGTCCAAA
1 TTGCGATAGTCCAAA
82027 ATCGCAACGA
Statistics
Matches: 156, Mismatches: 32, Indels: 26
0.73 0.15 0.12
Matches are distributed among these distances:
19 56 0.36
21 72 0.46
23 28 0.18
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.37
Consensus pattern (19 bp):
TTGCGATAGTCCAAATTCG
Found at i:82013 original size:21 final size:21
Alignment explanation
Indices: 81846--82018 Score: 105
Period size: 19 Copynumber: 8.4 Consensus size: 21
81836 TCGAAGTTCA
*
81846 CGTTGCGA-TT-TTCTAAATT
1 CGTTGCGATTTATTCCAAATT
*
81865 CATTGCGA-TT-TTCCAAATT
1 CGTTGCGATTTATTCCAAATT
* * *
81884 CGTTGTGA--TAGTCCAAGTT
1 CGTTGCGATTTATTCCAAATT
81903 CGCGTTGCGATTTATTCCAAATT
1 --CGTTGCGATTTATTCCAAATT
* * *
81926 TGTTGCGA--TAGTCCAAGTT
1 CGTTGCGATTTATTCCAAATT
*
81945 CGCTTTGCAATTTATTCCAAATT
1 CG--TTGCGATTTATTCCAAATT
* * *
81968 CGTTGCGA--TAGTCGAAGTT
1 CGTTGCGATTTATTCCAAATT
*
81987 CGCGTTGCGATTTATTCAAAATT
1 --CGTTGCGATTTATTCCAAATT
82010 CGTTGCGAT
1 CGTTGCGAT
82019 AGTCCAAAAT
Statistics
Matches: 118, Mismatches: 23, Indels: 24
0.72 0.14 0.15
Matches are distributed among these distances:
18 1 0.01
19 48 0.41
21 41 0.35
23 28 0.24
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (21 bp):
CGTTGCGATTTATTCCAAATT
Found at i:82933 original size:42 final size:42
Alignment explanation
Indices: 82883--83096 Score: 378
Period size: 42 Copynumber: 5.1 Consensus size: 42
82873 ATTTTGGACT
* *
82883 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
*
82925 ATCGCAACGCGAACTTGGACTATCGCAATGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
*
82967 ATCGCAACGCGAGCTTGGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
83009 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
83051 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGG-A-AA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
83091 ATCGCA
1 ATCGCA
83097 TTGCGATAGT
Statistics
Matches: 166, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
40 8 0.05
41 1 0.01
42 157 0.95
ACGTcount: A:0.35, C:0.22, G:0.21, T:0.21
Consensus pattern (42 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
Found at i:83121 original size:21 final size:21
Alignment explanation
Indices: 83092--83144 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
83082 ATTTGGAAAA
*
83092 TCGCATTGCGATAGTCGAAGT
1 TCGCGTTGCGATAGTCGAAGT
*
83113 TCGCGTTGCGATAGTCGATGT
1 TCGCGTTGCGATAGTCGAAGT
83134 TCGCGTTGCGA
1 TCGCGTTGCGA
83145 ATCTGGAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.17, C:0.21, G:0.32, T:0.30
Consensus pattern (21 bp):
TCGCGTTGCGATAGTCGAAGT
Found at i:84687 original size:24 final size:24
Alignment explanation
Indices: 84637--84686 Score: 68
Period size: 23 Copynumber: 2.1 Consensus size: 24
84627 ATAACATAAA
*
84637 TTTCATAATTATTAGATATTAATT
1 TTTCATAATTATTAAATATTAATT
84661 TTTC-TAATTACTTAAATA-TAATT
1 TTTCATAATTA-TTAAATATTAATT
84684 TTT
1 TTT
84687 TTGACATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTCATAATTATTAAATATTAATT
Found at i:85472 original size:18 final size:18
Alignment explanation
Indices: 85449--85483 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
85439 TCACTCGTTG
85449 ATGTTCATGTTAATATTA
1 ATGTTCATGTTAATATTA
* *
85467 ATGTTCGTGTTTATATT
1 ATGTTCATGTTAATATT
85484 CGTATCCGTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.14, T:0.54
Consensus pattern (18 bp):
ATGTTCATGTTAATATTA
Found at i:87780 original size:32 final size:31
Alignment explanation
Indices: 87629--87780 Score: 92
Period size: 32 Copynumber: 4.8 Consensus size: 31
87619 GTTTAATTGA
* * * *
87629 TGACGTGATATATATCACGTCATAATTTTGTG
1 TGACGTGACACATATCACATCATCATTTTG-G
* * * *
87661 TGACATGACACATACCAAATCATCACTTTGG
1 TGACGTGACACATATCACATCATCATTTTGG
* * * * *
87692 TGATGTGGCACATGTCACACCATCATTCTAGG
1 TGACGTGACACATATCACATCATCATT-TTGG
* **
87724 TGACGT-AGA-ATATGTCATGCCATCATTTTGG
1 TGACGTGACACATATCACAT--CATCATTTTGG
*
87755 CTGACGTGACACATATCATATCATCA
1 -TGACGTGACACATATCACATCATCA
87781 ACTAAACACA
Statistics
Matches: 85, Mismatches: 29, Indels: 12
0.67 0.23 0.10
Matches are distributed among these distances:
30 5 0.06
31 24 0.28
32 48 0.56
33 2 0.02
34 6 0.07
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.32
Consensus pattern (31 bp):
TGACGTGACACATATCACATCATCATTTTGG
Found at i:89011 original size:20 final size:20
Alignment explanation
Indices: 88974--89012 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
88964 TGGTTTTCAC
* * *
88974 TCACTTTACCTTTCCATCCT
1 TCACCTTACCGTTACATCCT
88994 TCACCTTACCGTTACATCC
1 TCACCTTACCGTTACATCC
89013 ATGGATACAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.41, G:0.03, T:0.38
Consensus pattern (20 bp):
TCACCTTACCGTTACATCCT
Found at i:89930 original size:15 final size:13
Alignment explanation
Indices: 89889--89922 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
89879 ATATAAATCC
*
89889 CTTTTTCGTTTTT
1 CTTTTTCATTTTT
*
89902 TTTTTTCATTTTT
1 CTTTTTCATTTTT
89915 CTTTTTCA
1 CTTTTTCA
89923 CTCTTTTCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.15, G:0.03, T:0.76
Consensus pattern (13 bp):
CTTTTTCATTTTT
Found at i:97226 original size:19 final size:20
Alignment explanation
Indices: 97197--97238 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
97187 TACACTTTTC
*
97197 ATTTCATATCAATTTGTTTA
1 ATTTCATATCAATTTATTTA
*
97217 ATTT-ATATCATTTTATTTA
1 ATTTCATATCAATTTATTTA
97236 ATT
1 ATT
97239 ATCCCAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (20 bp):
ATTTCATATCAATTTATTTA
Found at i:97352 original size:21 final size:23
Alignment explanation
Indices: 97314--97376 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 23
97304 CACTACTGCT
*
97314 CACATAATTTG-CACCGAAGTG-C
1 CACATAGTTTGTC-CCGAAGTGAC
*
97336 CACATA-TTTGTCTCGAA-TGAC
1 CACATAGTTTGTCCCGAAGTGAC
97357 CACATAGGTTTGTCCCGAAG
1 CACATA-GTTTGTCCCGAAG
97377 AACCGCATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
20 2 0.06
21 15 0.44
22 7 0.21
23 10 0.29
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (23 bp):
CACATAGTTTGTCCCGAAGTGAC
Found at i:99541 original size:170 final size:171
Alignment explanation
Indices: 99259--99604 Score: 685
Period size: 170 Copynumber: 2.0 Consensus size: 171
99249 GTGTCCTCTA
99259 TCAGAATTTGAAGGCCTCGATATACCGAACTAAAAAATAAGAGTGGGTGGAGCCATTGTCTAATA
1 TCAGAATTTGAAGGCCTCGATATACCGAACTAAAAAATAAGAGTGGGTGGAGCCATTGTCTAATA
99324 ATGCAGAGTATGGAACAGAGTAATTAGTAAATGTACATGTGATAACCTCTGGCTCGCCTCTGTTT
66 ATGCAGAGTATGGAACAGAGTAATTAGTAAATGTACATGTGATAACCTCTGGCTCGCCTCTGTTT
99389 CCCGAT-TTTGGTGGCATACACAAGAGCTGGCTTTCTAGCC
131 CCCGATATTTGGTGGCATACACAAGAGCTGGCTTTCTAGCC
99429 TCAGAATTTGAAGGCCTCGATATACCGAACTAAAAAATAAGAGTGGGTGGAGCCATTGTCTAATA
1 TCAGAATTTGAAGGCCTCGATATACCGAACTAAAAAATAAGAGTGGGTGGAGCCATTGTCTAATA
99494 ATGCAGAGTATGGAACAGAGTAATTAGTAAATGTACATGTGATAACCTCTGGCTCGCCTCTGTTT
66 ATGCAGAGTATGGAACAGAGTAATTAGTAAATGTACATGTGATAACCTCTGGCTCGCCTCTGTTT
99559 CCCGATATTTGGTGGCATACACAAGAGCTGGCTTTCTAGCC
131 CCCGATATTTGGTGGCATACACAAGAGCTGGCTTTCTAGCC
99600 TCAGA
1 TCAGA
99605 TACTGTTGGT
Statistics
Matches: 175, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
170 136 0.78
171 39 0.22
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.27
Consensus pattern (171 bp):
TCAGAATTTGAAGGCCTCGATATACCGAACTAAAAAATAAGAGTGGGTGGAGCCATTGTCTAATA
ATGCAGAGTATGGAACAGAGTAATTAGTAAATGTACATGTGATAACCTCTGGCTCGCCTCTGTTT
CCCGATATTTGGTGGCATACACAAGAGCTGGCTTTCTAGCC
Found at i:101095 original size:12 final size:12
Alignment explanation
Indices: 101073--101119 Score: 60
Period size: 12 Copynumber: 3.9 Consensus size: 12
101063 AGTGAATGAT
101073 GGTCAAAGTCAAC
1 GGTC-AAGTCAAC
101086 GGTCAAGTCAAC
1 GGTCAAGTCAAC
* *
101098 AGTCAAGTCAAT
1 GGTCAAGTCAAC
101110 GGTC-AGTCAA
1 GGTCAAGTCAA
101120 AGTCAACGAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
11 6 0.19
12 21 0.68
13 4 0.13
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.19
Consensus pattern (12 bp):
GGTCAAGTCAAC
Found at i:101107 original size:24 final size:22
Alignment explanation
Indices: 101078--101125 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 22
101068 ATGATGGTCA
101078 AAGTCAACGGTCAAGTCAACAGTC
1 AAGTCAACGGTC-AGTCAA-AGTC
*
101102 AAGTCAATGGTCAGTCAAAGTC
1 AAGTCAACGGTCAGTCAAAGTC
101124 AA
1 AA
101126 CGAGTTGACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 6 0.26
23 6 0.26
24 11 0.48
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (22 bp):
AAGTCAACGGTCAGTCAAAGTC
Found at i:102783 original size:11 final size:12
Alignment explanation
Indices: 102767--102800 Score: 52
Period size: 11 Copynumber: 2.8 Consensus size: 12
102757 GACACGTTGT
102767 AAAAAATTA-AA
1 AAAAAATTATAA
102778 AAAAAATTATAA
1 AAAAAATTATAA
102790 ATAAAAATTAT
1 A-AAAAATTAT
102801 TTTATAATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.43
12 3 0.14
13 9 0.43
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAAAATTATAA
Found at i:104268 original size:23 final size:24
Alignment explanation
Indices: 104239--104286 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 24
104229 TAAAATGATT
104239 TTTTAATTA-TAAAATATTA-AAAA
1 TTTTAATTATTAAAA-ATTATAAAA
104262 TTTTAATTATTAAAAATTATAAAA
1 TTTTAATTATTAAAAATTATAAAA
104286 T
1 T
104287 AATCATTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 13 0.57
24 10 0.43
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTTAATTATTAAAAATTATAAAA
Found at i:104808 original size:14 final size:15
Alignment explanation
Indices: 104789--104817 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
104779 ATACAAAGTA
104789 AAATTTTTCC-TATT
1 AAATTTTTCCATATT
104803 AAATTTTTCCATATT
1 AAATTTTTCCATATT
104818 GATACATGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (15 bp):
AAATTTTTCCATATT
Found at i:113645 original size:20 final size:20
Alignment explanation
Indices: 113620--113673 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
113610 TATTCCCTGG
*
113620 TAATCTTACATTCTCACTGA
1 TAATCTTACATTCCCACTGA
* *
113640 TAATCTTATATTCCCACTTA
1 TAATCTTACATTCCCACTGA
*
113660 AAATCTTACATTCC
1 TAATCTTACATTCC
113674 GTGAACTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.26, G:0.02, T:0.41
Consensus pattern (20 bp):
TAATCTTACATTCCCACTGA
Found at i:113753 original size:20 final size:20
Alignment explanation
Indices: 113710--113768 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
113700 ACGCAAGACA
*
113710 TGGTAATCTTACATTC-CCC
1 TGGTAATCTTACATTCTCAC
113729 TGGTAATCTTACATTCTCAC
1 TGGTAATCTTACATTCTCAC
113749 TGGTAATCTTACATTCTCAC
1 TGGTAATCTTACATTCTCAC
113769 CAATATGTTT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
19 16 0.42
20 22 0.58
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.39
Consensus pattern (20 bp):
TGGTAATCTTACATTCTCAC
Found at i:114392 original size:21 final size:21
Alignment explanation
Indices: 114357--114418 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 21
114347 CGCAACTCAG
*
114357 TTTCAAAATTTGCGTTGCGATT
1 TTTC-AAATTCGCGTTGCGATT
114379 TTTCAAATTCGCGTTGCGA-T
1 TTTCAAATTCGCGTTGCGATT
* *
114399 TTTCCATTTCGCGTTGCGAT
1 TTTCAAATTCGCGTTGCGAT
114419 AGTCCAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 18 0.50
21 14 0.39
22 4 0.11
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (21 bp):
TTTCAAATTCGCGTTGCGATT
Found at i:114424 original size:20 final size:20
Alignment explanation
Indices: 114386--114424 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
114376 ATTTTTCAAA
**
114386 TTCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTCCAT
114406 TTCGCGTTGCGATAGTCCA
1 TTCGCGTTGCGATAGTCCA
114425 AAATCGCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.38
Consensus pattern (20 bp):
TTCGCGTTGCGATAGTCCAT
Found at i:114440 original size:41 final size:41
Alignment explanation
Indices: 114394--114621 Score: 284
Period size: 41 Copynumber: 5.5 Consensus size: 41
114384 AATTCGCGTT
*
114394 GCGATTTTCCATTTCGCGTTGCGATAGTCCAAAATCGCAAC
1 GCGATTTTCCATTTCGCATTGCGATAGTCCAAAATCGCAAC
* * * *
114435 TCGA-TTTGCAGATTCGTATTGCGATAGTCCAAAATCGCAAC
1 GCGATTTTCCA-TTTCGCATTGCGATAGTCCAAAATCGCAAC
114476 GCGATTTTCCATTTCG-AGTTGCGATAGTCCAAAATCGCAAC
1 GCGATTTTCCATTTCGCA-TTGCGATAGTCCAAAATCGCAAC
* * * *
114517 GCGATTTGCAAGATTCGCATTGCGATAGTCCAAAATCGTAAC
1 GCGATTTTCCA-TTTCGCATTGCGATAGTCCAAAATCGCAAC
*
114559 GAGATTTT-CATATTCGCATTGCGATAGTCCAAAATCGCAAC
1 GCGATTTTCCAT-TTCGCATTGCGATAGTCCAAAATCGCAAC
*
114600 GCGATTTT-CAGATTCGCATTGC
1 GCGATTTTCCA-TTTCGCATTGC
114622 CAATGTTTAG
Statistics
Matches: 161, Mismatches: 19, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
40 6 0.04
41 117 0.73
42 37 0.23
43 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (41 bp):
GCGATTTTCCATTTCGCATTGCGATAGTCCAAAATCGCAAC
Found at i:114581 original size:83 final size:82
Alignment explanation
Indices: 114396--114621 Score: 357
Period size: 83 Copynumber: 2.7 Consensus size: 82
114386 TTCGCGTTGC
* * *
114396 GATTTTCCATTTCGCGTTGCGATAGTCCAAAATCGCAACTCGATTTGCAGATTCGTATTGCGATA
1 GATTTTCCATTTCGCATTGCGATAGTCCAAAATCGCAACGCGATTTGCAGATTCGCATTGCGATA
*
114461 GTCCAAAATCGCAACGC
66 GTCCAAAATCGCAACGA
114478 GATTTTCCATTTCG-AGTTGCGATAGTCCAAAATCGCAACGCGATTTGCAAGATTCGCATTGCGA
1 GATTTTCCATTTCGCA-TTGCGATAGTCCAAAATCGCAACGCGATTTGC-AGATTCGCATTGCGA
*
114542 TAGTCCAAAATCGTAACGA
64 TAGTCCAAAATCGCAACGA
*
114561 GATTTT-CATATTCGCATTGCGATAGTCCAAAATCGCAACGCGATTTTCAGATTCGCATTGC
1 GATTTTCCAT-TTCGCATTGCGATAGTCCAAAATCGCAACGCGATTTGCAGATTCGCATTGC
114622 CAATGTTTAG
Statistics
Matches: 134, Mismatches: 6, Indels: 8
0.91 0.04 0.05
Matches are distributed among these distances:
82 61 0.46
83 72 0.54
84 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (82 bp):
GATTTTCCATTTCGCATTGCGATAGTCCAAAATCGCAACGCGATTTGCAGATTCGCATTGCGATA
GTCCAAAATCGCAACGA
Found at i:114650 original size:27 final size:27
Alignment explanation
Indices: 114620--114678 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
114610 GATTCGCATT
* *
114620 GCCAATGTTTAGATTCATCTGATTCAA
1 GCCAATGTTTAGATTCAACTGATCCAA
*
114647 GCCAATGTTTAGATTCAACTGATCCAT
1 GCCAATGTTTAGATTCAACTGATCCAA
114674 GCCAA
1 GCCAA
114679 CTCGGTTGCC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (27 bp):
GCCAATGTTTAGATTCAACTGATCCAA
Found at i:115090 original size:20 final size:20
Alignment explanation
Indices: 115067--115242 Score: 77
Period size: 20 Copynumber: 8.7 Consensus size: 20
115057 ATTTTGGACT
115067 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*** ** **
115087 ATCGCGTTGCGATTTTGGACT
1 ATCGCAACGCGA-AATGGAAA
115108 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*** ** **
115128 ATCGCGTTGCGATTTTGGACT
1 ATCGCAACGCGA-AATGGAAA
115149 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*** ** **
115169 ATCGCGTTGCGATTTTGGACT
1 ATCGCAACGCGA-AATGGAAA
* * *
115190 ATCGCAATGTG-AATCTGAAA
1 ATCGCAACGCGAAAT-GGAAA
115210 ATCGCAACGC-ACAATGGAAA
1 ATCGCAACGCGA-AATGGAAA
115230 ATCGCAACGCGAA
1 ATCGCAACGCGAA
115243 TTTGGAAATT
Statistics
Matches: 103, Mismatches: 46, Indels: 14
0.63 0.28 0.09
Matches are distributed among these distances:
19 1 0.01
20 60 0.58
21 42 0.41
ACGTcount: A:0.33, C:0.20, G:0.25, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:115214 original size:41 final size:41
Alignment explanation
Indices: 115009--115196 Score: 333
Period size: 41 Copynumber: 4.6 Consensus size: 41
114999 GTCGCTTTAC
* *
115009 CGTTGCGATTTTGGACTATCGCAATGCG-AATCTGAAAATCG
1 CGTTGCGATTTTGGACTATCGCAACGCGAAAT-GGAAAATCG
*
115050 CGTTGCAATTTTGGACTATCGCAACGCGAAATGGAAAATCG
1 CGTTGCGATTTTGGACTATCGCAACGCGAAATGGAAAATCG
115091 CGTTGCGATTTTGGACTATCGCAACGCGAAATGGAAAATCG
1 CGTTGCGATTTTGGACTATCGCAACGCGAAATGGAAAATCG
115132 CGTTGCGATTTTGGACTATCGCAACGCGAAATGGAAAATCG
1 CGTTGCGATTTTGGACTATCGCAACGCGAAATGGAAAATCG
115173 CGTTGCGATTTTGGACTATCGCAA
1 CGTTGCGATTTTGGACTATCGCAA
115197 TGTGAATCTG
Statistics
Matches: 142, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
41 139 0.98
42 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (41 bp):
CGTTGCGATTTTGGACTATCGCAACGCGAAATGGAAAATCG
Found at i:115250 original size:123 final size:123
Alignment explanation
Indices: 115009--115242 Score: 303
Period size: 123 Copynumber: 1.9 Consensus size: 123
114999 GTCGCTTTAC
* *
115009 CGTTGCGATTTTGGACTATCGCAATGCGAATCTGAAAATCGCGTTGCAATTTTGGACTATCGCAA
1 CGTTGCGATTTTGGACTATCGCAACGCGAATCGGAAAATCGCGTTGCAATTTTGGACTATCGCAA
*** *** **
115074 CGCGAAATGGAAAATCGCGTTGCGATTTTGGACTATCGCAACGCGAAATGGAAAATCG
66 CGCGAAATGGAAAATCGCAACGCGACAATGGAAAATCGCAACGCGAAATGGAAAATCG
*
115132 CGTTGCGATTTTGGACTATCGCAACGCGAAAT-GGAAAATCGCGTTGCGATTTTGGACTATCGCA
1 CGTTGCGATTTTGGACTATCGCAACGCG-AATCGGAAAATCGCGTTGCAATTTTGGACTATCGCA
* * *
115196 ATGTG-AATCTGAAAATCGCAACGC-ACAATGGAAAATCGCAACGCGAA
65 ACGCGAAAT-GGAAAATCGCAACGCGACAATGGAAAATCGCAACGCGAA
115243 TTTGGAAATT
Statistics
Matches: 95, Mismatches: 14, Indels: 5
0.83 0.12 0.04
Matches are distributed among these distances:
122 21 0.22
123 71 0.75
124 3 0.03
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (123 bp):
CGTTGCGATTTTGGACTATCGCAACGCGAATCGGAAAATCGCGTTGCAATTTTGGACTATCGCAA
CGCGAAATGGAAAATCGCAACGCGACAATGGAAAATCGCAACGCGAAATGGAAAATCG
Found at i:118546 original size:27 final size:27
Alignment explanation
Indices: 118516--118587 Score: 144
Period size: 27 Copynumber: 2.7 Consensus size: 27
118506 GTAAACAGAT
118516 ATTAAAATATTTAATTTTTTTGTTACA
1 ATTAAAATATTTAATTTTTTTGTTACA
118543 ATTAAAATATTTAATTTTTTTGTTACA
1 ATTAAAATATTTAATTTTTTTGTTACA
118570 ATTAAAATATTTAATTTT
1 ATTAAAATATTTAATTTT
118588 ATTTTAATTA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.56
Consensus pattern (27 bp):
ATTAAAATATTTAATTTTTTTGTTACA
Found at i:119300 original size:20 final size:21
Alignment explanation
Indices: 119277--119316 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
119267 TAAAAAATAT
119277 TTAAAATATT-ATATTTTTAC
1 TTAAAATATTAATATTTTTAC
119297 TTAAAATATTAATATTTTTA
1 TTAAAATATTAATATTTTTA
119317 ATATTTTCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (21 bp):
TTAAAATATTAATATTTTTAC
Found at i:122892 original size:165 final size:166
Alignment explanation
Indices: 122604--122936 Score: 643
Period size: 164 Copynumber: 2.0 Consensus size: 166
122594 GTTGGAAACC
122604 ATCATCATCGGCAGGGACATTGTTTCTCCTTGAATTTCTCTGATTATGGCTTTGATGGGAATGAC
1 ATCATCATCGGCAGGGACATTGTTTCTCCTTGAATTTCTCTGATTATGGCTTTGATGGGAATGAC
122669 AGTGTGAGGAATGGGAATTCTTCGGCTCGTTTGTTGAAACGGAATCCGGTGAGAAAACTGGGAAT
66 AGTGTGAGGAATGGGAATTCTTCGGCTCGTTTGTTGAAACGGAATCCGGTGAGAAAACTGGGAAT
122734 GGTAATGGGAATTTGTTTTCAGCCAATTCTC-GTTA
131 GGTAATGGGAATTTGTTTTCAGCCAATTCTCAGTTA
122769 ATCATCATCGGCAGGGACATTG-TTCTCCTTGAATTTCTCTGATTATGGCTTTGATGGGAATGAC
1 ATCATCATCGGCAGGGACATTGTTTCTCCTTGAATTTCTCTGATTATGGCTTTGATGGGAATGAC
122833 AGTGTGAGGAATGGGAATTCTTCGGCTCGTTTGTTGAAACCGGAATCCGGTGAGAAAACTGGGAA
66 AGTGTGAGGAATGGGAATTCTTCGGCTCGTTTGTTGAAA-CGGAATCCGGTGAGAAAACTGGGAA
122898 TGGTAATGGGAATTTGTTTTCAGCCAATTCTCAGTTA
130 TGGTAATGGGAATTTGTTTTCAGCCAATTCTCAGTTA
122935 AT
1 AT
122937 GGTGGAGGAG
Statistics
Matches: 166, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
164 81 0.49
165 79 0.48
166 6 0.04
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.33
Consensus pattern (166 bp):
ATCATCATCGGCAGGGACATTGTTTCTCCTTGAATTTCTCTGATTATGGCTTTGATGGGAATGAC
AGTGTGAGGAATGGGAATTCTTCGGCTCGTTTGTTGAAACGGAATCCGGTGAGAAAACTGGGAAT
GGTAATGGGAATTTGTTTTCAGCCAATTCTCAGTTA
Found at i:125817 original size:71 final size:72
Alignment explanation
Indices: 125686--125818 Score: 232
Period size: 71 Copynumber: 1.9 Consensus size: 72
125676 TTATACAATT
125686 TTTCTTACAATTCAATTATAAAATAGGGCCCCCATTTATTTAATAAGCACTATGACAGACATGAA
1 TTTCTTACAATTCAATTATAAAATAGGGCCCCCATTTATTTAATAAGCACTATGACAGACATGAA
125751 CGGTACA
66 CGGTACA
* * *
125758 TTTCTTACAATTCAATTATAAAATA-GGCCCCCCTTTATTTAATAAGTACTATGGCAGACAT
1 TTTCTTACAATTCAATTATAAAATAGGGCCCCCATTTATTTAATAAGCACTATGACAGACAT
125819 AAATGTTATT
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
71 33 0.57
72 25 0.43
ACGTcount: A:0.36, C:0.20, G:0.11, T:0.33
Consensus pattern (72 bp):
TTTCTTACAATTCAATTATAAAATAGGGCCCCCATTTATTTAATAAGCACTATGACAGACATGAA
CGGTACA
Found at i:131292 original size:2 final size:2
Alignment explanation
Indices: 131285--131311 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
131275 ATTGTAATCG
131285 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
131312 AGATTATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:133538 original size:21 final size:20
Alignment explanation
Indices: 133514--133552 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
133504 AGTGCCCAAC
*
133514 AATAACAAAATCGGTAGAAAA
1 AATAACAAAA-CGATAGAAAA
133535 AATAACAAAACGATAGAA
1 AATAACAAAACGATAGAA
133553 GTATTAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.64, C:0.10, G:0.13, T:0.13
Consensus pattern (20 bp):
AATAACAAAACGATAGAAAA
Found at i:134417 original size:2 final size:2
Alignment explanation
Indices: 134412--134447 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
134402 ATTTATTTAA
134412 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
134448 CAAATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:140526 original size:29 final size:29
Alignment explanation
Indices: 140493--140548 Score: 103
Period size: 29 Copynumber: 1.9 Consensus size: 29
140483 TCCCAATACA
*
140493 TAGGTCGCCATGCTCTTCGGGCGACCTTG
1 TAGGTCGCCATGCTCTCCGGGCGACCTTG
140522 TAGGTCGCCATGCTCTCCGGGCGACCT
1 TAGGTCGCCATGCTCTCCGGGCGACCT
140549 ACTCTTGCTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.11, C:0.34, G:0.30, T:0.25
Consensus pattern (29 bp):
TAGGTCGCCATGCTCTCCGGGCGACCTTG
Found at i:140587 original size:23 final size:23
Alignment explanation
Indices: 140559--140623 Score: 94
Period size: 23 Copynumber: 2.8 Consensus size: 23
140549 ACTCTTGCTC
140559 GCTCGCTCGGCTGCCCTCGCATA
1 GCTCGCTCGGCTGCCCTCGCATA
*
140582 GTTCGCTCGGCTGCCCTCGCATA
1 GCTCGCTCGGCTGCCCTCGCATA
* * *
140605 GCTCGGTCGGATGGCCTCG
1 GCTCGCTCGGCTGCCCTCG
140624 GATGCTCTCG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.08, C:0.38, G:0.31, T:0.23
Consensus pattern (23 bp):
GCTCGCTCGGCTGCCCTCGCATA
Found at i:140624 original size:33 final size:33
Alignment explanation
Indices: 140587--140695 Score: 146
Period size: 33 Copynumber: 3.3 Consensus size: 33
140577 GCATAGTTCG
* * *
140587 CTCGGCTGCCCTCGCATAGCTCGGTCGGATGGC
1 CTCGGATGCCCTCGTATATCTCGGTCGGATGGC
*
140620 CTCGGATGCTCTCGTATATCTCGGTCGGATGGC
1 CTCGGATGCCCTCGTATATCTCGGTCGGATGGC
* * **
140653 CTCGGATGCTCTCGTATATCTTGACCGGATGGC
1 CTCGGATGCCCTCGTATATCTCGGTCGGATGGC
140686 CTCGGATGCC
1 CTCGGATGCC
140696 TAGCGTGTTG
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 68 1.00
ACGTcount: A:0.12, C:0.31, G:0.30, T:0.27
Consensus pattern (33 bp):
CTCGGATGCCCTCGTATATCTCGGTCGGATGGC
Found at i:140770 original size:29 final size:29
Alignment explanation
Indices: 140733--140790 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
140723 GCAATCTCTC
140733 GTAGCTCGCCAAGAAGACATGGCGACCTA
1 GTAGCTCGCCAAGAAGACATGGCGACCTA
* ** *
140762 GTAGGTCGCCCGGAAGGCATGGCGACCTA
1 GTAGCTCGCCAAGAAGACATGGCGACCTA
140791 CGGCCAACAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.26, C:0.28, G:0.33, T:0.14
Consensus pattern (29 bp):
GTAGCTCGCCAAGAAGACATGGCGACCTA
Found at i:141685 original size:22 final size:22
Alignment explanation
Indices: 141660--141710 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
141650 TTTTATTAGG
*
141660 AATGAACTTATAAAATTTAGAA
1 AATGAACTTATAAAATTTAAAA
*
141682 AATGAATTTATAAAATTTAAAA
1 AATGAACTTATAAAATTTAAAA
141704 AGATGAA
1 A-ATGAA
141711 AAAAATTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 21 0.81
23 5 0.19
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (22 bp):
AATGAACTTATAAAATTTAAAA
Done.