Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004534.1 Hibiscus syriacus cultivar Beakdansim tig00010013_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: 83865
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Found at i:3862 original size:18 final size:18
Alignment explanation
Indices: 3824--3863 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
3814 ACTCTGAGCA
*
3824 TCAGCAGTGATTTGCTCT
1 TCAGCAGTGATTTACTCT
3842 TCAGCTAGTGATTTACT-T
1 TCAGC-AGTGATTTACTCT
3860 TCAG
1 TCAG
3864 ATCCTGTGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (18 bp):
TCAGCAGTGATTTACTCT
Found at i:6539 original size:21 final size:22
Alignment explanation
Indices: 6499--6540 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
6489 TCTCAAAACC
*
6499 TAAAATTCTCAAATCTCTAAATT
1 TAAAATTCT-AAATCCCTAAATT
6522 TAAAATTCT-AATCCCTAAA
1 TAAAATTCTAAATCCCTAAA
6541 ATCCCAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
23 9 0.50
ACGTcount: A:0.45, C:0.19, G:0.00, T:0.36
Consensus pattern (22 bp):
TAAAATTCTAAATCCCTAAATT
Found at i:10485 original size:23 final size:23
Alignment explanation
Indices: 10454--10509 Score: 96
Period size: 23 Copynumber: 2.4 Consensus size: 23
10444 TTCTATGCAT
10454 AAGA-AAAATATTTCAAAATTGA
1 AAGATAAAATATTTCAAAATTGA
10476 AAGATAAAATATTTCAAAATTGA
1 AAGATAAAATATTTCAAAATTGA
10499 AAGATGAAAAT
1 AAGAT-AAAAT
10510 GTTCTTCTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
22 4 0.12
23 23 0.72
24 5 0.16
ACGTcount: A:0.59, C:0.04, G:0.11, T:0.27
Consensus pattern (23 bp):
AAGATAAAATATTTCAAAATTGA
Found at i:14613 original size:22 final size:22
Alignment explanation
Indices: 14585--14636 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
14575 GTAAGATTAC
14585 CAATACTCATTTAAATGAGTAT
1 CAATACTCATTTAAATGAGTAT
14607 CAATACTCATTTAAATGAGTAT
1 CAATACTCATTTAAATGAGTAT
14629 CAATACTC
1 CAATACTC
14637 GGGGTCAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.40, C:0.17, G:0.08, T:0.35
Consensus pattern (22 bp):
CAATACTCATTTAAATGAGTAT
Found at i:15080 original size:16 final size:17
Alignment explanation
Indices: 15059--15094 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
15049 TATTTGTATT
15059 ATCATA-CTTTAATATA
1 ATCATATCTTTAATATA
*
15075 ATCATATCTTTATTATA
1 ATCATATCTTTAATATA
15092 ATC
1 ATC
15095 TCATTTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (17 bp):
ATCATATCTTTAATATA
Found at i:18613 original size:21 final size:20
Alignment explanation
Indices: 18589--18633 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 20
18579 TAATATGTAT
18589 ATATTAATAATATCATTAATA
1 ATATTAATAATATCA-TAATA
18610 ATA-T-AT-ATATTCATAATA
1 ATATTAATAATA-TCATAATA
18628 ATATTA
1 ATATTA
18634 TATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 7
0.75 0.00 0.25
Matches are distributed among these distances:
18 11 0.52
19 6 0.29
20 1 0.05
21 3 0.14
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (20 bp):
ATATTAATAATATCATAATA
Found at i:18625 original size:27 final size:27
Alignment explanation
Indices: 18578--18648 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 27
18568 TTATTTAAAT
*
18578 TTAAT-ATGTATATATTAATAAT-ATCA
1 TTAATAATATATATATTAATAATAAT-A
*
18604 TTAATAATATATATATTCATAATAATA
1 TTAATAATATATATATTAATAATAATA
18631 TTATATATATATATATAT
1 TTA-ATA-ATATATATAT
18649 GTAACTTATA
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
26 5 0.13
27 19 0.49
28 5 0.13
29 10 0.26
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (27 bp):
TTAATAATATATATATTAATAATAATA
Found at i:18835 original size:4 final size:4
Alignment explanation
Indices: 18828--18934 Score: 142
Period size: 4 Copynumber: 26.8 Consensus size: 4
18818 TCACACACAT
18828 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
* ** * ** * *
18876 ATAC ATAC ATAC ATAC ATAC ACAC ACGC ACAC ACGC ACAC ACAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
18924 ATAC ATAC ATA
1 ATAC ATAC ATA
18935 TTCACACACA
Statistics
Matches: 97, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 97 1.00
ACGTcount: A:0.49, C:0.30, G:0.02, T:0.20
Consensus pattern (4 bp):
ATAC
Found at i:19044 original size:2 final size:2
Alignment explanation
Indices: 19037--19077 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
19027 GCAAGCAATA
19037 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
19078 ACTCAAACAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:20822 original size:130 final size:130
Alignment explanation
Indices: 20484--21069 Score: 432
Period size: 130 Copynumber: 4.5 Consensus size: 130
20474 TCATATCGGG
* * * * * * *
20484 AAACTTTGATTTATTTCACCACTCTT-TAGATAAGATTGAA-TCA-AGGTTGATTTTCTTCACAA
1 AAACTTTGATTCACTTCACTACTCTTCAAG-GAAGATTGAACT-AGAGGTTGATTTGCTTCACTA
** * * * * * * * *
20546 CTCTTCAAGAAGGTGAAATATGGAAAAATA-ATATGTTTCACTACTCTTTAGGGAAGATCAGATC
64 CTCTTC-AGAAAATCAAATCTAGAAAAAGAGATATGCTTCTCTACTCTTTAAGGAAAATCAGATC
20610 TAA
128 TAA
* *
20613 AAACTTTGATTCACTTCACTACTCTTCAAGGAAGATTGAACCA-AGTTTGATTTGCTTCGAC-AC
1 AAACTTTGATTCACTTCACTACTCTTCAAGGAAGATTGAACTAGAGGTTGATTTGCTTC-ACTAC
* * ** * *
20676 TCTTTAAAAAAGTCAAATCTAGAGAAATA-AG-T-TTTTTC-CGATACTCTTTAAGGAATATCAT
65 TCTTCAGAAAA-TCAAATCTAGA-AAA-AGAGATATGCTTCTC--TACTCTTTAAGGAAAATCAG
20737 ATCTAA
125 ATCTAA
* * *
20743 AAACTTTGATTCACTTCACTACTTTTCAGGGAAGATTGAA-TAGAGGTTAATTTGCTTCACTACT
1 AAACTTTGATTCACTTCACTACTCTTCAAGGAAGATTGAACTAGAGGTTGATTTGCTTCACTACT
* *
20807 CTTCAGGAATATCAAATCTAGAAAAAGGGATATGCTTCTCTACTCTTT-AGGCAAAATCAGATCT
66 CTTCA-GAAAATCAAATCTAGAAAAAGAGATATGCTTCTCTACTCTTTAAGG-AAAATCAGATCT
*
20871 GGA
129 -AA
** * * *
20874 AATTTTTTATTCATTTCACTACTCTTCAAAGAAGATTGAACT-GAGGTTGATTTGCTTCACTACT
1 AAACTTTGATTCACTTCACTACTCTTCAAGGAAGATTGAACTAGAGGTTGATTTGCTTCACTACT
* * * * * *
20938 CTTCTAGAAGATCAAATCTAG-AAATGGGATATGC-TCTACTACTC-TTCAGGAAATATTACATC
66 CTTC-AGAAAATCAAATCTAGAAAAAGAGATATGCTTCT-CTACTCTTTAAGGAAA-ATCAGATC
**
21000 TGG
128 TAA
* ** * * * * * * *
21003 AAACTTTGGTTCACACCACTACTCTTTATGGAAGATTGAA-TCGAGATTGATTTTCTTTATTACT
1 AAACTTTGATTCACTTCACTACTCTTCAAGGAAGATTGAACTAGAGGTTGATTTGCTTCACTACT
21067 CTT
66 CTT
21070 GAGGAAGGTC
Statistics
Matches: 373, Mismatches: 60, Indels: 48
0.78 0.12 0.10
Matches are distributed among these distances:
128 6 0.02
129 135 0.36
130 148 0.40
131 81 0.22
132 3 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (130 bp):
AAACTTTGATTCACTTCACTACTCTTCAAGGAAGATTGAACTAGAGGTTGATTTGCTTCACTACT
CTTCAGAAAATCAAATCTAGAAAAAGAGATATGCTTCTCTACTCTTTAAGGAAAATCAGATCTAA
Found at i:21038 original size:260 final size:258
Alignment explanation
Indices: 20515--21090 Score: 583
Period size: 260 Copynumber: 2.2 Consensus size: 258
20505 CTCTTTAGAT
* * * * * *
20515 AAGATTGAATCA-AGGTTGATTTTCTTCACAACTCTTCAAGAAGGTGAAATATGGAAAAATAATA
1 AAGATTGAAT-AGAGGTTGATTTTCTTCACTACTCTTCAGGAAGATCAAATATAGAAAAAGAATA
* * * *
20579 TGTTTCACTACTCTTTAGGGAAGATCAGATCTAAAAACTTTGATTCACTTCACTACTCTTCAAGG
65 TGCTTCACTACTCTTTAGGCAAAATCAGATCTAAAAACTTTGATTCACTTCACTACTCTTCAAAG
* *
20644 AAGATTGAACCAAGTTTGATTTGCTTCGACACTCTTTAAAAAAGTCAAATCTAGAGAAATAAGTT
130 AAGATTGAACCAAGGTTGATTTGCTTCGACACTCTTTAAAAAAGTCAAATCTA-AGAAATAAGTA
** * **
20709 TTTTCCGATACTCTTTAAGGAATATCATATCTAAAAACTTTGATTCACTTCACTACTTTTCAGGG
194 TGCTCCGATACTCTTTAAGGAATATCACATCTAAAAACTTTGATTCACACCACTACTTTTCAGGG
* * * * *
20774 AAGATTGAATAGAGGTTAATTTGCTTCACTACTCTTCAGGAATATCAAATCTAGAAAAAGGGATA
1 AAGATTGAATAGAGGTTGATTTTCTTCACTACTCTTCAGGAAGATCAAATATAGAAAAA-GAATA
* * ** * *
20839 TGCTTCTCTACTCTTTAGGCAAAATCAGATCTGGAAATTTTTTATTCATTTCACTACTCTTCAAA
65 TGCTTCACTACTCTTTAGGCAAAATCAGATCT-AAAAACTTTGATTCACTTCACTACTCTTCAAA
** * * **
20904 GAAGATTGAACTGAGGTTGATTTGCTTC-ACTACTCTTCTAGAAGA-TCAAATCT-AGAAATGGG
129 GAAGATTGAACCAAGGTTGATTTGCTTCGAC-ACTCTT-TAAAAAAGTCAAATCTAAGAAATAAG
* * * ** *
20966 ATATGCT-CTACTACTC-TTCAGGAAATATTACATCTGGAAACTTTGGTTCACACCACTACTCTT
192 -TATGCTCCGA-TACTCTTTAAGG-AATATCACATCTAAAAACTTTGATTCACACCACTACT-TT
*
21029 T-ATGG
253 TCAGGG
* * * * * *
21034 AAGATTGAATCGAGATTGATTTTCTTTATTACTCTTGAGGAAGGTCAAATATA-AAAA
1 AAGATTGAATAGAGGTTGATTTTCTTCACTACTCTTCAGGAAGATCAAATATAGAAAA
21091 TGAAATCTAC
Statistics
Matches: 257, Mismatches: 51, Indels: 18
0.79 0.16 0.06
Matches are distributed among these distances:
258 1 0.00
259 66 0.26
260 117 0.46
261 68 0.26
262 5 0.02
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.34
Consensus pattern (258 bp):
AAGATTGAATAGAGGTTGATTTTCTTCACTACTCTTCAGGAAGATCAAATATAGAAAAAGAATAT
GCTTCACTACTCTTTAGGCAAAATCAGATCTAAAAACTTTGATTCACTTCACTACTCTTCAAAGA
AGATTGAACCAAGGTTGATTTGCTTCGACACTCTTTAAAAAAGTCAAATCTAAGAAATAAGTATG
CTCCGATACTCTTTAAGGAATATCACATCTAAAAACTTTGATTCACACCACTACTTTTCAGGG
Found at i:21068 original size:129 final size:130
Alignment explanation
Indices: 20472--21083 Score: 435
Period size: 129 Copynumber: 4.7 Consensus size: 130
20462 TTTTCAGGGT
* * * * * * *
20472 AATCATATCGGGAAACTTTGATTTATTTCACCACTCTTT-AGATAAGATTGAATCAAGGTTGATT
1 AATCACATCTGGAAACTTTGATTCACTTCACTACTCTTTAAG-GAAGATTGAATCGAGGTTGATT
* * * * * * * ** * * * *
20536 TTCTTCACAACTCTTCAAGAAGGTGAAATATGGAAAAA-TAATATGTTTCACTACTCTTTAGGGA
65 TGCTTCACTACTCTTCAGGAAGATCAAATCTAGAAAAAGGGATATGCTTCTCTACTCTTCAGGCA
20600 A
130 A
* * ** * * * *
20601 GATCAGATCTAAAAACTTTGATTCACTTCACTACTCTTCAAGGAAGATTGAACCAAGTTTGATTT
1 AATCACATCTGGAAACTTTGATTCACTTCACTACTCTTTAAGGAAGATTGAATCGAGGTTGATTT
* * * * **
20666 GCTTCGAC-ACTCTTTA-AAAAAGTCAAATCTAGAGAAATA-AG-T-TTTTTC-CGATACTCTTT
66 GCTTC-ACTACTCTTCAGGAAGA-TCAAATCTAGA-AAA-AGGGATATGCTTCTC--TACTC-TT
*
20725 AAGG-AA
124 CAGGCAA
* * ** * * *
20731 TATCATATCTAAAAACTTTGATTCACTTCACTACT-TTTCAGGGAAGATTGAATAGAGGTTAATT
1 AATCACATCTGGAAACTTTGATTCACTTCACTACTCTTT-AAGGAAGATTGAATCGAGGTTGATT
* *
20795 TGCTTCACTACTCTTCAGGAATATCAAATCTAGAAAAAGGGATATGCTTCTCTACTCTTTAGGCA
65 TGCTTCACTACTCTTCAGGAAGATCAAATCTAGAAAAAGGGATATGCTTCTCTACTCTTCAGGCA
20860 A
130 A
* * * * * *
20861 AATCAGATCTGGAAATTTTTTATTCATTTCACTACTCTTCAAAGAAGATTGAA-CTGAGGTTGAT
1 AATCACATCTGGAAA-CTTTGATTCACTTCACTACTCTTTAAGGAAGATTGAATC-GAGGTTGAT
*
20925 TTGCTTCACTACTCTTCTA-GAAGATCAAATCTAG-AAATGGGATATGC-TCTACTACTCTTCAG
64 TTGCTTCACTACTCTTC-AGGAAGATCAAATCTAGAAAAAGGGATATGCTTCT-CTACTCTTCAG
20987 G-AA
127 GCAA
* * ** * *
20990 ATATTACATCTGGAAACTTTGGTTCACACCACTACTCTTTATGGAAGATTGAATCGAGATTGATT
1 A-ATCACATCTGGAAACTTTGATTCACTTCACTACTCTTTAAGGAAGATTGAATCGAGGTTGATT
* * * * *
21055 TTCTTTATTACTCTTGAGGAAGGTCAAAT
65 TGCTTCACTACTCTTCAGGAAGATCAAAT
21084 ATAAAAATGA
Statistics
Matches: 387, Mismatches: 72, Indels: 48
0.76 0.14 0.09
Matches are distributed among these distances:
128 5 0.01
129 152 0.39
130 146 0.38
131 80 0.21
132 4 0.01
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (130 bp):
AATCACATCTGGAAACTTTGATTCACTTCACTACTCTTTAAGGAAGATTGAATCGAGGTTGATTT
GCTTCACTACTCTTCAGGAAGATCAAATCTAGAAAAAGGGATATGCTTCTCTACTCTTCAGGCAA
Found at i:21561 original size:38 final size:38
Alignment explanation
Indices: 21443--21567 Score: 103
Period size: 38 Copynumber: 3.3 Consensus size: 38
21433 AAGAGTTAAG
* * * *
21443 ATTGATGTTTATAGGGAAATAGTCTTAAGGATGACTAA
1 ATTGATGTTTCTAGGGAAATAATCTTAAGAAAGACTAA
* * * * * *
21481 ATTTA-GTTTTCTA-GGATACAAGTCCTAAGAGAGTC-AA
1 ATTGATG-TTTCTAGGGAAATAA-TCTTAAGAAAGACTAA
21518 GATTGATGTTTCTAGGGAAATAATCTTAAGAAAGACTAA
1 -ATTGATGTTTCTAGGGAAATAATCTTAAGAAAGACTAA
*
21557 ATTGATTTTTC
1 ATTGATGTTTC
21568 GAAAGAGATT
Statistics
Matches: 64, Mismatches: 17, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
37 8 0.12
38 47 0.73
39 9 0.14
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (38 bp):
ATTGATGTTTCTAGGGAAATAATCTTAAGAAAGACTAA
Found at i:21567 original size:76 final size:76
Alignment explanation
Indices: 21400--21567 Score: 230
Period size: 76 Copynumber: 2.2 Consensus size: 76
21390 TTCTAGGTAA
* * * * *
21400 ACTAAATTGAGCTTTCTAGGGTACAAGTCTTGAAAGAGTTAAGATTGATGTTTATAGGGAAATAG
1 ACTAAATTGAGTTTTCTAGGATACAAGTCCTGAAAGAGTCAAGATTGATGTTTATAGGGAAATAA
* *
21465 TCTTAAGGATG
66 TCTTAAGAAAG
* *
21476 ACTAAATTTAGTTTTCTAGGATACAAGTCCT-AAGAGAGTCAAGATTGATGTTTCTAGGGAAATA
1 ACTAAATTGAGTTTTCTAGGATACAAGTCCTGAA-AGAGTCAAGATTGATGTTTATAGGGAAATA
21540 ATCTTAAGAAAG
65 ATCTTAAGAAAG
*
21552 ACTAAATTGATTTTTC
1 ACTAAATTGAGTTTTC
21568 GAAAGAGATT
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
75 2 0.03
76 78 0.98
ACGTcount: A:0.36, C:0.10, G:0.21, T:0.34
Consensus pattern (76 bp):
ACTAAATTGAGTTTTCTAGGATACAAGTCCTGAAAGAGTCAAGATTGATGTTTATAGGGAAATAA
TCTTAAGAAAG
Found at i:24671 original size:11 final size:11
Alignment explanation
Indices: 24655--24686 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
24645 CCACAACTTG
24655 GGAGCTAAATT
1 GGAGCTAAATT
24666 GGAGCTAAATT
1 GGAGCTAAATT
24677 GGAGCTAAAT
1 GGAGCTAAAT
24687 AGAGAAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.38, C:0.09, G:0.28, T:0.25
Consensus pattern (11 bp):
GGAGCTAAATT
Found at i:25261 original size:15 final size:16
Alignment explanation
Indices: 25218--25263 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
25208 TATGAAATAA
*
25218 GAAATGGAAGAAGAGAG
1 GAAATGG-AGAAGAAAG
*
25235 GAAAT-GATAAGAAAG
1 GAAATGGAGAAGAAAG
25250 GAAATGGA-AAGAAA
1 GAAATGGAGAAGAAA
25264 TGATATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 18 0.69
16 3 0.12
17 5 0.19
ACGTcount: A:0.59, C:0.00, G:0.33, T:0.09
Consensus pattern (16 bp):
GAAATGGAGAAGAAAG
Found at i:29417 original size:17 final size:18
Alignment explanation
Indices: 29379--29419 Score: 59
Period size: 17 Copynumber: 2.4 Consensus size: 18
29369 ATGTATGAGT
*
29379 CTTTTTTTTTCTTTTTTG
1 CTTTTTTTTTCTCTTTTG
29397 -TTTTTTTTT-TCTTTTG
1 CTTTTTTTTTCTCTTTTG
29413 CTTTTTT
1 CTTTTTT
29420 GTTGCAGCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (18 bp):
CTTTTTTTTTCTCTTTTG
Found at i:33202 original size:49 final size:49
Alignment explanation
Indices: 33130--33235 Score: 185
Period size: 49 Copynumber: 2.1 Consensus size: 49
33120 CTCTGATGAT
* *
33130 ATACTCTTGGAGTCCTTTAATTATGTTAACTCACGTTATTATCACATTC
1 ATACTCTTGGAGTCCTTTAATTATGTTAACTCACGTTAATATCACATTA
33179 ATACTCTTGGAGTCCTTTAATTATGTTAACTCACGTTAATATCACATTA
1 ATACTCTTGGAGTCCTTTAATTATGTTAACTCACGTTAATATCACATTA
33228 ATAGCTCT
1 ATA-CTCT
33236 CAATCTTTCT
Statistics
Matches: 54, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
49 50 0.93
50 4 0.07
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.42
Consensus pattern (49 bp):
ATACTCTTGGAGTCCTTTAATTATGTTAACTCACGTTAATATCACATTA
Found at i:35077 original size:22 final size:22
Alignment explanation
Indices: 35031--35078 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
35021 TTGAGCACCC
* *
35031 AAAATAAAATTTTCATTTTAAT
1 AAAATAAAATTTTAATTATAAT
*
35053 AAAATAAAATTTTAATTATATT
1 AAAATAAAATTTTAATTATAAT
35075 AAAA
1 AAAA
35079 CAACATTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAATAAAATTTTAATTATAAT
Found at i:36160 original size:21 final size:21
Alignment explanation
Indices: 36107--36161 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
36097 CAGTTTCAAG
36107 ATTT-GCAATGCGATTTTCCA
1 ATTTCGCAATGCGATTTTCCA
**
36127 ATTTCGCGTTGCGATTTTCCCA
1 ATTTCGCAATGCGATTTT-CCA
36149 A-TTCGCAATGCGA
1 ATTTCGCAATGCGA
36162 ATAAGTAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 4 0.14
21 21 0.72
22 4 0.14
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (21 bp):
ATTTCGCAATGCGATTTTCCA
Found at i:36196 original size:41 final size:41
Alignment explanation
Indices: 36151--36387 Score: 198
Period size: 41 Copynumber: 5.8 Consensus size: 41
36141 TTTTCCCAAT
*
36151 TCGCAATGCGAATAAGTAAATCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATTTGGAAAA
* *
36192 TCGCAATGCG-ATAC-TGACTATCGCAATGCGAATTTGGAAAT
1 TCGCAATGCGAATACGT-A-AATCGCAATGCGAATTTGGAAAA
* * * ** ** *
36233 TCGCATTGCGATTTACGT-ATTCGCGTTGCG-ATTTTCATAAT
1 TCGCAATGCGA-ATACGTAAATCGCAATGCGAATTTGGA-AAA
* * ** *
36274 TCGCAATGCGAATACGTAAATCACAACGCG-ATTAAGTAAA
1 TCGCAATGCGAATACGTAAATCGCAATGCGAATTTGGAAAA
* * ** *
36314 TCGCAATGCGAATTAGGAAAATCGCAATGCGAA-TACGTAAA
1 TCGCAATGCGAA-TACGTAAATCGCAATGCGAATTTGGAAAA
36355 TCGCAATGCGAATACGTAAATCGCAATGCGAAT
1 TCGCAATGCGAATACGTAAATCGCAATGCGAAT
36388 CTTACTATCG
Statistics
Matches: 156, Mismatches: 30, Indels: 20
0.76 0.15 0.10
Matches are distributed among these distances:
39 1 0.01
40 46 0.29
41 104 0.67
42 1 0.01
43 3 0.02
44 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (41 bp):
TCGCAATGCGAATACGTAAATCGCAATGCGAATTTGGAAAA
Found at i:36324 original size:61 final size:61
Alignment explanation
Indices: 36136--36385 Score: 211
Period size: 61 Copynumber: 4.1 Consensus size: 61
36126 AATTTCGCGT
** * ** *
36136 TGCGATTTTCCCAATTCGCAATGCGAATAAGTAAATCGCAATGCGAATTTGGAAAATCGCAA
1 TGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAATGCG-ATTACGTAAATCGCAA
** * ** * * * **
36198 TGCGATACTGACT-A-TCGCAATGCGAATTTGGAAATTCGCATTGCGATTTACGT-ATTCGCGT
1 TGCGATTTTCA-TAATTCGCAATGCGAATACGTAAA-TCGCAATGCGA-TTACGTAAATCGCAA
* * *
36259 TGCGATTTTCATAATTCGCAATGCGAATACGTAAATCACAACGCGATTAAGTAAATCGCAA
1 TGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAA
*** * *
36320 TGCGAATTAGGA-AAATCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAATCGCAA
1 TGCG-ATTTTCATAATTCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAA
36381 TGCGA
1 TGCGA
36386 ATCTTACTAT
Statistics
Matches: 145, Mismatches: 36, Indels: 16
0.74 0.18 0.08
Matches are distributed among these distances:
60 7 0.05
61 97 0.67
62 41 0.28
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (61 bp):
TGCGATTTTCATAATTCGCAATGCGAATACGTAAATCGCAATGCGATTACGTAAATCGCAA
Found at i:36397 original size:20 final size:20
Alignment explanation
Indices: 36151--36387 Score: 183
Period size: 20 Copynumber: 11.7 Consensus size: 20
36141 TTTTCCCAAT
*
36151 TCGCAATGCGAATAAGTAAA
1 TCGCAATGCGAATACGTAAA
** *
36171 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
*
36192 TCGCAATGCG-ATAC-TGACTA
1 TCGCAATGCGAATACGT-A-AA
** *
36212 TCGCAATGCGAATTTGGAAA
1 TCGCAATGCGAATACGTAAA
* * *
36232 TTCGCATTGCGATTTACGT-AT
1 -TCGCAATGCGA-ATACGTAAA
** * * * *
36253 TCGCGTTGCGATTTTCATAAT
1 TCGCAATGCGA-ATACGTAAA
36274 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * * *
36294 TCACAACGCGATTAAGTAAA
1 TCGCAATGCGAATACGTAAA
* *
36314 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAA-TACGTAAA
36335 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
36355 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
36375 TCGCAATGCGAAT
1 TCGCAATGCGAAT
36388 CTTACTATCG
Statistics
Matches: 171, Mismatches: 37, Indels: 18
0.76 0.16 0.08
Matches are distributed among these distances:
19 2 0.01
20 109 0.64
21 58 0.34
22 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:36980 original size:19 final size:19
Alignment explanation
Indices: 36953--36997 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
36943 GCAACGAGAG
* *
36953 AATCACAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
*
36972 AATCGCAACGCGAAACCAA
1 AATCGCAACGCGAAACAAA
36991 AATCGCA
1 AATCGCA
36998 TTGCGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.51, C:0.27, G:0.13, T:0.09
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:37015 original size:19 final size:19
Alignment explanation
Indices: 36993--37105 Score: 101
Period size: 19 Copynumber: 6.1 Consensus size: 19
36983 GAAACCAAAA
*
36993 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
37012 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
37031 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
37045 TCTCATTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
* *
37064 TCCGCGTTGTGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
37084 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
37104 TC
1 TC
37106 AACCAAAAGA
Statistics
Matches: 75, Mismatches: 12, Indels: 14
0.74 0.12 0.14
Matches are distributed among these distances:
14 9 0.12
16 2 0.03
17 3 0.04
19 32 0.43
20 28 0.37
21 1 0.01
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:37063 original size:33 final size:34
Alignment explanation
Indices: 37017--37080 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 34
37007 TCATTTCGCG
**
37017 TTGCGATTTTCATTT-CGCGTTGCGATTCTCTCA
1 TTGCGATAGTCATTTCCGCGTTGCGATTCTCTCA
*
37050 TTGCGATAGTCATTTCCGCGTTGTGATTCTC
1 TTGCGATAGTCATTTCCGCGTTGCGATTCTC
37081 ATTATCTCGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 13 0.48
34 14 0.52
ACGTcount: A:0.12, C:0.23, G:0.20, T:0.44
Consensus pattern (34 bp):
TTGCGATAGTCATTTCCGCGTTGCGATTCTCTCA
Found at i:39278 original size:21 final size:21
Alignment explanation
Indices: 39254--39320 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
39244 TCATTCCTCG
39254 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
39275 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
39296 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
39317 AGAG
1 AGAG
39321 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:39278 original size:42 final size:42
Alignment explanation
Indices: 39227--39320 Score: 102
Period size: 42 Copynumber: 2.2 Consensus size: 42
39217 CCAATCCTAT
* *
39227 CGTTGAAGAGGCCCCTATCATTCCTCG-AGA-GTCCCCTCCCAC
1 CGTTCAAGAGGCCACTATCA-TCCTCGAAGAGGT-CCCTCCCAC
* * *
39269 CGTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCCAC
1 CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
*
39311 CATTCAAGAG
1 CGTTCAAGAG
39321 CCCGATTCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
41 4 0.09
42 38 0.86
43 2 0.05
ACGTcount: A:0.22, C:0.35, G:0.21, T:0.21
Consensus pattern (42 bp):
CGTTCAAGAGGCCACTATCATCCTCGAAGAGGTCCCTCCCAC
Found at i:40696 original size:13 final size:15
Alignment explanation
Indices: 40670--40706 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
40660 GATTGTTTAA
40670 TTGATTTGTAAAAAG
1 TTGATTTGTAAAAAG
40685 -TGATTTGT-AAAAG
1 TTGATTTGTAAAAAG
40698 TTGATTTGT
1 TTGATTTGT
40707 TTAATTGATG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 16 0.76
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (15 bp):
TTGATTTGTAAAAAG
Found at i:40931 original size:19 final size:19
Alignment explanation
Indices: 40909--40954 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
40899 TAGCAACGAC
*
40909 AAAATCGCAACGCAAAACT
1 AAAATCGCAACACAAAACT
* *
40928 AAAATCGTAACACGAAACT
1 AAAATCGCAACACAAAACT
*
40947 AAATTCGC
1 AAAATCGC
40955 GTTGCGATTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.50, C:0.24, G:0.11, T:0.15
Consensus pattern (19 bp):
AAAATCGCAACACAAAACT
Found at i:40932 original size:33 final size:33
Alignment explanation
Indices: 40813--40931 Score: 148
Period size: 33 Copynumber: 3.6 Consensus size: 33
40803 AAAAAATACT
* *
40813 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAACGCGAAATAAAAATCGCAACGAGAGA
* *
40846 ATCACAACGCGAAATAAAAATCGCAATGAGAGA
1 ATCGCAACGCGAAATAAAAATCGCAACGAGAGA
* * * *
40879 ATCGCAACGCGAAATGAAAATAGCAACGACAAA
1 ATCGCAACGCGAAATAAAAATCGCAACGAGAGA
*
40912 ATCGCAACGCAAAACTAAAA
1 ATCGCAACGCGAAA-TAAAA
40932 TCGTAACACG
Statistics
Matches: 73, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
33 69 0.95
34 4 0.05
ACGTcount: A:0.50, C:0.20, G:0.18, T:0.11
Consensus pattern (33 bp):
ATCGCAACGCGAAATAAAAATCGCAACGAGAGA
Found at i:40978 original size:19 final size:19
Alignment explanation
Indices: 40950--41047 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
40940 CGAAACTAAA
*
40950 TTCGCGTTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
40969 TTCGCATTGCGA-----AA
1 TTCGCATTGCGATTTTCAT
* *
40983 TTCGCGTTGCAATTTTCAT
1 TTCGCATTGCGATTTTCAT
*
41002 TTCGCATTGGGA--TTC-T
1 TTCGCATTGCGATTTTCAT
*
41018 CTCG--TTGCGATTTTCAT
1 TTCGCATTGCGATTTTCAT
41035 TTCGCATTGCGAT
1 TTCGCATTGCGAT
41048 AGTAATTTCC
Statistics
Matches: 58, Mismatches: 11, Indels: 20
0.65 0.12 0.22
Matches are distributed among these distances:
14 16 0.28
16 7 0.12
17 7 0.12
19 28 0.48
ACGTcount: A:0.15, C:0.21, G:0.20, T:0.43
Consensus pattern (19 bp):
TTCGCATTGCGATTTTCAT
Found at i:40989 original size:33 final size:33
Alignment explanation
Indices: 40947--41046 Score: 148
Period size: 33 Copynumber: 3.0 Consensus size: 33
40937 ACACGAAACT
40947 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
*
40980 AAATTCGCGTTGCAATTTTCATTTCGCATTG-G
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
* * *
41012 GATTCTCTCGTTGCGATTTTCATTTCGCATTGCG
1 AAAT-TCGCGTTGCGATTTTCATTTCGCATTGCG
41046 A
1 A
41047 TAGTAATTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
32 3 0.05
33 55 0.93
34 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.20, T:0.41
Consensus pattern (33 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCG
Found at i:43356 original size:12 final size:12
Alignment explanation
Indices: 43338--43374 Score: 65
Period size: 12 Copynumber: 3.1 Consensus size: 12
43328 TCTTCGGGGA
43338 CTTTTTCTTCTT
1 CTTTTTCTTCTT
*
43350 TTTTTTCTTCTT
1 CTTTTTCTTCTT
43362 CTTTTTCTTCTT
1 CTTTTTCTTCTT
43374 C
1 C
43375 AGGATTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:43360 original size:15 final size:15
Alignment explanation
Indices: 43342--43374 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
43332 CGGGGACTTT
*
43342 TTCTTCTTTTTTTTC
1 TTCTTCTTTTTCTTC
43357 TTCTTCTTTTTCTTC
1 TTCTTCTTTTTCTTC
43372 TTC
1 TTC
43375 AGGATTATAT
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:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (15 bp):
TTCTTCTTTTTCTTC
Found at i:44412 original size:20 final size:21
Alignment explanation
Indices: 44387--44438 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
44377 TTTTCCTAAT
*
44387 TCGCAATGCGAATAAGTAA-A
1 TCGCAATGCGAATAAGGAATA
* **
44407 TCGCAATACGAATTTGGAATA
1 TCGCAATGCGAATAAGGAATA
44428 TCGCAATGCGA
1 TCGCAATGCGA
44439 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATAAGGAATA
Found at i:44460 original size:20 final size:20
Alignment explanation
Indices: 44426--44505 Score: 54
Period size: 20 Copynumber: 4.0 Consensus size: 20
44416 GAATTTGGAA
* *
44426 TATCGCAATGCGATACTGAC
1 TATCGCAACGAGATACTGAC
*
44446 TATCGCAACGAGATAGT-AC
1 TATCGCAACGAGATACTGAC
* * *
44465 AAAATCGCAACAAGATTCTGAC
1 --TATCGCAACGAGATACTGAC
* * *
44487 TTTCGTAACGAGATTCTGA
1 TATCGCAACGAGATACTGA
44506 AAATCGCAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
19 2 0.04
20 29 0.63
21 13 0.28
22 2 0.04
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (20 bp):
TATCGCAACGAGATACTGAC
Found at i:44778 original size:19 final size:20
Alignment explanation
Indices: 44728--44772 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
44718 CAACGGGGAA
44728 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
44748 ATCGCAACGCGAAAATGGCT
1 ATCGCAACGCGAAAATGGCT
44768 -TCGCA
1 ATCGCA
44773 TTGCGATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGGCT
Found at i:46403 original size:41 final size:42
Alignment explanation
Indices: 46349--46440 Score: 132
Period size: 42 Copynumber: 2.2 Consensus size: 42
46339 CCTCTTCAAC
* *
46349 GATGACAGTGGCCTCTTGAACG-GTGGGGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
* *
46390 GATGATAGGGGCCTCTTGAACGATTGGAGGGGACTCTTGAGG
1 GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
*
46432 AATGACAGG
1 GATGACAGG
46441 TGAGTCGGGC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 20 0.45
42 24 0.55
ACGTcount: A:0.22, C:0.15, G:0.41, T:0.22
Consensus pattern (42 bp):
GATGACAGGGGCCTCTTGAACGAGTGGAGGGGACTCTTGAGG
Found at i:46838 original size:19 final size:20
Alignment explanation
Indices: 46795--46839 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
46785 CGCAACACGA
46795 AAATGACTATCACAACGCGG
1 AAATGACTATCACAACGCGG
* * *
46815 AAATGGCTATCGCAATGC-G
1 AAATGACTATCACAACGCGG
46834 AAATGA
1 AAATGA
46840 AAATTGCAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.40, C:0.20, G:0.22, T:0.18
Consensus pattern (20 bp):
AAATGACTATCACAACGCGG
Found at i:46940 original size:33 final size:33
Alignment explanation
Indices: 46898--46991 Score: 143
Period size: 33 Copynumber: 2.8 Consensus size: 33
46888 ACACAAATTG
**
46898 CATTGCGATTTTCATTTCGTGCTGCGATTTTGT
1 CATTGCGATTTTCATTTCGCACTGCGATTTTGT
*
46931 CATTGCGATTTTCATTTCGCATTGCGATTTTGT
1 CATTGCGATTTTCATTTCGCACTGCGATTTTGT
* *
46964 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CATTGCGATTTTCATTTCGCACTGCGAT
46992 AGCCATTTCC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.14, C:0.19, G:0.20, T:0.47
Consensus pattern (33 bp):
CATTGCGATTTTCATTTCGCACTGCGATTTTGT
Found at i:46955 original size:19 final size:19
Alignment explanation
Indices: 46931--46991 Score: 78
Period size: 19 Copynumber: 3.5 Consensus size: 19
46921 GCGATTTTGT
46931 CATTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
*
46950 CATTGCGA-TTT--TGTCG
1 CATTGCGATTTTCATTTCG
46966 --TTGCGATTTTCATTTCG
1 CATTGCGATTTTCATTTCG
46983 CATTGCGAT
1 CATTGCGAT
46992 AGCCATTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
14 6 0.17
15 3 0.09
16 4 0.11
17 4 0.11
18 3 0.09
19 15 0.43
ACGTcount: A:0.15, C:0.20, G:0.20, T:0.46
Consensus pattern (19 bp):
CATTGCGATTTTCATTTCG
Found at i:46998 original size:19 final size:19
Alignment explanation
Indices: 46976--47019 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
46966 TTGCGATTTT
46976 CATTTCGCA-TTGCGATAGC
1 CATTTC-CACTTGCGATAGC
*
46995 CATTTCCACGTTGCGATAGT
1 CATTTCCAC-TTGCGATAGC
47015 CATTT
1 CATTT
47020 TCGTGTTGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 2 0.09
19 6 0.27
20 14 0.64
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.36
Consensus pattern (19 bp):
CATTTCCACTTGCGATAGC
Found at i:47588 original size:18 final size:18
Alignment explanation
Indices: 47565--47612 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
47555 CGGGTCGATC
47565 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
47583 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
47601 AGGTGATGGCTC
1 AGGTGATGGCTC
47613 CCGAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:48957 original size:20 final size:20
Alignment explanation
Indices: 48932--48969 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
48922 AATAGTTTCT
48932 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
48952 GAAAATGAAAATCGCAAC
1 GAAAATGAAAATCGCAAC
48970 GCAAATTTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.55, C:0.18, G:0.16, T:0.11
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:49271 original size:20 final size:20
Alignment explanation
Indices: 49246--49295 Score: 73
Period size: 22 Copynumber: 2.4 Consensus size: 20
49236 TCTGAGAGAT
49246 GGAGATGGACGGATTTCGCC
1 GGAGATGGACGGATTTCGCC
*
49266 GGAGATGGGGACGGATTTCGTC
1 GGAGAT--GGACGGATTTCGCC
49288 GGAGATGG
1 GGAGATGG
49296 GTGAGAGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 8 0.30
22 19 0.70
ACGTcount: A:0.20, C:0.14, G:0.46, T:0.20
Consensus pattern (20 bp):
GGAGATGGACGGATTTCGCC
Found at i:49280 original size:22 final size:22
Alignment explanation
Indices: 49252--49296 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
49242 AGATGGAGAT
49252 GGACGGATTTCGCCGGAGATGG
1 GGACGGATTTCGCCGGAGATGG
*
49274 GGACGGATTTCGTCGGAGATGG
1 GGACGGATTTCGCCGGAGATGG
49296 G
1 G
49297 TGAGAGAGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.16, G:0.47, T:0.20
Consensus pattern (22 bp):
GGACGGATTTCGCCGGAGATGG
Found at i:49514 original size:20 final size:20
Alignment explanation
Indices: 49489--49555 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
49479 GTATTATCTC
*
49489 GTTGCGAAAGTCAGTATTGA
1 GTTGCGAAAGTCAGTATCGA
* *
49509 GTTGCGAAATTAAGTATCGA
1 GTTGCGAAAGTCAGTATCGA
*
49529 GTTGCGAAAGTCAGTATCGC
1 GTTGCGAAAGTCAGTATCGA
49549 GTTGCGA
1 GTTGCGA
49556 TTTTGTATTA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.28
Consensus pattern (20 bp):
GTTGCGAAAGTCAGTATCGA
Found at i:49619 original size:21 final size:21
Alignment explanation
Indices: 49590--49661 Score: 117
Period size: 21 Copynumber: 3.4 Consensus size: 21
49580 TCATGCCTCG
*
49590 TTGCGATTTTCCAAATTCGCA
1 TTGCAATTTTCCAAATTCGCA
49611 TTGCAATTTTCCAAATTCGCA
1 TTGCAATTTTCCAAATTCGCA
* *
49632 TTGCGATTTTCAAAATTCGCA
1 TTGCAATTTTCCAAATTCGCA
49653 TTGCAATTT
1 TTGCAATTT
49662 ACTTATTCGC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.40
Consensus pattern (21 bp):
TTGCAATTTTCCAAATTCGCA
Found at i:49649 original size:42 final size:41
Alignment explanation
Indices: 49590--49678 Score: 133
Period size: 42 Copynumber: 2.1 Consensus size: 41
49580 TCATGCCTCG
* *
49590 TTGCGATTTTCCAAATTCGCATTGCAATTTTCCAAATTCGCA
1 TTGCGATTTTCAAAATTCGCATTGCAA-TTTACAAATTCGCA
**
49632 TTGCGATTTTCAAAATTCGCATTGCAATTTACTTATTCGCA
1 TTGCGATTTTCAAAATTCGCATTGCAATTTACAAATTCGCA
49673 TTGCGA
1 TTGCGA
49679 ATTGGGAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 17 0.40
42 26 0.60
ACGTcount: A:0.26, C:0.21, G:0.13, T:0.39
Consensus pattern (41 bp):
TTGCGATTTTCAAAATTCGCATTGCAATTTACAAATTCGCA
Found at i:49671 original size:20 final size:20
Alignment explanation
Indices: 49601--49681 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 20
49591 TGCGATTTTC
*
49601 CAAATTCGCATTGCAATTTTC
1 CAAATTCGCATTGCAA-TTTA
* *
49622 CAAATTCGCATTGCGATTTT
1 CAAATTCGCATTGCAATTTA
49642 CAAAATTCGCATTGCAATTTA
1 C-AAATTCGCATTGCAATTTA
**
49663 CTTATTCGCATTGCGAATT
1 CAAATTCGCATTGC-AATT
49682 GGGAAAAGAG
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
20 15 0.29
21 37 0.71
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.38
Consensus pattern (20 bp):
CAAATTCGCATTGCAATTTA
Found at i:49819 original size:20 final size:20
Alignment explanation
Indices: 49774--49819 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
49764 GACCAACAAA
*
49774 ATCGCAATGCGATCGCTAAT
1 ATCGCAACGCGATCGCTAAT
* *
49794 -TCGCAACGCGATCTCTATT
1 ATCGCAACGCGATCGCTAAT
49813 ATCGCAA
1 ATCGCAA
49820 ATCAGTTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATCGCTAAT
Found at i:49905 original size:21 final size:21
Alignment explanation
Indices: 49854--49906 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
49844 ATTATGACTA
49854 TCGCAATGCGATTTTCCAATT
1 TCGCAATGCGATTTTCCAATT
**
49875 TCGCGTTGCGATTTTCCCAA-T
1 TCGCAATGCGATTTT-CCAATT
49896 TCGCAATGCGA
1 TCGCAATGCGA
49907 ATTTGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCAATGCGATTTTCCAATT
Found at i:49923 original size:21 final size:21
Alignment explanation
Indices: 49899--49959 Score: 63
Period size: 20 Copynumber: 3.0 Consensus size: 21
49889 TCCCAATTCG
49899 CAATGCGAATTTGGAAAATCA
1 CAATGCGAATTTGGAAAATCA
* ** *
49920 CAATGCG-ATACT-GACTATCG
1 CAATGCGAAT-TTGGAAAATCA
49940 CAATGCGAATTTGGAAAATC
1 CAATGCGAATTTGGAAAATC
49960 GCAACGCGGT
Statistics
Matches: 30, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 15 0.50
21 15 0.50
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.25
Consensus pattern (21 bp):
CAATGCGAATTTGGAAAATCA
Found at i:49945 original size:20 final size:20
Alignment explanation
Indices: 49920--50091 Score: 66
Period size: 20 Copynumber: 8.4 Consensus size: 20
49910 TGGAAAATCA
49920 CAATGCGATACTGACTATCG
1 CAATGCGATACTGACTATCG
* **
49940 CAATGCGA-ATTTGGAAAATCG
1 CAATGCGATA-CT-GACTATCG
* *
49961 CAACGCGGTACTGACTATCG
1 CAATGCGATACTGACTATCG
* * *
49981 CAACGCGATAAT-ACAAAATCG
1 CAATGCGATACTGAC--TATCG
* * *
50002 CAACGCAATACTGACTTTCG
1 CAATGCGATACTGACTATCG
* * *
50022 CAACT-CGATACTTAATTTCG
1 CAA-TGCGATACTGACTATCG
* *
50042 CAACT-CAATACTGACTTTCG
1 CAA-TGCGATACTGACTATCG
* * *
50062 CAACGAGATAAT-ACATAATCG
1 CAATGCGATACTGAC-T-ATCG
50083 CAATGCGAT
1 CAATGCGAT
50092 TTTCAAAGCG
Statistics
Matches: 113, Mismatches: 29, Indels: 19
0.70 0.18 0.12
Matches are distributed among these distances:
19 5 0.04
20 68 0.60
21 37 0.33
22 3 0.03
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (20 bp):
CAATGCGATACTGACTATCG
Found at i:49948 original size:41 final size:41
Alignment explanation
Indices: 49896--50024 Score: 152
Period size: 41 Copynumber: 3.1 Consensus size: 41
49886 TTTTCCCAAT
*
49896 TCGCAATGCGAATTTGGAAAATCACAATGCGATACTGACTA
1 TCGCAATGCGAATTTGGAAAATCACAACGCGATACTGACTA
* *
49937 TCGCAATGCGAATTTGGAAAATCGCAACGCGGTACTGACTA
1 TCGCAATGCGAATTTGGAAAATCACAACGCGATACTGACTA
* * ** * * *
49978 TCGCAACGCG-ATAATACAAAATCGCAACGCAATACTGACTT
1 TCGCAATGCGAAT-TTGGAAAATCACAACGCGATACTGACTA
50019 TCGCAA
1 TCGCAA
50025 CTCGATACTT
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 2 0.03
41 75 0.97
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.22
Consensus pattern (41 bp):
TCGCAATGCGAATTTGGAAAATCACAACGCGATACTGACTA
Found at i:49962 original size:21 final size:21
Alignment explanation
Indices: 49896--49963 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
49886 TTTTCCCAAT
49896 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
* * **
49917 TCACAATGCG-ATACT-GACTA
1 TCGCAATGCGAAT-TTGGAAAA
49937 TCGCAATGCGAATTTGGAAAA
1 TCGCAATGCGAATTTGGAAAA
49958 TCGCAA
1 TCGCAA
49964 CGCGGTACTG
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
20 15 0.42
21 21 0.58
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.24
Consensus pattern (21 bp):
TCGCAATGCGAATTTGGAAAA
Found at i:50025 original size:41 final size:41
Alignment explanation
Indices: 49954--50085 Score: 158
Period size: 41 Copynumber: 3.2 Consensus size: 41
49944 GCGAATTTGG
** *
49954 AAAATCGCAACGCGGTACTGACTATCGCAACGCGATAATAC
1 AAAATCGCAACGCAATACTGACTTTCGCAACGCGATAATAC
* * *
49995 AAAATCGCAACGCAATACTGACTTTCGCAACTCGATACT-T
1 AAAATCGCAACGCAATACTGACTTTCGCAACGCGATAATAC
** * *
50035 AATTTCGCAACTCAATACTGACTTTCGCAACGAGATAATAC
1 AAAATCGCAACGCAATACTGACTTTCGCAACGCGATAATAC
*
50076 ATAATCGCAA
1 AAAATCGCAA
50086 TGCGATTTTC
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
40 33 0.45
41 41 0.55
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGCAATACTGACTTTCGCAACGCGATAATAC
Found at i:50285 original size:22 final size:22
Alignment explanation
Indices: 50258--50301 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
50248 CACTCTCTCA
*
50258 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
*
50280 CCCATCTCCGGCAAAATCCGTC
1 CCCATCTCCGACAAAATCCGTC
50302 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.45, G:0.14, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACAAAATCCGTC
Found at i:50602 original size:20 final size:20
Alignment explanation
Indices: 50579--50621 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
50569 GATAGTCAAA
50579 TTCGCGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
*
50599 TTCGTGTTGCGATTTTCATT
1 TTCGCGTTGCGATTTTCATT
50619 TTC
1 TTC
50622 AGAAACTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.19, T:0.53
Consensus pattern (20 bp):
TTCGCGTTGCGATTTTCATT
Found at i:50812 original size:25 final size:24
Alignment explanation
Indices: 50758--50812 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
50748 TTTTTATTAT
* *
50758 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
50782 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
50808 TGTTT
1 TGTTT
50813 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:51964 original size:18 final size:18
Alignment explanation
Indices: 51943--51990 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
51933 TCCACTTCGG
51943 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
51961 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
51979 GAGCCATCACCT
1 GAGCCATCACCT
51991 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:52579 original size:19 final size:20
Alignment explanation
Indices: 52525--52591 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
52515 TAGTTTACTT
* *
52525 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
52545 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
52565 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
52584 TCGCAACG
1 TCGCAACG
52592 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:52618 original size:19 final size:19
Alignment explanation
Indices: 52525--52627 Score: 72
Period size: 19 Copynumber: 5.6 Consensus size: 19
52515 TAGTTTACTT
* **
52525 TCGCAACACGAAAATGACTA
1 TCGCAACGCG-AAATGAAAA
***
52545 TCGCAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
52565 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
52584 TCGCAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
52598 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
52617 TCGCAATGCGA
1 TCGCAACGCGA
52628 TTTGTGTTTC
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
14 10 0.15
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 27 0.40
20 24 0.35
21 1 0.01
ACGTcount: A:0.42, C:0.23, G:0.21, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:52704 original size:19 final size:19
Alignment explanation
Indices: 52680--52823 Score: 226
Period size: 19 Copynumber: 7.8 Consensus size: 19
52670 GTCGTTGCGA
52680 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
52699 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
*
52718 GAAAATCGCAATGTGAAAT
1 GAAAATCGCAATGCGAAAT
* *
52737 GAAAATGGAAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
52756 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
52775 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
52794 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
52808 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
52824 TTTTCATTTC
Statistics
Matches: 116, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
14 11 0.09
15 1 0.01
16 2 0.02
17 2 0.02
19 100 0.86
ACGTcount: A:0.48, C:0.15, G:0.22, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:52873 original size:20 final size:20
Alignment explanation
Indices: 52850--52917 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
52840 CGATTTTCTA
52850 GTTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
* *** *
52870 GTTGTGATTTTTCA-TTTCGA
1 GTTGCGA-TAGCCATTTTCGC
*
52890 ATTGCGATAGCCATTTTCGC
1 GTTGCGATAGCCATTTTCGC
52910 GTTGCGAT
1 GTTGCGAT
52918 TTCCCCGTTG
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.16, C:0.19, G:0.24, T:0.41
Consensus pattern (20 bp):
GTTGCGATAGCCATTTTCGC
Found at i:53197 original size:20 final size:20
Alignment explanation
Indices: 53140--53218 Score: 79
Period size: 20 Copynumber: 3.9 Consensus size: 20
53130 ATTGCAATTT
* *
53140 TCAGAATCTCATTGCGAAAG
1 TCAGAATCGCATTGCGATAG
* *
53160 TCAGAATCTCGTTGCGATAG
1 TCAGAATCGCATTGCGATAG
* *
53180 TCAGTATCGCATTGCGATAT
1 TCAGAATCGCATTGCGATAG
53200 TCCA-AATTCGCATTGCGAT
1 T-CAGAA-TCGCATTGCGAT
53219 TTACTTATTC
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
20 36 0.72
21 14 0.28
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (20 bp):
TCAGAATCGCATTGCGATAG
Found at i:53230 original size:20 final size:21
Alignment explanation
Indices: 53186--53241 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
53176 ATAGTCAGTA
*
53186 TCGCATTGCGATATTCCAAAT
1 TCGCATTGCGATATTACAAAT
**
53207 TCGCATTGCGAT-TTACTTAT
1 TCGCATTGCGATATTACAAAT
53227 TCGCATTGCGA-ATTA
1 TCGCATTGCGATATTA
53242 GGAAAATCGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.25, C:0.21, G:0.16, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATATTACAAAT
Found at i:53470 original size:12 final size:12
Alignment explanation
Indices: 53434--53467 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
53424 CTCTCCGGCG
53434 ACATCCGTTCCT
1 ACATCCGTTCCT
*
53446 ATATCCGTTCCT
1 ACATCCGTTCCT
53458 ACATCC-TTCC
1 ACATCCGTTCC
53468 CTATCCGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (12 bp):
ACATCCGTTCCT
Found at i:54073 original size:24 final size:24
Alignment explanation
Indices: 54022--54075 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
54012 GTATTCGAAA
*
54022 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCAGAC
* *
54046 TTTGATAC-TGGTCAATACTCAGAT
1 TTTGAT-CTTGGTCAATACCCAGAC
54070 TTTGAT
1 TTTGAT
54076 GATGTTTCAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 25 0.96
25 1 0.04
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.39
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCAGAC
Found at i:54267 original size:12 final size:12
Alignment explanation
Indices: 54250--54274 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54240 ATATAATCCT
54250 GAAGAAGAAAAA
1 GAAGAAGAAAAA
54262 GAAGAAGAAAAA
1 GAAGAAGAAAAA
54274 G
1 G
54275 TCCCCGAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:56612 original size:33 final size:33
Alignment explanation
Indices: 56569--56691 Score: 167
Period size: 33 Copynumber: 3.7 Consensus size: 33
56559 ATTACTATCG
* * *
56569 CAATGTGAAATGAAAATCACAACGAGAGAATCC
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCA
* * *
56602 CAATGCGAAATGAAAATCGCAACGCGA-ATTTCG
1 CAATGCGAAATGAAAATCGCAACGAGAGA-ATCA
*
56635 CAATGCGAAATGAAAATCGCAACGAGGGAATCA
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCA
56668 CAATGCGAAATGAAAATCGCAACG
1 CAATGCGAAATGAAAATCGCAACG
56692 CGAATTCAGT
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
32 1 0.01
33 77 0.97
34 1 0.01
ACGTcount: A:0.45, C:0.20, G:0.21, T:0.15
Consensus pattern (33 bp):
CAATGCGAAATGAAAATCGCAACGAGAGAATCA
Found at i:56628 original size:19 final size:19
Alignment explanation
Indices: 56606--56695 Score: 56
Period size: 19 Copynumber: 5.3 Consensus size: 19
56596 GAATCCCAAT
56606 GCGAAATGAAAATCGCAAC
1 GCGAAATGAAAATCGCAAC
* *
56625 GCG-AAT----TTCGCAAT
1 GCGAAATGAAAATCGCAAC
56639 GCGAAATGAAAATCGCAA-
1 GCGAAATGAAAATCGCAAC
** * *
56657 -CG--A-GGGAATCACAAT
1 GCGAAATGAAAATCGCAAC
56672 GCGAAATGAAAATCGCAAC
1 GCGAAATGAAAATCGCAAC
56691 GCGAA
1 GCGAA
56696 TTCAGTTTCA
Statistics
Matches: 51, Mismatches: 10, Indels: 20
0.63 0.12 0.25
Matches are distributed among these distances:
14 17 0.33
15 4 0.08
16 2 0.04
17 2 0.04
18 4 0.08
19 22 0.43
ACGTcount: A:0.43, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
GCGAAATGAAAATCGCAAC
Found at i:56649 original size:66 final size:66
Alignment explanation
Indices: 56566--56697 Score: 228
Period size: 66 Copynumber: 2.0 Consensus size: 66
56556 GAAATTACTA
* *
56566 TCGCAATGTGAAATGAAAATCACAACGAGAGAATCCCAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCACAACGAGAGAATCACAATGCGAAATGAAAATCGCAACGCGAAT
56631 T
66 T
* *
56632 TCGCAATGCGAAATGAAAATCGCAACGAGGGAATCACAATGCGAAATGAAAATCGCAACGCGAAT
1 TCGCAATGCGAAATGAAAATCACAACGAGAGAATCACAATGCGAAATGAAAATCGCAACGCGAAT
56697 T
66 T
56698 CAGTTTCACG
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.43, C:0.20, G:0.21, T:0.16
Consensus pattern (66 bp):
TCGCAATGCGAAATGAAAATCACAACGAGAGAATCACAATGCGAAATGAAAATCGCAACGCGAAT
T
Found at i:56713 original size:19 final size:19
Alignment explanation
Indices: 56691--56732 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
56681 AAATCGCAAC
56691 GCGAATTCAGTTTCACGTT
1 GCGAATTCAGTTTCACGTT
* * *
56710 GCGATTTTAGTTTCGCGTT
1 GCGAATTCAGTTTCACGTT
56729 GCGA
1 GCGA
56733 TTTTGTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (19 bp):
GCGAATTCAGTTTCACGTT
Found at i:56733 original size:19 final size:19
Alignment explanation
Indices: 56699--56767 Score: 78
Period size: 19 Copynumber: 3.9 Consensus size: 19
56689 ACGCGAATTC
*
56699 AGTTTCACGTTGCGATTTT
1 AGTTTCGCGTTGCGATTTT
56718 AGTTTCGCGTTGCGATTTT
1 AGTTTCGCGTTGCGATTTT
56737 -G--T--CGTTGCGATTTT
1 AGTTTCGCGTTGCGATTTT
56751 CA-TTTCGCGTTGCGATT
1 -AGTTTCGCGTTGCGATT
56768 CTCTCATTGC
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
14 12 0.28
16 1 0.02
17 1 0.02
18 1 0.02
19 28 0.65
ACGTcount: A:0.12, C:0.17, G:0.25, T:0.46
Consensus pattern (19 bp):
AGTTTCGCGTTGCGATTTT
Found at i:56748 original size:33 final size:33
Alignment explanation
Indices: 56706--56799 Score: 136
Period size: 33 Copynumber: 2.8 Consensus size: 33
56696 TTCAGTTTCA
* *
56706 CGTTGCGATTTT-AGTTTCGCGTTGCGATTTTGT
1 CGTTGCGATTTTCA-TTTCGCGTTGCGATTCTCT
56739 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
* *
56772 CATTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCGTTGCGAT
56800 AGTATTTTTT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
33 55 0.98
34 1 0.02
ACGTcount: A:0.12, C:0.20, G:0.22, T:0.46
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
Found at i:56796 original size:19 final size:19
Alignment explanation
Indices: 56741--56799 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
56731 GATTTTGTCG
*
56741 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
*
56760 TTGCGA--TTC---TCTCA
1 TTGCGATTTTCATTTCGCA
56774 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
56793 TTGCGAT
1 TTGCGAT
56800 AGTATTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
14 9 0.28
16 3 0.09
17 3 0.09
19 17 0.53
ACGTcount: A:0.14, C:0.22, G:0.19, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:56925 original size:14 final size:14
Alignment explanation
Indices: 56906--56942 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
56896 CATCAATTAA
56906 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
56920 ACAAATCACCTTTT
1 ACAAATCAACTTTT
56934 ACAAATCAA
1 ACAAATCAA
56943 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:58357 original size:21 final size:21
Alignment explanation
Indices: 58291--58357 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
58281 GTGAATCGGG
*
58291 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
58311 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
58333 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
58354 CTCT
1 CTCT
58358 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:58376 original size:42 final size:41
Alignment explanation
Indices: 58291--58413 Score: 104
Period size: 42 Copynumber: 2.9 Consensus size: 41
58281 GTGAATCGGG
* *
58291 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCAACGATGACAGGGGC
* * *
58333 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCAACG-ATGACAGGGGC
* * * * * *
58375 CTCTTCAACGATAGGAGTGGACTCTTAAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCAA-CGATGACAGG
58414 TGAGTCGGGC
Statistics
Matches: 66, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
41 4 0.06
42 56 0.85
43 6 0.09
ACGTcount: A:0.24, C:0.19, G:0.36, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCAACGATGACAGGGGC
Found at i:58810 original size:91 final size:93
Alignment explanation
Indices: 58631--58813 Score: 284
Period size: 91 Copynumber: 2.0 Consensus size: 93
58621 ATTTCAAACT
58631 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAATGTTAAAGAATACACAGTTTAGC
1 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAATGTTAAAGAATACACAGTTTAGC
58696 AGAATTGGCAGCAACCGAATAAATTTAC
66 AGAATTGGCAGCAACCGAATAAATTTAC
* *
58724 TTCAACCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAA-ACA-A-TTTA
1 TTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAATGTTAAAGAATACACAGTTTA
* *
58785 GCAGTATTGGCAGTAACCGAATAAATTTA
64 GCAGAATTGGCAGCAACCGAATAAATTTA
58814 TTAAGCAATC
Statistics
Matches: 84, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
91 31 0.37
92 1 0.01
93 22 0.26
94 4 0.05
95 26 0.31
ACGTcount: A:0.49, C:0.18, G:0.11, T:0.22
Consensus pattern (93 bp):
TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAATGTTAAAGAATACACAGTTTAGC
AGAATTGGCAGCAACCGAATAAATTTAC
Found at i:60545 original size:40 final size:37
Alignment explanation
Indices: 60501--60646 Score: 112
Period size: 33 Copynumber: 4.1 Consensus size: 37
60491 TCTTTTGGTT
60501 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACG-GA-AATGAGAATCGCAACGC
*** *
60540 GGAAATGCCTATCGCAAC-G--A-GAGAATCGTAACGC
1 -GAAATGAAAATCGCAACGGAAATGAGAATCGCAACGC
*
60574 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACG-GAAATGAGAATCGCAACGC
* * *
60610 G--AT-AGAATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACG-GAAATGAGAATCGCAACGC
60645 GA
1 GA
60647 TTTTGGTTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 20
0.75 0.08 0.17
Matches are distributed among these distances:
33 42 0.48
34 15 0.17
35 4 0.05
36 2 0.02
37 1 0.01
38 10 0.11
40 14 0.16
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (37 bp):
GAAATGAAAATCGCAACGGAAATGAGAATCGCAACGC
Found at i:60591 original size:19 final size:19
Alignment explanation
Indices: 60501--60646 Score: 123
Period size: 19 Copynumber: 8.1 Consensus size: 19
60491 TCTTTTGGTT
*
60501 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
60520 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
***
60540 GGAAATGCCTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
* *
60558 G--A-GAGAATCGTAACGC
1 GAAATGAAAATCGCAACGC
60574 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
60593 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
60610 G--AT-AGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
60626 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
60645 GA
1 GA
60647 TTTTGGTTTT
Statistics
Matches: 101, Mismatches: 14, Indels: 24
0.73 0.10 0.17
Matches are distributed among these distances:
14 16 0.16
15 3 0.03
16 4 0.04
17 3 0.03
18 4 0.04
19 43 0.43
20 26 0.26
21 2 0.02
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:60617 original size:52 final size:52
Alignment explanation
Indices: 60509--60646 Score: 186
Period size: 52 Copynumber: 2.6 Consensus size: 52
60499 TTGAAATGAA
* * ***
60509 AATCGCAACGAGATAATGAGAATCGCAACGCGGAAATGCCTATCGCAACGAGAG
1 AATCGCAACGCGA-AATGAAAATCGCAACGC-GAAATGAAAATCGCAACGAGAG
* *
60563 AATCGTAACGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGATAG
1 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAG
*
60615 AATCGCAACGCGAAATGAAAATCGCAATGCGA
1 AATCGCAACGCGAAATGAAAATCGCAACGCGA
60647 TTTTGGTTTT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
52 48 0.64
53 16 0.21
54 11 0.15
ACGTcount: A:0.43, C:0.21, G:0.23, T:0.13
Consensus pattern (52 bp):
AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:60680 original size:19 final size:20
Alignment explanation
Indices: 60657--60708 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
60647 TTTTGGTTTT
60657 GCGTTGCGATTTTTATTT-C
1 GCGTTGCGATTTTTATTTCC
* **
60676 TCGTTGCGATAGTTATTTCC
1 GCGTTGCGATTTTTATTTCC
60696 GCGTTGCGATTTT
1 GCGTTGCGATTTT
60709 CATTCTCGAA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.12, C:0.17, G:0.23, T:0.48
Consensus pattern (20 bp):
GCGTTGCGATTTTTATTTCC
Found at i:61252 original size:20 final size:20
Alignment explanation
Indices: 61227--61338 Score: 73
Period size: 20 Copynumber: 5.5 Consensus size: 20
61217 GCTATGTAAA
61227 TCGCATTGCGATAGTAAG-AT
1 TCGCATTGCGAT-GTAAGTAT
* *
61247 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
* ***
61267 TCGCATTGCGATTTTCCTAAT
1 TCGCATTGCGATGTAAGT-AT
* * ** *
61288 TCGCATTGCAATTTACTTAA
1 TCGCATTGCGATGTAAGTAT
* * *
61308 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATGTAAGTAT
61328 TCGCATTGCGA
1 TCGCATTGCGA
61339 ATTATGAAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
19 3 0.04
20 57 0.74
21 17 0.22
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATGTAAGTAT
Found at i:61351 original size:41 final size:41
Alignment explanation
Indices: 61224--61464 Score: 172
Period size: 41 Copynumber: 5.9 Consensus size: 41
61214 GGCGCTATGT
* * * *
61224 AAATCGCATTGCGATAGTAAG-ATTCGCATTGCG-ATTTACG
1 AAATCGCATTGCGAT-TTACGTATTCGCATTGCGAATTTCCA
* * * * * *
61264 TATTCGCATTGCGATTTTCCTAATTCGCATTGC-AATTTACT
1 AAATCGCATTGCGATTTACGT-ATTCGCATTGCGAATTTCCA
* * *
61305 TAATCGCGTTGCGATTTACGTATTCGCATTGCGAATTAT-GA
1 AAATCGCATTGCGATTTACGTATTCGCATTGCGAATT-TCCA
* * * *
61346 AAATCGCAATGCGA-ATACGTAAATCGCAATGCGAATTTCCA
1 AAATCGCATTGCGATTTACGT-ATTCGCATTGCGAATTTCCA
* * *
61387 AATTCGCATTGCGATAGT-CAGTA-TCGCATTGCGATTTTCCA
1 AAATCGCATTGCGAT-TTAC-GTATTCGCATTGCGAATTTCCA
* * *
61428 AATTCGCATTGTGATTTACTTATTCGCATTGCGAATT
1 AAATCGCATTGCGATTTACGTATTCGCATTGCGAATT
61465 GGGAAAATCG
Statistics
Matches: 160, Mismatches: 29, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
39 1 0.01
40 33 0.21
41 120 0.75
42 3 0.02
43 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.35
Consensus pattern (41 bp):
AAATCGCATTGCGATTTACGTATTCGCATTGCGAATTTCCA
Found at i:61353 original size:61 final size:60
Alignment explanation
Indices: 61247--61461 Score: 184
Period size: 61 Copynumber: 3.5 Consensus size: 60
61237 ATAGTAAGAT
* * * *
61247 TCGCATTGCGATTTACGTATTCGCATTGCGATTTTCCTAATTCGCATTGCAATTTACTTAA
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTAT-CAAAATCGCATTGCAATTTACTAAA
* * *
61308 TCGCGTTGCGATTTACGTATTCGCATTGCGAATTATGAAAATCGCAATGCGAA--TACGTAAA
1 TCGCATTGCGATTTACGTATTCGCATTGCG-ATTATCAAAATCGCATTGC-AATTTAC-TAAA
* * ** ** * * *
61369 TCGCAATGCGAATTTCCAAATTCGCATTGCGA-TAGTCAGTATCGCATTGCGATTTTCCAAA
1 TCGCATTGCG-ATTTACGTATTCGCATTGCGATTA-TCAAAATCGCATTGCAATTTACTAAA
* *
61430 TTCGCATTGTGATTTACTTATTCGCATTGCGA
1 -TCGCATTGCGATTTACGTATTCGCATTGCGA
61462 ATTGGGAAAA
Statistics
Matches: 122, Mismatches: 24, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
60 6 0.05
61 83 0.68
62 33 0.27
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.35
Consensus pattern (60 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGATTATCAAAATCGCATTGCAATTTACTAAA
Found at i:61503 original size:21 final size:22
Alignment explanation
Indices: 61451--61503 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
61441 ATTTACTTAT
61451 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
**
61472 TCGCAACGCGAAATT-GGAAAA
1 TCGCATTGCGAAATTGGGAAAA
61493 TCGCATTGCGA
1 TCGCATTGCGA
61504 TAGTCATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.26, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:61714 original size:2 final size:2
Alignment explanation
Indices: 61707--61733 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
61697 GCGTGCGTGC
61707 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
61734 CACAAAACCT
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:62793 original size:2 final size:2
Alignment explanation
Indices: 62786--62812 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
62776 ACATAGTTCA
62786 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
62813 ATGTAAAATA
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:63120 original size:24 final size:23
Alignment explanation
Indices: 63087--63131 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 23
63077 CATATAAAAT
63087 TAAGAATAAAATGTGAAAAGCAACA
1 TAAGAATAAAA--TGAAAAGCAACA
63112 TAAG-ATAAAATGAAAAGCAA
1 TAAGAATAAAATGAAAAGCAA
63132 TTAGGACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 10 0.50
24 6 0.30
25 4 0.20
ACGTcount: A:0.62, C:0.07, G:0.16, T:0.16
Consensus pattern (23 bp):
TAAGAATAAAATGAAAAGCAACA
Found at i:65972 original size:17 final size:17
Alignment explanation
Indices: 65950--65991 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
65940 CTTCAGGTTG
*
65950 GACTTGTTTCTGATTAT
1 GACTTGCTTCTGATTAT
65967 GACTTGCTTCTGATTAT
1 GACTTGCTTCTGATTAT
65984 GACTTGCT
1 GACTTGCT
65992 AGCATTGGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.19, T:0.48
Consensus pattern (17 bp):
GACTTGCTTCTGATTAT
Found at i:69225 original size:2 final size:2
Alignment explanation
Indices: 69218--69250 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
69208 TAAATCTACA
69218 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
69251 AAATTTACGA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:69431 original size:13 final size:13
Alignment explanation
Indices: 69408--69472 Score: 76
Period size: 13 Copynumber: 5.0 Consensus size: 13
69398 AATGACGCTC
*
69408 AATGTGCGTCATA
1 AATGCGCGTCATA
**
69421 AATTAGCGTCATA
1 AATGCGCGTCATA
* *
69434 AATGTGTGTCATA
1 AATGCGCGTCATA
*
69447 AATGCGTGTCATA
1 AATGCGCGTCATA
69460 AATGCGCGTCATA
1 AATGCGCGTCATA
69473 GATTTATGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 45 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (13 bp):
AATGCGCGTCATA
Found at i:69432 original size:84 final size:84
Alignment explanation
Indices: 69272--69432 Score: 209
Period size: 84 Copynumber: 1.9 Consensus size: 84
69262 ATACAATCAA
* *
69272 GACACACGAATGTGTGTCATCTTTTTTAATGACGGGGGCTTCAATGACACTCAATATAAGTCATA
1 GACACACAAATGTGTGTCATCTTTTTTAATGACAGGGGCTTCAATGACACTCAATATAAGTCATA
* *
69337 CATGTGTGTCATTAATTAT
66 AATGTGCGTCATTAATTAT
* * * **
69356 GACACACAAATGTGTGTCATCTTTATTT-ATGACAGGGGTTTCAATGACGCTCAATGTGCGTCAT
1 GACACACAAATGTGTGTCATCTTT-TTTAATGACAGGGGCTTCAATGACACTCAATATAAGTCAT
69420 AAAT-TAGCGTCAT
65 AAATGT-GCGTCAT
69433 AAATGTGTGT
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
83 1 0.02
84 62 0.94
85 3 0.05
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (84 bp):
GACACACAAATGTGTGTCATCTTTTTTAATGACAGGGGCTTCAATGACACTCAATATAAGTCATA
AATGTGCGTCATTAATTAT
Found at i:69444 original size:26 final size:26
Alignment explanation
Indices: 69408--69472 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
69398 AATGACGCTC
*
69408 AATGTGCGTCATAAATTAGCGTCATA
1 AATGTGCGTCATAAATGAGCGTCATA
* * *
69434 AATGTGTGTCATAAATGCGTGTCATA
1 AATGTGCGTCATAAATGAGCGTCATA
*
69460 AATGCGCGTCATA
1 AATGTGCGTCATA
69473 GATTTATGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (26 bp):
AATGTGCGTCATAAATGAGCGTCATA
Found at i:70456 original size:17 final size:18
Alignment explanation
Indices: 70421--70456 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
70411 AGCCAACGTG
70421 CTGGAGATTAAGTAAGCA
1 CTGGAGATTAAGTAAGCA
70439 CTGGAGATTAAG-AAGCA
1 CTGGAGATTAAGTAAGCA
70456 C
1 C
70457 AAGTGGAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.39, C:0.14, G:0.28, T:0.19
Consensus pattern (18 bp):
CTGGAGATTAAGTAAGCA
Found at i:73900 original size:34 final size:34
Alignment explanation
Indices: 73861--73937 Score: 127
Period size: 34 Copynumber: 2.3 Consensus size: 34
73851 ATCAACGGGA
*
73861 TGGGGATGGGGAAGTTTTATCCCCAAAGCTTAAT
1 TGGGGATGGGGAAGTTTTATCCCCAAAGCTCAAT
*
73895 TGGGGATGGGGAAGTTTTATTCCCAAAGCTCAAT
1 TGGGGATGGGGAAGTTTTATCCCCAAAGCTCAAT
*
73929 TAGGGATGG
1 TGGGGATGG
73938 AGACGGAGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.26, C:0.13, G:0.32, T:0.29
Consensus pattern (34 bp):
TGGGGATGGGGAAGTTTTATCCCCAAAGCTCAAT
Found at i:75369 original size:31 final size:31
Alignment explanation
Indices: 75313--75377 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
75303 TTTGGTGATC
* *
75313 AAAACAGAATAAAAGTGATAATTAA-GTGACT
1 AAAACAAAATAAAAGTGACAATTAAGGT-ACT
**
75344 AAAACAAAATAAAAGTGACCGTTAAGGTACT
1 AAAACAAAATAAAAGTGACAATTAAGGTACT
75375 AAA
1 AAA
75378 CATAAACATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 27 0.93
32 2 0.07
ACGTcount: A:0.55, C:0.09, G:0.15, T:0.20
Consensus pattern (31 bp):
AAAACAAAATAAAAGTGACAATTAAGGTACT
Found at i:76038 original size:19 final size:19
Alignment explanation
Indices: 76014--76088 Score: 141
Period size: 19 Copynumber: 3.9 Consensus size: 19
76004 ATGACCAACA
*
76014 AAATCGCAATGCGATCTCT
1 AAATCGCAACGCGATCTCT
76033 AAATCGCAACGCGATCTCT
1 AAATCGCAACGCGATCTCT
76052 AAATCGCAACGCGATCTCT
1 AAATCGCAACGCGATCTCT
76071 AAATCGCAACGCGATCTC
1 AAATCGCAACGCGATCTC
76089 CAGTATCGCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
19 55 1.00
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (19 bp):
AAATCGCAACGCGATCTCT
Found at i:76185 original size:21 final size:21
Alignment explanation
Indices: 76161--76357 Score: 107
Period size: 21 Copynumber: 9.3 Consensus size: 21
76151 AAATTTGCGT
* *
76161 TGCGATTTTAGAAAATCGCAA
1 TGCGATTATACAAAATCGCAA
* **
76182 TGCGAATAT-GTAAATCGCAA
1 TGCGATTATACAAAATCGCAA
* * ** *
76202 CGCGATTCTA-ACTATCGTAA
1 TGCGATTATACAAAATCGCAA
* *
76222 CGCGATAATACAAAATCGCAA
1 TGCGATTATACAAAATCGCAA
* * **
76243 CGCGATTCTA-ACTATCGCAA
1 TGCGATTATACAAAATCGCAA
* *
76263 TGTGATAATACAAAATCGCAA
1 TGCGATTATACAAAATCGCAA
* *
76284 TGCAACGCGATTCTGAC--TATCGCAA
1 T-----GCGATTAT-ACAAAATCGCAA
*
76309 TGCGATAATACAAAATCGCAA
1 TGCGATTATACAAAATCGCAA
*
76330 TGCGATAATACAAAATCGCAA
1 TGCGATTATACAAAATCGCAA
76351 TGCGATT
1 TGCGATT
76358 TTCCAAATTC
Statistics
Matches: 132, Mismatches: 33, Indels: 22
0.71 0.18 0.12
Matches are distributed among these distances:
19 2 0.02
20 50 0.38
21 65 0.49
25 8 0.06
26 5 0.04
27 2 0.02
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.24
Consensus pattern (21 bp):
TGCGATTATACAAAATCGCAA
Found at i:76218 original size:20 final size:20
Alignment explanation
Indices: 76195--76262 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
76185 GAATATGTAA
76195 ATCGCAACGCGATTCTAACT
1 ATCGCAACGCGATTCTAACT
* ** **
76215 ATCGTAACGCGATAATACAAA
1 ATCGCAACGCGATTCTA-ACT
76236 ATCGCAACGCGATTCTAACT
1 ATCGCAACGCGATTCTAACT
76256 ATCGCAA
1 ATCGCAA
76263 TGTGATAATA
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 22 0.59
21 15 0.41
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (20 bp):
ATCGCAACGCGATTCTAACT
Found at i:76238 original size:41 final size:41
Alignment explanation
Indices: 76193--76335 Score: 196
Period size: 41 Copynumber: 3.4 Consensus size: 41
76183 GCGAATATGT
* *
76193 AAATCGCAACGCGATTCTAACTATCGTAACGCGATAATACA
1 AAATCGCAACGCGATTCTAACTATCGCAATGCGATAATACA
*
76234 AAATCGCAACGCGATTCTAACTATCGCAATGTGATAATACA
1 AAATCGCAACGCGATTCTAACTATCGCAATGCGATAATACA
*
76275 AAATCGCAATGCAACGCGATTCTGACTATCGCAATGCGATAATACA
1 AAAT--C---GCAACGCGATTCTAACTATCGCAATGCGATAATACA
*
76321 AAATCGCAATGCGAT
1 AAATCGCAACGCGAT
76336 AATACAAAAT
Statistics
Matches: 91, Mismatches: 6, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
41 51 0.56
43 1 0.01
44 1 0.01
46 38 0.42
ACGTcount: A:0.38, C:0.23, G:0.16, T:0.22
Consensus pattern (41 bp):
AAATCGCAACGCGATTCTAACTATCGCAATGCGATAATACA
Found at i:76306 original size:46 final size:46
Alignment explanation
Indices: 76198--76332 Score: 199
Period size: 46 Copynumber: 3.0 Consensus size: 46
76188 TATGTAAATC
* *
76198 GCAACGCGATTCTAACTATCGTAACGCGATAATACAAAAT--C---
1 GCAACGCGATTCTAACTATCGCAATGCGATAATACAAAATCGCAAT
*
76239 GCAACGCGATTCTAACTATCGCAATGTGATAATACAAAATCGCAAT
1 GCAACGCGATTCTAACTATCGCAATGCGATAATACAAAATCGCAAT
*
76285 GCAACGCGATTCTGACTATCGCAATGCGATAATACAAAATCGCAAT
1 GCAACGCGATTCTAACTATCGCAATGCGATAATACAAAATCGCAAT
76331 GC
1 GC
76333 GATAATACAA
Statistics
Matches: 84, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
41 37 0.44
43 1 0.01
46 46 0.55
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (46 bp):
GCAACGCGATTCTAACTATCGCAATGCGATAATACAAAATCGCAAT
Found at i:76364 original size:21 final size:21
Alignment explanation
Indices: 76223--76356 Score: 117
Period size: 21 Copynumber: 6.2 Consensus size: 21
76213 CTATCGTAAC
*
76223 GCGATAATACAAAATCGCAAC
1 GCGATAATACAAAATCGCAAT
** **
76244 GCGATTCTA-ACTATCGCAAT
1 GCGATAATACAAAATCGCAAT
*
76264 GTGATAATACAAAATCGCAAT
1 GCGATAATACAAAATCGCAAT
* ** * **
76285 GCAACGCGATTCTGACTATCGCAAT
1 GCGA--TAATAC--AAAATCGCAAT
76310 GCGATAATACAAAATCGCAAT
1 GCGATAATACAAAATCGCAAT
76331 GCGATAATACAAAATCGCAAT
1 GCGATAATACAAAATCGCAAT
76352 GCGAT
1 GCGAT
76357 TTTCCAAATT
Statistics
Matches: 85, Mismatches: 23, Indels: 10
0.72 0.19 0.08
Matches are distributed among these distances:
20 14 0.16
21 53 0.62
23 6 0.07
25 12 0.14
ACGTcount: A:0.40, C:0.22, G:0.16, T:0.22
Consensus pattern (21 bp):
GCGATAATACAAAATCGCAAT
Found at i:76381 original size:19 final size:19
Alignment explanation
Indices: 76359--76408 Score: 73
Period size: 21 Copynumber: 2.5 Consensus size: 19
76349 AATGCGATTT
*
76359 TCCAAATTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAG
76378 TCCAAGTTCACGTTGCGATAG
1 TCCAAGTT--CGTTGCGATAG
76399 TCCAAGTTCG
1 TCCAAGTTCG
76409 CGTTGCGATT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 9 0.32
21 19 0.68
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.30
Consensus pattern (19 bp):
TCCAAGTTCGTTGCGATAG
Found at i:76393 original size:21 final size:21
Alignment explanation
Indices: 76367--76417 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
76357 TTTCCAAATT
76367 CGTTGCGATAGTCCAAGTTCA
1 CGTTGCGATAGTCCAAGTTCA
*
76388 CGTTGCGATAGTCCAAGTTCG
1 CGTTGCGATAGTCCAAGTTCA
76409 CGTTGCGAT
1 CGTTGCGAT
76418 TTTGGAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.20, C:0.24, G:0.27, T:0.29
Consensus pattern (21 bp):
CGTTGCGATAGTCCAAGTTCA
Found at i:77138 original size:19 final size:19
Alignment explanation
Indices: 77111--77167 Score: 96
Period size: 19 Copynumber: 3.0 Consensus size: 19
77101 ACGTTTTTCA
* *
77111 AACTCTCGCAAAACATTTT
1 AACTATCGCAACACATTTT
77130 AACTATCGCAACACATTTT
1 AACTATCGCAACACATTTT
77149 AACTATCGCAACACATTTT
1 AACTATCGCAACACATTTT
77168 TTAAAATCGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (19 bp):
AACTATCGCAACACATTTT
Found at i:81005 original size:41 final size:41
Alignment explanation
Indices: 80948--81027 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
80938 CCGTTGAACT
*
80948 AAGTGTCCTTGCACACTGTAGTA-CTGAATTAAACCTACACA
1 AAGTGTCCTTGCACACTATAG-AGCTGAATTAAACCTACACA
*
80989 AAGTGTCCTTGCACACTATAGAGTTGAATTAAACCTACA
1 AAGTGTCCTTGCACACTATAGAGCTGAATTAAACCTACA
81028 GCTGCTAGAC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 1 0.03
41 35 0.97
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.28
Consensus pattern (41 bp):
AAGTGTCCTTGCACACTATAGAGCTGAATTAAACCTACACA
Done.