Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold21
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: 2821038
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.33
Warning! 98422 characters in sequence are not A, C, G, or T
File 2 of 15
Found at i:100558 original size:18 final size:17
Alignment explanation
Indices: 100530--100563 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
100520 ATTTTATAAA
100530 ATAAATTATATAATTTT
1 ATAAATTATATAATTTT
*
100547 ATAAATTTATATTATTT
1 ATAAA-TTATATAATTT
100564 GTTTTATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATAAATTATATAATTTT
Found at i:100973 original size:19 final size:20
Alignment explanation
Indices: 100949--100986 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
100939 AAATTTAGTT
*
100949 GTTTTTAGAAAG-TATGAGA
1 GTTTTTAAAAAGATATGAGA
100968 GTTTTTAAAAAGATATGAG
1 GTTTTTAAAAAGATATGAG
100987 TAATTGACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.24, T:0.37
Consensus pattern (20 bp):
GTTTTTAAAAAGATATGAGA
Found at i:101121 original size:21 final size:21
Alignment explanation
Indices: 101075--101121 Score: 51
Period size: 21 Copynumber: 2.2 Consensus size: 21
101065 AATTTTTAAA
*
101075 ATTTATATTATTATTAATATT
1 ATTTATATTATTATTAATATC
* *
101096 TTTTATA-TATTTTTAAATATC
1 ATTTATATTATTATT-AATATC
101117 ATTTA
1 ATTTA
101122 ATTTATGACA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTATATTATTATTAATATC
Found at i:101241 original size:18 final size:18
Alignment explanation
Indices: 101190--101244 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 18
101180 TAAATTTCAT
*
101190 TAAAAA-ATTATTAATAAA
1 TAAAAATATTATT-TTAAA
*
101208 TATAAATATTTAATTTTAAA
1 TAAAAATA-TT-ATTTTAAA
101228 TAAAAATATTATTTTAA
1 TAAAAATATTATTTTAA
101245 GTAATAATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 12 0.39
19 3 0.10
20 13 0.42
21 3 0.10
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAAATATTATTTTAAA
Found at i:101816 original size:18 final size:20
Alignment explanation
Indices: 101778--101821 Score: 65
Period size: 18 Copynumber: 2.2 Consensus size: 20
101768 TGAGTGTTAT
101778 ATAAGATTTAAAGATTAATTA
1 ATAA-ATTTAAAGATTAATTA
101799 ATAAATTTAAA-A-TAATTA
1 ATAAATTTAAAGATTAATTA
101817 ATAAA
1 ATAAA
101822 ATTATAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 11 0.48
19 1 0.04
20 7 0.30
21 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (20 bp):
ATAAATTTAAAGATTAATTA
Found at i:102857 original size:31 final size:32
Alignment explanation
Indices: 102786--102858 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 32
102776 TTTGATATAT
102786 TTTATTTAAATTTAATTATATTTAAATAAATAA
1 TTTATTT-AATTTAATTATATTTAAATAAATAA
* * *
102819 TTT-TTTAATTTAAATTA-ATTTATAT-TATTA
1 TTTATTTAATTT-AATTATATTTAAATAAATAA
102849 TTTATTTAAT
1 TTTATTTAAT
102859 AAAAAATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
30 6 0.17
31 18 0.51
32 8 0.23
33 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (32 bp):
TTTATTTAATTTAATTATATTTAAATAAATAA
Found at i:102921 original size:19 final size:21
Alignment explanation
Indices: 102880--102928 Score: 75
Period size: 19 Copynumber: 2.4 Consensus size: 21
102870 TTTATTTAAA
102880 TTTAATTATAAAATATAAAATT
1 TTTAA-TATAAAATATAAAATT
102902 TTTAATAT-AAATAT-AAATT
1 TTTAATATAAAATATAAAATT
102921 TTTAATAT
1 TTTAATAT
102929 TTTTAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.48
20 6 0.22
21 3 0.11
22 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTAATATAAAATATAAAATT
Found at i:102950 original size:84 final size:82
Alignment explanation
Indices: 102785--102944 Score: 193
Period size: 82 Copynumber: 1.9 Consensus size: 82
102775 TTTTGATATA
* *
102785 TTTTATTTAAATTTAATTATATTTAAATAAATAATTTTTTAATTTAAATTAATTTATATTATTAT
1 TTTTATTTAAATTTAATTATA--TAAATAAATAATTTTTTAATATAAATTAATTTATAATATTAT
**
102850 TTATTTAATAAAAAATTAT
64 TTAAATAATAAAAAATTAT
*
102869 TTTTATTTAAATTTAATTATA-AAATATAA-AA-TTTTTAATATAAATATAAATTTTTAATATT-
1 TTTTATTTAAATTTAATTATATAAATA-AATAATTTTTTAATATAAAT-T-AATTTATAATATTA
102930 TTTAAAATAATAAAA
63 TTT-AAATAATAAAA
102945 TAAATTTATA
Statistics
Matches: 67, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
80 13 0.19
81 11 0.16
82 22 0.33
84 21 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (82 bp):
TTTTATTTAAATTTAATTATATAAATAAATAATTTTTTAATATAAATTAATTTATAATATTATTT
AAATAATAAAAAATTAT
Found at i:104469 original size:20 final size:19
Alignment explanation
Indices: 104441--104494 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
104431 TATAATATAT
104441 TGATAAAAAAATTTATTTAAA
1 TGAT-AAAAAATTTA-TTAAA
**
104462 TGATAAAAAATAGATTAAA
1 TGATAAAAAATTTATTAAA
*
104481 TTAGTAAAAAATTT
1 TGA-TAAAAAATTT
104495 TCATAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 7 0.26
20 16 0.59
21 4 0.15
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (19 bp):
TGATAAAAAATTTATTAAA
Found at i:104601 original size:20 final size:20
Alignment explanation
Indices: 104563--104616 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
104553 TATATCATTA
* * *
104563 AATTAAATATATATTTTTATT
1 AATTAATTA-ATATATTTAAT
104584 AATTAATTAATATATTTAAT
1 AATTAATTAATATATTTAAT
* *
104604 ACTTATTTAATAT
1 AATTAATTAATAT
104617 CAAAATTATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (20 bp):
AATTAATTAATATATTTAAT
Found at i:105383 original size:3 final size:3
Alignment explanation
Indices: 105375--105400 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
105365 ATATGGCTAT
105375 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
105401 TTTAATGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:106040 original size:20 final size:21
Alignment explanation
Indices: 106012--106053 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
106002 TTTTTTCGAC
*
106012 AGATTGAAA-AAAAAAAGGAA
1 AGATAGAAAGAAAAAAAGGAA
*
106032 AGATAGAAAGAAATAAAGGAA
1 AGATAGAAAGAAAAAAAGGAA
106053 A
1 A
106054 ATTTATGTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.69, C:0.00, G:0.21, T:0.10
Consensus pattern (21 bp):
AGATAGAAAGAAAAAAAGGAA
Found at i:106455 original size:15 final size:16
Alignment explanation
Indices: 106419--106458 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
106409 TTTAATATTT
*
106419 ATAAAATTTTTAATTAA
1 ATAAAA-TTATAATTAA
106436 ATAAAATTATAATT-A
1 ATAAAATTATAATTAA
106451 ATAAAATT
1 ATAAAATT
106459 TATTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 7 0.32
17 6 0.27
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTATAATTAA
Found at i:106461 original size:16 final size:17
Alignment explanation
Indices: 106419--106461 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
106409 TTTAATATTT
*
106419 ATAAAATTTTTAATTAA
1 ATAAAATTTATAATTAA
106436 ATAAAA-TTATAATT-A
1 ATAAAATTTATAATTAA
106451 ATAAAATTTAT
1 ATAAAATTTAT
106462 TTAAAAATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 7 0.29
16 11 0.46
17 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATAAAATTTATAATTAA
Found at i:107274 original size:31 final size:31
Alignment explanation
Indices: 107207--107275 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
107197 TAGACTTTTA
* * * *
107207 ATTTTAAGTTTTATTTTTTTTTAAAAAATTT
1 ATTTTAAATTTTAGTTATTTTTAAAAAATAT
* **
107238 CTTTTAAATTTTAGTTATTTTTAAATTATAT
1 ATTTTAAATTTTAGTTATTTTTAAAAAATAT
107269 ATTTTAA
1 ATTTTAA
107276 TGTTGATTTG
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (31 bp):
ATTTTAAATTTTAGTTATTTTTAAAAAATAT
Found at i:108094 original size:24 final size:23
Alignment explanation
Indices: 108053--108100 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
108043 CAACTTAATA
108053 ATTTTTTTTAAAAAAATAAATTT
1 ATTTTTTTTAAAAAAATAAATTT
* * *
108076 ATTTTATTTTTAAATAATATATTT
1 ATTTT-TTTTAAAAAAATAAATTT
108100 A
1 A
108101 AAAAAATGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
ATTTTTTTTAAAAAAATAAATTT
Found at i:118275 original size:34 final size:34
Alignment explanation
Indices: 118232--118300 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
118222 GAGGTGGCGC
*
118232 TGCAATAATAGGTAACTTCAATACATGCTGTTTT
1 TGCAATAATAGGTAACTTCAATACATGCAGTTTT
118266 TGCAATAATAGGTAACTTCAATACATGCAGTTTT
1 TGCAATAATAGGTAACTTCAATACATGCAGTTTT
118300 T
1 T
118301 CTTTGCTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (34 bp):
TGCAATAATAGGTAACTTCAATACATGCAGTTTT
Found at i:123748 original size:18 final size:18
Alignment explanation
Indices: 123708--123749 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
123698 ATTATTTAAA
123708 ATATATTAAAATATTATT
1 ATATATTAAAATATTATT
* *
123726 TTATATTAATAT-TTATAT
1 ATATATTAAAATATTAT-T
123744 ATATAT
1 ATATAT
123750 ATATATGTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATATATTAAAATATTATT
Found at i:123878 original size:3 final size:3
Alignment explanation
Indices: 123870--123915 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
123860 TGTTATCATA
123870 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
123916 CCAACAACAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:126195 original size:18 final size:17
Alignment explanation
Indices: 126172--126209 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
126162 TTGTTCATGA
126172 GTATTCATAATTGAATTG
1 GTATTCATAATTGAA-TG
126190 GTATTCATAATTGAATG
1 GTATTCATAATTGAATG
126207 GTA
1 GTA
126210 AGGAGACATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.34, C:0.05, G:0.18, T:0.42
Consensus pattern (17 bp):
GTATTCATAATTGAATG
Found at i:126474 original size:20 final size:20
Alignment explanation
Indices: 126449--126488 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
126439 AGCAAGCTAA
126449 TTCAATATTTAATACTTAAT
1 TTCAATATTTAATACTTAAT
126469 TTCAATATTTAATACTTAAT
1 TTCAATATTTAATACTTAAT
126489 CCGAGTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (20 bp):
TTCAATATTTAATACTTAAT
Found at i:128358 original size:12 final size:12
Alignment explanation
Indices: 128341--128365 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
128331 AACTGTTGAA
128341 AAAAAATATGAT
1 AAAAAATATGAT
128353 AAAAAATATGAT
1 AAAAAATATGAT
128365 A
1 A
128366 GATGGCAAAC
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAAAATATGAT
Found at i:133065 original size:19 final size:18
Alignment explanation
Indices: 133038--133089 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
133028 ATAATAAATA
*
133038 AAATTATTATAATTACAT
1 AAATCATTATAATTACAT
*
133056 AAATACATTATAAGATACAT
1 AAAT-CATTATAA-TTACAT
*
133076 AAATCTTTATAATT
1 AAATCATTATAATT
133090 GAAAAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 5 0.18
19 14 0.50
20 9 0.32
ACGTcount: A:0.50, C:0.08, G:0.02, T:0.40
Consensus pattern (18 bp):
AAATCATTATAATTACAT
Found at i:133577 original size:231 final size:229
Alignment explanation
Indices: 133184--133694 Score: 597
Period size: 231 Copynumber: 2.2 Consensus size: 229
133174 ACTTTGTATT
* **
133184 ACATCTTTTTATTATAATTACACATATGCATTATTTATTTATATAAATTATGATAAAAGGTAATA
1 ACAT-TTTTTATTATAATTACACATATACATTA--TATTTATATAAATTATGATAAAAAATAATA
* * *
133249 AAAATTATAACAATAAATTTATTATATTTACAAAATATATTTGTAAGTTCCAAAAATATATTACT
63 AAAATTAAAACAATAAATTTATTATATTTACAAAATATATTTGTAAGTTACAAAAATATATTAAT
* * * * *
133314 AATATGTAATAAAAAGTAGTATTATATAAAATATTATA-AT-TACATAAATTTTATTATCTATTA
128 AATAGGCAATAAAAAGTAGTATTACATAAAATATAATAGATGTAC--AAATTATATTATCTATTA
** *
133377 TATACTTTTATCATCATAGGTAATAGAAATAAGTATTAC
191 TATAAGTTTATCATCATAGGTAATAAAAATAAGTATTAC
* * *
133416 ACATTTTTTCTTATAATTACATATATACATTATATGTTACATAAATTATGATAAAAAATAATAAA
1 ACATTTTTTATTATAATTACACATATACATTATAT-TTATATAAATTATGATAAAAAATAATAAA
* *
133481 AATTGGAAAAC-ATAAATTTTATTATATTTACATGAAA-AT-TTTGTAAGTTATATAAATATATT
65 AATT--AAAACAATAAA-TTTATTATATTTACA--AAATATATTTGTAAGTTACAAAAATATATT
*
133543 AATAA-AGGCAATAGAAAA-TAGTATTACATAAAATATAATAGGTGTACAAATTATATTATCTAT
125 AATAATAGGCAATA-AAAAGTAGTATTACATAAAATATAATAGATGTACAAATTATATTATCTAT
* * *
133606 TATATAAGTTTATTATCATATGTAATAAAAATATGTATTAC
189 TATATAAGTTTATCATCATAGGTAATAAAAATAAGTATTAC
* * * * *
133647 ATA-TTTTTATTATATTTGCACATATACGTTATATACTATATAAATTAT
1 ACATTTTTTATTATAATTACACATATACATTATAT-TTATATAAATTAT
133695 TATAGTATAA
Statistics
Matches: 238, Mismatches: 32, Indels: 20
0.82 0.11 0.07
Matches are distributed among these distances:
229 3 0.01
230 67 0.28
231 108 0.45
232 52 0.22
233 5 0.02
234 3 0.01
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (229 bp):
ACATTTTTTATTATAATTACACATATACATTATATTTATATAAATTATGATAAAAAATAATAAAA
ATTAAAACAATAAATTTATTATATTTACAAAATATATTTGTAAGTTACAAAAATATATTAATAAT
AGGCAATAAAAAGTAGTATTACATAAAATATAATAGATGTACAAATTATATTATCTATTATATAA
GTTTATCATCATAGGTAATAAAAATAAGTATTAC
Found at i:133804 original size:20 final size:20
Alignment explanation
Indices: 133776--133820 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
133766 TAATGTTTGT
* *
133776 ATATAACAAA-TTACATATAA
1 ATATTACAAATTTAAATA-AA
133796 ATATTACAAATTTAAATAAA
1 ATATTACAAATTTAAATAAA
133816 ATATT
1 ATATT
133821 TTTGAAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.58, C:0.07, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATTACAAATTTAAATAAA
Found at i:134471 original size:18 final size:20
Alignment explanation
Indices: 134434--134471 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
134424 ATATTTTTTA
*
134434 ATATTAGTAATAAATGTAAT
1 ATATTAATAATAAATGTAAT
134454 ATATTAATAA-AAAT-TAAT
1 ATATTAATAATAAATGTAAT
134472 TTTATGATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
ATATTAATAATAAATGTAAT
Found at i:137109 original size:12 final size:13
Alignment explanation
Indices: 137078--137111 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
137068 AATTAAAATA
137078 TTATTATATATTT
1 TTATTATATATTT
137091 TTAATTA-ATATTT
1 TT-ATTATATATTT
137104 TTATTATA
1 TTATTATA
137112 ATTCAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.21
13 11 0.58
14 4 0.21
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
TTATTATATATTT
Found at i:137420 original size:18 final size:19
Alignment explanation
Indices: 137399--137434 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
137389 AAATTTTAAT
*
137399 TTAAAAA-ATATTATTTTA
1 TTAAAAATAAATTATTTTA
137417 TTAAAAATAAATTATTTT
1 TTAAAAATAAATTATTTT
137435 GGAAAAAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TTAAAAATAAATTATTTTA
Found at i:138361 original size:31 final size:31
Alignment explanation
Indices: 138305--138363 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
138295 TAATTATAAA
*
138305 ATTTTAATATAAAAATAAATTTTTTAATATC
1 ATTTTAATATAAAAATAAATATTTTAATATC
138336 ATTTTAA-ATAATAATATAAA-ATTTTAAT
1 ATTTTAATATAA-AA-ATAAATATTTTAAT
138364 TTTTTTTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 16 0.64
32 5 0.20
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (31 bp):
ATTTTAATATAAAAATAAATATTTTAATATC
Found at i:140102 original size:2 final size:2
Alignment explanation
Indices: 140095--140127 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
140085 CGGTATGTTC
140095 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
140128 CCCTTTGCAG
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:149993 original size:15 final size:14
Alignment explanation
Indices: 149966--150004 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
149956 GTTATTTTAA
*
149966 AATTTAATCATTTT
1 AATTTAATTATTTT
149980 AATTATAATTATTTT
1 AATT-TAATTATTTT
149995 AATTTTAATT
1 AA-TTTAATT
150005 TTTGTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.18
15 16 0.73
16 2 0.09
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTTAATTATTTT
Found at i:152713 original size:22 final size:21
Alignment explanation
Indices: 152688--152729 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
152678 TTATTTTTTA
152688 TTTAATCAATCGATTTAAAAAT
1 TTTAAT-AATCGATTTAAAAAT
**
152710 TTTAATAATTTATTTAAAAA
1 TTTAATAATCGATTTAAAAA
152730 ATTATATCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (21 bp):
TTTAATAATCGATTTAAAAAT
Found at i:153560 original size:20 final size:21
Alignment explanation
Indices: 153535--153585 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
153525 ACGTATTTTT
153535 AAAATATATC-TA-AAAATAAA
1 AAAATA-ATCTTATAAAATAAA
153555 AAAATAATCTTATAAAATAAA
1 AAAATAATCTTATAAAATAAA
153576 ATATAATAAT
1 A-A-AATAAT
153586 AATTTCGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 3 0.11
20 8 0.30
21 9 0.33
22 1 0.04
23 6 0.22
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (21 bp):
AAAATAATCTTATAAAATAAA
Found at i:153564 original size:19 final size:22
Alignment explanation
Indices: 153535--153576 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
153525 ACGTATTTTT
153535 AAAATATATC-TA-AAAATAAA
1 AAAATATATCTTATAAAATAAA
153555 AAAATA-ATCTTATAAAATAAA
1 AAAATATATCTTATAAAATAAA
153576 A
1 A
153577 TATAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 3 0.15
20 8 0.40
21 9 0.45
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (22 bp):
AAAATATATCTTATAAAATAAA
Found at i:153978 original size:16 final size:15
Alignment explanation
Indices: 153952--153994 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
153942 ACTATCCACT
153952 AATATATTTTTTTAA
1 AATATATTTTTTTAA
153967 AATATAATTTTTTTAA
1 AATAT-ATTTTTTTAA
*
153983 AAAATTATTTTT
1 AATA-TATTTTT
153995 ATTCGATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
15 5 0.20
16 19 0.76
17 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
AATATATTTTTTTAA
Found at i:154967 original size:32 final size:32
Alignment explanation
Indices: 154895--154971 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 32
154885 TATTAGATAT
154895 AATTATATATAATATAAATTATTAATATAGAAA
1 AATTATATA-AATATAAATTATTAATATAGAAA
*
154928 AATTTATATAAATATAAATATTTTAA-ATA-AAA
1 AA-TTATATAAATATAAAT-TATTAATATAGAAA
*
154960 TTATTATATAAA
1 -AATTATATAAA
154972 AAATATATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
32 12 0.31
33 15 0.38
34 12 0.31
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (32 bp):
AATTATATAAATATAAATTATTAATATAGAAA
Found at i:157299 original size:30 final size:30
Alignment explanation
Indices: 157265--157354 Score: 87
Period size: 30 Copynumber: 3.0 Consensus size: 30
157255 ATGCTTCAAT
157265 CTTTAATTTATAATTAAATAAGTTTTTAAA
1 CTTTAATTTATAATTAAATAAGTTTTTAAA
* * *
157295 CTTTAAATTGTATTTAAGAT-AGTTTTT-AA
1 CTTTAATTTATAATTAA-ATAAGTTTTTAAA
*
157324 CGTTTAATTTAT-ATCTAAATATATTTTTTAA
1 C-TTTAATTTATAAT-TAAATA-AGTTTTTAA
157355 CATAAATAAA
Statistics
Matches: 47, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
29 6 0.13
30 32 0.68
31 8 0.17
32 1 0.02
ACGTcount: A:0.38, C:0.04, G:0.06, T:0.52
Consensus pattern (30 bp):
CTTTAATTTATAATTAAATAAGTTTTTAAA
Found at i:157526 original size:23 final size:22
Alignment explanation
Indices: 157470--157530 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
157460 ATTAAAAAAT
* *
157470 TATTTTTAT-ATTAATGTTTATA
1 TATTTTTATAATTAA-ATTTAAA
157492 TATTTTTATAATTAAATTTAAA
1 TATTTTTATAATTAAATTTAAA
157514 TATTTTTATTAA-TAAAT
1 TATTTTTA-TAATTAAAT
157531 AGTAATGTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 27 0.77
23 8 0.23
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTAAA
Found at i:157683 original size:27 final size:26
Alignment explanation
Indices: 157647--157734 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 26
157637 TTTTTATTTG
157647 AAATAAAAATTTATTTAAATAAATTAA
1 AAATAAAAATTTATTTAAATAAA-TAA
*
157674 AAATAAAAATTTATTTAAATATGATAA
1 AAATAAAAATTTATTTAAATA-AATAA
*
157701 AAATATAAATATTTATCTAAATAAAATAA
1 AAATA-AAA-ATTTATTTAAAT-AAATAA
157730 TAAAT
1 -AAAT
157735 TTTAAGAATT
Statistics
Matches: 53, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
27 29 0.55
28 4 0.08
29 15 0.28
30 5 0.09
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.36
Consensus pattern (26 bp):
AAATAAAAATTTATTTAAATAAATAA
Found at i:161273 original size:20 final size:19
Alignment explanation
Indices: 161248--161297 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
161238 TTTATAATTA
161248 TATTATTAAATTAAAATATT
1 TATTATTAAATT-AAATATT
*
161268 TATTATTATAATTATATATT
1 TATTATTA-AATTAAATATT
*
161288 TAATATTAAA
1 TATTATTAAA
161298 AATATTTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 2 0.07
20 21 0.78
21 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TATTATTAAATTAAATATT
Found at i:162472 original size:18 final size:18
Alignment explanation
Indices: 162443--162517 Score: 77
Period size: 17 Copynumber: 4.2 Consensus size: 18
162433 TTTATTATTT
162443 AATTTATATTTA-AATAA
1 AATTTATATTTATAATAA
*
162460 AATTTATATTTTATATAAAA
1 AATTTATA-TTTATA-ATAA
*
162480 AATTTA-ATTTATATTAA
1 AATTTATATTTATAATAA
162497 AATTT-TATTTA-AATATA
1 AATTTATATTTATAATA-A
162514 AATT
1 AATT
162518 AAAGATTAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
16 3 0.06
17 25 0.51
18 10 0.20
19 2 0.04
20 9 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTTATATTTATAATAA
Found at i:162484 original size:37 final size:37
Alignment explanation
Indices: 162443--162515 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
162433 TTTATTATTT
*
162443 AATTTATATTTA-AATAAAATTTATATTT-TATATAAAA
1 AATTTA-ATTTATAATAAAATTT-TATTTAAATATAAAA
*
162480 AATTTAATTTATATTAAAATTTTATTTAAATATAAA
1 AATTTAATTTATAATAAAATTTTATTTAAATATAAA
162516 TTAAAGATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 10 0.31
37 22 0.69
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (37 bp):
AATTTAATTTATAATAAAATTTTATTTAAATATAAAA
Found at i:162543 original size:14 final size:14
Alignment explanation
Indices: 162510--162567 Score: 57
Period size: 14 Copynumber: 4.1 Consensus size: 14
162500 TTTATTTAAA
162510 TATAAATT-AAAGAT
1 TATAAATTAAAAG-T
*
162524 TAATAATTTAAAAGT
1 T-ATAAATTAAAAGT
*
162539 TATAAATTAATAGT
1 TATAAATTAAAAGT
162553 TA-AAAGTTAAAAGT
1 TATAAA-TTAAAAGT
162567 T
1 T
162568 TATTTAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
13 3 0.08
14 22 0.59
15 8 0.22
16 4 0.11
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (14 bp):
TATAAATTAAAAGT
Found at i:162570 original size:29 final size:29
Alignment explanation
Indices: 162510--162567 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
162500 TTTATTTAAA
*
162510 TATAAATTAAAGATTAATAATTTAAAAGT
1 TATAAATTAAAGATTAATAAGTTAAAAGT
162539 TATAAATTAATAG-TTAA-AAGTTAAAAGT
1 TATAAATTAA-AGATTAATAAGTTAAAAGT
162567 T
1 T
162568 TATTTAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 11 0.41
29 14 0.52
30 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (29 bp):
TATAAATTAAAGATTAATAAGTTAAAAGT
Found at i:162612 original size:65 final size:66
Alignment explanation
Indices: 162493--162615 Score: 155
Period size: 65 Copynumber: 1.9 Consensus size: 66
162483 TTAATTTATA
* * * *
162493 TTAAAATTTTATTTAAATATAAATTAAAGATTAATAATTTAAAAGTTATAAATTAATAGTTAAAA
1 TTAAAAGTTTATTTAAATATAAATTAAAAATTAATAATTTAAAAATAATAAATTAATAGTTAAAA
162558 G
66 G
162559 TTAAAAGTTTATTT-AATAT-AA-TAAAAATATAA-AATTTATCAAAATAATAAATTAATA
1 TTAAAAGTTTATTTAAATATAAATTAAAAAT-TAATAATTTA--AAAATAATAAATTAATA
162616 AAATTTAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
63 12 0.24
64 5 0.10
65 20 0.40
66 13 0.26
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (66 bp):
TTAAAAGTTTATTTAAATATAAATTAAAAATTAATAATTTAAAAATAATAAATTAATAGTTAAAA
G
Found at i:163208 original size:2 final size:2
Alignment explanation
Indices: 163201--163227 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
163191 TGCTTTAACA
163201 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
163228 CTAGAGCAAG
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:163779 original size:18 final size:18
Alignment explanation
Indices: 163744--163781 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
163734 ATATATTCGG
*
163744 TAGAATATTTATTTTTTT
1 TAGAATATTTATTGTTTT
163762 TAGAATATTT-TATGTTTT
1 TAGAATATTTAT-TGTTTT
163780 TA
1 TA
163782 AAAGAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (18 bp):
TAGAATATTTATTGTTTT
Found at i:163779 original size:19 final size:18
Alignment explanation
Indices: 163744--163780 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
163734 ATATATTCGG
*
163744 TAGAATATTTATTTTTTT
1 TAGAATATTTATGTTTTT
163762 TAGAATATTTTATGTTTTT
1 TAGAATA-TTTATGTTTTT
163781 AAAAGAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (18 bp):
TAGAATATTTATGTTTTT
Found at i:173991 original size:24 final size:22
Alignment explanation
Indices: 173952--173995 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
173942 TGAAATACCC
173952 ACTTTTCTCCAAACTCTCCTTGT
1 ACTTTTCTCCAAACTC-CCTTGT
173975 ACTTTT-TCCAACCACTCCCTT
1 ACTTTTCTCCAA--ACTCCCTT
173996 TCCCTTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 5 0.26
23 10 0.53
24 4 0.21
ACGTcount: A:0.18, C:0.39, G:0.02, T:0.41
Consensus pattern (22 bp):
ACTTTTCTCCAAACTCCCTTGT
Found at i:175367 original size:23 final size:23
Alignment explanation
Indices: 175336--175413 Score: 72
Period size: 23 Copynumber: 3.3 Consensus size: 23
175326 GTTGCAATAA
*
175336 TAATATAAAATTTTAAATTAAAT
1 TAATTTAAAATTTTAAATTAAAT
*
175359 TAATTTAAAATTTAATAATTAAA-
1 TAATTTAAAATTTTA-AATTAAAT
*
175382 TAA--AAATAATTTTAAATTATAATT
1 TAATTTAA-AATTTTAAATTA-AA-T
175406 TAATTTAA
1 TAATTTAA
175414 TTCAATTCAT
Statistics
Matches: 43, Mismatches: 5, Indels: 11
0.73 0.08 0.19
Matches are distributed among these distances:
21 7 0.16
22 8 0.19
23 16 0.37
24 10 0.23
26 2 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TAATTTAAAATTTTAAATTAAAT
Found at i:175391 original size:29 final size:30
Alignment explanation
Indices: 175348--175404 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
175338 ATATAAAATT
* *
175348 TTAAATTAAATTAATTTAAAATT-TAATAA
1 TTAAATAAAAATAATTTAAAATTATAATAA
*
175377 TTAAATAAAAATAATTTTAAATTATAAT
1 TTAAATAAAAATAATTTAAAATTATAAT
175405 TTAATTTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
TTAAATAAAAATAATTTAAAATTATAATAA
Found at i:175803 original size:14 final size:13
Alignment explanation
Indices: 175775--175826 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
175765 TTTGTACTAT
*
175775 TTTTAATTTTGTA
1 TTTTAATTTTATA
175788 TTTTAATTTATATA
1 TTTTAATTT-TATA
*
175802 TTATAATTTTTATA
1 TTTTAA-TTTTATA
*
175816 GATTTAATTTT
1 -TTTTAATTTT
175827 TTACTATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
13 9 0.28
14 16 0.50
15 7 0.22
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (13 bp):
TTTTAATTTTATA
Found at i:175829 original size:16 final size:16
Alignment explanation
Indices: 175794--175827 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
175784 TGTATTTTAA
*
175794 TTTATATATTATAATT
1 TTTATAGATTATAATT
175810 TTTATAGATT-TAATT
1 TTTATAGATTATAATT
175825 TTT
1 TTT
175828 TACTATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTATAGATTATAATT
Found at i:175848 original size:28 final size:29
Alignment explanation
Indices: 175789--175848 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
175779 AATTTTGTAT
* *
175789 TTTAATTTATATATTATAATTTTTATAGA
1 TTTAATTTATATACTATAATTTTTATAAA
*
175818 TTTAATTT-TTTACTATAATATTTTA-AAA
1 TTTAATTTATATACTATAAT-TTTTATAAA
175846 TTT
1 TTT
175849 TTAATTCAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 14 0.52
29 13 0.48
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (29 bp):
TTTAATTTATATACTATAATTTTTATAAA
Found at i:176192 original size:10 final size:10
Alignment explanation
Indices: 176173--176211 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
176163 TATTAAAATA
176173 TAAAAATATT
1 TAAAAATATT
*
176183 TAATAATATT
1 TAAAAATATT
*
176193 CAAGAAATATT
1 TAA-AAATATT
176204 TAAAAATA
1 TAAAAATA
176212 AAAATATTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 16 0.67
11 8 0.33
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (10 bp):
TAAAAATATT
Found at i:176791 original size:20 final size:18
Alignment explanation
Indices: 176768--176809 Score: 66
Period size: 20 Copynumber: 2.2 Consensus size: 18
176758 ATAATGTGAG
176768 TATTTTTAATAATTGTTTAA
1 TATTTTTAAT-ATT-TTTAA
176788 TATTTTTAATATTTTTAA
1 TATTTTTAATATTTTTAA
176806 TATT
1 TATT
176810 CTATCAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 9 0.41
19 3 0.14
20 10 0.45
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TATTTTTAATATTTTTAA
Found at i:176797 original size:9 final size:9
Alignment explanation
Indices: 176768--176809 Score: 66
Period size: 9 Copynumber: 4.4 Consensus size: 9
176758 ATAATGTGAG
176768 TATTTTTAA
1 TATTTTTAA
176777 TAATTGTTTAA
1 T-ATT-TTTAA
176788 TATTTTTAA
1 TATTTTTAA
176797 TATTTTTAA
1 TATTTTTAA
176806 TATT
1 TATT
176810 CTATCAAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
9 19 0.61
10 6 0.19
11 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TATTTTTAA
Found at i:178023 original size:22 final size:22
Alignment explanation
Indices: 177997--178045 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 22
177987 AAAAAAGGGT
177997 AAATTGTTCA-AAAATAA-ATAA
1 AAATTGTTCATAAAA-AATATAA
*
178018 ATAATTTTTCATAAAAAATATAA
1 A-AATTGTTCATAAAAAATATAA
178041 AAATT
1 AAATT
178046 AGAGATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 1 0.04
22 14 0.58
23 9 0.38
ACGTcount: A:0.59, C:0.04, G:0.02, T:0.35
Consensus pattern (22 bp):
AAATTGTTCATAAAAAATATAA
Found at i:179917 original size:83 final size:82
Alignment explanation
Indices: 179753--179917 Score: 217
Period size: 83 Copynumber: 2.0 Consensus size: 82
179743 GGTGTGTGTT
* *
179753 GCATTATAGTTTCAGATTGTATTAAGTTGAACGGAATCGTTGAAGGAATAAAAGTTACATGGCGA
1 GCATTATAGTTTCAGATTGTATTAAGTTGAACGGAATCGTCGAAGGAATAAAAGTTACATGGCAA
179818 AGATCTCAATATAATTG
66 AGATCTCAATATAATTG
* * * * *
179835 GCATTTTAGTTTCAGGTTGTATTAAGTTGAA-GGAGAGTCGTCGAAGGCAT-AAGGTTTACATGT
1 GCATTATAGTTTCAGATTGTATTAAGTTGAACGGA-A-TCGTCGAAGGAATAAAAG-TTACATGG
*
179898 CAAAGATCTCAGTATAATTG
63 CAAAGATCTCAATATAATTG
179918 CAAGAGGGCG
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
81 3 0.04
82 33 0.46
83 36 0.50
ACGTcount: A:0.33, C:0.10, G:0.24, T:0.33
Consensus pattern (82 bp):
GCATTATAGTTTCAGATTGTATTAAGTTGAACGGAATCGTCGAAGGAATAAAAGTTACATGGCAA
AGATCTCAATATAATTG
Found at i:182586 original size:14 final size:15
Alignment explanation
Indices: 182567--182601 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
182557 AAATAATGTG
182567 ATATTTAAAT-AAAT
1 ATATTTAAATCAAAT
*
182581 ATATTTATATCAAAT
1 ATATTTAAATCAAAT
182596 ATATTT
1 ATATTT
182602 CATAGGTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (15 bp):
ATATTTAAATCAAAT
Found at i:185904 original size:2 final size:2
Alignment explanation
Indices: 185897--185921 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
185887 ACTAGAGGTT
185897 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
185922 GATTGAGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:186088 original size:21 final size:21
Alignment explanation
Indices: 186064--186107 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
186054 ATTTTATGTC
*
186064 AAAAT-TTGATTTAATTATATA
1 AAAATATT-ATTTAAATATATA
186085 AAAATATTATTTAAATATATA
1 AAAATATTATTTAAATATATA
186106 AA
1 AA
186108 TTTATCTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
AAAATATTATTTAAATATATA
Found at i:186195 original size:18 final size:19
Alignment explanation
Indices: 186160--186195 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
186150 TATTCAAACC
*
186160 CTTTTAAAAATAACTAATT
1 CTTTAAAAAATAACTAATT
186179 CTTTAAAAAATAA-TAAT
1 CTTTAAAAAATAACTAAT
186196 ATAACTGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (19 bp):
CTTTAAAAAATAACTAATT
Found at i:187732 original size:15 final size:15
Alignment explanation
Indices: 187714--187800 Score: 52
Period size: 15 Copynumber: 5.5 Consensus size: 15
187704 TTAAAATTTA
187714 TAAAATATAAATTAT
1 TAAAATATAAATTAT
*
187729 TAAATTATAATAATT-T
1 TAAAATAT-A-AATTAT
*
187745 ATATAAATATAAAATAT
1 -TA-AAATATAAATTAT
*
187762 ATAAAATAT-TATTAT
1 -TAAAATATAAATTAT
* * *
187777 TATAATAAAAATTAA
1 TAAAATATAAATTAT
187792 TATAAATAT
1 TA-AAATAT
187801 GACATGAATA
Statistics
Matches: 54, Mismatches: 11, Indels: 13
0.69 0.14 0.17
Matches are distributed among these distances:
14 6 0.11
15 17 0.31
16 15 0.28
17 11 0.20
18 5 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAAAATATAAATTAT
Found at i:187769 original size:9 final size:9
Alignment explanation
Indices: 187689--187770 Score: 61
Period size: 9 Copynumber: 9.7 Consensus size: 9
187679 TTCGTAATAC
187689 AAATATATA
1 AAATATATA
187698 AAA-ATATTA
1 AAATATA-TA
*
187707 AAATTTAT-
1 AAATATATA
187715 AAA-ATAT-
1 AAATATATA
*
187722 AAAT-TATT
1 AAATATATA
187730 AAAT-TATA
1 AAATATATA
*
187738 ATAATTTATA
1 A-AATATATA
*
187748 TAA-ATATA
1 AAATATATA
187756 AAATATATA
1 AAATATATA
187765 AAATAT
1 AAATAT
187771 TATTATTATA
Statistics
Matches: 60, Mismatches: 6, Indels: 14
0.75 0.08 0.17
Matches are distributed among these distances:
7 9 0.15
8 20 0.33
9 25 0.42
10 6 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
AAATATATA
Found at i:188219 original size:21 final size:21
Alignment explanation
Indices: 188187--188249 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 21
188177 ACATTTAATA
188187 ATTTATATTAATTTAAATTTTT
1 ATTTA-ATTAATTTAAATTTTT
**
188209 ATTTAATTAATAAAAATTTTT
1 ATTTAATTAATTTAAATTTTT
188230 ATTTAAATTTAATTATAAAT
1 ATTT-AA-TTAATT-TAAAT
188250 ATAATTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
21 18 0.53
22 7 0.21
23 5 0.15
24 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
ATTTAATTAATTTAAATTTTT
Found at i:188977 original size:21 final size:24
Alignment explanation
Indices: 188938--188990 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
188928 TATGTGGGTG
*
188938 TTTTTAAAAAGATAAATAAT-TTT
1 TTTTTAAAAAGATAAATAATAATT
*
188961 TTTTTAAAAA-A-AGATAATAATT
1 TTTTTAAAAAGATAAATAATAATT
188983 TTTTTAAA
1 TTTTTAAA
188991 TGAATAACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 6 0.22
22 11 0.41
23 10 0.37
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
TTTTTAAAAAGATAAATAATAATT
Found at i:189019 original size:17 final size:17
Alignment explanation
Indices: 188976--189019 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
188966 AAAAAAAGAT
*
188976 AATAATTTTTTTAAATG
1 AATAATTTTTTTAAATA
*
188993 AATAACTTTTTTAAA-A
1 AATAATTTTTTTAAATA
189009 AATTAATTTTT
1 AA-TAATTTTT
189020 AAAAATTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (17 bp):
AATAATTTTTTTAAATA
Found at i:189023 original size:14 final size:15
Alignment explanation
Indices: 189000--189029 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
188990 ATGAATAACT
189000 TTTTTAAAAAATTAA
1 TTTTTAAAAAATTAA
189015 TTTTT-AAAAATTAA
1 TTTTTAAAAAATTAA
189029 T
1 T
189030 ACTTATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTTTAAAAAATTAA
Found at i:190115 original size:2 final size:2
Alignment explanation
Indices: 190108--190148 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
190098 AAATGAATTC
*
190108 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT 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
190149 AGGCATTAGC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:192990 original size:9 final size:9
Alignment explanation
Indices: 192976--193005 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
192966 ATTAAATATA
192976 TAAAAAAAT
1 TAAAAAAAT
192985 TAAAAAAAT
1 TAAAAAAAT
192994 TAAAAATAAT
1 TAAAAA-AAT
193004 TA
1 TA
193006 TATAAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 15 0.75
10 5 0.25
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
TAAAAAAAT
Found at i:193139 original size:6 final size:6
Alignment explanation
Indices: 193128--193166 Score: 53
Period size: 6 Copynumber: 6.5 Consensus size: 6
193118 TGGTCTTCCC
*
193128 CTTTAT CTTTAT CTTTAT CTTT-T ACTTTAT CTTTTT CTT
1 CTTTAT CTTTAT CTTTAT CTTTAT -CTTTAT CTTTAT CTT
193167 AATTTCCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
5 1 0.03
6 28 0.93
7 1 0.03
ACGTcount: A:0.13, C:0.18, G:0.00, T:0.69
Consensus pattern (6 bp):
CTTTAT
Found at i:194007 original size:21 final size:22
Alignment explanation
Indices: 193983--194031 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
193973 ATGTGACTTG
193983 AATATTTTAATTTT-AAAATTT
1 AATATTTTAATTTTAAAAATTT
* *
194004 AATA-TATATTTTTAAAAATTT
1 AATATTTTAATTTTAAAAATTT
194025 AA-ATTTT
1 AATATTTT
194032 TAACTTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
AATATTTTAATTTTAAAAATTT
Found at i:194174 original size:3 final size:3
Alignment explanation
Indices: 194166--194200 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
194156 ACTGGACTAT
194166 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
194201 CTTAAGAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:194502 original size:34 final size:34
Alignment explanation
Indices: 194464--194538 Score: 86
Period size: 33 Copynumber: 2.3 Consensus size: 34
194454 AAATTATCTC
194464 TATATATAT-TTTA-ATA-ATATTTAAAATTTTAA
1 TATATATATATTTATATATATATTT-AAATTTTAA
* *
194496 TATATAT-TATTTATATATTTATTTAAATTTTTA
1 TATATATATATTTATATATATATTTAAATTTTAA
*
194529 TAAATATATA
1 TATATATATA
194539 AATTTATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
31 1 0.03
32 11 0.31
33 17 0.47
34 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (34 bp):
TATATATATATTTATATATATATTTAAATTTTAA
Found at i:194547 original size:22 final size:22
Alignment explanation
Indices: 194522--194563 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
194512 ATTTATTTAA
194522 ATTT-TTATAAATATATAAATTT
1 ATTTATTAT-AATATATAAATTT
*
194544 ATTTATTATATTATATAAAT
1 ATTTATTATAATATATAAAT
194564 AATTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTATTATAATATATAAATTT
Found at i:194581 original size:40 final size:40
Alignment explanation
Indices: 194466--194582 Score: 107
Period size: 40 Copynumber: 2.9 Consensus size: 40
194456 ATTATCTCTA
*
194466 TATATATTT-TA-ATAATATTTAAAATTTTAATATATATTATT
1 TATATATTTATATA-AATATTTAAAATTTT--TAAATATTATT
* * * *
194507 TATATATTTATTTAAATTTTTATAAATATATAAAT-TTATT
1 TATATATTTATATAAATATTTA-AAATTTTTAAATATTATT
194547 TAT-TATATTATATAAATAATTTAAAATTTTTAAATA
1 TATATAT-TTATATAAAT-ATTTAAAATTTTTAAATA
194583 AAGTAGATAA
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
39 3 0.05
40 27 0.44
41 17 0.28
42 8 0.13
43 6 0.10
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (40 bp):
TATATATTTATATAAATATTTAAAATTTTTAAATATTATT
Found at i:194815 original size:16 final size:15
Alignment explanation
Indices: 194796--194825 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
194786 AATTAAGCCG
194796 AGTTTAAATTATAAAA
1 AGTTTAAATT-TAAAA
194812 AGTTTAAATTTAAA
1 AGTTTAAATTTAAA
194826 TTTGATATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.53, C:0.00, G:0.07, T:0.40
Consensus pattern (15 bp):
AGTTTAAATTTAAAA
Found at i:194863 original size:13 final size:14
Alignment explanation
Indices: 194835--194876 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
194825 ATTTGATATA
194835 AAATTTATGATTTT
1 AAATTTATGATTTT
*
194849 AAATTTAT-TTTTT
1 AAATTTATGATTTT
*
194862 AAATTT-CGATTTT
1 AAATTTATGATTTT
194875 AA
1 AA
194877 TTATTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 16 0.67
14 8 0.33
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (14 bp):
AAATTTATGATTTT
Found at i:195445 original size:16 final size:15
Alignment explanation
Indices: 195424--195462 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
195414 TTTTTGTAAT
195424 ATTTTTTATTTTTAGA
1 ATTTTTTATTTTTA-A
*
195440 ATTTTTAATTTTTAA
1 ATTTTTTATTTTTAA
195455 ATTTTTTA
1 ATTTTTTA
195463 AAAATTTTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.38
16 13 0.62
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
ATTTTTTATTTTTAA
Found at i:195625 original size:7 final size:7
Alignment explanation
Indices: 195613--195637 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
195603 ATTTAATTAA
195613 TTTAATT
1 TTTAATT
195620 TTTAATT
1 TTTAATT
195627 TTTAATT
1 TTTAATT
195634 TTTA
1 TTTA
195638 CTTATATAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTAATT
Found at i:195691 original size:19 final size:19
Alignment explanation
Indices: 195654--195691 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
195644 TAACTAAATT
*
195654 TAAAATAAAAATATTTTTA
1 TAAAATAAAAATATATTTA
195673 TAAAATAAATAATA-ATTTA
1 TAAAATAAA-AATATATTTA
195692 AATCAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (19 bp):
TAAAATAAAAATATATTTA
Found at i:195739 original size:16 final size:16
Alignment explanation
Indices: 195718--195749 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
195708 TAATTTTTTT
*
195718 ATTTAAATTTAATTTA
1 ATTTAAATCTAATTTA
195734 ATTTAAATCTAATTTA
1 ATTTAAATCTAATTTA
195750 GTAGCGAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTAAATCTAATTTA
Found at i:197949 original size:2 final size:2
Alignment explanation
Indices: 197942--197976 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
197932 CGTCAAGGTC
*
197942 CT CT CT CT CT CT CT CT CA CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
197977 ATTGTTCTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.03, C:0.51, G:0.00, T:0.46
Consensus pattern (2 bp):
CT
Found at i:201278 original size:24 final size:24
Alignment explanation
Indices: 201229--201283 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
201219 AATAAAATTT
*
201229 AATT-AATTTAATTATTTAAATTA
1 AATTAAATTTAATTATTTAAATCA
*
201252 AATTAAATTTATTTAATTT-AATCA
1 AATTAAATTTAATT-ATTTAAATCA
*
201276 AATAAAAT
1 AATTAAAT
201284 ATTTAAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 4 0.15
24 19 0.70
25 4 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
AATTAAATTTAATTATTTAAATCA
Found at i:201749 original size:29 final size:25
Alignment explanation
Indices: 201691--201758 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 25
201681 AAGGTGCAAG
*
201691 ATATTTATTTTTT-AAAATTAAAAA
1 ATATTTATTTTTTAAAAATCAAAAA
201715 ATATTTATTTTTTAAATTTAATCAAAAA
1 ATATTTATTTTTTAAA---AATCAAAAA
*
201743 TATATTTATTATTTAA
1 -ATATTTATTTTTTAA
201759 GTTATTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
24 13 0.35
25 2 0.05
28 8 0.22
29 14 0.38
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (25 bp):
ATATTTATTTTTTAAAAATCAAAAA
Found at i:201911 original size:16 final size:17
Alignment explanation
Indices: 201891--201928 Score: 60
Period size: 16 Copynumber: 2.3 Consensus size: 17
201881 AAATTATCTT
201891 TAATTACTATTAAATTA
1 TAATTACTATTAAATTA
*
201908 -AATTATTATTAAATTA
1 TAATTACTATTAAATTA
201924 TAATT
1 TAATT
201929 CTAATTCAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATTACTATTAAATTA
Found at i:202668 original size:31 final size:29
Alignment explanation
Indices: 202621--202681 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 29
202611 TGTATTAAAC
*
202621 TTTAGAGGGAAATGAAATTATTATCCAAAT
1 TTTAAAGGGAAATGAAATTATT-TCCAAAT
*
202651 TTTAAAGGGTAAATGAAATTATTTTCAAAT
1 TTTAAAGGG-AAATGAAATTATTTCCAAAT
202681 T
1 T
202682 CAGCTGGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 15 0.54
31 13 0.46
ACGTcount: A:0.43, C:0.05, G:0.15, T:0.38
Consensus pattern (29 bp):
TTTAAAGGGAAATGAAATTATTTCCAAAT
Found at i:208233 original size:8 final size:8
Alignment explanation
Indices: 208222--208351 Score: 55
Period size: 8 Copynumber: 16.4 Consensus size: 8
208212 CTAATTTTTG
208222 TATTTATA
1 TATTTATA
208230 TATTT-TA
1 TATTTATA
208237 TTATTT-TA
1 -TATTTATA
*
208245 TA--AATA
1 TATTTATA
*
208251 TATTTAAA
1 TATTTATA
208259 TTATTT-TA
1 -TATTTATA
208267 TATTTATA
1 TATTTATA
208275 TAAAATTTAATA
1 T---ATTT-ATA
*
208287 TATTAATA
1 TATTTATA
208295 T-TTTATA
1 TATTTATA
208302 T-TTTATA
1 TATTTATA
* *
208309 AATTTTAAAA
1 TA-TTT-ATA
208319 TATTTATA
1 TATTTATA
208327 TATTT-T-
1 TATTTATA
208333 TA-TTATA
1 TATTTATA
*
208340 TTATTTTTA
1 -TATTTATA
208349 TAT
1 TAT
208352 CATATTTTTT
Statistics
Matches: 94, Mismatches: 11, Indels: 34
0.68 0.08 0.24
Matches are distributed among these distances:
5 2 0.02
6 7 0.07
7 22 0.23
8 34 0.36
9 18 0.19
10 3 0.03
11 4 0.04
12 4 0.04
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
TATTTATA
Found at i:208274 original size:22 final size:23
Alignment explanation
Indices: 208217--208276 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 23
208207 GAGGGCTAAT
* **
208217 TTTTGTATTTATATATTTTATTA
1 TTTTATATTTATATATTAAATTA
**
208240 TTTTATAAATATAT-TTAAATTA
1 TTTTATATTTATATATTAAATTA
208262 TTTTATATTTATATA
1 TTTTATATTTATATA
208277 AAATTTAATA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
22 18 0.62
23 11 0.38
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (23 bp):
TTTTATATTTATATATTAAATTA
Found at i:208302 original size:33 final size:35
Alignment explanation
Indices: 208245--208340 Score: 112
Period size: 33 Copynumber: 2.8 Consensus size: 35
208235 TATTATTTTA
*
208245 TAAATATATTTAAATTATTTTATATTTATATAAAATT
1 TAAA-ATATTTATA-TATTTTATATTTATATAAAATT
* *
208282 TAATATA-TTA-ATATTTTATATTT-TATAAATTT
1 TAAAATATTTATATATTTTATATTTATATAAAATT
208314 TAAAATATTTATATATTTT-TA-TTATAT
1 TAAAATATTTATATATTTTATATTTATAT
208341 TATTTTTATA
Statistics
Matches: 53, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
32 16 0.30
33 20 0.38
34 8 0.15
35 3 0.06
36 3 0.06
37 3 0.06
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (35 bp):
TAAAATATTTATATATTTTATATTTATATAAAATT
Found at i:208343 original size:18 final size:17
Alignment explanation
Indices: 208280--208343 Score: 60
Period size: 18 Copynumber: 3.8 Consensus size: 17
208270 TTATATAAAA
208280 TTTAATATATTA-ATAT
1 TTTAATATATTATATAT
* *
208296 TTT-ATATTTTATAAAT
1 TTTAATATATTATATAT
*
208312 TTTAAAATATTTATATATT
1 TTTAATATA-TTATATA-T
*
208331 TTTATTATATTAT
1 TTTAATATATTAT
208344 TTTTATATCA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
15 7 0.19
16 9 0.24
17 3 0.08
18 10 0.27
19 8 0.22
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTAATATATTATATAT
Found at i:208344 original size:14 final size:13
Alignment explanation
Indices: 208322--208360 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
208312 TTTAAAATAT
208322 TTATATATTTTTA
1 TTATATATTTTTA
208335 TTATATTATTTTTA
1 TTATA-TATTTTTA
208349 -TATCATATTTTT
1 TTAT-ATATTTTT
208361 TAAAATTATA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 15 0.62
14 9 0.38
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATATATTTTTA
Found at i:208346 original size:32 final size:34
Alignment explanation
Indices: 208222--208340 Score: 109
Period size: 33 Copynumber: 3.4 Consensus size: 34
208212 CTAATTTTTG
* * * *
208222 TATTTATATATTTTATTATTTTATAAATATATTTAAA
1 TATTT-TATATTATATAAATTT-TAAA-ATATTTATA
* *
208259 TTATTTTATATTTATATAAAATTTAATATA-TTA-A
1 -TATTTTATA-TTATATAAATTTTAAAATATTTATA
*
208293 TATTTTATATTTTATAAATTTTAAAATATTTATA
1 TATTTTATATTATATAAATTTTAAAATATTTATA
208327 TATTTT-TATTATAT
1 TATTTTATATTATAT
208341 TATTTTTATA
Statistics
Matches: 69, Mismatches: 9, Indels: 11
0.78 0.10 0.12
Matches are distributed among these distances:
32 16 0.23
33 19 0.28
34 8 0.12
35 3 0.04
36 3 0.04
37 7 0.10
38 13 0.19
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (34 bp):
TATTTTATATTATATAAATTTTAAAATATTTATA
Found at i:212135 original size:34 final size:34
Alignment explanation
Indices: 212097--212281 Score: 248
Period size: 34 Copynumber: 5.5 Consensus size: 34
212087 GTAAAAATCA
*
212097 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
212131 CCATTTAGTCAACAATGGTAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGGT-AACCTACCAAATCTC
* *
212165 CCATTTAATCAATAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
212199 CTATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
212233 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
212266 CCATTTAATCAACAAT
1 CCATTTAATCAACAAT
212282 TCTCCCACTT
Statistics
Matches: 133, Mismatches: 16, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
33 18 0.14
34 111 0.83
35 4 0.03
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:212239 original size:102 final size:100
Alignment explanation
Indices: 212091--212277 Score: 311
Period size: 102 Copynumber: 1.9 Consensus size: 100
212081 GGTTTGGTAA
212091 AAATCACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCA
1 AAATCACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCA
212156 CCAAATCACCCATTTAATCAATAATGGTAAGCTACC
66 CCAAATCA-CCATTTAATCAATAATGGTAAGCTACC
* * * * *
212192 AAATCTCCTATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACT
1 AAATCACC-ATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACC
212257 ACCAAATCACCATTTAATCAA
65 ACCAAATCACCATTTAATCAA
212278 CAATTCTCCC
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
101 19 0.24
102 61 0.76
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (100 bp):
AAATCACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCA
CCAAATCACCATTTAATCAATAATGGTAAGCTACC
Found at i:216734 original size:34 final size:34
Alignment explanation
Indices: 216696--216878 Score: 244
Period size: 34 Copynumber: 5.4 Consensus size: 34
216686 GTAAAAATCA
*
216696 CCATTTAATCAACAATGGCAACCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* *
216730 CCATTTAGTCAACAATGGTAAACC-ACCAAATCAC
1 CCATTTAATCAACAATGGT-AACCTACCAAATCTC
* *
216764 CCATTTAATCAATAATGGTAAGCTACCAAATCTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
216798 CTATTTAATCAACAATGGTAAGCTACCAAATTTC
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
* * *
216832 CCATTTAGTCAACAATGGTAAACTACCAAATC-A
1 CCATTTAATCAACAATGGTAACCTACCAAATCTC
216865 CCATTTAATCAACA
1 CCATTTAATCAACA
216879 TGACAGTGCC
Statistics
Matches: 131, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
33 16 0.12
34 111 0.85
35 4 0.03
ACGTcount: A:0.40, C:0.26, G:0.08, T:0.26
Consensus pattern (34 bp):
CCATTTAATCAACAATGGTAACCTACCAAATCTC
Found at i:216838 original size:102 final size:100
Alignment explanation
Indices: 216690--216876 Score: 311
Period size: 102 Copynumber: 1.9 Consensus size: 100
216680 GGTTTGGTAA
216690 AAATCACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCA
1 AAATCACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCA
216755 CCAAATCACCCATTTAATCAATAATGGTAAGCTACC
66 CCAAATCA-CCATTTAATCAATAATGGTAAGCTACC
* * * * *
216791 AAATCTCCTATTTAATCAACAATGGTAAGCTACCAAATTTCCCATTTAGTCAACAATGGTAAACT
1 AAATCACC-ATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACC
216856 ACCAAATCACCATTTAATCAA
65 ACCAAATCACCATTTAATCAA
216877 CATGACAGTG
Statistics
Matches: 80, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
101 19 0.24
102 61 0.76
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (100 bp):
AAATCACCATTTAATCAACAATGGCAACCTACCAAATCTCCCATTTAGTCAACAATGGTAAACCA
CCAAATCACCATTTAATCAATAATGGTAAGCTACC
Found at i:217716 original size:4 final size:4
Alignment explanation
Indices: 217707--217740 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
217697 AGGCAGTTCT
* *
217707 ATGC ATGC ATGC ATGC ATGC ATGT ATGT ATGC AT
1 ATGC ATGC ATGC ATGC ATGC ATGC ATGC ATGC AT
217741 ACCTTTCTCC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (4 bp):
ATGC
Found at i:222395 original size:35 final size:35
Alignment explanation
Indices: 222330--222406 Score: 88
Period size: 35 Copynumber: 2.2 Consensus size: 35
222320 TAAAAAATAG
* *
222330 ATAATTAAAAGATTTAATTTAAATATATAA-TAAAA
1 ATAATT-AAAGATTTAATTTAAAAAGATAATTAAAA
222365 ATAATTAAAGATTTAA-TTAATAGAAGATAATTAAAA
1 ATAATTAAAGATTTAATTTAA-A-AAGATAATTAAAA
222401 A-AATTA
1 ATAATTA
222407 TCATATATAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
33 4 0.11
34 11 0.30
35 16 0.43
36 6 0.16
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (35 bp):
ATAATTAAAGATTTAATTTAAAAAGATAATTAAAA
Found at i:226652 original size:30 final size:30
Alignment explanation
Indices: 226596--226653 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
226586 TGTGTATACA
* **
226596 TTTAACGTATACGAGATAAAGGAGATATTT
1 TTTAACGGATACGAGATAAAAAAGATATTT
226626 TTTAACGGATACGAGATAAAAAAGATAT
1 TTTAACGGATACGAGATAAAAAAGATAT
226654 AGTGCTTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.29
Consensus pattern (30 bp):
TTTAACGGATACGAGATAAAAAAGATATTT
Found at i:227038 original size:28 final size:28
Alignment explanation
Indices: 226985--227038 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
226975 ATCTTTTAAG
* *
226985 TTAAATGTTATATCTTTATATAATAAAT
1 TTAAATATTATATCTTTATAAAATAAAT
*
227013 TTAAATATTATAT-TTTTTAAACATAA
1 TTAAATATTATATCTTTATAAA-ATAA
227039 TTTTTTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (28 bp):
TTAAATATTATATCTTTATAAAATAAAT
Found at i:233783 original size:18 final size:18
Alignment explanation
Indices: 233762--233798 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
233752 CTATATGCGA
233762 TGATTTGCTCATATGGGT
1 TGATTTGCTCATATGGGT
*
233780 TGATTTGCTCGTATGGGT
1 TGATTTGCTCATATGGGT
233798 T
1 T
233799 CAGATTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.11, G:0.30, T:0.46
Consensus pattern (18 bp):
TGATTTGCTCATATGGGT
Found at i:234418 original size:34 final size:34
Alignment explanation
Indices: 234375--234477 Score: 188
Period size: 34 Copynumber: 3.0 Consensus size: 34
234365 TTAAAAATTA
234375 AATTTTTATAATCATATTTAAATATATATTGAAT
1 AATTTTTATAATCATATTTAAATATATATTGAAT
*
234409 AATTTTTATAATCATATTTAAATATATATCGAAT
1 AATTTTTATAATCATATTTAAATATATATTGAAT
*
234443 AATTTTTATAATCATATCTAAATATATATTGAAT
1 AATTTTTATAATCATATTTAAATATATATTGAAT
234477 A
1 A
234478 TAAATGTTAA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 66 1.00
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.48
Consensus pattern (34 bp):
AATTTTTATAATCATATTTAAATATATATTGAAT
Found at i:235007 original size:23 final size:24
Alignment explanation
Indices: 234981--235026 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
234971 TATATCAATA
234981 ATTA-AATTAAATATTCGAAAAAG
1 ATTATAATTAAATATTCGAAAAAG
* *
235004 ATTATATTTAAATATTTGAAAAA
1 ATTATAATTAAATATTCGAAAAA
235027 AGACTATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.37
Consensus pattern (24 bp):
ATTATAATTAAATATTCGAAAAAG
Found at i:235815 original size:29 final size:30
Alignment explanation
Indices: 235783--235847 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
235773 ATATATTTAA
235783 TATAATATATTAATTAT-TT-TTAATTATTT
1 TATAATATATTAATTATATTATT-ATTATTT
* * *
235812 TATATTATATTTATTATATTATTTTTATTT
1 TATAATATATTAATTATATTATTATTATTT
235842 TATAAT
1 TATAAT
235848 TAAACAAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 15 0.50
30 13 0.43
31 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (30 bp):
TATAATATATTAATTATATTATTATTATTT
Found at i:235817 original size:24 final size:24
Alignment explanation
Indices: 235788--235840 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
235778 TTTAATATAA
235788 TATATTAATTATTT-TTA-ATTATTT
1 TATATT-A-TATTTATTATATTATTT
235812 TATATTATATTTATTATATTATTT
1 TATATTATATTTATTATATTATTT
235836 T-TATT
1 TATATT
235841 TTATAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 5 0.19
23 8 0.30
24 14 0.52
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TATATTATATTTATTATATTATTT
Found at i:235819 original size:5 final size:5
Alignment explanation
Indices: 235752--235833 Score: 52
Period size: 5 Copynumber: 17.4 Consensus size: 5
235742 TATAATTAAA
* * *
235752 ATATT A-ATT ATA-- ATATG ATATAT ATATT -TAAT ATAAT ATATT A-ATT
1 ATATT ATATT ATATT ATATT ATAT-T ATATT ATATT ATATT ATATT ATATT
* *
235798 AT-TT TTAATT ATTTT ATATT ATATT -TATT ATATT AT
1 ATATT AT-ATT ATATT ATATT ATATT ATATT ATATT AT
235834 TTTTATTTTA
Statistics
Matches: 61, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
3 3 0.05
4 18 0.30
5 33 0.54
6 7 0.11
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (5 bp):
ATATT
Found at i:235830 original size:14 final size:14
Alignment explanation
Indices: 235769--235840 Score: 56
Period size: 14 Copynumber: 5.0 Consensus size: 14
235759 TTATAATATG
*
235769 ATATATATATTTAAT
1 ATAT-TATATTTATT
* *
235784 ATAATATATTAATT
1 ATATTATATTTATT
* *
235798 AT-TTTTAATTATTTT
1 ATATTAT-ATT-TATT
235813 ATATTATATTTATT
1 ATATTATATTTATT
*
235827 ATATTATTTTTATT
1 ATATTATATTTATT
235841 TTATAATTAA
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
13 2 0.05
14 29 0.66
15 10 0.23
16 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
ATATTATATTTATT
Found at i:236422 original size:24 final size:27
Alignment explanation
Indices: 236394--236460 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 27
236384 TTTGAATTAG
236394 TATTTAATA-ATT-A-A-AAAATATTTT
1 TATTTAATATATTAATATAAAAT-TTTT
236418 TATTTAA-ATATTAATATAAAATTTTT
1 TATTTAATATATTAATATAAAATTTTT
236444 TATATTAATATATTAAT
1 TAT-TTAATATATTAAT
236461 GTTAATATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
23 1 0.03
24 10 0.27
25 1 0.03
26 8 0.22
27 9 0.24
28 8 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TATTTAATATATTAATATAAAATTTTT
Found at i:236438 original size:28 final size:28
Alignment explanation
Indices: 236408--236460 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
236398 TAATAATTAA
236408 AAAATATTTTTAT-TTAA-ATATTAATAT
1 AAAAT-TTTTTATATTAATATATTAATAT
236435 AAAATTTTTTATATTAATATATTAAT
1 AAAATTTTTTATATTAATATATTAAT
236461 GTTAATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 7 0.29
27 9 0.38
28 8 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
AAAATTTTTTATATTAATATATTAATAT
Found at i:236472 original size:16 final size:16
Alignment explanation
Indices: 236451--236485 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
236441 TTTTATATTA
236451 ATATATTAATGTTAAT
1 ATATATTAATGTTAAT
**
236467 ATATATTTTTGTTAAT
1 ATATATTAATGTTAAT
236483 ATA
1 ATA
236486 AAAATATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (16 bp):
ATATATTAATGTTAAT
Found at i:236722 original size:24 final size:24
Alignment explanation
Indices: 236673--236733 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
236663 TATCAAAATT
*
236673 TTAAACATA-AATA-TAATATATA
1 TTAAAAATATAATATTAATATATA
*
236695 TTAAAAATATCATATTAATCATAT-
1 TTAAAAATATAATATTAAT-ATATA
*
236719 TTAAATATATAATAT
1 TTAAAAATATAATAT
236734 CATATTTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 8 0.25
23 3 0.09
24 17 0.53
25 4 0.12
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (24 bp):
TTAAAAATATAATATTAATATATA
Found at i:236918 original size:23 final size:23
Alignment explanation
Indices: 236856--236920 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 23
236846 TTTTTTTAAT
236856 TTTAA-ATATATATGTAATATATA
1 TTTAATATATATAT-TAATATATA
*
236879 TATTAATTATGTTATATTAAT-TATA
1 T-TTAA-TAT-ATATATTAATATATA
236904 TTTAATATATAATATTA
1 TTTAATATAT-ATATTA
236921 TGTTTATTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
22 1 0.03
23 10 0.29
24 8 0.23
25 5 0.14
26 6 0.17
27 5 0.14
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (23 bp):
TTTAATATATATATTAATATATA
Found at i:236934 original size:33 final size:37
Alignment explanation
Indices: 236857--236949 Score: 110
Period size: 33 Copynumber: 2.7 Consensus size: 37
236847 TTTTTTAATT
*
236857 TTAAATATATATGTAATATATATATTAATTATGTTATA
1 TTAAAT-TATATTTAATATATATATTAATTATGTTATA
236895 TT-AATTATATTTAATATATA-A-T-ATTATGTT-TA
1 TTAAATTATATTTAATATATATATTAATTATGTTATA
*
236927 TTAAATTAT-TTTTATAT-TATATT
1 TTAAATTATATTTAATATATATATT
236950 TAAAATTATT
Statistics
Matches: 50, Mismatches: 2, Indels: 11
0.79 0.03 0.17
Matches are distributed among these distances:
31 2 0.04
32 12 0.24
33 15 0.30
34 1 0.02
35 1 0.02
36 14 0.28
37 3 0.06
38 2 0.04
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (37 bp):
TTAAATTATATTTAATATATATATTAATTATGTTATA
Found at i:236942 original size:28 final size:32
Alignment explanation
Indices: 236873--236949 Score: 86
Period size: 30 Copynumber: 2.4 Consensus size: 32
236863 ATATATGTAA
* *
236873 TATATATATTAATTATGTTATATTAATTATATT
1 TATATATAAT-ATTATGTTATATTAAATATATT
236906 TAATATATAATATTATGTT-TATTAAAT-TATT
1 T-ATATATAATATTATGTTATATTAAATATATT
* *
236937 TTTATATTATATT
1 TATATATAATATT
236950 TAAAATTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
30 10 0.26
31 5 0.13
32 7 0.18
33 9 0.23
34 8 0.21
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (32 bp):
TATATATAATATTATGTTATATTAAATATATT
Found at i:236946 original size:5 final size:5
Alignment explanation
Indices: 236872--236949 Score: 56
Period size: 5 Copynumber: 16.0 Consensus size: 5
236862 TATATATGTA
* * *
236872 ATATAT ATATT A-ATT ATGTT ATATT A-ATT ATATT -TAAT ATATA ATATT
1 ATAT-T ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
* * *
236920 ATGTT -TATT AAATT ATTTTT ATATT ATATT
1 ATATT ATATT ATATT A-TATT ATATT ATATT
236950 TAAAATTATT
Statistics
Matches: 55, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
4 14 0.25
5 34 0.62
6 7 0.13
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:237413 original size:2 final size:2
Alignment explanation
Indices: 237406--237433 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
237396 TTTCTTCTGA
237406 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
237434 TAAAATAAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:238107 original size:10 final size:10
Alignment explanation
Indices: 238092--238141 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
238082 CGGGGTCTTA
*
238092 ATATAAACAT
1 ATATAAATAT
238102 ATATAAATAT
1 ATATAAATAT
*
238112 ATATATATAT
1 ATATAAATAT
*
238122 ATATATATAT
1 ATATAAATAT
*
238132 ATATATATAT
1 ATATAAATAT
238142 TCAGAGTTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 38 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (10 bp):
ATATAAATAT
Found at i:238111 original size:8 final size:8
Alignment explanation
Indices: 238091--238138 Score: 53
Period size: 8 Copynumber: 6.0 Consensus size: 8
238081 CCGGGGTCTT
238091 AATATA-A
1 AATATATA
238098 ACATATATA
1 A-ATATATA
238107 AATATATA
1 AATATATA
*
238115 TATATATA
1 AATATATA
*
238123 TATATATA
1 AATATATA
*
238131 TATATATA
1 AATATATA
238139 TATTCAGAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
7 1 0.03
8 35 0.92
9 2 0.05
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (8 bp):
AATATATA
Done.