Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 160 of 185
Found at i:48060111 original size:18 final size:19
Alignment explanation
Indices: 48060061--48060115 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 19
48060051 TAAAACATAA
48060061 AAATTAATTTATAAAAATTC
1 AAATTAATTTATAAAAA-TC
*
48060081 AAA--AA-TAATTAAAAA-C
1 AAATTAATTTA-TAAAAATC
48060097 AAATTAATTTATAAAAATC
1 AAATTAATTTATAAAAATC
48060116 TAAACATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 11
0.68 0.05 0.27
Matches are distributed among these distances:
16 4 0.14
17 2 0.07
18 16 0.57
19 3 0.11
20 3 0.11
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATTAATTTATAAAAATC
Found at i:48060229 original size:20 final size:18
Alignment explanation
Indices: 48060187--48060229 Score: 50
Period size: 20 Copynumber: 2.3 Consensus size: 18
48060177 TTGGTTTATA
48060187 TAAATTAAAATAAATAAT
1 TAAATTAAAATAAATAAT
* *
48060205 AAAATCTAAACATATATAAT
1 TAAAT-TAAA-ATAAATAAT
48060225 TAAAT
1 TAAAT
48060230 AGTTAATTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 4 0.20
19 4 0.20
20 12 0.60
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAATTAAAATAAATAAT
Found at i:48060691 original size:26 final size:27
Alignment explanation
Indices: 48060651--48060710 Score: 70
Period size: 26 Copynumber: 2.2 Consensus size: 27
48060641 ATCATATTTA
*
48060651 AAATAAAATAAAAATTA-ATTTATTGTAT
1 AAATAAAAT-AAAA-TACATCTATTGTAT
*
48060679 AAATAAAAT-AAATACATCTATTTTAT
1 AAATAAAATAAAATACATCTATTGTAT
48060705 AAATAA
1 AAATAA
48060711 CTTTTAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 2 0.07
26 18 0.62
28 9 0.31
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (27 bp):
AAATAAAATAAAATACATCTATTGTAT
Found at i:48061359 original size:9 final size:8
Alignment explanation
Indices: 48061343--48061372 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
48061333 AATGTAAAAA
48061343 TATTTTTT
1 TATTTTTT
48061351 TATTTTTT
1 TATTTTTT
*
48061359 TATTTTTC
1 TATTTTTT
48061367 TATTTT
1 TATTTT
48061373 ATTTGTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (8 bp):
TATTTTTT
Found at i:48063254 original size:14 final size:14
Alignment explanation
Indices: 48063217--48063254 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
48063207 TTAACATTTA
*
48063217 TTTTTAAAATAAAC
1 TTTTTAATATAAAC
48063231 TTATTT-ATATAAAC
1 TT-TTTAATATAAAC
48063245 TTTTTAATAT
1 TTTTTAATAT
48063255 TTTTTTACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 3 0.14
14 15 0.71
15 3 0.14
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTTTAATATAAAC
Found at i:48068049 original size:18 final size:17
Alignment explanation
Indices: 48068017--48068050 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
48068007 GTAGATATGG
*
48068017 TTTTATTTTACTTTTAC
1 TTTTATTTTAATTTTAC
48068034 TTTTATTTTTAATTTTA
1 TTTTA-TTTTAATTTTA
48068051 GTCATGTTCT
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:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTATTTTAATTTTAC
Found at i:48080119 original size:23 final size:22
Alignment explanation
Indices: 48080067--48080119 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
48080057 TCCACGTCTT
*
48080067 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
48080089 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
48080112 TTTCTTTT
1 TTTCTTTT
48080120 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:48097805 original size:21 final size:21
Alignment explanation
Indices: 48097779--48097821 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
48097769 GGTTCGCTGT
*
48097779 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
48097800 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
48097821 A
1 A
48097822 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:48097821 original size:16 final size:16
Alignment explanation
Indices: 48097802--48097834 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
48097792 TGTATTGGAT
*
48097802 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
48097818 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
48097834 T
1 T
48097835 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:48097879 original size:45 final size:44
Alignment explanation
Indices: 48097813--48097907 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
48097803 GGATTAGAGG
* *
48097813 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
48097858 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
48097902 TGTAAT
1 TGTAAT
48097908 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:48098090 original size:18 final size:17
Alignment explanation
Indices: 48098069--48098103 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48098059 TTATTATTTA
*
48098069 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
48098087 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
48098104 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:48098097 original size:28 final size:27
Alignment explanation
Indices: 48098027--48098099 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
48098017 TTTATTATCA
*
48098027 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
48098055 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
48098082 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
48098100 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:48098216 original size:144 final size:147
Alignment explanation
Indices: 48097988--48098259 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
48097978 ATGATTATTG
48097988 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
48098053 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
48098118 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
48098137 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
48098199 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
48098260 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:48098234 original size:18 final size:17
Alignment explanation
Indices: 48098213--48098247 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48098203 TTATTATTAA
*
48098213 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
48098231 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
48098248 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:48098291 original size:54 final size:54
Alignment explanation
Indices: 48098233--48098411 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
48098223 ATTAAAATAT
*
48098233 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
48098287 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
48098350 TAT
53 -AC
*
48098353 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
48098407 ATAAT
1 ATAAT
48098412 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:48098293 original size:61 final size:61
Alignment explanation
Indices: 48098228--48098415 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
48098218 TTTTAATTAA
*
48098228 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
48098289 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
48098348 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
48098409 AATATAT
1 AATATAT
48098416 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:48098326 original size:120 final size:120
Alignment explanation
Indices: 48098196--48098418 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
48098186 ATCATATTTA
* *
48098196 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
48098261 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
48098316 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
48098381 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
48098419 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:48098354 original size:18 final size:17
Alignment explanation
Indices: 48098333--48098367 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48098323 TTATTATTAA
48098333 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
48098351 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
48098368 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:48098430 original size:17 final size:16
Alignment explanation
Indices: 48098408--48098454 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
48098398 ACTCAAATCA
48098408 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
48098425 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
48098439 TAAATATATGATTTAA
1 T-AATATATGATTTAA
48098455 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:48098455 original size:17 final size:17
Alignment explanation
Indices: 48098427--48098460 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
48098417 ATTATAACTA
*
48098427 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
48098444 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
48098461 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:48102512 original size:37 final size:37
Alignment explanation
Indices: 48102462--48102534 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
48102452 CTTTCGATTT
**
48102462 TAATTACACAAAATATTATTTAATTATATAAATTATA
1 TAATTACACAAAATATTATCCAATTATATAAATTATA
**
48102499 TAATTACGGAAAATATTATCCAATTATATAAATTAT
1 TAATTACACAAAATATTATCCAATTATATAAATTAT
48102535 TACAGATTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.49, C:0.07, G:0.03, T:0.41
Consensus pattern (37 bp):
TAATTACACAAAATATTATCCAATTATATAAATTATA
Found at i:48102535 original size:20 final size:18
Alignment explanation
Indices: 48102476--48102536 Score: 54
Period size: 17 Copynumber: 3.4 Consensus size: 18
48102466 TACACAAAAT
48102476 ATTATT-TAATTATATAA
1 ATTATTATAATTATATAA
***
48102493 ATTA-TATAATTACGGAA
1 ATTATTATAATTATATAA
*
48102510 AATATTATCCAATTATATAA
1 ATTATTAT--AATTATATAA
48102530 ATTATTA
1 ATTATTA
48102537 CAGATTTCGT
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
16 1 0.03
17 15 0.47
18 3 0.09
20 13 0.41
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (18 bp):
ATTATTATAATTATATAA
Found at i:48102594 original size:20 final size:20
Alignment explanation
Indices: 48102471--48102582 Score: 56
Period size: 20 Copynumber: 5.8 Consensus size: 20
48102461 TTAATTACAC
*
48102471 AAAATATTATTTAATTA--T
1 AAAATATTATATAATTATCT
* *
48102489 ATAA-ATTATATAATTA-CGG
1 AAAATATTATATAATTATC-T
** *
48102508 AAAATATTATCCAATTATAT
1 AAAATATTATATAATTATCT
* * *
48102528 AAATTATTACA-GATT-TCGT
1 AAAATATTATATAATTATC-T
* * *
48102547 AATATTTTGTATAATTATCT
1 AAAATATTATATAATTATCT
48102567 AAAATATTATATAATT
1 AAAATATTATATAATT
48102583 TCCTAAACTA
Statistics
Matches: 65, Mismatches: 22, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
17 11 0.17
18 4 0.06
19 13 0.20
20 35 0.54
21 2 0.03
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (20 bp):
AAAATATTATATAATTATCT
Found at i:48102798 original size:8 final size:7
Alignment explanation
Indices: 48102764--48102803 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
48102754 AATATGTTTG
48102764 AATTT-A
1 AATTTAA
48102770 AATTTAA
1 AATTTAA
48102777 AATTTAA
1 AATTTAA
48102784 AATTTAA
1 AATTTAA
48102791 AGATTT-A
1 A-ATTTAA
48102798 AATTTA
1 AATTTA
48102804 TATTAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 9 0.29
7 18 0.58
8 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (7 bp):
AATTTAA
Found at i:48105648 original size:51 final size:52
Alignment explanation
Indices: 48105560--48105662 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 52
48105550 ACAAGAAGAG
48105560 AATGAGAATCTACTTGACAAGGTGAGCCTTTATCATTACTGTTGTGTTATCT
1 AATGAGAATCTACTTGACAAGGTGAGCCTTTATCATTACTGTTGTGTTATCT
48105612 AATGAGAATCTACTTGAC-AGGTGAGCCTTTATCATTACTGTTGTGTTATCT
1 AATGAGAATCTACTTGACAAGGTGAGCCTTTATCATTACTGTTGTGTTATCT
48105663 GCAACATGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 33 0.65
52 18 0.35
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (52 bp):
AATGAGAATCTACTTGACAAGGTGAGCCTTTATCATTACTGTTGTGTTATCT
Found at i:48113932 original size:20 final size:20
Alignment explanation
Indices: 48113907--48113944 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
48113897 ATATGAAAAT
* *
48113907 TAAATTAATTCATTTAATAA
1 TAAATTAACTAATTTAATAA
48113927 TAAATTAACTAATTTAAT
1 TAAATTAACTAATTTAAT
48113945 CTAACCCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAATTAACTAATTTAATAA
Found at i:48114638 original size:30 final size:27
Alignment explanation
Indices: 48114593--48114654 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 27
48114583 TGCATAGAAT
*
48114593 AATATTATAATATATAATTATTACTTAA
1 AATATTATAATATATAACTATTA-TTAA
*
48114621 AATATTAATACATATATAACTATTATTAT
1 AATATT-ATA-ATATATAACTATTATTAA
48114650 AATAT
1 AATAT
48114655 AAATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
28 6 0.20
29 11 0.37
30 13 0.43
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (27 bp):
AATATTATAATATATAACTATTATTAA
Found at i:48114922 original size:264 final size:257
Alignment explanation
Indices: 48114633--48115456 Score: 926
Period size: 264 Copynumber: 3.2 Consensus size: 257
48114623 TATTAATACA
* * *
48114633 TATATAACTATTATTATAATATAAATTATAATAAAAGATATAATATTACATGATATTAAAATATT
1 TATATAACTATTATTATATTATAAATTATAATAAAAGATATAATATTACATGATATTATAATGTT
*
48114698 TAATCATTGATTCATATATATAAACTATTAATATATCATGTGATATCATATAACATTATATAATA
66 TAATCATTGATACATATATATAAACTATTAATATAT-AT-T-ATATCATAT-ACATTATATAATA
* *
48114763 TACATACATATCATACAATATAGTAGGAGGGCTAACTTTTAAATGTACGAAAAGTATAGAGACTT
127 TA-ATGCAT-T-ATACAATATAGTAGGAGGGCTAACTTTCAAATGTACGAAAAGTATAGAGACTT
*
48114828 AGAGCATATTTCAACTAGTATAATAACAAATAATAACATTATAATAATTAATATATAATGTACTA
189 AGAGCATATTTCAACTAGTATAATAACAAATAATAATATTATAATAATTAATATATAATGTACTA
48114893 CTAT
254 CTAT
* *
48114897 TATATAACTATTATTATATTATAAATTATAATAAAAGATATAATATTGCATAATATTATAATGTT
1 TATATAACTATTATTATATTATAAATTATAATAAAAGATATAATATTACATGATATTATAATGTT
* *
48114962 TAATCATTGATACATATTATATATAAACTATTAATATAT-TATATATTATATTATATTATATTAT
66 TAATCATTGATAC--A-TATATATAAACTATTAATATATAT-TATATCATA-TACATTATA-TA-
* * * * * * *
48115026 ATTATATTGCATTATATAATATAATAAGAAGGTTAACTTTCAAATGTACGTAAAA-TATAGAGAT
124 A-TATAATGCATTATACAATATAGTAGGAGGGCTAACTTTCAAATGTACG-AAAAGTATAGAGAC
* * *
48115090 TTAGAGCATATTTTAACTAGTACAATAACAAATAATAATATTATAATAATTAATATATAATATAC
187 TTAGAGCATATTTCAACTAGTATAATAACAAATAATAATATTATAATAATTAATATATAATGTAC
48115155 TACTAT
252 TACTAT
* * * * *
48115161 TATATAACTATTATTTTATTATAGATTACAATAAAATATATAGT-TTACATGATATTATAATGTT
1 TATATAACTATTATTATATTATAAATTATAATAAAAGATATAATATTACATGATATTATAATGTT
* * * * * * *
48115225 TGATCATTGATGC--ATGTATAAACCATT-A-ATATATTATA-CA-CTACATGGA-ATGATAT-A
66 TAATCATTGATACATATATATAAACTATTAATATATATTATATCATATACAT-TATATAATATAA
* * * *
48115282 -GCATTATACAATATAGTAGGAGAGCTAACTTTCAAATATACGAAAAGTATA-AGGGCTTAGAAC
130 TGCATTATACAATATAGTAGGAGGGCTAACTTTCAAATGTACGAAAAGTATAGA-GACTTAGAGC
* ** * * * *
48115345 ATATTTCAACAAGTATAATATTAAACAATAATA-TATAATAAGTAATATAAAATGCACTACTAT
194 ATATTTCAACTAGTATAATAACAAATAATAATATTATAATAATTAATATATAATGTACTACTAT
* * *
48115408 TATAT-A-TAATTATTATATTATAGGA-TATAATAAAATATATAGTATTACA
1 TATATAACT-ATTATTATATTATA-AATTATAATAAAAGATATAATATTACA
48115457 CACAGTGGTA
Statistics
Matches: 484, Mismatches: 61, Indels: 47
0.82 0.10 0.08
Matches are distributed among these distances:
245 1 0.00
246 31 0.06
247 43 0.09
248 73 0.15
250 3 0.01
251 1 0.00
252 1 0.00
253 5 0.01
254 1 0.00
255 1 0.00
256 8 0.02
257 2 0.00
258 12 0.02
263 29 0.06
264 231 0.48
265 10 0.02
266 6 0.01
267 26 0.05
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (257 bp):
TATATAACTATTATTATATTATAAATTATAATAAAAGATATAATATTACATGATATTATAATGTT
TAATCATTGATACATATATATAAACTATTAATATATATTATATCATATACATTATATAATATAAT
GCATTATACAATATAGTAGGAGGGCTAACTTTCAAATGTACGAAAAGTATAGAGACTTAGAGCAT
ATTTCAACTAGTATAATAACAAATAATAATATTATAATAATTAATATATAATGTACTACTAT
Found at i:48115011 original size:5 final size:5
Alignment explanation
Indices: 48115003--48115047 Score: 63
Period size: 5 Copynumber: 9.0 Consensus size: 5
48114993 TAATATATTA
** *
48115003 TATAT TATAT TATAT TATAT TATAT TATAT TGCAT TATAT AATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
48115048 AATAAGAAGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
5 35 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:48122756 original size:5 final size:5
Alignment explanation
Indices: 48122741--48122770 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
48122731 AATACTTACA
48122741 TATTT TA-TT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT TATTT T
48122771 TAAATAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:48124751 original size:21 final size:20
Alignment explanation
Indices: 48124727--48124773 Score: 67
Period size: 21 Copynumber: 2.3 Consensus size: 20
48124717 ATAAGTGTCT
48124727 GTTAGTAGTTAGCAGTTAGTA
1 GTTAGTAGTTAGCAGTT-GTA
* *
48124748 GTTAGTAGTTATCAGTTGTG
1 GTTAGTAGTTAGCAGTTGTA
48124768 GTTAGT
1 GTTAGT
48124774 TACAACAGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 8 0.33
21 16 0.67
ACGTcount: A:0.23, C:0.04, G:0.30, T:0.43
Consensus pattern (20 bp):
GTTAGTAGTTAGCAGTTGTA
Found at i:48124764 original size:7 final size:7
Alignment explanation
Indices: 48124727--48124758 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
48124717 ATAAGTGTCT
48124727 GTTAGTA
1 GTTAGTA
*
48124734 GTTAGCA
1 GTTAGTA
48124741 GTTAGTA
1 GTTAGTA
48124748 GTTAGTA
1 GTTAGTA
48124755 GTTA
1 GTTA
48124759 TCAGTTGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.28, C:0.03, G:0.28, T:0.41
Consensus pattern (7 bp):
GTTAGTA
Found at i:48129350 original size:21 final size:20
Alignment explanation
Indices: 48129326--48129372 Score: 76
Period size: 21 Copynumber: 2.3 Consensus size: 20
48129316 AGAAGTGTCT
48129326 GTTAGTAGTTAACAGTTAGTG
1 GTTAGTAGTTAACAGTT-GTG
*
48129347 GTTAGTAGTTATCAGTTGTG
1 GTTAGTAGTTAACAGTTGTG
48129367 GTTAGT
1 GTTAGT
48129373 TATAACAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.23, C:0.04, G:0.30, T:0.43
Consensus pattern (20 bp):
GTTAGTAGTTAACAGTTGTG
Found at i:48130182 original size:15 final size:15
Alignment explanation
Indices: 48130162--48130211 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
48130152 AACAATTAAT
*
48130162 TTTTTTTAATGTTTA
1 TTTTTTTAATATTTA
48130177 TTTTTTTAATATTTA
1 TTTTTTTAATATTTA
* * * *
48130192 TATTTTCAACACTTA
1 TTTTTTTAATATTTA
48130207 TTTTT
1 TTTTT
48130212 AAAATTTATT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.68
Consensus pattern (15 bp):
TTTTTTTAATATTTA
Found at i:48138217 original size:18 final size:17
Alignment explanation
Indices: 48138189--48138223 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48138179 ATTATTAAGA
*
48138189 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
48138206 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
48138224 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:48138361 original size:18 final size:17
Alignment explanation
Indices: 48138333--48138367 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48138323 ATTATTAACC
*
48138333 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
48138350 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
48138368 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:48138582 original size:44 final size:45
Alignment explanation
Indices: 48138533--48138620 Score: 124
Period size: 45 Copynumber: 2.0 Consensus size: 45
48138523 ACCTCTATTA
* *
48138533 CATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCCATTC
1 CATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCCATTC
** *
48138577 CATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCCATT
1 CATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCCATT
48138621 ACACCTCTAA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
44 14 0.37
45 24 0.63
ACGTcount: A:0.30, C:0.30, G:0.06, T:0.35
Consensus pattern (45 bp):
CATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCCATTC
Found at i:48138614 original size:45 final size:43
Alignment explanation
Indices: 48138514--48138620 Score: 123
Period size: 45 Copynumber: 2.5 Consensus size: 43
48138504 TTCTCCATTA
*
48138514 TGCTATTACACCTCTATT--A--CATTCAACCAAACACAGTTT
1 TGCTATTACACCTCTATTCCATTCATTCAACCAAACACAGATT
* * **
48138553 TACTATTACGCCTCTATTCCATTCCATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATT-CATTCAACCAAACA-CAGATT
48138598 TGCTATTACACCTCTATTCCATT
1 TGCTATTACACCTCTATTCCATT
48138621 ACACCTCTAA
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 16 0.29
41 1 0.02
44 14 0.25
45 24 0.44
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.36
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATTCATTCAACCAAACACAGATT
Found at i:48138623 original size:16 final size:16
Alignment explanation
Indices: 48138602--48138634 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
48138592 TTGATTTGCT
*
48138602 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
48138618 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
48138634 A
1 A
48138635 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:48138644 original size:21 final size:21
Alignment explanation
Indices: 48138615--48138657 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
48138605 ACACCTCTAT
*
48138615 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
48138636 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
48138657 T
1 T
48138658 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:48142337 original size:18 final size:18
Alignment explanation
Indices: 48142314--48142350 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
48142304 TTTTAAACTC
*
48142314 ACCAAAAGTAAACACAAG
1 ACCAAAAATAAACACAAG
48142332 ACCAAAAATAAACACAAG
1 ACCAAAAATAAACACAAG
48142350 A
1 A
48142351 TGCATTCAAA
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:0.65, C:0.22, G:0.08, T:0.05
Consensus pattern (18 bp):
ACCAAAAATAAACACAAG
Found at i:48143223 original size:11 final size:11
Alignment explanation
Indices: 48143207--48143232 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
48143197 GTCGCCTCTT
48143207 CCTTCGTTCTA
1 CCTTCGTTCTA
48143218 CCTTCGTTCTA
1 CCTTCGTTCTA
48143229 CCTT
1 CCTT
48143233 TGCCTCCCGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.38, G:0.08, T:0.46
Consensus pattern (11 bp):
CCTTCGTTCTA
Found at i:48146410 original size:16 final size:16
Alignment explanation
Indices: 48146389--48146430 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
48146379 TTATTAAATT
*
48146389 ATATATTTTAATTATA
1 ATATATTTTAATAATA
48146405 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
48146420 AT-TATGTTTAA
1 ATATAT-TTTAA
48146431 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:48146415 original size:15 final size:15
Alignment explanation
Indices: 48146380--48146421 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
48146370 TTAAGAATTT
*
48146380 TATTAAATTAT-ATA
1 TATTTAATTATAATA
48146394 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
48146408 TATTTAATAATAAT
1 TATTTAATTATAAT
48146422 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:48146561 original size:18 final size:17
Alignment explanation
Indices: 48146533--48146567 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48146523 ATTATTAAGA
*
48146533 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
48146550 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
48146568 TTAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:48146650 original size:157 final size:157
Alignment explanation
Indices: 48146364--48146680 Score: 562
Period size: 157 Copynumber: 2.0 Consensus size: 157
48146354 ATAAGAATAT
* *
48146364 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAAAAATAATTATGTTT
*
48146429 AAATATGATTAAAATATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
48146494 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
*
48146521 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAAAAATAATTATTTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAAAAATAATTATGTTT
* *
48146586 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAATAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
48146651 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
48146678 TAA
1 TAA
48146681 GGGTATTCTA
Statistics
Matches: 152, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
157 152 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAAAAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:48146824 original size:16 final size:16
Alignment explanation
Indices: 48146803--48146838 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
48146793 GATTTGCTAT
48146803 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48146819 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
48146835 TACA
1 TACA
48146839 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:48147337 original size:27 final size:27
Alignment explanation
Indices: 48147307--48147360 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
48147297 AAAAAACTTA
*
48147307 TATATAATTATCATT-TTTTTAATTTTT
1 TATATAATTATAATTATTTTT-ATTTTT
*
48147334 TATATTATTATAATTATTTTTATTTTT
1 TATATAATTATAATTATTTTTATTTTT
48147361 ATCTGAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.69
Consensus pattern (27 bp):
TATATAATTATAATTATTTTTATTTTT
Found at i:48148635 original size:7 final size:7
Alignment explanation
Indices: 48148623--48148648 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
48148613 GATTTTTTTG
48148623 TTATTAA
1 TTATTAA
48148630 TTATTAA
1 TTATTAA
48148637 TTATTAA
1 TTATTAA
48148644 TTATT
1 TTATT
48148649 TATGTTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
TTATTAA
Found at i:48155119 original size:27 final size:27
Alignment explanation
Indices: 48155081--48155133 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
48155071 GCTGTGGGCA
48155081 CCACCATTGGCGCCTATCAGATAGGCT
1 CCACCATTGGCGCCTATCAGATAGGCT
* *
48155108 CCACCATTGGCGCCTCTGAGATAGGC
1 CCACCATTGGCGCCTATCAGATAGGC
48155134 GCAACTACTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.21, C:0.34, G:0.25, T:0.21
Consensus pattern (27 bp):
CCACCATTGGCGCCTATCAGATAGGCT
Found at i:48155254 original size:51 final size:50
Alignment explanation
Indices: 48155195--48155303 Score: 148
Period size: 51 Copynumber: 2.2 Consensus size: 50
48155185 ATGATATTTT
* * * *
48155195 ATTAAAAAATTTAATATAAAATATTGATTGGCGCCTGTC-AGATAGACGCC
1 ATTAAAAAAATTAATATAAAATATTCATTGACGCCTCTCAAG-TAGACGCC
*
48155245 ATTTAAAAAAATTAATATAAAATATTCATTGACGCCTCTCAAGTAGGCGCC
1 A-TTAAAAAAATTAATATAAAATATTCATTGACGCCTCTCAAGTAGACGCC
48155296 ATTAAAAA
1 ATTAAAAA
48155304 CATACTATTT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
50 8 0.15
51 42 0.81
52 2 0.04
ACGTcount: A:0.43, C:0.15, G:0.13, T:0.29
Consensus pattern (50 bp):
ATTAAAAAAATTAATATAAAATATTCATTGACGCCTCTCAAGTAGACGCC
Found at i:48156867 original size:105 final size:105
Alignment explanation
Indices: 48156685--48156873 Score: 326
Period size: 105 Copynumber: 1.8 Consensus size: 105
48156675 AAATTATTAT
*
48156685 GGAAATAATGTTGGTCAAAATTGTTTTGGGGTTGGTCAAAATAATGGTGTTTCTGGTCAAAATGT
1 GGAAATAATGTTGGTCAAAATTGTTTAGGGGTTGGTCAAAATAATGGTGTTTCTGGTCAAAATGT
*
48156750 GTGTGCTGATGGCTATAATGGTTTTCTAGAACAACGTGCA
66 GTGTGCTCATGGCTATAATGGTTTTCTAGAACAACGTGCA
* *
48156790 GGAAATAATGTTGGTCAAAATTGGTTTAGGGG-TGGTCAAACTAATTGTGTTTCTGGTCAAAATG
1 GGAAATAATGTTGGTCAAAATT-GTTTAGGGGTTGGTCAAAATAATGGTGTTTCTGGTCAAAATG
48156854 TGTGTGCTCATGGCTATAAT
65 TGTGTGCTCATGGCTATAAT
48156874 TGTGCAGGAC
Statistics
Matches: 79, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
105 71 0.90
106 8 0.10
ACGTcount: A:0.28, C:0.10, G:0.28, T:0.35
Consensus pattern (105 bp):
GGAAATAATGTTGGTCAAAATTGTTTAGGGGTTGGTCAAAATAATGGTGTTTCTGGTCAAAATGT
GTGTGCTCATGGCTATAATGGTTTTCTAGAACAACGTGCA
Found at i:48162240 original size:7 final size:7
Alignment explanation
Indices: 48162228--48162259 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
48162218 CATCTATTTG
48162228 AAATTCT
1 AAATTCT
48162235 AAATTCT
1 AAATTCT
48162242 AAATTCT
1 AAATTCT
*
48162249 AAATTTT
1 AAATTCT
48162256 AAAT
1 AAAT
48162260 ATTTTAAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (7 bp):
AAATTCT
Found at i:48163224 original size:14 final size:14
Alignment explanation
Indices: 48163195--48163240 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
48163185 AATTTACAAC
* *
48163195 ATATACGAATAAAT
1 ATATACAAATACAT
*
48163209 ATTTACAAATACAT
1 ATATACAAATACAT
48163223 ATATACAAATACA-
1 ATATACAAATACAT
48163236 ATATA
1 ATATA
48163241 ACAGTAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 5 0.18
14 23 0.82
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (14 bp):
ATATACAAATACAT
Found at i:48165511 original size:50 final size:50
Alignment explanation
Indices: 48165452--48165910 Score: 300
Period size: 50 Copynumber: 9.2 Consensus size: 50
48165442 CGCTGTCGTA
* * *
48165452 GCTTTAATCTGTTCCACCGCACCGTCAGGGAAGTAAGATCTGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAGATCTGCCGTTGTG
* ** * * * * *** * *
48165502 GCTTCAATCTTTTTGATTGTAATATCAGGGAAACCAGATCTGCCGTCGTA
1 GCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAGATCTGCCGTTGTG
* *
48165552 GCTTCAATCTGTTCCACTGCACTG-CTAAGGAAGTAAGATCCGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCACTGTC-AGGGAAGTAAGATCTGCCGTTGTG
* ** * * * * *** * *
48165602 GCTTCAATCTTTTTGATTGTAATATCAGGGAAACCAGATCTGCCGTCGTA
1 GCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAGATCTGCCGTTGTG
* *
48165652 GCTTCAATCTGTTCCACTGCACTG-CTAAGGAAGTAAGATCCGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCACTGTC-AGGGAAGTAAGATCTGCCGTTGTG
* ** * * * * *** * *
48165702 GCTTCAATCTTTTTGATTGTAATATCAGGGAAACCAGATCTGCCGTCGTA
1 GCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAGATCTGCCGTTGTG
* *
48165752 GCTTCAATCTGTTCCACTGCACTG-CTAAGGAAGTAAGATCTGCCGCTGTG
1 GCTTCAATCTGTTCCACTGCACTGTC-AGGGAAGTAAGATCTGCCGTTGTG
** * * * * * * *
48165802 GCTTCAATCT-TTTGATTGCAATATCAGGGAAACT-AGATCCGCCGTCGTA
1 GCTTCAATCTGTTCCACTGCACTGTCAGGG-AAGTAAGATCTGCCGTTGTG
* * * *
48165851 GCTTCAATCTGTTCCACTACACT-ACTAAGGAAGTAAGATCCGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCACTGTC-AGGGAAGTAAGATCTGCCGTTGTG
*
48165901 GCTTTAATCT
1 GCTTCAATCT
48165911 TTTTACTTTT
Statistics
Matches: 292, Mismatches: 107, Indels: 20
0.70 0.26 0.05
Matches are distributed among these distances:
49 39 0.13
50 251 0.86
51 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.22, T:0.31
Consensus pattern (50 bp):
GCTTCAATCTGTTCCACTGCACTGTCAGGGAAGTAAGATCTGCCGTTGTG
Found at i:48165602 original size:100 final size:100
Alignment explanation
Indices: 48165429--48165914 Score: 814
Period size: 100 Copynumber: 4.9 Consensus size: 100
48165419 TGCAATGTCG
* * * * * * *
48165429 GGGAAACCAGATCCGCTGTCGTAGCTTTAATCTGTTCCACCGCACCG-TCAGGGAAGTAAGATCT
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCT-AAGGAAGTAAGATCC
48165493 GCCGTTGTGGCTTCAATCTTTTTGATTGTAATATCA
65 GCCGTTGTGGCTTCAATCTTTTTGATTGTAATATCA
48165529 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
48165594 CCGTTGTGGCTTCAATCTTTTTGATTGTAATATCA
66 CCGTTGTGGCTTCAATCTTTTTGATTGTAATATCA
48165629 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
48165694 CCGTTGTGGCTTCAATCTTTTTGATTGTAATATCA
66 CCGTTGTGGCTTCAATCTTTTTGATTGTAATATCA
*
48165729 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCTG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
* *
48165794 CCGCTGTGGCTTCAATC-TTTTGATTGCAATATCA
66 CCGTTGTGGCTTCAATCTTTTTGATTGTAATATCA
* * * *
48165828 GGGAAACTAGATCCGCCGTCGTAGCTTCAATCTGTTCCACTACACTACTAAGGAAGTAAGATCCG
1 GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
*
48165893 CCGTTGTGGCTTTAATCTTTTT
66 CCGTTGTGGCTTCAATCTTTTT
48165915 ACTTTTCAAC
Statistics
Matches: 367, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
99 91 0.25
100 275 0.75
101 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (100 bp):
GGGAAACCAGATCTGCCGTCGTAGCTTCAATCTGTTCCACTGCACTGCTAAGGAAGTAAGATCCG
CCGTTGTGGCTTCAATCTTTTTGATTGTAATATCA
Found at i:48171303 original size:14 final size:14
Alignment explanation
Indices: 48171274--48171319 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 14
48171264 AATTTACAAC
* *
48171274 ATATACGAATAAAT
1 ATATACAAATACAT
*
48171288 ATTTACAAATACAT
1 ATATACAAATACAT
48171302 ATATACAAATACA-
1 ATATACAAATACAT
48171315 ATATA
1 ATATA
48171320 ACAGTAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 5 0.18
14 23 0.82
ACGTcount: A:0.57, C:0.11, G:0.02, T:0.30
Consensus pattern (14 bp):
ATATACAAATACAT
Found at i:48182305 original size:28 final size:28
Alignment explanation
Indices: 48182272--48182329 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
48182262 TACGTGAACT
* *
48182272 CTAGCTTGGTGAACATATACCTGCAAGC
1 CTAGCTTGGCGAACATATACCTACAAGC
*
48182300 CTAGCTTGGCGAACATATGCCTACAAGC
1 CTAGCTTGGCGAACATATACCTACAAGC
48182328 CT
1 CT
48182330 TACTTACGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (28 bp):
CTAGCTTGGCGAACATATACCTACAAGC
Found at i:48183998 original size:20 final size:18
Alignment explanation
Indices: 48183950--48183999 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
48183940 TTTATCTTGT
48183950 TATTAAATTAA-ATTTAA
1 TATTAAATTAATATTTAA
48183967 TATTAAGA-TAATCACTTTAA
1 TATTAA-ATTAAT-A-TTTAA
48183987 TATTAAATTAATA
1 TATTAAATTAATA
48184000 AAATACTACC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
17 9 0.32
18 1 0.04
19 3 0.11
20 15 0.54
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (18 bp):
TATTAAATTAATATTTAA
Found at i:48184069 original size:17 final size:17
Alignment explanation
Indices: 48184018--48184075 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
48184008 CCAAGATAAG
* *
48184018 TATTAAATTAAATTAAA
1 TATTAAATTTATTTAAA
*
48184035 TATTAAATTTATTAAAA
1 TATTAAATTTATTTAAA
*
48184052 TATTATTATTT-TTTAAA
1 TATTA-AATTTATTTAAA
48184069 TAATTAA
1 T-ATTAA
48184076 TCTAAAATCA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 25 0.76
18 8 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATTAAATTTATTTAAA
Found at i:48188032 original size:19 final size:19
Alignment explanation
Indices: 48188008--48188055 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
48187998 GTAATTTGTA
48188008 TGAAATTAAACTT-TCAAAT
1 TGAAATTAAACTTAT-AAAT
48188027 TGAAATTAAACTTATAAAT
1 TGAAATTAAACTTATAAAT
*
48188046 TAAAATTAAA
1 TGAAATTAAA
48188056 AGAGAAATCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.35
Consensus pattern (19 bp):
TGAAATTAAACTTATAAAT
Found at i:48190687 original size:42 final size:42
Alignment explanation
Indices: 48190630--48190787 Score: 133
Period size: 42 Copynumber: 3.8 Consensus size: 42
48190620 TCAACTCATA
* * *
48190630 TGAGTTTTAGATTAACCCTTCTGGGTTTCAGTTAAGCTCTTT
1 TGAGCTTTAGATTAACCCTTATGGGTTTCCGTTAAGCTCTTT
* * * *
48190672 TGAGCTTTAGTTTAACTCTAATGGGTTTCCGTTTAGCT-TTT
1 TGAGCTTTAGATTAACCCTTATGGGTTTCCGTTAAGCTCTTT
* * * * *
48190713 CCGAGCTTCAGATTAACCCTTATGAGTTTCCGTTCAGCTCCTAT
1 -TGAGCTTTAGATTAACCCTTATGGGTTTCCGTTAAGCT-CTTT
* * **
48190757 T-AGC-TTCGTTTAACCCTTACAGGTTTCCGTT
1 TGAGCTTTAGATTAACCCTTATGGGTTTCCGTT
48190788 TAGCATTTAT
Statistics
Matches: 91, Mismatches: 22, Indels: 7
0.76 0.18 0.06
Matches are distributed among these distances:
41 24 0.26
42 65 0.71
44 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.18, T:0.42
Consensus pattern (42 bp):
TGAGCTTTAGATTAACCCTTATGGGTTTCCGTTAAGCTCTTT
Found at i:48193725 original size:59 final size:59
Alignment explanation
Indices: 48193662--48193890 Score: 431
Period size: 59 Copynumber: 3.9 Consensus size: 59
48193652 TCAAGTTTAT
* *
48193662 TTTACTAATCAAATATTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
48193721 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
48193780 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
*
48193839 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
48193891 AATAATTTAA
Statistics
Matches: 167, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 167 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:48193926 original size:22 final size:23
Alignment explanation
Indices: 48193891--48193953 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
48193881 ATTAACAATT
*
48193891 AATAATTTAATAATTTTACT-AACA
1 AATAATTT--TAATTTTACTAAAAA
* * *
48193915 ATTAGTTTTAATTTTATTAAAAA
1 AATAATTTTAATTTTACTAAAAA
48193938 AATAATTTTAATTTTA
1 AATAATTTTAATTTTA
48193954 ATTAAAAACG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 9 0.28
23 17 0.53
24 6 0.19
ACGTcount: A:0.46, C:0.03, G:0.02, T:0.49
Consensus pattern (23 bp):
AATAATTTTAATTTTACTAAAAA
Found at i:48195197 original size:25 final size:25
Alignment explanation
Indices: 48195117--48195234 Score: 71
Period size: 25 Copynumber: 4.8 Consensus size: 25
48195107 GCCCTCTCTT
* * **
48195117 GAGCCATATAACGGGAATCTCATGT
1 GAGCCATATAACGGGAAGCTTATAA
* * **
48195142 GAGCCATGTAGCGGGAAGCTTATCC
1 GAGCCATATAACGGGAAGCTTATAA
* *
48195167 GGGCTATATAACGGGAAGCTTATAA
1 GAGCCATATAACGGGAAGCTTATAA
* * **
48195192 GAG-C-TATAATCAGGAAGCTCATGC
1 GAGCCATATAA-CGGGAAGCTTATAA
*
48195216 GAGCCA-ATAACGGGTAGCT
1 GAGCCATATAACGGGAAGCT
48195235 CCGGATAGCC
Statistics
Matches: 70, Mismatches: 20, Indels: 7
0.72 0.21 0.07
Matches are distributed among these distances:
23 5 0.07
24 20 0.29
25 45 0.64
ACGTcount: A:0.31, C:0.19, G:0.28, T:0.21
Consensus pattern (25 bp):
GAGCCATATAACGGGAAGCTTATAA
Found at i:48195450 original size:24 final size:24
Alignment explanation
Indices: 48195404--48195466 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 24
48195394 ATCACAACCA
* *
48195404 AACGGGATGCTCCGTAGAGCTAT-T
1 AACGGGAAGCT-CGTAGAACTATAT
48195428 AACGGGAAGCTCGTAGGAACTATAT
1 AACGGGAAGCTCGTA-GAACTATAT
*
48195453 AACGAGAAGCTCGT
1 AACGGGAAGCTCGT
48195467 GAGGGCTAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
23 4 0.12
24 16 0.47
25 14 0.41
ACGTcount: A:0.32, C:0.19, G:0.29, T:0.21
Consensus pattern (24 bp):
AACGGGAAGCTCGTAGAACTATAT
Found at i:48204307 original size:71 final size:71
Alignment explanation
Indices: 48204191--48204332 Score: 266
Period size: 71 Copynumber: 2.0 Consensus size: 71
48204181 TTGTCTTGTC
* *
48204191 TAATTTGTTGATGCTTCTTTATGTGAAACATTGCTGTTTTGTTCATTTTGATTTTATGACCTCTG
1 TAATTTGTTGATGCTTCTTTATGTGAAACATTGCTGTTTTATTCATTTTGATTTTATGACCTCAG
48204256 GACAAT
66 GACAAT
48204262 TAATTTGTTGATGCTTCTTTATGTGAAACATTGCTGTTTTATTCATTTTGATTTTATGACCTCAG
1 TAATTTGTTGATGCTTCTTTATGTGAAACATTGCTGTTTTATTCATTTTGATTTTATGACCTCAG
48204327 GACAAT
66 GACAAT
48204333 GCATCTGAAA
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.23, C:0.13, G:0.16, T:0.49
Consensus pattern (71 bp):
TAATTTGTTGATGCTTCTTTATGTGAAACATTGCTGTTTTATTCATTTTGATTTTATGACCTCAG
GACAAT
Found at i:48211908 original size:19 final size:19
Alignment explanation
Indices: 48211884--48211942 Score: 65
Period size: 19 Copynumber: 3.4 Consensus size: 19
48211874 AAGAAAAAAA
48211884 TTGAAAATAATCCCACAAT
1 TTGAAAATAATCCCACAAT
* *
48211903 TTGAAAA-GAT---A-AAA
1 TTGAAAATAATCCCACAAT
48211917 TTGAAAATAATCCCACAAT
1 TTGAAAATAATCCCACAAT
48211936 TTGAAAA
1 TTGAAAA
48211943 GATTACTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 9 0.29
15 3 0.10
18 3 0.10
19 16 0.52
ACGTcount: A:0.53, C:0.14, G:0.08, T:0.25
Consensus pattern (19 bp):
TTGAAAATAATCCCACAAT
Found at i:48211919 original size:33 final size:33
Alignment explanation
Indices: 48211880--48211945 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
48211870 AGACAAGAAA
48211880 AAAATTGAAAATAATCCCACAATTTGAAAAGAT
1 AAAATTGAAAATAATCCCACAATTTGAAAAGAT
48211913 AAAATTGAAAATAATCCCACAATTTGAAAAGAT
1 AAAATTGAAAATAATCCCACAATTTGAAAAGAT
48211946 TACTAAAATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.55, C:0.12, G:0.09, T:0.24
Consensus pattern (33 bp):
AAAATTGAAAATAATCCCACAATTTGAAAAGAT
Found at i:48214704 original size:34 final size:34
Alignment explanation
Indices: 48214640--48214708 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 34
48214630 AGATTTCAAT
* * * * *
48214640 AAATCAATGAATTGATATACTCTTCTGCATTTAG
1 AAATCAATAAATTCAGATACACTTCCGCATTTAG
48214674 AAATCAATAAATTCAGATACACTTCCGCATTTAG
1 AAATCAATAAATTCAGATACACTTCCGCATTTAG
48214708 A
1 A
48214709 TTTATTCTTG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.33
Consensus pattern (34 bp):
AAATCAATAAATTCAGATACACTTCCGCATTTAG
Found at i:48221230 original size:32 final size:32
Alignment explanation
Indices: 48221169--48221235 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 32
48221159 GAATTTTAAA
48221169 TTAGAGTTTAGGTTTTTTTAATTTGTAAGTGT
1 TTAGAGTTTAGGTTTTTTTAATTTGTAAGTGT
*
48221201 TTAG-GTTTAGGGTTTTATTT-ATTTTTAAGTGT
1 TTAGAGTTTA-GGTTTT-TTTAATTTGTAAGTGT
48221233 TTA
1 TTA
48221236 TTAATTTCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
31 5 0.16
32 24 0.75
33 3 0.09
ACGTcount: A:0.21, C:0.00, G:0.21, T:0.58
Consensus pattern (32 bp):
TTAGAGTTTAGGTTTTTTTAATTTGTAAGTGT
Found at i:48226093 original size:6 final size:6
Alignment explanation
Indices: 48226082--48226106 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
48226072 ACGAGTTCTC
48226082 CATCTT CATCTT CATCTT CATCTT C
1 CATCTT CATCTT CATCTT CATCTT C
48226107 CACAACGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (6 bp):
CATCTT
Found at i:48228666 original size:26 final size:26
Alignment explanation
Indices: 48228613--48228667 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
48228603 GTGGATTTAG
***
48228613 GTGTAATTGCTTGTAATTGAATTTGA
1 GTGTAATTGCTTGTAATTGAACAAGA
48228639 GTGTAATTGCTTGTAATT-ACACAAGA
1 GTGTAATTGCTTGTAATTGA-ACAAGA
48228665 GTG
1 GTG
48228668 GCTTGTTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 1 0.04
26 24 0.96
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (26 bp):
GTGTAATTGCTTGTAATTGAACAAGA
Found at i:48230114 original size:12 final size:12
Alignment explanation
Indices: 48230097--48230130 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
48230087 GGCCCACTAT
48230097 TAAAATAA-ATAA
1 TAAAATAACA-AA
48230109 TAAAATAACAAA
1 TAAAATAACAAA
48230121 TAAAATAACA
1 TAAAATAACA
48230131 CCCCAAATTG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 20 0.95
13 1 0.05
ACGTcount: A:0.74, C:0.06, G:0.00, T:0.21
Consensus pattern (12 bp):
TAAAATAACAAA
Found at i:48242431 original size:18 final size:20
Alignment explanation
Indices: 48242404--48242441 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
48242394 TTCAGCTTAA
*
48242404 AATTTTAATT-TTAA-TTTT
1 AATTTGAATTCTTAACTTTT
48242422 AATTTGAATTCTTAACTTTT
1 AATTTGAATTCTTAACTTTT
48242442 GAACTGTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 4 0.24
20 4 0.24
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.61
Consensus pattern (20 bp):
AATTTGAATTCTTAACTTTT
Found at i:48243056 original size:79 final size:79
Alignment explanation
Indices: 48242853--48243294 Score: 404
Period size: 79 Copynumber: 5.6 Consensus size: 79
48242843 CATATATGTT
** * * *
48242853 TTTTTTATTACAATATGGAGAATATTAACTGATAAAATTTGTTAATTTCGTTAGTGACGTGTGAG
1 TTTTTTATTACAATAAAGAGAATATTAACTAATAAAATTCGTTAATTTCGTTAGTGACATGTGAG
* *
48242918 CAATCATCAAATAAAA
66 CGATCATC-AA-AGAA
*
48242934 TTTTTTTATTACAATAAAGAGAATATTAACTAATAAAATTCGTTAATTTCGTTAGTGGCATGTGA
1 -TTTTTTATTACAATAAAGAGAATATTAACTAATAAAATTCGTTAATTTCGTTAGTGACATGTGA
48242999 GCGATCATCAAAGAA
65 GCGATCATCAAAGAA
** * * * *
48243014 TTTTTTATTACAATAAAGAGAATATTAACTAATAAAGCTCGTTAATTGCGTTAGTTACGTGTTAG
1 TTTTTTATTACAATAAAGAGAATATTAACTAATAAAATTCGTTAATTTCGTTAGTGACATGTGAG
*
48243079 CGATCATTAAAG-A
66 CGATCATCAAAGAA
* * * * *
48243092 TGTCATTTATTATAATAAA-AAAATATTAACTGATAAAATTCGCTAATTTCGTT-GATGACAT-T
1 T-T-TTTTATTACAATAAAGAGAATATTAACTAATAAAATTCGTTAATTTCGTTAG-TGACATGT
* *
48243154 GAGAGATCATTAAAGAAA
63 GAGCGATCATCAAAG-AA
** * * *
48243172 TTTTTTATTATGACAAA-A-AA-ATTAACTGATAAAATTCGCTAATTTCGTT-GATGACAT-TGA
1 TTTTTTATTACAATAAAGAGAATATTAACTAATAAAATTCGTTAATTTCGTTAG-TGACATGTGA
* * *
48243232 GAGATCATTAAAAAAAAA
65 GCGATCA-T--CAAAGAA
* *
48243250 TTTTATTATGACAA-AAA-A-AATACTAACTAATAAAATTCGTTAATT
1 TTTT-TTATTACAATAAAGAGAATATTAACTAATAAAATTCGTTAATT
48243295 GATTAGTGAT
Statistics
Matches: 311, Mismatches: 39, Indels: 23
0.83 0.10 0.06
Matches are distributed among these distances:
76 47 0.15
77 3 0.01
78 42 0.14
79 133 0.43
80 18 0.06
81 2 0.01
82 66 0.21
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.36
Consensus pattern (79 bp):
TTTTTTATTACAATAAAGAGAATATTAACTAATAAAATTCGTTAATTTCGTTAGTGACATGTGAG
CGATCATCAAAGAA
Found at i:48245017 original size:22 final size:22
Alignment explanation
Indices: 48244989--48245033 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
48244979 TTGGCACACC
48244989 TGCCCATCACCACAAGATAATA
1 TGCCCATCACCACAAGATAATA
48245011 TGCCCATCACCACAAGATAATA
1 TGCCCATCACCACAAGATAATA
48245033 T
1 T
48245034 AAACTCATTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.31, G:0.09, T:0.20
Consensus pattern (22 bp):
TGCCCATCACCACAAGATAATA
Found at i:48247635 original size:81 final size:79
Alignment explanation
Indices: 48247295--48247932 Score: 684
Period size: 78 Copynumber: 8.2 Consensus size: 79
48247285 AATTTGTGAC
* * * *
48247295 GATCGTTCATACGTCACTAACG-AATTAACAAATTTTATTAGTTAATATTTATTTTATTGTAATA
1 GATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTT-CTTTATTGTAATA
*
48247359 AAAAAAAT-TTTAAT
65 AAAAAAATCTTTGAT
* ** *
48247373 GATCGCTCA-ACGT-ACCTAATGAAATTAAAAAATTTTATTAGTTAATATTTTTTTATTGTAATA
1 GATCGCTCACACGTCA-CTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTATTGTAATA
* * *
48247436 AAAGACATCTTTAAT
65 AAAAAAATCTTTGAT
** *
48247451 GATCATTCA-ACGTCACTAACGAAATTAACGAATTTTATTAGTTAA-ATTTTTTTATTGTAATAA
1 GATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTATTGTAATAA
* * *
48247514 AAGACATCTTTAAT
66 AAAAAATCTTTGAT
* * * *
48247528 GACCGCTCACACGTCACTACCGAAATTAACGAGTTTTATTAGTTAACATTCTCTTTATTGTAATA
1 GATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATT-TCTTTATTGTAATA
48247593 AAAAAAATTCTTTGAT
65 AAAAAAA-TCTTTGAT
* * * *
48247609 GATCACTCACACATCACTAACGAAATTAACGAATTTTATTAGTTAATGTTCACTTTATTGTAATA
1 GATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATT-TCTTTATTGTAATA
*
48247674 AAAAAATTAC-TTGAT
65 AAAAAAAT-CTTTGAT
* * *
48247689 GATCGCTCACACGTCACTACCGAAATTAACGAGTTTTATTAGTTAACATTCTCTTTATTGTAAT-
1 GATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATT-TCTTTATTGTAATA
*
48247753 AAAAAATTCTTTGAT
65 AAAAAAATCTTTGAT
* *
48247768 GATCACTCACACATCACTAACGAAATTAACGAATTTTATTA-TT--TA-------A-TGTAATAA
1 GATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTATTGTAATAA
* *
48247822 AAAAATTTTATTTGAT
66 AAAAA--ATCTTTGAT
* * * *
48247838 GATTGCTCACACGTCACTAACGAAATTAACGAATTTTATCAGTTAATATTCTCCTTATTGTAAGA
1 GATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATT-TCTTTATTGTAATA
*
48247903 AAAAAACATATTTGAT
65 AAAAAA-ATCTTTGAT
48247919 GATCGCTCACACGT
1 GATCGCTCACACGT
48247933 GTTGATGTTT
Statistics
Matches: 486, Mismatches: 49, Indels: 47
0.84 0.08 0.08
Matches are distributed among these distances:
67 6 0.01
68 7 0.01
70 45 0.09
71 2 0.00
73 2 0.00
76 2 0.00
77 66 0.14
78 116 0.24
79 54 0.11
80 81 0.17
81 93 0.19
82 12 0.02
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (79 bp):
GATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAATATTTCTTTATTGTAATAA
AAAAAATCTTTGAT
Found at i:48247651 original size:159 final size:157
Alignment explanation
Indices: 48247308--48247930 Score: 735
Period size: 161 Copynumber: 4.0 Consensus size: 157
48247298 CGTTCATACG
*
48247308 TCACTAACG-AATTAACAAATTTTATTAGTTAATATTTATTTTATTGTAATAAAAAAAATTTTAA
1 TCACTAACGAAATTAACGAATTTTATTAGTTAA-ATTTATTTTATTGTAAT-AAAAAAATTTTAA
* ** * *
48247372 TGATCGCTCA-ACGT-ACCTAATGAAATTAAAAAATTTTATTAGTTAATATT-TTTTTATTGTAA
64 TGATCGCTCACACGTCA-CTAACGAAATTAACGAATTTTATTAGTTAACATTCTCTTTATTGTAA
* * * * *
48247434 TAAAAGACATCTTTAATGATCATTCA-ACG
128 TAAAAAAAATCTTTGATGATCACTCACACA
*
48247463 TCACTAACGAAATTAACGAATTTTATTAGTTAAATTT-TTTTATTGTAATAAAAGACATCTTTAA
1 TCACTAACGAAATTAACGAATTTTATTAGTTAAATTTATTTTATTGTAATAAAA-AAAT-TTTAA
* * *
48247527 TGACCGCTCACACGTCACTACCGAAATTAACGAGTTTTATTAGTTAACATTCTCTTTATTGTAAT
64 TGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAACATTCTCTTTATTGTAAT
48247592 AAAAAAAATTCTTTGATGATCACTCACACA
129 AAAAAAAA-TCTTTGATGATCACTCACACA
*
48247622 TCACTAACGAAATTAACGAATTTTATTAGTT-AATGTTCACTTTATTGTAATAAAAAAATTACTT
1 TCACTAACGAAATTAACGAATTTTATTAGTTAAAT-TT-ATTTTATTGTAATAAAAAAATT--TT
* * *
48247686 GATGATCGCTCACACGTCACTACCGAAATTAACGAGTTTTATTAGTTAACATTCTCTTTATTGTA
62 AATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAACATTCTCTTTATTGTA
*
48247751 AT-AAAAAATTCTTTGATGATCACTCACACA
127 ATAAAAAAAATCTTTGATGATCACTCACACA
48247781 TCACTAACGAAATTAACGAA--TT-TTA-TT--ATTTA----A-TGTAATAAAAAAATTTTATTT
1 TCACTAACGAAATTAACGAATTTTATTAGTTAAATTTATTTTATTGTAATAAAAAAATTTTA---
* * * *
48247835 GATGATTGCTCACACGTCACTAACGAAATTAACGAATTTTATCAGTTAATATTCTCCTTATTGTA
63 -ATGATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAACATTCTCTTTATTGTA
* * *
48247900 AGAAAAAAACATATTTGATGATCGCTCACAC
127 ATAAAAAAA-ATCTTTGATGATCACTCACAC
48247931 GTGTTGATGT
Statistics
Matches: 418, Mismatches: 31, Indels: 42
0.85 0.06 0.09
Matches are distributed among these distances:
145 2 0.00
147 15 0.04
148 1 0.00
149 59 0.14
150 6 0.01
151 18 0.04
152 1 0.00
153 6 0.01
154 17 0.04
155 29 0.07
156 57 0.14
157 21 0.05
158 18 0.04
159 77 0.18
160 9 0.02
161 82 0.20
ACGTcount: A:0.39, C:0.14, G:0.09, T:0.38
Consensus pattern (157 bp):
TCACTAACGAAATTAACGAATTTTATTAGTTAAATTTATTTTATTGTAATAAAAAAATTTTAATG
ATCGCTCACACGTCACTAACGAAATTAACGAATTTTATTAGTTAACATTCTCTTTATTGTAATAA
AAAAAATCTTTGATGATCACTCACACA
Found at i:48247824 original size:67 final size:69
Alignment explanation
Indices: 48247742--48247876 Score: 202
Period size: 70 Copynumber: 2.0 Consensus size: 69
48247732 TAACATTCTC
* *
48247742 TTTATTGTAAT-AAAAAA-TTCTTTGATGATCACTCACACATCACTAACGAAATTAACGAATTTT
1 TTTAATGTAATAAAAAAATTTATTTGATGATCACTCACACATCACTAACGAAATTAACGAATTTT
48247805 ATTA
66 ATTA
** *
48247809 TTTAATGTAATAAAAAAATTTTATTTGATGATTGCTCACACGTCACTAACGAAATTAACGAATTT
1 TTTAATGTAATAAAAAAA-TTTATTTGATGATCACTCACACATCACTAACGAAATTAACGAATTT
48247874 TAT
65 TAT
48247877 CAGTTAATAT
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
67 10 0.17
68 6 0.10
70 44 0.73
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (69 bp):
TTTAATGTAATAAAAAAATTTATTTGATGATCACTCACACATCACTAACGAAATTAACGAATTTT
ATTA
Found at i:48250992 original size:21 final size:22
Alignment explanation
Indices: 48250968--48251014 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
48250958 TGTTTAGAAC
*
48250968 AATAATA-TGTTAT-AATATTAA
1 AATAATATTGTAATAAAT-TTAA
48250989 AATAATATTGTAATAAATTTAA
1 AATAATATTGTAATAAATTTAA
48251011 AATA
1 AATA
48251015 TACTAACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 13 0.57
23 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
AATAATATTGTAATAAATTTAA
Found at i:48255043 original size:21 final size:21
Alignment explanation
Indices: 48254996--48255048 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
48254986 ACCATTGTTT
* * *
48254996 CTAATCTCACTACTACAGTAT
1 CTAATCTCACCACTACAATAA
* *
48255017 CCAATCTCACCACTATAATAA
1 CTAATCTCACCACTACAATAA
48255038 CTAATCTCACC
1 CTAATCTCACC
48255049 GCCACCGCTG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.36, C:0.34, G:0.02, T:0.28
Consensus pattern (21 bp):
CTAATCTCACCACTACAATAA
Found at i:48255871 original size:20 final size:21
Alignment explanation
Indices: 48255837--48255878 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
48255827 CCCGCTATCC
48255837 AATAAAAACCTAAAATT-CCT
1 AATAAAAACCTAAAATTGCCT
48255857 AATAATAAACC-AAAATTGCCT
1 AATAA-AAACCTAAAATTGCCT
48255878 A
1 A
48255879 TCCGATTAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.55, C:0.19, G:0.02, T:0.24
Consensus pattern (21 bp):
AATAAAAACCTAAAATTGCCT
Found at i:48256007 original size:32 final size:32
Alignment explanation
Indices: 48255966--48256031 Score: 107
Period size: 32 Copynumber: 2.1 Consensus size: 32
48255956 GAACACAAAA
*
48255966 TATAAATTTATATCAAATT-TGATTATTTAGCT
1 TATAAATTTATATCAAATTCAG-TTATTTAGCT
48255998 TATAAATTTATATCAAATTCAGTTATTTAGCT
1 TATAAATTTATATCAAATTCAGTTATTTAGCT
48256030 TA
1 TA
48256032 GGTAAAAACT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 31 0.97
33 1 0.03
ACGTcount: A:0.38, C:0.08, G:0.06, T:0.48
Consensus pattern (32 bp):
TATAAATTTATATCAAATTCAGTTATTTAGCT
Found at i:48258447 original size:36 final size:36
Alignment explanation
Indices: 48258400--48258508 Score: 200
Period size: 36 Copynumber: 3.0 Consensus size: 36
48258390 GCTAAGCTAC
*
48258400 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
48258436 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
*
48258472 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
48258508 C
1 C
48258509 TAAAGCTACC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 71 1.00
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
Found at i:48258447 original size:43 final size:42
Alignment explanation
Indices: 48258355--48258483 Score: 139
Period size: 36 Copynumber: 3.2 Consensus size: 42
48258345 CTTATGTATG
* *
48258355 ATCACTTATCATTTGTC-CCTGATCAGATAAGTGTAGCTAAGC-T
1 ATCACTTATCATTTGTCACTTGATCAGATAAGTATAGC--A-CTT
*
48258398 ACCACTTATCACTTTGTCACTTGATCAGATAAGTATAGCACTT
1 ATCACTTATCA-TTTGTCACTTGATCAGATAAGTATAGCACTT
48258441 ATCAC---T--TTT-TCACTTGATCAGATAAGTATAGCACTT
1 ATCACTTATCATTTGTCACTTGATCAGATAAGTATAGCACTT
48258477 ATCACTT
1 ATCACTT
48258484 TTTCACTTGA
Statistics
Matches: 77, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
36 32 0.42
37 3 0.04
40 1 0.01
42 1 0.01
43 16 0.21
44 6 0.08
45 18 0.23
ACGTcount: A:0.29, C:0.22, G:0.12, T:0.36
Consensus pattern (42 bp):
ATCACTTATCATTTGTCACTTGATCAGATAAGTATAGCACTT
Found at i:48270965 original size:10 final size:9
Alignment explanation
Indices: 48270935--48270994 Score: 50
Period size: 9 Copynumber: 6.6 Consensus size: 9
48270925 TATTATTATG
*
48270935 ATTTTTATA
1 ATTTTAATA
* *
48270944 GTTTTGATA
1 ATTTTAATA
48270953 ATTTTATATA
1 ATTTTA-ATA
48270963 ATTTTAATA
1 ATTTTAATA
* *
48270972 CTTGTAATA
1 ATTTTAATA
48270981 GATTTT-ATA
1 -ATTTTAATA
48270990 ATTTT
1 ATTTT
48270995 TATGAGTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
8 5 0.12
9 24 0.59
10 12 0.29
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (9 bp):
ATTTTAATA
Found at i:48271005 original size:19 final size:18
Alignment explanation
Indices: 48270930--48271030 Score: 69
Period size: 19 Copynumber: 5.3 Consensus size: 18
48270920 TTTTTTATTA
*
48270930 TTATGATTTTTATAGTTT
1 TTATAATTTTTATAGTTT
* *
48270948 TGATAATTTTATATAATTT
1 TTATAATTTT-TATAGTTT
* * * * *
48270967 TAATACTTGTAATAGATT
1 TTATAATTTTTATAGTTT
48270985 TTATAATTTTTATGAGTTT
1 TTATAATTTTTAT-AGTTT
48271004 TTATAGAATTTTGT-TATGTTT
1 TTAT--AATTTT-TATA-GTTT
48271025 TTATAA
1 TTATAA
48271031 AAATTTAAAT
Statistics
Matches: 63, Mismatches: 14, Indels: 11
0.72 0.16 0.12
Matches are distributed among these distances:
18 22 0.35
19 24 0.38
20 1 0.02
21 15 0.24
22 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.10, T:0.58
Consensus pattern (18 bp):
TTATAATTTTTATAGTTT
Found at i:48271009 original size:28 final size:27
Alignment explanation
Indices: 48270930--48271015 Score: 75
Period size: 28 Copynumber: 3.1 Consensus size: 27
48270920 TTTTTTATTA
* *
48270930 TTATGATTTTTATAGTTTTGATA-ATTT
1 TTATAATTTTTATAGTTTTAATAGA-TT
* * *
48270957 TATATAATTTTAATACTTGTAATAGATT
1 T-TATAATTTTTATAGTTTTAATAGATT
*
48270985 TTATAATTTTTATGAGTTTTTATAGAATT
1 TTATAATTTTTAT-AGTTTTAATAG-ATT
48271014 TT
1 TT
48271016 GTTATGTTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
27 12 0.26
28 28 0.61
29 6 0.13
ACGTcount: A:0.31, C:0.01, G:0.09, T:0.58
Consensus pattern (27 bp):
TTATAATTTTTATAGTTTTAATAGATT
Found at i:48271024 original size:21 final size:20
Alignment explanation
Indices: 48270983--48271058 Score: 66
Period size: 22 Copynumber: 3.7 Consensus size: 20
48270973 TTGTAATAGA
*
48270983 TTTTAT-AATTTTTATGA-GT
1 TTTTATAAATTTTAAT-ATGT
**
48271002 TTTTATAGAATTTTGTTATGT
1 TTTTATA-AATTTTAATATGT
*
48271023 TTTTATAAAAATTTAAATATGT
1 TTTTAT--AAATTTTAATATGT
48271045 TTTTATAAATTTTA
1 TTTTATAAATTTTA
48271059 TTTTTATTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
19 6 0.13
20 8 0.17
21 15 0.33
22 16 0.35
23 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (20 bp):
TTTTATAAATTTTAATATGT
Found at i:48271092 original size:28 final size:28
Alignment explanation
Indices: 48271039--48271093 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
48271029 AAAAATTTAA
*
48271039 ATATGTTTTTATAAATTTTATTTTTATT
1 ATATGTTTTTATAAATTTTATCTTTATT
48271067 ATAT-TTTTTAT-AATATTTATACTTTAT
1 ATATGTTTTTATAAAT-TTTAT-CTTTAT
48271094 ATCTATTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
26 3 0.12
27 12 0.50
28 9 0.38
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (28 bp):
ATATGTTTTTATAAATTTTATCTTTATT
Found at i:48272357 original size:19 final size:19
Alignment explanation
Indices: 48272333--48272424 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
48272323 AATCATATAT
48272333 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
48272352 TCTAAGATTATATATCATA
1 TCTAAGATTGCATATCATA
48272371 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
48272390 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
48272409 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
48272425 CTAAAAAATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:48272380 original size:38 final size:38
Alignment explanation
Indices: 48272310--48272424 Score: 158
Period size: 38 Copynumber: 2.9 Consensus size: 38
48272300 AAATTAAATC
*
48272310 TCTAAGATTACAAAATCATATATTCTAAGATTGCATATCATA
1 TCTAAGATTAC-ATATC--ATA-TCTAAGATTGCATATCATA
*
48272352 TCTAAGATTATATATCATATCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATATCTAAGATTGCATATCATA
* *
48272390 TCTAGGATTGCATATCATATCTAAGATTGCATATC
1 TCTAAGATTACATATCATATCTAAGATTGCATATC
48272425 CTAAAAAATT
Statistics
Matches: 68, Mismatches: 5, Indels: 4
0.88 0.06 0.05
Matches are distributed among these distances:
38 51 0.75
39 3 0.04
41 4 0.06
42 10 0.15
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (38 bp):
TCTAAGATTACATATCATATCTAAGATTGCATATCATA
Found at i:48275121 original size:3 final size:3
Alignment explanation
Indices: 48275113--48275193 Score: 92
Period size: 3 Copynumber: 26.7 Consensus size: 3
48275103 TTTAGCAATT
*
48275113 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCT- TTA CTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * **
48275158 TTA TATA TTA TTA TTA TCA ATA TTA TGG TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
48275194 GTGATGTTTT
Statistics
Matches: 65, Mismatches: 10, Indels: 6
0.80 0.12 0.07
Matches are distributed among these distances:
2 1 0.02
3 60 0.92
4 4 0.06
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:48275485 original size:18 final size:18
Alignment explanation
Indices: 48275448--48275484 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
48275438 TTTTAAAATG
48275448 TATTTCATATATTTTATA
1 TATTTCATATATTTTATA
*
48275466 TATTTCGTA-A-TTTATA
1 TATTTCATATATTTTATA
48275482 TAT
1 TAT
48275485 ACACACATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 9 0.50
17 1 0.06
18 8 0.44
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.59
Consensus pattern (18 bp):
TATTTCATATATTTTATA
Found at i:48283776 original size:6 final size:6
Alignment explanation
Indices: 48283765--48283791 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
48283755 ATAAATAATA
48283765 AAATTT AAATTT AAATTT AAATTT AAA
1 AAATTT AAATTT AAATTT AAATTT AAA
48283792 ATACATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (6 bp):
AAATTT
Found at i:48284465 original size:41 final size:41
Alignment explanation
Indices: 48284420--48284509 Score: 119
Period size: 41 Copynumber: 2.2 Consensus size: 41
48284410 GCTTAGCACG
* *
48284420 CCCGTGTGCTAG-TCATGTGTCTCACATGACCTAGTCACACT
1 CCCGTGTGCTAGCT-ATGTGTCTCACACGACCTAGTCACACA
* *
48284461 CCCGTGTGCTAGCTGTGTGTCTCACACGGCCTAGTCACACA
1 CCCGTGTGCTAGCTATGTGTCTCACACGACCTAGTCACACA
*
48284502 CCCATGTG
1 CCCGTGTG
48284510 TCTGGCCATG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
41 42 0.98
42 1 0.02
ACGTcount: A:0.18, C:0.33, G:0.22, T:0.27
Consensus pattern (41 bp):
CCCGTGTGCTAGCTATGTGTCTCACACGACCTAGTCACACA
Found at i:48285532 original size:40 final size:40
Alignment explanation
Indices: 48285488--48285617 Score: 124
Period size: 40 Copynumber: 3.3 Consensus size: 40
48285478 ATACACCAGT
**
48285488 TTGACACCCAGTGCCTCATCAGATAATTCGAAGTAATAAA
1 TTGACACCCAGTGCCTCATCAGATAAACCGAAGTAATAAA
* *
48285528 TTGACACCCAGTGTCTCATCAGTTAAACCGAAG---TAAA
1 TTGACACCCAGTGCCTCATCAGATAAACCGAAGTAATAAA
* * * * *
48285565 TTGGCATCCAGTACCTCATC-GAACAAATCCGAAGTGATAAA
1 TTGACACCCAGTGCCTCATCAG-ATAAA-CCGAAGTAATAAA
*
48285606 TTGGCACCCAGT
1 TTGACACCCAGT
48285618 CATCAACTCA
Statistics
Matches: 74, Mismatches: 11, Indels: 9
0.79 0.12 0.10
Matches are distributed among these distances:
36 1 0.01
37 23 0.31
38 6 0.08
40 29 0.39
41 15 0.20
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.24
Consensus pattern (40 bp):
TTGACACCCAGTGCCTCATCAGATAAACCGAAGTAATAAA
Found at i:48291531 original size:19 final size:19
Alignment explanation
Indices: 48291480--48291537 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
48291470 ATATACTTAA
*
48291480 ATATTAAATAAACATAT-T
1 ATATTAAATATACATATGT
*
48291498 TTATTAATATATACATATGT
1 ATATTAA-ATATACATATGT
* *
48291518 ATATTAAATTTACACATGT
1 ATATTAAATATACATATGT
48291537 A
1 A
48291538 ATCACTAATA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 6 0.18
19 20 0.61
20 7 0.21
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (19 bp):
ATATTAAATATACATATGT
Found at i:48301770 original size:34 final size:34
Alignment explanation
Indices: 48301727--48301795 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
48301717 TGTATTATAA
48301727 TTTAGTATATATACACACGCATATTCATGCATGC
1 TTTAGTATATATACACACGCATATTCATGCATGC
48301761 TTTAGTATATATACACACGCATATTCATGCATGC
1 TTTAGTATATATACACACGCATATTCATGCATGC
48301795 T
1 T
48301796 ATCTGATGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (34 bp):
TTTAGTATATATACACACGCATATTCATGCATGC
Found at i:48303771 original size:22 final size:18
Alignment explanation
Indices: 48303719--48303776 Score: 77
Period size: 17 Copynumber: 3.4 Consensus size: 18
48303709 TTTTTATGTT
48303719 TTATA-AATATTATTTTA
1 TTATATAATATTATTTTA
48303736 TTATATAATA-TATTTTA
1 TTATATAATATTATTTTA
* *
48303753 TTATATTA-ATTATATTA
1 TTATATAATATTATTTTA
48303770 TTATATA
1 TTATATA
48303777 TTAAATAAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
16 1 0.03
17 31 0.86
18 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
TTATATAATATTATTTTA
Found at i:48306887 original size:22 final size:21
Alignment explanation
Indices: 48306862--48306921 Score: 84
Period size: 22 Copynumber: 2.7 Consensus size: 21
48306852 CTATACAAAT
48306862 AGCATAAATGTGCTAAACGGAG
1 AGCAT-AATGTGCTAAACGGAG
*
48306884 AGCATTAATGTGCTAAACTGAG
1 AGCA-TAATGTGCTAAACGGAG
48306906 AGCACTAATGTGCTAA
1 AGCA-TAATGTGCTAA
48306922 TAATCGGAGA
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
22 34 0.97
23 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.23
Consensus pattern (21 bp):
AGCATAATGTGCTAAACGGAG
Found at i:48308173 original size:70 final size:70
Alignment explanation
Indices: 48308060--48308199 Score: 217
Period size: 70 Copynumber: 2.0 Consensus size: 70
48308050 CTCAGATATA
* * * *
48308060 AAAAAGAGATCATACCCAGTAAATTAGGACACGATCTTTTCTTACTTCCCGAGATCTTTTAAAAC
1 AAAAAGAGATCATACCCAGTAAATTAGGACACAATCTCTTCTTAATTCCCGAGATCGTTTAAAAC
48308125 TTGAG
66 TTGAG
* * *
48308130 AAAAAGAGATCATGCCCAGTAAGTTAGGACACAATCTCTTCTTAATTCTCGAGATCGTTTAAAAC
1 AAAAAGAGATCATACCCAGTAAATTAGGACACAATCTCTTCTTAATTCCCGAGATCGTTTAAAAC
48308195 TTGAG
66 TTGAG
48308200 TTTGAAAAGA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (70 bp):
AAAAAGAGATCATACCCAGTAAATTAGGACACAATCTCTTCTTAATTCCCGAGATCGTTTAAAAC
TTGAG
Found at i:48308852 original size:26 final size:27
Alignment explanation
Indices: 48308815--48308866 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
48308805 ATATATACAC
*
48308815 AAATTTACAATAAATAATATATAAAAG
1 AAATTTACAATAAATAATACATAAAAG
*
48308842 AAATTTA-AATAAATTATACATAAAA
1 AAATTTACAATAAATAATACATAAAA
48308867 CAGTTCAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 16 0.70
27 7 0.30
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (27 bp):
AAATTTACAATAAATAATACATAAAAG
Found at i:48309770 original size:15 final size:15
Alignment explanation
Indices: 48309735--48309771 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 15
48309725 GTACAAAAAC
48309735 AAAAATAAAAGAGAT
1 AAAAATAAAAGAGAT
48309750 AAAAAATAAAAAGAGAT
1 -AAAAAT-AAAAGAGAT
48309767 AAAAA
1 AAAAA
48309772 CAATAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 11 0.55
17 9 0.45
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (15 bp):
AAAAATAAAAGAGAT
Found at i:48309779 original size:19 final size:17
Alignment explanation
Indices: 48309735--48309771 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
48309725 GTACAAAAAC
48309735 AAAAAT-AAAAGAGATA
1 AAAAATAAAAAGAGATA
48309751 AAAAATAAAAAGAGATA
1 AAAAATAAAAAGAGATA
48309768 AAAA
1 AAAA
48309772 CAATAAAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 6 0.30
17 14 0.70
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (17 bp):
AAAAATAAAAAGAGATA
Found at i:48310325 original size:21 final size:22
Alignment explanation
Indices: 48310301--48310355 Score: 78
Period size: 21 Copynumber: 2.6 Consensus size: 22
48310291 AACAACGGTG
48310301 GCGGTGAGATTAGG-TACTGTA
1 GCGGTGAGATTAGGATACTGTA
48310322 GCGGTGAGATT-GGATACTGTA
1 GCGGTGAGATTAGGATACTGTA
**
48310343 GCAATGAGATTAG
1 GCGGTGAGATTAG
48310356 AAACAACGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.27, C:0.09, G:0.36, T:0.27
Consensus pattern (22 bp):
GCGGTGAGATTAGGATACTGTA
Found at i:48310542 original size:18 final size:18
Alignment explanation
Indices: 48310519--48310652 Score: 90
Period size: 18 Copynumber: 7.9 Consensus size: 18
48310509 TTATTATTAA
48310519 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
48310537 ATATAATTTAAT-AAAAT
1 ATATAATTTAATAAAAAT
*
48310554 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * *
48310572 -TATAATAT-ATAATATT
1 ATATAATTTAATAAAAAT
* * *
48310588 ATAAAATATAATTTAAAAT
1 ATATAATTTAA-TAAAAAT
* *
48310607 A-ATTA-TT-AT--CAA-
1 ATATAATTTAATAAAAAT
*
48310619 ATATAATTTAACAAAAAT
1 ATATAATTTAATAAAAAT
48310637 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
48310653 TTCTTAGTAT
Statistics
Matches: 88, Mismatches: 17, Indels: 22
0.69 0.13 0.17
Matches are distributed among these distances:
12 1 0.01
13 5 0.06
14 2 0.02
15 3 0.03
16 8 0.09
17 22 0.25
18 42 0.48
19 5 0.06
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:48310590 original size:15 final size:15
Alignment explanation
Indices: 48310570--48310625 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
48310560 ATTTACTAAA
*
48310570 ATTATAATATATAAT
1 ATTATAAAATATAAT
48310585 ATTATAAAATAT-A-
1 ATTATAAAATATAAT
*
48310598 ATT-TAAAATA-ATT
1 ATTATAAAATATAAT
*
48310611 ATTATCAAATATAAT
1 ATTATAAAATATAAT
48310626 TTAACAAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
12 7 0.21
13 6 0.18
14 7 0.21
15 13 0.39
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTATAAAATATAAT
Found at i:48310638 original size:59 final size:58
Alignment explanation
Indices: 48310575--48310773 Score: 192
Period size: 59 Copynumber: 3.3 Consensus size: 58
48310565 CTAAAATTAT
48310575 AATATATAATATT-ATAAAATATAATTTAAAATAATTATTATCAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAATTTAAAATAATTATTAT-AAATATAATTTAACAAA
* * * * * ** *
48310634 AATATATAATTTAATAAAATTCTTAGTATT-AAAT-ATTCTTATATGAATTTACTAAAATC-AT
1 AATATATAATTTAATAAAA-T-ATAAT-TTAAAATAATTATTATA--AATATAATTTAA-CAAA
*
48310695 AATATATAATACT-ATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAACAAA
1 AATATATAAT-TTAATAAAATATAATTTAAAATAATTATTA-TAAATATAATTTAACAAA
48310754 AATATATAATTTAATAAAAT
1 AATATATAATTTAATAAAAT
48310774 TCTTAGTATT
Statistics
Matches: 109, Mismatches: 18, Indels: 26
0.71 0.12 0.17
Matches are distributed among these distances:
58 6 0.06
59 50 0.46
60 15 0.14
61 34 0.31
62 4 0.04
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (58 bp):
AATATATAATTTAATAAAATATAATTTAAAATAATTATTATAAATATAATTTAACAAA
Found at i:48310686 original size:120 final size:120
Alignment explanation
Indices: 48310553--48310795 Score: 459
Period size: 120 Copynumber: 2.0 Consensus size: 120
48310543 TTTAATAAAA
* *
48310553 TATATGAATTTACTAAAATTATAATATATAATATTATAAAATATAATTTAAAATAATTATTATCA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATCA
48310618 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
*
48310673 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATTA
1 TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATCA
48310738 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
66 AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
48310793 TAT
1 TAT
48310796 GATTGTATCA
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (120 bp):
TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAATTATTATCA
AATATAATTTAACAAAAATATATAATTTAATAAAATTCTTAGTATTAAATATTCT
Found at i:48313097 original size:6 final size:6
Alignment explanation
Indices: 48313086--48313123 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
48313076 AGAGCAAACC
*
48313086 AAGGGG AAGGGG AAAGGG AAGGGG AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
48313124 GAAGAAGGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:48313106 original size:12 final size:12
Alignment explanation
Indices: 48313089--48313135 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
48313079 GCAAACCAAG
48313089 GGGAAGGGGAAA
1 GGGAAGGGGAAA
*
48313101 GGGAAGGGGAAG
1 GGGAAGGGGAAA
48313113 GGGAAAGGGGAGAA
1 GGG-AAGGGGA-AA
48313127 --GAAGGGGAA
1 GGGAAGGGGAA
48313136 CCAAAGATCA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
10 1 0.03
11 7 0.23
12 15 0.48
13 7 0.23
14 1 0.03
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (12 bp):
GGGAAGGGGAAA
Found at i:48313109 original size:18 final size:18
Alignment explanation
Indices: 48313086--48313135 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
48313076 AGAGCAAACC
48313086 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
48313104 AAGGGGAAGGGGAAAGGG
1 AAGGGGAAGGGGAAAGGG
* **
48313122 GAGAAGAAGGGGAA
1 AAGGGGAAGGGGAA
48313136 CCAAAGATCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (18 bp):
AAGGGGAAGGGGAAAGGG
Found at i:48314800 original size:13 final size:13
Alignment explanation
Indices: 48314782--48314806 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48314772 AAATTATTCA
48314782 ACCCAACCCAATT
1 ACCCAACCCAATT
48314795 ACCCAACCCAAT
1 ACCCAACCCAAT
48314807 AAAACTAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.48, G:0.00, T:0.12
Consensus pattern (13 bp):
ACCCAACCCAATT
Found at i:48314854 original size:38 final size:39
Alignment explanation
Indices: 48314787--48314861 Score: 116
Period size: 38 Copynumber: 1.9 Consensus size: 39
48314777 ATTCAACCCA
*
48314787 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTACCCAACCCAATAAAAATAAAACTAAAGTCT
* *
48314826 ACCCAATTA-TCAACTCAATAAAAATAAAACTAAAGT
1 ACCCAATTACCCAACCCAATAAAAATAAAACTAAAGT
48314862 TTAACTCTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 24 0.73
39 9 0.27
ACGTcount: A:0.52, C:0.25, G:0.03, T:0.20
Consensus pattern (39 bp):
ACCCAATTACCCAACCCAATAAAAATAAAACTAAAGTCT
Found at i:48320466 original size:10 final size:11
Alignment explanation
Indices: 48320451--48320497 Score: 60
Period size: 11 Copynumber: 4.3 Consensus size: 11
48320441 CAACTAAATC
48320451 ATTTCTCTC-A
1 ATTTCTCTCAA
*
48320461 ATTTCTCTCTA
1 ATTTCTCTCAA
48320472 ATATTCTCTCAA
1 AT-TTCTCTCAA
*
48320484 ATTCCTCTCAA
1 ATTTCTCTCAA
48320495 ATT
1 ATT
48320498 CCTATTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
10 9 0.27
11 14 0.42
12 10 0.30
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.47
Consensus pattern (11 bp):
ATTTCTCTCAA
Found at i:48320478 original size:12 final size:10
Alignment explanation
Indices: 48320451--48320494 Score: 52
Period size: 10 Copynumber: 4.1 Consensus size: 10
48320441 CAACTAAATC
48320451 ATTTCTCTCA
1 ATTTCTCTCA
48320461 ATTTCTCTCTA
1 ATTTCTCTC-A
48320472 ATATTCTCTCAA
1 AT-TTCTCTC-A
*
48320484 ATTCCTCTCA
1 ATTTCTCTCA
48320494 A
1 A
48320495 ATTCCTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 11 0.37
11 9 0.30
12 10 0.33
ACGTcount: A:0.25, C:0.30, G:0.00, T:0.45
Consensus pattern (10 bp):
ATTTCTCTCA
Found at i:48322323 original size:18 final size:18
Alignment explanation
Indices: 48322300--48322342 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
48322290 TGCCAGGTGC
*
48322300 GTATCCTAACCCTTTTAT
1 GTATCCTAACCCTTATAT
*
48322318 GTATCCTAACTCTTATAT
1 GTATCCTAACCCTTATAT
*
48322336 GTTTCCT
1 GTATCCT
48322343 TTTCCTAGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.26, G:0.07, T:0.47
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:48322820 original size:49 final size:49
Alignment explanation
Indices: 48322765--48322883 Score: 202
Period size: 49 Copynumber: 2.4 Consensus size: 49
48322755 TTATATTAAT
* *
48322765 GTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTGAA
1 GTAATAAAATACAAAATAGTTTATTTTGAATATTTTAATATTATTTCAA
*
48322814 GTAATAAAATACAAAATAGTTTATTTTGAATATTTTAATATTATTTCAT
1 GTAATAAAATACAAAATAGTTTATTTTGAATATTTTAATATTATTTCAA
*
48322863 TTAATAAAATACAAAATAGTT
1 GTAATAAAATACAAAATAGTT
48322884 AATATTCTTA
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 66 1.00
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.44
Consensus pattern (49 bp):
GTAATAAAATACAAAATAGTTTATTTTGAATATTTTAATATTATTTCAA
Done.