Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 145 of 204
Found at i:44351342 original size:9 final size:9
Alignment explanation
Indices: 44351330--44351805 Score: 116
Period size: 9 Copynumber: 52.1 Consensus size: 9
44351320 TTAAAATAGT
44351330 TAACTTACA
1 TAACTTACA
44351339 TAACTTA-A
1 TAACTTACA
44351347 TTAA-TTA-A
1 -TAACTTACA
* *
44351355 T-ATTATATA
1 TAACT-TACA
44351364 TAACTTACA
1 TAACTTACA
44351373 TAACTTAC-
1 TAACTTACA
44351381 -AACTTACA
1 TAACTTACA
44351389 TAACTTACA
1 TAACTTACA
*
44351398 TTAATATTAAACA
1 -TAA-CTT--ACA
*
44351411 TAAATTACA
1 TAACTTACA
44351420 TAACTTACA
1 TAACTTACA
*
44351429 TTAATATTATACA
1 -T-A-ACT-TACA
*
44351442 TAAATTACA
1 TAACTTACA
44351451 TAACTTA-A
1 TAACTTACA
44351459 TTAA-TTA-A
1 -TAACTTACA
*
44351467 -AA--TACCG
1 TAACTTA-CA
*
44351474 GAA-TTACA
1 TAACTTACA
44351482 TAACTTACA
1 TAACTTACA
*
44351491 TTAATATTATACA
1 -T-A-ACT-TACA
*
44351504 TAAATTACA
1 TAACTTACA
44351513 TAACTTA-A
1 TAACTTACA
44351521 TTAA-TTA-A
1 -TAACTTACA
*
44351529 T-ATTATACA
1 TAACT-TACA
*
44351538 TAAATTACA
1 TAACTTACA
*
44351547 TAACTTGCA
1 TAACTTACA
*
44351556 TTAATATTATACA
1 -T-A-ACT-TACA
*
44351569 TAAATTACA
1 TAACTTACA
*
44351578 TGACTTA-A
1 TAACTTACA
44351586 TTAA-TTA-A
1 -TAACTTACA
*
44351594 T-ATTATACA
1 TAACT-TACA
*
44351603 TAAATTACA
1 TAACTTACA
44351612 TAACTTACA
1 TAACTTACA
*
44351621 TTAATGCAATACA
1 -TAA--C-TTACA
*
44351634 TAAATTACA
1 TAACTTACA
44351643 TAACTT-CA
1 TAACTTACA
44351651 TTAA-TTA-A
1 -TAACTTACA
*
44351659 T-ATTATACA
1 TAACT-TACA
44351668 TAACTTACA
1 TAACTTACA
44351677 TAACTTACA
1 TAACTTACA
***
44351686 TTTTTTTA-A
1 -TAACTTACA
*
44351695 TTA-TT-CA
1 TAACTTACA
*
44351702 TAAATTACA
1 TAACTTACA
44351711 TAACTTACA
1 TAACTTACA
*
44351720 TTAATGCAATACA
1 -TAA--C-TTACA
*
44351733 TAAATTACA
1 TAACTTACA
44351742 TAA-TTA-A
1 TAACTTACA
*
44351749 TTAATATTATACA
1 -T-A-ACT-TACA
44351762 TAACTTACA
1 TAACTTACA
44351771 TAACTTAC-
1 TAACTTACA
44351779 -AACTTACA
1 TAACTTACA
44351787 TAACTTACA
1 TAACTTACA
44351796 TAACTTACA
1 TAACTTACA
44351805 T
1 T
44351806 TGTGGGTACA
Statistics
Matches: 363, Mismatches: 39, Indels: 130
0.68 0.07 0.24
Matches are distributed among these distances:
5 2 0.01
6 6 0.02
7 28 0.08
8 46 0.13
9 189 0.52
10 33 0.09
11 13 0.04
12 23 0.06
13 23 0.06
ACGTcount: A:0.47, C:0.14, G:0.01, T:0.38
Consensus pattern (9 bp):
TAACTTACA
Found at i:44351386 original size:16 final size:16
Alignment explanation
Indices: 44351365--44351397 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
44351355 TATTATATAT
44351365 AACTTACATAACTTAC
1 AACTTACATAACTTAC
44351381 AACTTACATAACTTAC
1 AACTTACATAACTTAC
44351397 A
1 A
44351398 TTAATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:44351422 original size:31 final size:31
Alignment explanation
Indices: 44351384--44351779 Score: 456
Period size: 31 Copynumber: 12.5 Consensus size: 31
44351374 AACTTACAAC
*
44351384 TTACATAACTTACATTAATATTAAACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
44351415 TTACATAACTTACATTAATATTATACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
** ***
44351446 TTACATAACTTA-ATTAATTAAAATACCGGAA
1 TTACATAACTTACATTAA-TATTATACATAAA
44351477 TTACATAACTTACATTAATATTATACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
*
44351508 TTACATAACTTAATTAATTAATATTATACATAAA
1 TTACATAACTT-A--CATTAATATTATACATAAA
*
44351542 TTACATAACTTGCATTAATATTATACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
* *
44351573 TTACATGACTTAATTAATTAATATTATACATAAA
1 TTACATAACTT-A--CATTAATATTATACATAAA
***
44351607 TTACATAACTTACATTAATGCAATACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
* *
44351638 TTACATAACTTCATTAATTAATATTATACATAAC
1 TTACATAACTT-A--CATTAATATTATACATAAA
** *
44351672 TTACATAACTTACATTTTTTTAATTATTCATAAA
1 TTACATAACTTACA--TTAAT-ATTATACATAAA
***
44351706 TTACATAACTTACATTAATGCAATACATAAA
1 TTACATAACTTACATTAATATTATACATAAA
*
44351737 TTACATAA-TTA-ATTAATATTATACATAAC
1 TTACATAACTTACATTAATATTATACATAAA
44351766 TTACATAACTTACA
1 TTACATAACTTACA
44351780 ACTTACATAA
Statistics
Matches: 307, Mismatches: 42, Indels: 32
0.81 0.11 0.08
Matches are distributed among these distances:
29 22 0.07
30 11 0.04
31 153 0.50
32 10 0.03
33 5 0.02
34 106 0.35
ACGTcount: A:0.47, C:0.13, G:0.02, T:0.39
Consensus pattern (31 bp):
TTACATAACTTACATTAATATTATACATAAA
Found at i:44351584 original size:65 final size:65
Alignment explanation
Indices: 44351397--44351777 Score: 510
Period size: 65 Copynumber: 5.9 Consensus size: 65
44351387 CATAACTTAC
*
44351397 ATTAATATTAAACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
***
44351462 ATTAA-A--ATACCGGAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
* *
44351524 ATTAATATTATACATAAATTACATAACTTGCATTAATATTATACATAAATTACATGACTTAATTA
1 ATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
*** *
44351589 ATTAATATTATACATAAATTACATAACTTACATTAATGCAATACATAAATTACATAACTTCATTA
1 ATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
* ** *
44351654 ATTAATATTATACATAACTTACATAACTTACATTTTTTTAATTATTCATAAATTACATAACTTAC
1 ATTAATATTATACATAAATTACATAACTTACA--TTAAT-ATTATACATAAATTACATAACTTA-
44351719 ATTA
62 ATTA
** *
44351723 A-T-GCA--ATACATAAATTACATAA-TTA-ATTAATATTATACATAACTTACATAACTTA
1 ATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTA
44351778 CAACTTACAT
Statistics
Matches: 279, Mismatches: 30, Indels: 19
0.85 0.09 0.06
Matches are distributed among these distances:
60 22 0.08
61 3 0.01
62 57 0.20
63 2 0.01
64 4 0.01
65 162 0.58
67 4 0.01
68 20 0.07
69 5 0.02
ACGTcount: A:0.47, C:0.12, G:0.02, T:0.39
Consensus pattern (65 bp):
ATTAATATTATACATAAATTACATAACTTACATTAATATTATACATAAATTACATAACTTAATTA
Found at i:44351784 original size:16 final size:17
Alignment explanation
Indices: 44351758--44351805 Score: 71
Period size: 16 Copynumber: 2.8 Consensus size: 17
44351748 ATTAATATTA
44351758 TACATAACTTACATAACT
1 TACA-AACTTACATAACT
44351776 TAC-AACTTACATAACT
1 TACAAACTTACATAACT
44351792 TACATAACTTACAT
1 TACA-AACTTACAT
44351806 TGTGGGTACA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
16 16 0.57
18 12 0.43
ACGTcount: A:0.44, C:0.23, G:0.00, T:0.33
Consensus pattern (17 bp):
TACAAACTTACATAACT
Found at i:44355422 original size:21 final size:21
Alignment explanation
Indices: 44355396--44355460 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
44355386 CAACAACTTA
* *
44355396 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCCGCAGCGAGAG
* ** *
44355417 AAGCAGATGCTACAGGGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
44355438 AAGCAGAGGCCGCAGCGAGAG
1 AAGCAGAGGCCGCAGCGAGAG
44355459 AA
1 AA
44355461 ACAGCGAGAG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.35, C:0.18, G:0.43, T:0.03
Consensus pattern (21 bp):
AAGCAGAGGCCGCAGCGAGAG
Found at i:44355939 original size:42 final size:42
Alignment explanation
Indices: 44355862--44356110 Score: 142
Period size: 42 Copynumber: 5.9 Consensus size: 42
44355852 AATCTCAAAA
* **
44355862 TTAGTGGCGTTTGTGAAATAAGCGCCGCTAAAGAACACTACTT
1 TTAGTGGCGTTTTTG-ACCAAGCGCCGCTAAAGAACACTACTT
* *
44355905 TTAGTGGCGTTTTTGACCAAGCGCCGCTATAGAACATTACTT
1 TTAGTGGCGTTTTTGACCAAGCGCCGCTAAAGAACACTACTT
* * * *
44355947 TTAGCGACGTTTTCT-TCCTAAGCGCCGCTAAAGAACA-TGA-TCC
1 TTAGTGGCGTTTT-TGACC-AAGCGCCGCTAAAGAACACT-ACT-T
* ** * *
44355990 TTAGCGGCGTTTTCTTTCTAAGCGACGCTAAAGAACA-TGA-TCT
1 TTAGTGGCGTTTT-TGACCAAGCGCCGCTAAAGAACACT-ACT-T
*
44356033 TTAGCGGCG--TTT-ACTCTAAAGCGCCGCTAAAGAACA-TGA-TCT
1 TTAGTGGCGTTTTTGAC-C--AAGCGCCGCTAAAGAACACT-ACT-T
* *
44356075 TTAGTGGCGTTTTT-TCCTAAGTGCCGCTAAAGAACA
1 TTAGTGGCGTTTTTGACC-AAGCGCCGCTAAAGAACA
44356111 TGATCTTTAG
Statistics
Matches: 175, Mismatches: 21, Indels: 21
0.81 0.10 0.10
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
41 2 0.01
42 86 0.49
43 79 0.45
44 6 0.03
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (42 bp):
TTAGTGGCGTTTTTGACCAAGCGCCGCTAAAGAACACTACTT
Found at i:44356055 original size:85 final size:84
Alignment explanation
Indices: 44355880--44356191 Score: 355
Period size: 85 Copynumber: 3.7 Consensus size: 84
44355870 GTTTGTGAAA
* ** * * *
44355880 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGTGGCGTTTTTGACCAAGCGCCGCTATAGAACATT
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATG
* *
44355943 A-CTTTTAGCGACGTTTTCTTCC
64 ATC-TTTAGCGGCGTTTAC-TCC
* *
44355965 TAAGCGCCGCTAAAGAACATGATCCTTAGCGGCGTTTTCTTTCTAAGCGACGCTAAAGAACATGA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTTCTAAGCGCCGCTAAAGAACATGA
44356030 TCTTTAGCGGCGTTTACT-C
65 TCTTTAGCGGCGTTTACTCC
* * *
44356049 TAAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTCCTAAGTGCCGCTAAAGAACATGA
1 T-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGA
*
44356114 TCTTTAGCGGCGTTTATTTCC
65 TCTTTAGCGGCGTTTA-CTCC
* * *
44356135 TGAGCGCCGCAAAAGAACATGATCTTTAACGGCGTTTTTTTCTGTAAGCGCCG-TAAA
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC--TAAGCGCCGCTAAA
44356192 AAGTTAGCGA
Statistics
Matches: 196, Mismatches: 22, Indels: 17
0.83 0.09 0.07
Matches are distributed among these distances:
84 42 0.21
85 105 0.54
86 40 0.20
87 9 0.05
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (84 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGAT
CTTTAGCGGCGTTTACTCC
Found at i:44356111 original size:42 final size:42
Alignment explanation
Indices: 44355880--44356191 Score: 348
Period size: 43 Copynumber: 7.3 Consensus size: 42
44355870 GTTTGTGAAA
* *
44355880 TAAGCGCCGCTAAAGAACACT-A-CTTTTAGTGGCGTTTTTGACC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TCC
* * *
44355923 -AAGCGCCGCTATAGAACATTA-CTTTTAGCGACGTTTTCTTCC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCGTTTT-TTCC
* *
44355965 TAAGCGCCGCTAAAGAACATGATCCTTAGCGGCGTTTTCTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTCC
* **
44356008 TAAGCGACGCTAAAGAACATGATCTTTAGCGGCGTTTACT-C
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
*
44356049 TAAAGCGCCGCTAAAGAACATGATCTTTAGTGGCGTTTTTTCC
1 T-AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
*
44356092 TAAGTGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTTCC
* * * *
44356135 TGAGCGCCGCAAAAGAACATGATCTTTAACGGCGTTTTTTTCTG
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TTTTTTC-C
44356179 TAAGCGCCG-TAAA
1 TAAGCGCCGCTAAA
44356192 AAGTTAGCGA
Statistics
Matches: 234, Mismatches: 26, Indels: 18
0.84 0.09 0.06
Matches are distributed among these distances:
41 3 0.01
42 104 0.44
43 115 0.49
44 12 0.05
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (42 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCC
Found at i:44356154 original size:127 final size:128
Alignment explanation
Indices: 44355923--44356171 Score: 360
Period size: 127 Copynumber: 2.0 Consensus size: 128
44355913 GTTTTTGACC
* *
44355923 AAGCGCCGCTATAGAACATTACTTTTAGCGACGTTTTCTTCCTAAGCGCCGCTAAAGAACATGAT
1 AAGCGCCGCTAAAGAACATGACTTTTAGCGACGTTTTCTTCCTAAGCGCCGCTAAAGAACATGAT
* * *
44355988 CCTTAGCGGCGTTTTCTTTCTAAGCGACGCTAAAGAACATGATCTTTAGCGGCGTTTACTCTA
66 CCTTAGCGGCGTTTTCTTCCTAAGCGACGCAAAAGAACATGATCTTTAACGGCGTTTACTCTA
* * *
44356051 AAGCGCCGCTAAAGAACATGA-TCTTTAGTGGCGTTTT-TTCCTAAGTGCCGCTAAAGAACATGA
1 AAGCGCCGCTAAAGAACATGACT-TTTAGCGACGTTTTCTTCCTAAGCGCCGCTAAAGAACATGA
* * *
44356114 TCTTTAGCGGCGTTTAT-TTCCTGAGCGCCGCAAAAGAACATGATCTTTAACGGCGTTT
65 TCCTTAGCGGCGTTT-TCTTCCTAAGCGACGCAAAAGAACATGATCTTTAACGGCGTTT
44356172 TTTTCTGTAA
Statistics
Matches: 108, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
127 76 0.70
128 32 0.30
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (128 bp):
AAGCGCCGCTAAAGAACATGACTTTTAGCGACGTTTTCTTCCTAAGCGCCGCTAAAGAACATGAT
CCTTAGCGGCGTTTTCTTCCTAAGCGACGCAAAAGAACATGATCTTTAACGGCGTTTACTCTA
Found at i:44359329 original size:43 final size:42
Alignment explanation
Indices: 44359199--44359338 Score: 140
Period size: 43 Copynumber: 3.3 Consensus size: 42
44359189 ATCCTAAACG
* * * *
44359199 TGGTCTTACATGTAATCAAATAACTATG-CTACTGTCCCAGACA
1 TGGTCTTACACGTAATCAAAT-ACGACGCCAAC-GTCCCAGACA
* ** * *
44359242 GGGTCTTACACGTAATCATGTACGACGCCAATGTCCTAGACA
1 TGGTCTTACACGTAATCAAATACGACGCCAACGTCCCAGACA
*
44359284 TGGTCTTACACGTAAACTCAAAT-CGATGCCAACGTCCCAGACA
1 TGGTCTTACACGT-AA-TCAAATACGACGCCAACGTCCCAGACA
44359327 TGGTCTTACACG
1 TGGTCTTACACG
44359339 ATATCACATT
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
42 25 0.32
43 50 0.63
44 4 0.05
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (42 bp):
TGGTCTTACACGTAATCAAATACGACGCCAACGTCCCAGACA
Found at i:44361509 original size:20 final size:20
Alignment explanation
Indices: 44361484--44361524 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
44361474 TGAAGACGAA
*
44361484 TTTAAATATGATAAAACAAT
1 TTTAAAAATGATAAAACAAT
*
44361504 TTTAAAAATGATAAAATAAT
1 TTTAAAAATGATAAAACAAT
44361524 T
1 T
44361525 ATAATAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (20 bp):
TTTAAAAATGATAAAACAAT
Found at i:44363336 original size:44 final size:44
Alignment explanation
Indices: 44363286--44363441 Score: 170
Period size: 44 Copynumber: 3.6 Consensus size: 44
44363276 CCTCGATCTG
44363286 CTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAACCTA
1 CTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAACCTA
* * * *** * * * *
44363330 CCCCACTACTGCTTAGGGAGATAAG-GCTGGTGTCTTCGATCTG
1 CTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAACCTA
* * *
44363373 CTCCACTACTTCTTAGGGAGATAAGATCTGTAATTTTCAACCTA
1 CTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAACCTA
* *
44363417 CTCCGCTGCTGCTTAAGGAGATAAG
1 CTCCACTACTGCTTAAGGAGATAAG
44363442 GCTTGTGACT
Statistics
Matches: 87, Mismatches: 24, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
43 33 0.38
44 54 0.62
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAACCTA
Found at i:44363370 original size:87 final size:87
Alignment explanation
Indices: 44363278--44363444 Score: 271
Period size: 87 Copynumber: 1.9 Consensus size: 87
44363268 TTCACCGTCC
44363278 TCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAACCTACCCCACTACTGCT
1 TCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAACCTACCCCACTACTGCT
*
44363343 TAGGGAGATAAGGCTGGTGTCT
66 TAAGGAGATAAGGCTGGTGTCT
* * * * * *
44363365 TCGATCTGCTCCACTACTTCTTAGGGAGATAAGATCTGTAATTTTCAACCTACTCCGCTGCTGCT
1 TCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAACCTACCCCACTACTGCT
44363430 TAAGGAGATAAGGCT
66 TAAGGAGATAAGGCT
44363445 TGTGACTTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (87 bp):
TCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATTTTCAACCTACCCCACTACTGCT
TAAGGAGATAAGGCTGGTGTCT
Found at i:44363694 original size:44 final size:44
Alignment explanation
Indices: 44363635--44364013 Score: 238
Period size: 44 Copynumber: 8.8 Consensus size: 44
44363625 CCTTTATTTT
* * * *
44363635 AATCCGCTCTACTGTAATCTCAGGGAAATAGGATTACTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* *
44363679 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * *
44363723 AATCTGCTCCACTGTAACCTCAGGGAGATAAGATTTGAAAT-TCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA-TT--ACTGGCTTC
** ** * * * *
44363769 GGTCTTTTCCACTGTAATCTCAAGGAGATAA-A--ACTTGATGC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * * * * * * *** *
44363810 GATCTACTCTACTGTAATTTTAGAGAGATAAGA-TCCTTTATTTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTAC-TGGCTTC
* * * * * *
44363854 AATCCGCTCCACTATAATCTTAGGGAAATAAGATTACTGGTTTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * * * *
44363898 AATTTGCTCTACTGAAATCTTAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* * *
44363942 AATCTGCTCCGCTGTAACCTCAAGGAGATAAGA-T--T--CTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
* ** *
44363981 AGTCTATTCTACTGTAATCTCAGGGAGATAAGA
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGA
44364014 CCTAATGCGA
Statistics
Matches: 259, Mismatches: 68, Indels: 21
0.74 0.20 0.06
Matches are distributed among these distances:
39 30 0.12
40 2 0.01
41 26 0.10
42 1 0.00
43 2 0.01
44 163 0.63
45 5 0.02
46 29 0.11
47 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTGGCTTC
Found at i:44363767 original size:219 final size:219
Alignment explanation
Indices: 44363532--44364133 Score: 894
Period size: 219 Copynumber: 2.8 Consensus size: 219
44363522 GCCTGGGAAG
* * *
44363532 TAAGATTTGAAATTCTTTAGTCTATTCCCCTGTAATCTTAGGGAGATAAGACCTGATGCGATCTA
1 TAAGATTTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTA
*
44363597 CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCTACTGTAATCTCAGGGAA
66 CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAA
*
44363662 ATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATC
131 ATAGGATTACTGGCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATC
*
44363727 TGCTCCACTGTAACCTCAGGGAGA
196 TGCTCCACTGTAACCTCAAGGAGA
* * * * *
44363751 TAAGATTTGAAATTCTTCGGTCTTTTCCACTGTAATCTCAAGGAGATAAAACTTGATGCGATCTA
1 TAAGATTTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTA
* * *
44363816 CTCTACTGTAATTTTAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTATAATCTTAGGGAA
66 CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAA
* * * ** * *
44363881 ATAAGATTACTGGTTTTAATTTGCTCTACTGAAATCTTAGGGAGATAAGATTTCTGGCTTCAATC
131 ATAGGATTACTGGCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATC
*
44363946 TGCTCCGCTGTAACCTCAAGGAGA
196 TGCTCCACTGTAACCTCAAGGAGA
* *
44363970 T-A-A---G--ATTCTTCAGTCTATTCTACTGTAATCTCAGGGAGATAAGACCTAATGCGATCTA
1 TAAGATTTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTA
* * * *
44364028 CTCTACTGTAAATTCAAAGAGATAAGATCCTTTATTTTAATTCGCTCCACTGTAATCTCAAGGAA
66 CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAA
*
44364093 ATAGGATTACTGGCTTTAATCTGCTCCGTTGTAATCTCAGG
131 ATAGGATTACTGGCTTTAATCTGCTCCGCTGTAATCTCAGG
44364134 AAGGTAATAT
Statistics
Matches: 339, Mismatches: 44, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
212 138 0.41
214 1 0.00
217 1 0.00
218 1 0.00
219 198 0.58
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (219 bp):
TAAGATTTGAAATTCTTCAGTCTATTCCACTGTAATCTCAGGGAGATAAGACCTGATGCGATCTA
CTCTACTGTAATTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTGTAATCTCAGGGAA
ATAGGATTACTGGCTTTAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTCAATC
TGCTCCACTGTAACCTCAAGGAGA
Found at i:44379458 original size:12 final size:12
Alignment explanation
Indices: 44379441--44379465 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44379431 GATTTTTCAG
44379441 AAAATAAAAAAT
1 AAAATAAAAAAT
44379453 AAAATAAAAAAT
1 AAAATAAAAAAT
44379465 A
1 A
44379466 CCAGGTTCAC
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:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:44401109 original size:26 final size:26
Alignment explanation
Indices: 44401080--44401154 Score: 114
Period size: 26 Copynumber: 2.9 Consensus size: 26
44401070 ACCAATATCT
*
44401080 CAGCAAAGCTGCCAGTAATAATAACG
1 CAGCAAAGCTGCCAGTAACAATAACG
*
44401106 CAGCAAAGCTGCCAGTAACAGTAACG
1 CAGCAAAGCTGCCAGTAACAATAACG
* *
44401132 CAGTAAAGCTACCAGTAACAATA
1 CAGCAAAGCTGCCAGTAACAATA
44401155 TATGTGGCTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.43, C:0.24, G:0.19, T:0.15
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAATAACG
Found at i:44401366 original size:27 final size:27
Alignment explanation
Indices: 44401331--44401410 Score: 108
Period size: 27 Copynumber: 3.0 Consensus size: 27
44401321 TTTCATCTCC
*
44401331 TAGAGGTATAACGATCATTTTATCCTA
1 TAGAGGTATAACGATCATTTTACCCTA
*
44401358 TAG-GAGTATAACGGTCATTTTACCCTA
1 TAGAG-GTATAACGATCATTTTACCCTA
**
44401385 TAGAGGTATTTCGATCATTTTACCCT
1 TAGAGGTATAACGATCATTTTACCCT
44401411 TTGATGGTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.02
27 44 0.96
28 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (27 bp):
TAGAGGTATAACGATCATTTTACCCTA
Found at i:44401423 original size:27 final size:26
Alignment explanation
Indices: 44401374--44401565 Score: 138
Period size: 27 Copynumber: 7.2 Consensus size: 26
44401364 TATAACGGTC
*
44401374 ATTTTACCCTATAGAGGTATTTCGATC
1 ATTTTACCCT-TAGAGGTATTTCGATA
* *
44401401 ATTTTACCCTTTGATGGTTTTTC-AGTA
1 ATTTTACCCTTAGA-GGTATTTCGA-TA
*
44401428 ATTTTACCCTTCGAGGGTATTTCGATA
1 ATTTTACCCTTAGA-GGTATTTCGATA
* *
44401455 ATTTTACCCTTCGAGGGTATTT-TAGTA
1 ATTTTACCCTTAGA-GGTATTTCGA-TA
** * * *
44401482 ATTTTACTTTTTAGGGGTATTTTGGTA
1 ATTTTAC-CCTTAGAGGTATTTCGATA
* **
44401509 ATTTTACCCTTTGAGGT-TTTTTACTA
1 ATTTTACCCTTAGAGGTATTTCGA-TA
* *
44401535 ATTTTACCCTTTTGGGGTATTTCGATA
1 ATTTTACCC-TTAGAGGTATTTCGATA
44401562 ATTT
1 ATTT
44401566 ATGGCATATT
Statistics
Matches: 134, Mismatches: 22, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
25 4 0.03
26 22 0.16
27 100 0.75
28 8 0.06
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (26 bp):
ATTTTACCCTTAGAGGTATTTCGATA
Found at i:44401432 original size:54 final size:52
Alignment explanation
Indices: 44401374--44401565 Score: 215
Period size: 54 Copynumber: 3.6 Consensus size: 52
44401364 TATAACGGTC
* *
44401374 ATTTTACCCTATAGAGGTATTTCGATCATTTTACCCTTTGATGGTTTTTCAGTA
1 ATTTTACCCTTTAGAGGTATTTCGATAATTTTACCCTTTGA-GGTTTTT-AGTA
* *
44401428 ATTTTACCC-TTCGAGGGTATTTCGATAATTTTACCCTTCGAGGGTATTTTAGTA
1 ATTTTACCCTTTAGA-GGTATTTCGATAATTTTACCCTTTGA-GGT-TTTTAGTA
** * * * *
44401482 ATTTTACTTTTTAGGGGTATTTTGGTAATTTTACCCTTTGAGGTTTTTTACTA
1 ATTTTACCCTTTAGAGGTATTTCGATAATTTTACCCTTTGAGG-TTTTTAGTA
* *
44401535 ATTTTACCCTTTTGGGGTATTTCGATAATTT
1 ATTTTACCCTTTAGAGGTATTTCGATAATTT
44401566 ATGGCATATT
Statistics
Matches: 116, Mismatches: 18, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
53 38 0.33
54 71 0.61
55 7 0.06
ACGTcount: A:0.21, C:0.14, G:0.17, T:0.48
Consensus pattern (52 bp):
ATTTTACCCTTTAGAGGTATTTCGATAATTTTACCCTTTGAGGTTTTTAGTA
Found at i:44401708 original size:8 final size:9
Alignment explanation
Indices: 44401687--44401718 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
44401677 TCAAAGCTAT
44401687 TTTTTCGGC
1 TTTTTCGGC
44401696 TTTTTCGGC
1 TTTTTCGGC
*
44401705 TTTTTCAGC
1 TTTTTCGGC
44401714 TTTTT
1 TTTTT
44401719 TCGATTTGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.03, C:0.19, G:0.16, T:0.62
Consensus pattern (9 bp):
TTTTTCGGC
Found at i:44404297 original size:20 final size:20
Alignment explanation
Indices: 44404274--44404312 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
44404264 AAATGTAACA
*
44404274 ATTAAATTAAAAATAAAAAT
1 ATTAAAATAAAAATAAAAAT
44404294 ATTAAAATAAAAATAAAAA
1 ATTAAAATAAAAATAAAAA
44404313 ATGACTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
ATTAAAATAAAAATAAAAAT
Found at i:44406147 original size:16 final size:16
Alignment explanation
Indices: 44406122--44406161 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
44406112 ATAAAATTAA
44406122 TTAA-AATTCAATATT
1 TTAATAATTCAATATT
44406137 TTAATAATTCAATATT
1 TTAATAATTCAATATT
44406153 TTAATAATT
1 TTAATAATT
44406162 TAAGTACAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAATAATTCAATATT
Found at i:44407900 original size:21 final size:21
Alignment explanation
Indices: 44407865--44407923 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
44407855 ATAAGAAGAT
*
44407865 AAACAA-CAAATAAAATAAGGT
1 AAACAATCAAA-AAAATAAGGA
*
44407886 AAAGAGAT-AAAAAAAT-AGGA
1 AAACA-ATCAAAAAAATAAGGA
44407906 AAACAATCAAAAAAATAA
1 AAACAATCAAAAAAATAA
44407924 CAGTAAAGTG
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
19 2 0.06
20 15 0.48
21 10 0.32
22 4 0.13
ACGTcount: A:0.71, C:0.07, G:0.10, T:0.12
Consensus pattern (21 bp):
AAACAATCAAAAAAATAAGGA
Found at i:44408941 original size:13 final size:13
Alignment explanation
Indices: 44408923--44408950 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
44408913 ATTTAGCTTA
44408923 TTCTAGCAATAAT
1 TTCTAGCAATAAT
44408936 TTCTAGCAATAAT
1 TTCTAGCAATAAT
44408949 TT
1 TT
44408951 AAGCTAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.07, T:0.43
Consensus pattern (13 bp):
TTCTAGCAATAAT
Found at i:44409624 original size:45 final size:45
Alignment explanation
Indices: 44409524--44409645 Score: 147
Period size: 45 Copynumber: 2.7 Consensus size: 45
44409514 ATATCGTTGG
* * * **
44409524 AAATATAGGTGGATGCTATGTGCTGATTCCACCCGATATTAATGA
1 AAATATAGGTGGTTGCTATGTGCTGATTTCACCAGATACCAATGA
* * *
44409569 AAATAAAGGTGGTTGCTATGTGCTGATTTCATCATATACCAAT-A
1 AAATATAGGTGGTTGCTATGTGCTGATTTCACCAGATACCAATGA
*
44409613 GTAATATAGGTGGTTGCTATGTGCTGATTTCAC
1 -AAATATAGGTGGTTGCTATGTGCTGATTTCAC
44409646 TAGTACTATT
Statistics
Matches: 65, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 1 0.02
45 64 0.98
ACGTcount: A:0.30, C:0.14, G:0.22, T:0.34
Consensus pattern (45 bp):
AAATATAGGTGGTTGCTATGTGCTGATTTCACCAGATACCAATGA
Found at i:44413985 original size:21 final size:20
Alignment explanation
Indices: 44413944--44413982 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
44413934 AAATGTAACA
*
44413944 ATTAAATTAAAAATAAAAAT
1 ATTAAAATAAAAATAAAAAT
44413964 ATTAAAATAAAAATAAAAA
1 ATTAAAATAAAAATAAAAA
44413983 ATAGCTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (20 bp):
ATTAAAATAAAAATAAAAAT
Found at i:44416186 original size:13 final size:13
Alignment explanation
Indices: 44416168--44416194 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
44416158 ATATTCTAGT
44416168 AATTCATGATTCA
1 AATTCATGATTCA
44416181 AATTCATGATTCA
1 AATTCATGATTCA
44416194 A
1 A
44416195 TTTTTGTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (13 bp):
AATTCATGATTCA
Found at i:44426251 original size:43 final size:43
Alignment explanation
Indices: 44426144--44426457 Score: 436
Period size: 43 Copynumber: 7.3 Consensus size: 43
44426134 AGGTTATGTT
* ** * *
44426144 TTTAGCGGCGTTTTTGCTAGAAGCGCCGCTAAAGGT-TTGATC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
44426186 TATAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* *
44426229 TTTAGCGGCGTTTGTGGAAAAAGCGCCGTTAAAGGTCTTGGT-
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
44426271 TTCTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
1 TT-TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * *
44426315 TTTAGCAGCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
* * *
44426358 TTTAGCGTCGTTTGTGGGAGAAGCGCCGCTAAAGGTCTTGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
44426401 TTTAGCGTCGTTTGTGGGAAAAGCGCCGCTAAAGGTC-TGGTTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGG-TC
44426444 TTTAGCTGGCGTTT
1 TTTAGC-GGCGTTT
44426458 TTTGCGGCGC
Statistics
Matches: 249, Mismatches: 18, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
42 36 0.14
43 205 0.82
44 8 0.03
ACGTcount: A:0.18, C:0.18, G:0.32, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:44427337 original size:11 final size:11
Alignment explanation
Indices: 44427321--44427345 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44427311 CACTTGGGAG
44427321 AAAATGAGTGA
1 AAAATGAGTGA
44427332 AAAATGAGTGA
1 AAAATGAGTGA
44427343 AAA
1 AAA
44427346 TCGAGTGTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.24, T:0.16
Consensus pattern (11 bp):
AAAATGAGTGA
Found at i:44439844 original size:16 final size:14
Alignment explanation
Indices: 44439821--44439864 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
44439811 TTTTCATCTT
44439821 TTACTTAATTAAAA
1 TTACTTAATTAAAA
44439835 TTTAACTTAATTATCAAA
1 -TT-ACTTAATTA--AAA
44439853 TTACTTAATTAA
1 TTACTTAATTAA
44439865 CCTTTAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
14 1 0.04
15 2 0.08
16 18 0.69
17 2 0.08
18 3 0.12
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (14 bp):
TTACTTAATTAAAA
Found at i:44439871 original size:32 final size:31
Alignment explanation
Indices: 44439821--44439892 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 31
44439811 TTTTCATCTT
*
44439821 TTACTTAATTAAAATTTAACTTAATTATCA-AA
1 TTACTTAATTAAAATTTAA--AAATTATCATAA
**
44439853 TTACTTAATTAACCTTTAAAAATTATCATAA
1 TTACTTAATTAAAATTTAAAAATTATCATAA
44439884 TTACATTAA
1 TTAC-TTAA
44439893 AACCTATCCA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
30 8 0.23
31 6 0.17
32 21 0.60
ACGTcount: A:0.46, C:0.11, G:0.00, T:0.43
Consensus pattern (31 bp):
TTACTTAATTAAAATTTAAAAATTATCATAA
Found at i:44450886 original size:180 final size:180
Alignment explanation
Indices: 44450584--44450928 Score: 530
Period size: 180 Copynumber: 1.9 Consensus size: 180
44450574 AAGCATGTAA
* * *
44450584 TAGGGGACATTCCAATTTTGTTTCACCCTCAATGAATACCCATTGAATAGCTCTTTTATTTCCAT
1 TAGGGGAAATTCCAATTTTGTTTCACCCTCAATGAATACCCATTGAATAGCTCTATCATTTCCAT
* * *
44450649 TTTACCTTTTCGTTTTCTCACCTCAAGAAAGCTCTCACTCAGCCCGATCTCAGTCCCGACCTCCC
66 TTTACCTTCTCATTTTCTCACCTCAAGAAAGCTCTCACTCAGCCCAATCTCAGTCCCGACCTCCC
* * *
44450714 TTGCTTCCTTTGTCTCCAGCCAATAGCAATCCTCCTAATTAAACCTTTAT
131 TTACTTCCTTCGTCTACAGCCAATAGCAATCCTCCTAATTAAACCTTTAT
* * *
44450764 TAGGGGAAATTCCTATTTTGTTTCACCC-CTATTGAATACCCATTGAATAGCTCTATCGTTTCCA
1 TAGGGGAAATTCCAATTTTGTTTCACCCTC-AATGAATACCCATTGAATAGCTCTATCATTTCCA
*
44450828 TTTTACCTTCTCATTTTCTCACCTCAAGAAAGCTCTCACTCAGCCCAATCTCAGTCCCGACCTCT
65 TTTTACCTTCTCATTTTCTCACCTCAAGAAAGCTCTCACTCAGCCCAATCTCAGTCCCGACCTCC
* * *
44450893 TTTACTTCCTTCGTCTATAGCCAATAGTAATCCTCC
130 CTTACTTCCTTCGTCTACAGCCAATAGCAATCCTCC
44450929 ATTAGGTACA
Statistics
Matches: 148, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
179 1 0.01
180 147 0.99
ACGTcount: A:0.23, C:0.31, G:0.10, T:0.36
Consensus pattern (180 bp):
TAGGGGAAATTCCAATTTTGTTTCACCCTCAATGAATACCCATTGAATAGCTCTATCATTTCCAT
TTTACCTTCTCATTTTCTCACCTCAAGAAAGCTCTCACTCAGCCCAATCTCAGTCCCGACCTCCC
TTACTTCCTTCGTCTACAGCCAATAGCAATCCTCCTAATTAAACCTTTAT
Found at i:44457840 original size:13 final size:13
Alignment explanation
Indices: 44457824--44457855 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
44457814 TGGATATAAT
44457824 ATATATACACACA
1 ATATATACACACA
44457837 ATATATACACACA
1 ATATATACACACA
44457850 AT-TATA
1 ATATATA
44457856 ATAACAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.53, C:0.19, G:0.00, T:0.28
Consensus pattern (13 bp):
ATATATACACACA
Found at i:44461026 original size:15 final size:15
Alignment explanation
Indices: 44461006--44461080 Score: 50
Period size: 15 Copynumber: 5.1 Consensus size: 15
44460996 ATAATATATC
44461006 AATAATTTTAAAATA
1 AATAATTTTAAAATA
44461021 AATAA--TT-AAA-A
1 AATAATTTTAAAATA
* ** *
44461032 AATGATGATAATATATC
1 AATAATTTTAA-A-ATA
44461049 AATAATTTTAAAATA
1 AATAATTTTAAAATA
* *
44461064 AATAATTATAAATTA
1 AATAATTTTAAAATA
44461079 AA
1 AA
44461081 AGCATAGAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 12
0.68 0.14 0.18
Matches are distributed among these distances:
11 5 0.11
12 3 0.07
13 3 0.07
14 1 0.02
15 23 0.51
16 2 0.04
17 8 0.18
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (15 bp):
AATAATTTTAAAATA
Found at i:44461031 original size:43 final size:43
Alignment explanation
Indices: 44460980--44461077 Score: 169
Period size: 43 Copynumber: 2.3 Consensus size: 43
44460970 AAAGGAGATT
*
44460980 TAATTAAAAATTTATGATAATATATCAATAATTTTAAAATAAA
1 TAATTAAAAATTGATGATAATATATCAATAATTTTAAAATAAA
*
44461023 TAATTAAAAAATGATGATAATATATCAATAATTTTAAAATAAA
1 TAATTAAAAATTGATGATAATATATCAATAATTTTAAAATAAA
*
44461066 TAATTATAAATT
1 TAATTAAAAATT
44461078 AAAAGCATAG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 51 1.00
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (43 bp):
TAATTAAAAATTGATGATAATATATCAATAATTTTAAAATAAA
Found at i:44464414 original size:15 final size:16
Alignment explanation
Indices: 44464391--44464423 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
44464381 AGTTTTTTCG
*
44464391 TCTTTTTCTT-ATTTT
1 TCTTCTTCTTGATTTT
44464406 TCTTCTTCTTGATTTT
1 TCTTCTTCTTGATTTT
44464422 TC
1 TC
44464424 CCTAATCCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.06, C:0.18, G:0.03, T:0.73
Consensus pattern (16 bp):
TCTTCTTCTTGATTTT
Found at i:44473386 original size:13 final size:13
Alignment explanation
Indices: 44473342--44473386 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
44473332 TGACTTGGGT
*
44473342 CACATGGCCAAGC
1 CACACGGCCAAGC
*
44473355 CACACAGCCAAGC
1 CACACGGCCAAGC
44473368 CACACGGCCAAGC
1 CACACGGCCAAGC
44473381 CACACG
1 CACACG
44473387 CCTGTGTGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.33, C:0.44, G:0.20, T:0.02
Consensus pattern (13 bp):
CACACGGCCAAGC
Found at i:44478252 original size:26 final size:27
Alignment explanation
Indices: 44478223--44478278 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
44478213 TTAGCATCAC
* *
44478223 CAATGAATC-GGGGAATCAGCACTTAG
1 CAATCAATCGGGGGAATCAGCACATAG
**
44478249 CAATCCGTCGGGGGAATCAGCACATAG
1 CAATCAATCGGGGGAATCAGCACATAG
44478276 CAA
1 CAA
44478279 CCCCCTTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
26 6 0.24
27 19 0.76
ACGTcount: A:0.34, C:0.23, G:0.27, T:0.16
Consensus pattern (27 bp):
CAATCAATCGGGGGAATCAGCACATAG
Found at i:44478275 original size:105 final size:104
Alignment explanation
Indices: 44478093--44478464 Score: 559
Period size: 105 Copynumber: 3.6 Consensus size: 104
44478083 TAACCGTTAT
** *
44478093 CGGTGGATCCCGCACTTAGCACCACCACTGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
*
44478158 AATCAGCACATAGCAACCCCCTTTTTTCATTTCAAAGACA
66 AATCAGCACATAGCAACCCCC-TTTTTCATTTCAAAGATA
* * * *
44478198 CGGTGGATATCGCATTTAGCATCACCAATGAATCGGGGAATCAGCACTTAGCAATCCGTCGGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
44478263 AATCAGCACATAGCAACCCCC-TTTTCATTTCAAAGATA
66 AATCAGCACATAGCAACCCCCTTTTTCATTTCAAAGATA
* *
44478301 CGGTGGATATCGCACTTAGCACAACCAATGAAATAGGGGAATCAGCACTTAGCAACCCCTCGGGG
1 CGGTGGATATCGCACTTAGCACCACCAATG-AATCGGGGAATCAGCACTTAGCAACCCCTCGGGG
**
44478366 GAATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATA
65 GAATCAGCACATAGCAACCCCCTTTTTCATTTCAAAGATA
* * **
44478406 TGGTGGATCA-CGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 CGGTGGAT-ATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
44478465 TTTATATACA
Statistics
Matches: 242, Mismatches: 22, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
103 43 0.18
104 79 0.33
105 119 0.49
106 1 0.00
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.20
Consensus pattern (104 bp):
CGGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGG
AATCAGCACATAGCAACCCCCTTTTTCATTTCAAAGATA
Found at i:44478827 original size:30 final size:29
Alignment explanation
Indices: 44478793--44478857 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
44478783 TAATCCACCA
44478793 CCCAACTTTTTGAAAAATTACAATTTTGCC
1 CCCAAC-TTTTGAAAAATTACAATTTTGCC
* * * *
44478823 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGAAAAATTACAATTTTGCC
44478853 CCCAA
1 CCCAA
44478858 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
29 2 0.07
30 25 0.83
31 3 0.10
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (29 bp):
CCCAACTTTTGAAAAATTACAATTTTGCC
Found at i:44478831 original size:31 final size:30
Alignment explanation
Indices: 44478800--44478857 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
44478790 CCACCCAACT
44478800 TTTTGAAAAATTACAATTTTGCCCCCAAAC
1 TTTTGAAAAATTACAATTTTGCCCCCAAAC
* * * *
44478830 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGAAAAATTACAATTTTGCCCCCAA
44478858 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCCAAAC
Found at i:44482581 original size:25 final size:25
Alignment explanation
Indices: 44482503--44482584 Score: 66
Period size: 25 Copynumber: 3.4 Consensus size: 25
44482493 GCTCTTTGTG
* * *
44482503 AGCTTCCTGAT-TAATGGCTCTCCGG
1 AGCTTCCCGATAT-ATGGTTCTCCGA
*
44482528 AGCTTCCCG--ATATGGCTTGCT-TGA
1 AGCTTCCCGATATATGG-TT-CTCCGA
44482552 A-CTTCCCGATATATGGTTCTCCGA
1 AGCTTCCCGATATATGGTTCTCCGA
44482576 AGCTTCCCG
1 AGCTTCCCG
44482585 TTAATGGCTC
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
23 13 0.29
24 9 0.20
25 23 0.51
ACGTcount: A:0.17, C:0.29, G:0.22, T:0.32
Consensus pattern (25 bp):
AGCTTCCCGATATATGGTTCTCCGA
Found at i:44482603 original size:24 final size:24
Alignment explanation
Indices: 44482450--44482618 Score: 92
Period size: 26 Copynumber: 6.8 Consensus size: 24
44482440 TAGCTCTTAT
* *
44482450 GAGCGTCCCGTTATATGGCTCTTCAT
1 GAGCTTCCCGTTA-ATGGCTCTTC-G
** * *
44482476 GAGCTTCTTGATTAAAGGCTCTTTG
1 GAGCTTCCCG-TTAATGGCTCTTCG
* *
44482501 TGAGCTTCCTGATTAATGGCTCTCCG
1 -GAGCTTCCCG-TTAATGGCTCTTCG
*
44482527 GAGCTTCCCGAT-ATGGCTTGCTT--
1 GAGCTTCCCGTTAATGGC-T-CTTCG
* * * *
44482550 GAACTTCCCGATATATGGTTCTCCG
1 GAGCTTCCCGTTA-ATGGCTCTTCG
*
44482575 AAGCTTCCCGTTAATGGCTCTTCG
1 GAGCTTCCCGTTAATGGCTCTTCG
* * *
44482599 GAGCTACTCGTTATTGGCTC
1 GAGCTTCCCGTTAATGGCTC
44482619 ATATAAGCTC
Statistics
Matches: 110, Mismatches: 25, Indels: 18
0.72 0.16 0.12
Matches are distributed among these distances:
23 18 0.16
24 28 0.25
25 25 0.23
26 36 0.33
27 3 0.03
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTCTTCG
Found at i:44482698 original size:25 final size:25
Alignment explanation
Indices: 44482670--44482717 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
44482660 TACAGCCCGG
*
44482670 ATAAGCTTCCCCTTACATGGCTCAC
1 ATAAGATTCCCCTTACATGGCTCAC
* *
44482695 ATAAGATTCCCGTTATATGGCTC
1 ATAAGATTCCCCTTACATGGCTC
44482718 GAGAGAGGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (25 bp):
ATAAGATTCCCCTTACATGGCTCAC
Found at i:44485000 original size:74 final size:73
Alignment explanation
Indices: 44484879--44485023 Score: 256
Period size: 74 Copynumber: 2.0 Consensus size: 73
44484869 TCTCGGGTTT
*
44484879 AAAAAAGGGATCATGGCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGGCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTT-AAA
44484944 ACTTGAGGA
65 ACTTGAGGA
44484953 AAAAAAGGGATCAT-GCCTAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
1 AAAAAAGGGATCATGGCC-AGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAA
44485017 ACTTGAG
65 ACTTGAG
44485024 TTTGAAAAGA
Statistics
Matches: 69, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
73 13 0.19
74 56 0.81
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (73 bp):
AAAAAAGGGATCATGGCCAGTAAGTTAGGACACGATCTCTTCTTAATTCCCGAGATCGTTTAAAA
CTTGAGGA
Found at i:44494166 original size:74 final size:73
Alignment explanation
Indices: 44494059--44494203 Score: 227
Period size: 74 Copynumber: 2.0 Consensus size: 73
44494049 ATCTCAGTTT
* * * * *
44494059 AAAAAAGGGATCATGCCAAGTAAGTTAGGACACGATCTTTTCTTAATTCTCGAGATCGTTTAAAA
1 AAAAAAGGGATCATGCCAAGTAAGTTAGAACACGATCTCTTCTTAATTCCCGAGATCATAT-AAA
44494124 ACTTGAGGA
65 ACTTGAGGA
*
44494133 AAAAAAGGGATCATGCCCAGTAAGTTAGAACACGATCTCTTCTTAATTCCCGAGATCATATAAAA
1 AAAAAAGGGATCATGCCAAGTAAGTTAGAACACGATCTCTTCTTAATTCCCGAGATCATATAAAA
44494198 CTTGAG
66 CTTGAG
44494204 TGGAAAAGAT
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
73 10 0.15
74 55 0.85
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (73 bp):
AAAAAAGGGATCATGCCAAGTAAGTTAGAACACGATCTCTTCTTAATTCCCGAGATCATATAAAA
CTTGAGGA
Found at i:44494591 original size:10 final size:10
Alignment explanation
Indices: 44494578--44494602 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
44494568 ATATAAAAAG
44494578 ATATATATGT
1 ATATATATGT
44494588 ATATATATGT
1 ATATATATGT
44494598 ATATA
1 ATATA
44494603 AAAATTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (10 bp):
ATATATATGT
Found at i:44494687 original size:12 final size:12
Alignment explanation
Indices: 44494680--44494714 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
44494670 GCATATAGAT
44494680 ATATATATATAG
1 ATATATATATAG
*
44494692 ATATAGATATAG
1 ATATATATATAG
*
44494704 ATATGTATATA
1 ATATATATATA
44494715 AATTATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.40
Consensus pattern (12 bp):
ATATATATATAG
Found at i:44494689 original size:14 final size:14
Alignment explanation
Indices: 44494672--44494714 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
44494662 AAAAATATGC
44494672 ATATAGATATATAT
1 ATATAGATATATAT
*
44494686 ATATAG--ATATAG
1 ATATAGATATATAT
*
44494698 ATATAGATATGTAT
1 ATATAGATATATAT
44494712 ATA
1 ATA
44494715 AATTATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 11 0.46
14 13 0.54
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.40
Consensus pattern (14 bp):
ATATAGATATATAT
Found at i:44494818 original size:31 final size:30
Alignment explanation
Indices: 44494761--44494828 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 30
44494751 ATAAAAATAA
*
44494761 ATTAT-AAAATTATGTACGTGTATATATAT
1 ATTATAAAAATTATGTACGTATATATATAT
* *
44494790 ATTATAAAAATGTATGTATGTATGTATATAT
1 ATTATAAAAAT-TATGTACGTATATATATAT
44494821 ATGTATAA
1 AT-TATAA
44494829 CGAAATTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 5 0.15
30 5 0.15
31 18 0.55
32 5 0.15
ACGTcount: A:0.43, C:0.01, G:0.12, T:0.44
Consensus pattern (30 bp):
ATTATAAAAATTATGTACGTATATATATAT
Found at i:44497009 original size:50 final size:50
Alignment explanation
Indices: 44496902--44497144 Score: 288
Period size: 50 Copynumber: 4.7 Consensus size: 50
44496892 GGGAATGAGA
* *
44496902 TCCCATGTAAGACCATGTCTGGGACATGGCATTAGCATCATTGAGATTATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGG
* *
44496958 TCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGGTGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** *
44497008 TCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATGAGGGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
** * * * **
44497058 TCCCCCGTAAGACCATGTCTGGGTCATGGCATGGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
* *
44497108 TCCCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
44497145 GTATAGAAAA
Statistics
Matches: 164, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
50 125 0.76
53 3 0.02
55 1 0.01
56 35 0.21
ACGTcount: A:0.25, C:0.22, G:0.30, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGG
Found at i:44497418 original size:20 final size:20
Alignment explanation
Indices: 44497393--44497437 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
44497383 ATGAGTTATT
44497393 TAAGTAAGCAAGTAAGTAAA
1 TAAGTAAGCAAGTAAGTAAA
*
44497413 TAAGTAAGCGAGTAAGTAAA
1 TAAGTAAGCAAGTAAGTAAA
*
44497433 GAAGT
1 TAAGT
44497438 GAGTAAAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.24, T:0.20
Consensus pattern (20 bp):
TAAGTAAGCAAGTAAGTAAA
Found at i:44497794 original size:60 final size:60
Alignment explanation
Indices: 44497726--44497850 Score: 232
Period size: 60 Copynumber: 2.1 Consensus size: 60
44497716 GTTAGCTATT
44497726 GAAATGGCTAATTAAGAACATGTTTGGTATTATGAATGCCTAAATGATAGTAAATACAAA
1 GAAATGGCTAATTAAGAACATGTTTGGTATTATGAATGCCTAAATGATAGTAAATACAAA
* *
44497786 GAAATGGCTAATTAAGAACATGTTTGGTGTTATGGATGCCTAAATGATAGTAAATACAAA
1 GAAATGGCTAATTAAGAACATGTTTGGTATTATGAATGCCTAAATGATAGTAAATACAAA
44497846 GAAAT
1 GAAAT
44497851 TATAAAAGAG
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.42, C:0.08, G:0.20, T:0.30
Consensus pattern (60 bp):
GAAATGGCTAATTAAGAACATGTTTGGTATTATGAATGCCTAAATGATAGTAAATACAAA
Found at i:44498423 original size:42 final size:41
Alignment explanation
Indices: 44498319--44498455 Score: 112
Period size: 43 Copynumber: 3.2 Consensus size: 41
44498309 AAAAACCGTA
* ** *
44498319 GCTAAAGACCCTGATCTTTAGCGACGCATCTTGCACAAACGCC
1 GCTAAAGACCCTGATCTTTAGCGGCGC-T-TTGCGGAAGCGCC
* *** * *
44498362 ACTAAAGACTAAGACCTTTAGCGGCGCTTTAGTGGAAGCGCC
1 GCTAAAGACCCTGATCTTTAGCGGCGCTTT-GCGGAAGCGCC
* * *
44498404 GCTAAAGACCCTGATCTTTAGTGGCGTTTTTGGGAGAAGCGCC
1 GCTAAAGACCCTGATCTTTAGCGGCG-CTTTGCG-GAAGCGCC
44498447 GCTAAAGAC
1 GCTAAAGAC
44498456 AAGGGTCTTT
Statistics
Matches: 73, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
41 2 0.03
42 30 0.41
43 41 0.56
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.23
Consensus pattern (41 bp):
GCTAAAGACCCTGATCTTTAGCGGCGCTTTGCGGAAGCGCC
Found at i:44498538 original size:43 final size:43
Alignment explanation
Indices: 44498491--44498710 Score: 203
Period size: 43 Copynumber: 5.1 Consensus size: 43
44498481 TCAAATTCTG
* * *
44498491 CTAAAGATCCTTATCTTTAGCGGCGCTTCT-CCCAAAAACGTCA
1 CTAAAGACCCTTATCTTTAGCGGCGCTT-TGACCAAAAACGCCA
* **** * ** **
44498534 CTAAAGATCAGGGTTTTTAGCGGCGCTTTCCCCTCAAACGCCA
1 CTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCA
*
44498577 C-AATAGACCCTGATCTTTAGCGGCGCTTTGACCAAAAACGCCA
1 CTAA-AGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCA
** * * ** * *
44498620 CTAAAGACTATGATCTTTAGTGGCGCTTTTTCCACAAACGCCG
1 CTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCA
44498663 CTAAAG-CCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCA
1 CTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCA
44498705 CTAAAG
1 CTAAAG
44498711 GCCAACACCT
Statistics
Matches: 142, Mismatches: 32, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
42 37 0.26
43 103 0.73
44 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (43 bp):
CTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCA
Found at i:44498538 original size:86 final size:84
Alignment explanation
Indices: 44498319--44498710 Score: 312
Period size: 86 Copynumber: 4.6 Consensus size: 84
44498309 AAAAACCGTA
* * * * **
44498319 GCTAAAGACCCTGATCTTTAGCGACGCATCTTG--CACAAACGCCACTAAAGACTAAGACCTTTA
1 GCTAAAGACCCTTATCTTTAGCGGCGC-T-TTGACCAAAAACGCCACTAAAGAC-AGGGTCTTTA
* ** *
44498382 GCGGCGCTTTAGT-GGAAGCGCC
63 GCGGCGCTTT-CTCTCAAACGCC
* * * ** * * *
44498404 GCTAAAGACCCTGATCTTTAGTGGCGTTTTTG-GGAGAAGCGCCGCTAAAGACAAGGGTCTTTAG
1 GCTAAAGACCCTTATCTTTAGCGGCG-CTTTGACCAAAAACGCCACTAAAGAC-AGGGTCTTTAG
* ** *
44498468 CGGTGCTTCTCTCTCAAATTCT
64 CGGCGCTT-TCTCTCAAACGCC
* * * *
44498490 GCTAAAGATCCTTATCTTTAGCGGCGCTTCT-CCCAAAAACGTCACTAAAGATCAGGGTTTTTAG
1 GCTAAAGACCCTTATCTTTAGCGGCGCTT-TGACCAAAAACGCCACTAAAGA-CAGGGTCTTTAG
*
44498554 CGGCGCTTTCCCCTCAAACGCC
64 CGGCGCTTT-CTCTCAAACGCC
* * * *
44498576 AC-AATAGACCCTGATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACTATGATCTTTAG
1 GCTAA-AGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGAC-AGGGTCTTTAG
* * *
44498640 TGGCGCTTTTTCCACAAACGCC
64 CGGCGCTTTCT-CTCAAACGCC
44498662 GCTAAAG-CCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAG
1 GCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAG
44498711 GCCAACACCT
Statistics
Matches: 245, Mismatches: 49, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
84 3 0.01
85 104 0.42
86 135 0.55
87 3 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.26
Consensus pattern (84 bp):
GCTAAAGACCCTTATCTTTAGCGGCGCTTTGACCAAAAACGCCACTAAAGACAGGGTCTTTAGCG
GCGCTTTCTCTCAAACGCC
Found at i:44499087 original size:21 final size:21
Alignment explanation
Indices: 44499061--44499153 Score: 105
Period size: 21 Copynumber: 4.4 Consensus size: 21
44499051 TTTGACGCTG
*
44499061 CTCTGCTTCCCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* **
44499082 CTCTGCTTCCCTCGTTTTAGC
1 CTCTGCTTCCCTCGCTGCAGC
44499103 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * * *
44499124 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
*
44499145 CTCTACTTC
1 CTCTGCTTC
44499154 TTTTGCTGCC
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 60 1.00
ACGTcount: A:0.05, C:0.43, G:0.16, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:44499154 original size:21 final size:21
Alignment explanation
Indices: 44499101--44499165 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
44499091 CCTCGTTTTA
* * *
44499101 GCCTCTGCTTCCCTCGCTGCA
1 GCCTCTACTTCTCTCGCTGCC
*
44499122 GCCTGTACTTCTCTCGCTGCC
1 GCCTCTACTTCTCTCGCTGCC
* *
44499143 GCCTCTACTTCTTTTGCTGCC
1 GCCTCTACTTCTCTCGCTGCC
44499164 GC
1 GC
44499166 ATCTGCTTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.05, C:0.43, G:0.18, T:0.34
Consensus pattern (21 bp):
GCCTCTACTTCTCTCGCTGCC
Found at i:44499228 original size:66 final size:66
Alignment explanation
Indices: 44499158--44499290 Score: 198
Period size: 66 Copynumber: 2.0 Consensus size: 66
44499148 TACTTCTTTT
44499158 GCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCATTGAACCTCAGCTTCT
1 GCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-ATTGAACCTCAGCTTCT
44499221 CTC
64 CTC
* * * *
44499224 GCTGCTGCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCT
1 GCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTATTGAACCTCAGCTTCTCT
44499289 C
66 C
44499290 G
1 G
44499291 ATGTTGCCTC
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
65 1 0.02
66 56 0.92
67 4 0.07
ACGTcount: A:0.14, C:0.28, G:0.19, T:0.39
Consensus pattern (66 bp):
GCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTATTGAACCTCAGCTTCTCT
C
Found at i:44499306 original size:66 final size:66
Alignment explanation
Indices: 44499164--44499313 Score: 196
Period size: 66 Copynumber: 2.3 Consensus size: 66
44499154 TTTTGCTGCC
* * *
44499164 GCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATACTTTCATTGAACCTCAGCTTCTCTCGCTG
1 GCATCCGCTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCATTGAACCTCAGCTTCTCTCGATG
44499228 CT
65 CT
* * *
44499230 GCATCTGCTTTCAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATG
1 GCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCATTGAACCTCAGCTTCTCTCGATG
*
44499294 TT
65 CT
*
44499296 GCCTCCGCTTTAAGTTGT
1 GCATCCGCTTTAAGTTGT
44499314 GTAATTTGTT
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
65 1 0.01
66 69 0.93
67 4 0.05
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.41
Consensus pattern (66 bp):
GCATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCATTGAACCTCAGCTTCTCTCGATGC
T
Found at i:44502309 original size:25 final size:25
Alignment explanation
Indices: 44502258--44502330 Score: 74
Period size: 25 Copynumber: 2.7 Consensus size: 25
44502248 TAAGTTATGT
*
44502258 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATGTATTATGAAA
* *
44502283 ATTATGTAAGTTGTGTATTAGTCAAA
1 ATTATGTAAGTTATGTATTA-TGAAA
44502309 TTATGTTATGTAAGTTATGTAT
1 --A--TTATGTAAGTTATGTAT
44502331 GTCGTATAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
25 18 0.46
26 4 0.10
28 1 0.03
30 16 0.41
ACGTcount: A:0.34, C:0.01, G:0.16, T:0.48
Consensus pattern (25 bp):
ATTATGTAAGTTATGTATTATGAAA
Found at i:44502325 original size:9 final size:9
Alignment explanation
Indices: 44502313--44502777 Score: 107
Period size: 9 Copynumber: 52.9 Consensus size: 9
44502303 GTCAAATTAT
44502313 GTTATGTAA
1 GTTATGTAA
*
44502322 GTTATGTAT
1 GTTATGTAA
** *
44502331 GTCGTATAA
1 GTTATGTAA
44502340 GTTATGTAA
1 GTTATGTAA
44502349 G-T-TGTAA
1 GTTATGTAA
44502356 GTTATGTAA
1 GTTATGTAA
*
44502365 GTTAT-TTA
1 GTTATGTAA
*
44502373 -TTATGAAA
1 GTTATGTAA
* *
44502381 ATTAAGTAA
1 GTTATGTAA
44502390 GTTATGTAA
1 GTTATGTAA
* *
44502399 TTTACG-AA
1 GTTATGTAA
*
44502407 -TAAT-TAA
1 GTTATGTAA
***
44502414 AAAATTGTAA
1 GTTA-TGTAA
44502424 GTTATGTAA
1 GTTATGTAA
44502433 G-T-TGTAA
1 GTTATGTAA
44502440 GTTATGTAA
1 GTTATGTAA
44502449 G-T-TGTAA
1 GTTATGTAA
*
44502456 ATTATGTATA
1 GTTATGTA-A
*
44502466 -ATAT-TAA
1 GTTATGTAA
**
44502473 -TTAACTAA
1 GTTATGTAA
44502481 GTTATGTAA
1 GTTATGTAA
*
44502490 TTTATGTATAA
1 GTTATG--TAA
*
44502501 TATTAAT-TAA
1 -GTT-ATGTAA
44502511 -TTAAT-TAA
1 GTT-ATGTAA
44502519 GTTATGTAA
1 GTTATGTAA
* *
44502528 TTTATGTAT
1 GTTATGTAA
*
44502537 GTTAACTAATTAA
1 GTT-A-T--GTAA
44502550 GTTATGTAA
1 GTTATGTAA
*
44502559 TTTATG-AA
1 GTTATGTAA
*
44502567 -TAAT-TAAA
1 GTTATGT-AA
***
44502575 AAAATGTAA
1 GTTATGTAA
44502584 GTTATGTAA
1 GTTATGTAA
44502593 GTTATGTAA
1 GTTATGTAA
44502602 G-T-TGTAA
1 GTTATGTAA
44502609 GTTATGTATA
1 GTTATGTA-A
*
44502619 -ATAT-TAA
1 GTTATGTAA
**
44502626 -TTAACTAA
1 GTTATGTAA
44502634 GTTATGTAA
1 GTTATGTAA
*
44502643 TTTATGTATCA
1 GTTATGTA--A
*
44502654 TATTAGTGTAA
1 -GTTA-TGTAA
44502665 GTTATGTAA
1 GTTATGTAA
**
44502674 CATATGTATA
1 GTTATGTA-A
*
44502684 -ATAT-TAA
1 GTTATGTAA
**
44502691 -TTAACTAA
1 GTTATGTAA
44502699 GTTATGTAA
1 GTTATGTAA
*
44502708 TTTATGTATCA
1 GTTATGTA--A
*
44502719 TATTAATGTAA
1 -GTT-ATGTAA
44502730 GTTATGTAA
1 GTTATGTAA
*
44502739 CTTATGT-A
1 GTTATGTAA
44502747 --TAT-TAA
1 GTTATGTAA
44502753 -TTAAT-TAA
1 GTT-ATGTAA
44502761 GTTATGTAA
1 GTTATGTAA
*
44502770 TTTATGTA
1 GTTATGTA
44502778 TAATATTAAT
Statistics
Matches: 344, Mismatches: 62, Indels: 100
0.68 0.12 0.20
Matches are distributed among these distances:
5 1 0.00
6 4 0.01
7 44 0.13
8 52 0.15
9 193 0.56
10 17 0.05
11 9 0.03
12 8 0.02
13 16 0.05
ACGTcount: A:0.39, C:0.02, G:0.14, T:0.45
Consensus pattern (9 bp):
GTTATGTAA
Found at i:44502356 original size:34 final size:31
Alignment explanation
Indices: 44502317--44502464 Score: 84
Period size: 34 Copynumber: 4.5 Consensus size: 31
44502307 AATTATGTTA
* *
44502317 TGTAAGTTATGTATGTCGTATAAGTTATGTAAGT
1 TGTAAGTTATGTATGT--TATAA-TTATGAAAAT
* *
44502351 TGTAAGTTATGTAAGTTATTTATTATGAAAAT
1 TGTAAGTTATGTATGTTA-TAATTATGAAAAT
*
44502383 TAAGTAAGTTATGTAAT-TTACGAATAATTA-AAAAAT
1 T--GTAAGTTATGT-ATGTT----ATAATTATGAAAAT
* * * *
44502419 TGTAAGTTATGTAAGTTGTAAGTTATGTAAGT
1 TGTAAGTTATGTATGTTATAA-TTATGAAAAT
*
44502451 TGTAAATTATGTAT
1 TGTAAGTTATGTAT
44502465 AATATTAATT
Statistics
Matches: 89, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
30 3 0.03
31 3 0.03
32 26 0.29
33 3 0.03
34 41 0.46
35 1 0.01
36 6 0.07
37 5 0.06
38 1 0.01
ACGTcount: A:0.37, C:0.01, G:0.18, T:0.43
Consensus pattern (31 bp):
TGTAAGTTATGTATGTTATAATTATGAAAAT
Found at i:44502550 original size:31 final size:32
Alignment explanation
Indices: 44502451--44503699 Score: 568
Period size: 31 Copynumber: 39.2 Consensus size: 32
44502441 TTATGTAAGT
* * *
44502451 TGTAAATTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTAT-A-ATTAAATAATTAAGTTA
44502485 TGTAATTTATGTATAATATTAATTAATTAATTAAGTTA
1 TGTAATTTATGTAT-A-ATT-A--AA-TAATTAAGTTA
* *
44502523 TGTAATTTATGTAT-GTTAACTAATTAAGTTA
1 TGTAATTTATGTATAATTAAATAATTAAGTTA
* *
44502554 TGTAATTTATGAATAATTAAAAAAATGTAAGTTA
1 TGTAATTTATGTATAATT-AAATAAT-TAAGTTA
* *
44502588 TGTAAGTTATGTAAGTTGTAAGTTATGTATAATATTAA-TTA
1 TGTAATTTATGT-A----TAA-TTA--AAT-A-ATTAAGTTA
** * * *
44502629 ACTAAGTTATGTAATTTATGTATCATATTAGTGTAAGTTA
1 TGTAATTTATGT-A-TAAT-TA--A-A-TAAT-TAAGTTA
** * *
44502669 TGTAACATATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTAT-A-ATTAAATAATTAAGTTA
* *
44502703 TGTAATTTATGTATCA-T-ATTAATGTAAGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
* *
44502734 TGTAACTTATGTAT-ATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATTAAATAATTAAGTTA
*
44502765 TGTAATTTATGTATAA-T-ATTAATGTAAGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
* * ** * * *
44502796 TGTATAATAACATAAAATTAAGTAATGTAATTTA
1 TGTA-ATTTATGTATAATTAAATAAT-TAAGTTA
* * *
44502830 TGT-A-TAATAT-TAATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATTAAATAATTAAGTTA
*
44502859 TGTAATTTATGTATAA-T-ATTAATGTAAGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
* *
44502890 TGT-A--TA---AT-ATTAATTAACTAAGTTA
1 TGTAATTTATGTATAATTAAATAATTAAGTTA
* * *
44502915 CGTAATTTATGTATCA-T-ATTAATGTAAGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
** * *
44502946 TGTAACATATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTAT-A-ATTAAATAATTAAGTTA
* *
44502980 TGTAATTTATGTATCA-T-ATTAATGTAAGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
* *
44503011 TGTAACTTATGTAT-ATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATTAAATAATTAAGTTA
*
44503042 TGTAATTTATGTATAA-T-ATTAATGTAAGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
* * ** * * *
44503073 TGTATAATAACATAAAATTAAGTAATGTAATTTA
1 TGTA-ATTTATGTATAATTAAATAAT-TAAGTTA
* * *
44503107 TGT-A-TAATAT-TAATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATTAAATAATTAAGTTA
*
44503136 TGTAATTTATGTATAA-T-ATTAATGTAAGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
* *
44503167 TGT-A--TA---AT-ATTAATTAACTAAGTTA
1 TGTAATTTATGTATAATTAAATAATTAAGTTA
* *
44503192 TGTAATTTATGTATCA-T-ATTAATGTAAGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
** * *
44503223 TGTAACATATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTAT-A-ATTAAATAATTAAGTTA
* *
44503257 TGTAATTTATGTATCA-T-ATTAATGTAAGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
* *
44503288 TGTAACTTATGTAT-ATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATTAAATAATTAAGTTA
*
44503319 TGTAATTTATGTATAA-T-ATTAATGTAAGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
* * ** * * *
44503350 TGTATAATAACATAAAATTAAGTAATGTAATTTA
1 TGTA-ATTTATGTATAATTAAATAAT-TAAGTTA
* * *
44503384 TGT-A-TAATAT-TAATTAATTAATTAAGTTA
1 TGTAATTTATGTATAATTAAATAATTAAGTTA
*
44503413 TGTAATTTATGTATAA-T-ATTAATGTAAGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
*
44503444 TGT-A--TAAG-A-ACA-T-AA-AATTAAGTTA
1 TGTAATTTATGTATA-ATTAAATAATTAAGTTA
* *
44503469 TGTAATTTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTAT-A-ATTAAATAATTAAGTTA
44503503 TGTAATTTATGTATAATATTAATTAATTAATTAAGTTA
1 TGTAATTTATGTAT-A-ATT-A--AA-TAATTAAGTTA
*
44503541 TGTAATTTATGTATAA-T-ATTAATGTAAGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
*
44503572 TGT-A--TAAG-A-ACA-T-AA-AATTAAGTTA
1 TGTAATTTATGTATA-ATTAAATAATTAAGTTA
* *
44503597 TGTAATTTATGTATAATATTAATTAACTAAGTTA
1 TGTAATTTATGTAT-A-ATTAAATAATTAAGTTA
* *
44503631 TGTAATTTATGTATAA-T-ATTAATGTATGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
* *
44503662 TGTAATTTATGAATAATTAAAAAATGTAAGTTA
1 TGTAATTTATGTATAATTAAATAAT-TAAGTTA
44503695 TGTAA
1 TGTAA
44503700 GTTGTAAGTT
Statistics
Matches: 979, Mismatches: 120, Indels: 233
0.73 0.09 0.17
Matches are distributed among these distances:
24 2 0.00
25 45 0.05
26 22 0.02
27 8 0.01
28 20 0.02
29 29 0.03
30 110 0.11
31 326 0.33
32 66 0.07
33 29 0.03
34 193 0.20
35 18 0.02
36 1 0.00
37 5 0.01
38 55 0.06
39 12 0.01
40 16 0.02
41 16 0.02
42 4 0.00
43 2 0.00
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.45
Consensus pattern (32 bp):
TGTAATTTATGTATAATTAAATAATTAAGTTA
Found at i:44502609 original size:16 final size:18
Alignment explanation
Indices: 44502247--44502777 Score: 114
Period size: 16 Copynumber: 30.2 Consensus size: 18
44502237 ACTAAGCTAC
44502247 GTAAGTTATGT-A-TTAT
1 GTAAGTTATGTAAGTTAT
*
44502263 GTAAGTTAT-TTA-TTAT
1 GTAAGTTATGTAAGTTAT
* * *
44502279 GAAAATTATGTAAGTTGT
1 GTAAGTTATGTAAGTTAT
* *
44502297 GTATTAGTCAAAT-TATGTTAT
1 GTA--AGT--TATGTAAGTTAT
* **
44502318 GTAAGTTATGTATGTCGT
1 GTAAGTTATGTAAGTTAT
*
44502336 ATAAGTTATGTAAG-T-T
1 GTAAGTTATGTAAGTTAT
44502352 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
* * * *
44502370 -TTA-TTATGAAAATTAA
1 GTAAGTTATGTAAGTTAT
* *
44502386 GTAAGTTATGTAATTTAC
1 GTAAGTTATGTAAGTTAT
* ***
44502404 G-AA-TAAT-TAAAAAATT
1 GTAAGTTATGTAAGTTA-T
44502420 GTAAGTTATGTAAG-T-T
1 GTAAGTTATGTAAGTTAT
44502436 GTAAGTTATGTAAG-T-T
1 GTAAGTTATGTAAGTTAT
* *
44502452 GTAAATTATGTATA-ATAT
1 GTAAGTTATGTA-AGTTAT
**
44502470 -TAA-TTAACTAAGTTAT
1 GTAAGTTATGTAAGTTAT
* *
44502486 GTAATTTATGTATAATATTAAT
1 GTAAGTTATG--TAA-GTT-AT
44502508 -TAA-TTAAT-TAAGTTAT
1 GTAAGTT-ATGTAAGTTAT
* *
44502524 GTAATTTATGTATGTTAACT
1 GTAAGTTATGTAAGTT-A-T
* *
44502544 AATTAAGTTATGTAATTTAT
1 --GTAAGTTATGTAAGTTAT
* ***
44502564 G-AA-TAAT-TAAAAAAAT
1 GTAAGTTATGT-AAGTTAT
44502580 GTAAGTTATGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
44502598 GTAAG-T-TGTAAGTTAT
1 GTAAGTTATGTAAGTTAT
* *
44502614 GTATA-ATAT-TAA-TTAA
1 GTA-AGTTATGTAAGTTAT
* *
44502630 CTAAGTTATGTAATTTAT
1 GTAAGTTATGTAAGTTAT
*
44502648 GTATCATATTAGTGTAAGTTAT
1 GTA--A-GTTA-TGTAAGTTAT
** *
44502670 GTAACATATGTATA-ATAT
1 GTAAGTTATGTA-AGTTAT
**
44502688 -TAA-TTAACTAAGTTAT
1 GTAAGTTATGTAAGTTAT
* *
44502704 GTAATTTATGTATCATATTAAT
1 GTAAGTTATGTA--A-GTT-AT
*
44502726 GTAAGTTATGTAACTTAT
1 GTAAGTTATGTAAGTTAT
44502744 GT-A--TAT-TAA-TTAAT
1 GTAAGTTATGTAAGTT-AT
*
44502758 -TAAGTTATGTAATTTAT
1 GTAAGTTATGTAAGTTAT
44502775 GTA
1 GTA
44502778 TAATATTAAT
Statistics
Matches: 379, Mismatches: 73, Indels: 124
0.66 0.13 0.22
Matches are distributed among these distances:
13 3 0.01
14 6 0.02
15 12 0.03
16 126 0.33
17 53 0.14
18 90 0.24
19 13 0.03
20 13 0.03
21 22 0.06
22 41 0.11
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.45
Consensus pattern (18 bp):
GTAAGTTATGTAAGTTAT
Found at i:44502789 original size:22 final size:21
Alignment explanation
Indices: 44502635--44502804 Score: 81
Period size: 22 Copynumber: 8.0 Consensus size: 21
44502625 ATTAACTAAG
*
44502635 TTATGTAATTTATGTATCATA
1 TTATGTAATTTATGTATAATA
*
44502656 TTAGTGTAAGTTATGTA-ACATA
1 TTA-TGTAATTTATGTATA-ATA
*
44502678 TGTA--TAATATTAAT-TAACTAA-G
1 T-TATGTAAT-TT-ATGT-A-TAATA
*
44502700 TTATGTAATTTATGTATCATA
1 TTATGTAATTTATGTATAATA
* *
44502721 TTAATGTAAGTTATG--TAA-C
1 TT-ATGTAATTTATGTATAATA
* *
44502740 TTATGTATATTAAT-TAATTAA-G
1 TTATGTA-ATTTATGT-A-TAATA
44502762 TTATGTAATTTATGTATAATA
1 TTATGTAATTTATGTATAATA
*
44502783 TTAATGTAAGTTATGTATAATA
1 TT-ATGTAATTTATGTATAATA
44502805 ACATAAAATT
Statistics
Matches: 113, Mismatches: 15, Indels: 41
0.67 0.09 0.24
Matches are distributed among these distances:
18 5 0.04
19 6 0.05
20 10 0.09
21 21 0.19
22 63 0.56
23 7 0.06
24 1 0.01
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (21 bp):
TTATGTAATTTATGTATAATA
Found at i:44502884 original size:22 final size:22
Alignment explanation
Indices: 44502818--44502903 Score: 103
Period size: 22 Copynumber: 4.2 Consensus size: 22
44502808 TAAAATTAAG
44502818 TAATGTAATTTATGTATAATAT
1 TAATGTAATTTATGTATAATAT
* *
44502840 TAAT-TAA-TTA-AT-TAA-GT
1 TAATGTAATTTATGTATAATAT
44502857 T-ATGTAATTTATGTATAATAT
1 TAATGTAATTTATGTATAATAT
*
44502878 TAATGTAAGTTATGTATAATAT
1 TAATGTAATTTATGTATAATAT
44502900 TAAT
1 TAAT
44502904 TAACTAAGTT
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
16 2 0.04
17 5 0.09
18 6 0.11
19 2 0.04
20 6 0.11
21 5 0.09
22 27 0.51
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (22 bp):
TAATGTAATTTATGTATAATAT
Found at i:44502922 original size:277 final size:277
Alignment explanation
Indices: 44502604--44503765 Score: 1772
Period size: 277 Copynumber: 4.1 Consensus size: 277
44502594 TTATGTAAGT
*
44502604 TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCATATTAGTGTAAGTTA
1 TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCATATTAATGTAAGTTA
44502669 TGTAACATATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCATATTAATGTAAGTTA
66 TGTAACATATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCATATTAATGTAAGTTA
44502734 TGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT
131 TGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT
44502799 ATAATAACATAAAATTAAGTAATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAA
196 ATAATAACATAAAATTAAGTAATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAA
44502864 TTTATGTATAATATTAA
261 TTTATGTATAATATTAA
*
44502881 TGTAAGTTATGTATAATATTAATTAACTAAGTTACGTAATTTATGTATCATATTAATGTAAGTTA
1 TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCATATTAATGTAAGTTA
44502946 TGTAACATATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCATATTAATGTAAGTTA
66 TGTAACATATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCATATTAATGTAAGTTA
44503011 TGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT
131 TGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT
44503076 ATAATAACATAAAATTAAGTAATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAA
196 ATAATAACATAAAATTAAGTAATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAA
44503141 TTTATGTATAATATTAA
261 TTTATGTATAATATTAA
44503158 TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCATATTAATGTAAGTTA
1 TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCATATTAATGTAAGTTA
44503223 TGTAACATATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCATATTAATGTAAGTTA
66 TGTAACATATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCATATTAATGTAAGTTA
44503288 TGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT
131 TGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT
44503353 ATAATAACATAAAATTAAGTAATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAA
196 ATAATAACATAAAATTAAGTAATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAA
44503418 TTTATGTATAATATTAA
261 TTTATGTATAATATTAA
* * * * *
44503435 TGTAAGTTATGTATAAGA--ACATAAAATTAAGTTATGTAATTTATGTATAATATTAATTAACTA
1 TGTAAGTTATGTATAATATTA-AT-TAACTAAGTTATGTAATTTATGTATCATATTAA-T--GTA
** * *
44503498 AGTTATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA
61 AGTTATGTAACATATGTAT-A-A-T-ATTAATTAACTAAGTTATGTAATTTATGTATCATATTAA
* * *
44503563 TGTAAGTTATGT-A--TAAGAACA-TAA--AATTAAGTTATGTAATTTATGTATAATATTAATTA
122 TGTAAGTTATGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA-T-
* * * ** * * * * *
44503622 ACTAAGTTATGTA-ATTTATGTATAA-T-ATTAATGT-ATGTTATGTAATTTATGAATAATTAAA
185 -GTAAGTTATGTATAATAACATAAAATTAAGTAATGTAAT-TTATGT-A-TAAT-ATTAATTAAT
* *
44503683 AAATGTAAGTTATGTAAGTTGTAAGTTATAAGTTATGTAA
245 TAAT-TAAGTTATGTAA-TT-TATG-TATAA--TAT-TAA
*
44503723 GTTGTCAGTTATGTATAATATTAATTAACTAAGTTATGTAATT
1 --TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATT
44503766 AGAGATGGGT
Statistics
Matches: 827, Mismatches: 31, Indels: 41
0.92 0.03 0.05
Matches are distributed among these distances:
275 1 0.00
276 2 0.00
277 600 0.73
278 46 0.06
279 3 0.00
280 32 0.04
281 28 0.03
282 13 0.02
283 4 0.00
284 52 0.06
285 5 0.01
287 3 0.00
288 3 0.00
290 32 0.04
291 2 0.00
292 1 0.00
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.45
Consensus pattern (277 bp):
TGTAAGTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCATATTAATGTAAGTTA
TGTAACATATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCATATTAATGTAAGTTA
TGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGT
ATAATAACATAAAATTAAGTAATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAA
TTTATGTATAATATTAA
Found at i:44502927 original size:56 final size:56
Alignment explanation
Indices: 44502818--44503619 Score: 474
Period size: 65 Copynumber: 13.1 Consensus size: 56
44502808 TAAAATTAAG
*
44502818 TAATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAATTTATGTATAATAT
1 TAATGTAAGTTATGTAT-A-A-T-ATTAATTAATTAAGTTATGTAATTTATGTATAATAT
* * *
44502878 TAATGTAAGTTATGTATAATATTAATTAACTAAGTTACGTAATTTATGTATCATAT
1 TAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATAT
* *
44502934 TAATGTAAGTTATGTAACATATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATCATAT
1 TAATGT-A---A-GT----TATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATAT
44502999 TAATGTAAGTTATGTAACTTATGTATATTAATTAATTAAGTTATGTAATTTATGTATAATAT
1 TAATGTAAGTTATGT-A--TA---ATATTAATTAATTAAGTTATGTAATTTATGTATAATAT
* *
44503061 TAATGTAAGTTATGTATAATA--ACATAAAATTAAGTAATGTAATTTATGTATAATAT
1 TAATGTAAGTTATGTATAATATTA-AT-TAATTAAGTTATGTAATTTATGTATAATAT
* * * *
44503117 TAAT-TAA-TTAAT-TA-AGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATAT
1 TAATGTAAGTT-ATGTATA-ATAT-TAA-TTA-AT-TAA-GTT-ATGTAATTTATGTATAATAT
* * * **
44503177 TAATTAACTAAGTTATGTAATTTATGTATCATATTAATGTAAGTTATGTAACATATGTATAATAT
1 TAA-T--GTAAGTTATGT-A--TA-ATATTA-ATTAAT-TAAGTTATGTAATTTATGTATAATAT
* * * * *
44503242 TAATTAACTAAGTTATGTAATTTATGTATCATATTAATGTAAGTTATGTAACTTATGTATATTAA
1 TAA-T--GTAAGTTATGT-A--TA-ATATTA-ATTAAT-TAAGTTATGTAATTTATGTATAAT-A
44503307 T
56 T
* * * * ** * *
44503308 TAAT-TAAGTTATGTAATTTATGTATAATATTAATGTAAGTTATGTATAATAACATAAAATTAAG
1 TAATGTAAGTTATGT-A--TA-ATATTA-ATTAAT-TAAGTTATGTA-ATTTATGTATAA-T-AT
*
44503372 TAATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAATTTATGTATAATAT
1 TAATGTAAGTTATGTAT-A-A-T-ATTAATTAATTAAGTTATGTAATTTATGTATAATAT
* *
44503432 TAATGTAAGTTATGTATAAGA--ACATAAAATTAAGTTATGTAATTTATGTATAATATTAATT
1 TAATGTAAGTTATGTATAATATTA-AT-TAATTAAGTTATGTAATTTATGTAT-A-A-T-A-T
*
44503493 AACTAAGTTATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAATTTATGTATAAT
1 ---T-A---ATGTAAGTTATGTATAATATTAA-T---TAATTAAGTTATGTAATTTATGTATAAT
44503558 AT
55 AT
* *
44503560 TAATGTAAGTTATGTATAAGA--ACATAAAATTAAGTTATGTAATTTATGTATAATAT
1 TAATGTAAGTTATGTATAATATTA-AT-TAATTAAGTTATGTAATTTATGTATAATAT
44503616 TAAT
1 TAAT
44503620 TAACTAAGTT
Statistics
Matches: 624, Mismatches: 53, Indels: 134
0.77 0.07 0.17
Matches are distributed among these distances:
53 1 0.00
54 8 0.01
55 9 0.01
56 139 0.22
57 7 0.01
58 8 0.01
59 9 0.01
60 76 0.12
61 7 0.01
62 100 0.16
63 20 0.03
64 23 0.04
65 147 0.24
66 8 0.01
67 5 0.01
68 22 0.04
69 7 0.01
70 3 0.00
71 1 0.00
72 24 0.04
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (56 bp):
TAATGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATAT
Found at i:44502941 original size:22 final size:22
Alignment explanation
Indices: 44502916--44503077 Score: 87
Period size: 22 Copynumber: 7.6 Consensus size: 22
44502906 ACTAAGTTAC
44502916 GTAATTTATGTATCATATTAAT
1 GTAATTTATGTATCATATTAAT
* *
44502938 GTAAGTTATGTAACATATGT-A-
1 GTAATTTATGTATCATAT-TAAT
*
44502959 -TAATATTAAT-TAAC-TAAGTT-AT
1 GTAAT-TT-ATGTATCAT-A-TTAAT
44502981 GTAATTTATGTATCATATTAAT
1 GTAATTTATGTATCATATTAAT
* * *
44503003 GTAAGTTATGTAACTTATGTATAT
1 GTAATTTATGTATCATAT-TA-AT
* *
44503027 -TAATTAAT-TA--A-GTT-AT
1 GTAATTTATGTATCATATTAAT
*
44503043 GTAATTTATGTATAATATTAAT
1 GTAATTTATGTATCATATTAAT
*
44503065 GTAAGTTATGTAT
1 GTAATTTATGTAT
44503078 AATAACATAA
Statistics
Matches: 108, Mismatches: 14, Indels: 36
0.68 0.09 0.23
Matches are distributed among these distances:
16 2 0.02
17 7 0.06
18 3 0.03
19 1 0.01
20 5 0.05
21 15 0.14
22 59 0.55
23 14 0.13
24 2 0.02
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (22 bp):
GTAATTTATGTATCATATTAAT
Found at i:44503147 original size:9 final size:9
Alignment explanation
Indices: 44503097--44503331 Score: 55
Period size: 9 Copynumber: 25.6 Consensus size: 9
44503087 AAATTAAGTA
44503097 ATGTAATTT
1 ATGTAATTT
44503106 ATGTATAATATT
1 ATG--TAAT-TT
*
44503118 AAT-TAATTA
1 -ATGTAATTT
*
44503127 AT-TAAGTT
1 ATGTAATTT
44503135 ATGTAATTT
1 ATGTAATTT
44503144 ATGTATAATATT
1 ATG--TAAT-TT
*
44503156 AATGTAAGTT
1 -ATGTAATTT
*
44503166 ATGT-ATAAT
1 ATGTAAT-TT
44503175 AT-TAA-TT
1 ATGTAATTT
** *
44503182 AACTAAGTT
1 ATGTAATTT
44503191 ATGTAATTT
1 ATGTAATTT
44503200 ATGTATCATATT
1 ATGTA--AT-TT
*
44503212 AATGTAAGTT
1 -ATGTAATTT
**
44503222 ATGTAACAT
1 ATGTAATTT
*
44503231 ATGT-ATAAT
1 ATGTAAT-TT
44503240 AT-TAA-TT
1 ATGTAATTT
** *
44503247 AACTAAGTT
1 ATGTAATTT
44503256 ATGTAATTT
1 ATGTAATTT
44503265 ATGTATCATATT
1 ATGTA--AT-TT
*
44503277 AATGTAAGTT
1 -ATGTAATTT
*
44503287 ATGTAACTT
1 ATGTAATTT
44503296 ATGT-A--T
1 ATGTAATTT
*
44503302 AT-TAATTA
1 ATGTAATTT
*
44503310 AT-TAAGTT
1 ATGTAATTT
44503318 ATGTAATTT
1 ATGTAATTT
44503327 ATGTA
1 ATGTA
44503332 TAATATTAAT
Statistics
Matches: 170, Mismatches: 27, Indels: 58
0.67 0.11 0.23
Matches are distributed among these distances:
5 1 0.01
6 4 0.02
7 4 0.02
8 27 0.16
9 84 0.49
10 10 0.06
11 17 0.10
12 8 0.05
13 15 0.09
ACGTcount: A:0.40, C:0.03, G:0.11, T:0.47
Consensus pattern (9 bp):
ATGTAATTT
Found at i:44503161 original size:22 final size:22
Alignment explanation
Indices: 44503095--44503180 Score: 103
Period size: 22 Copynumber: 4.2 Consensus size: 22
44503085 TAAAATTAAG
44503095 TAATGTAATTTATGTATAATAT
1 TAATGTAATTTATGTATAATAT
* *
44503117 TAAT-TAA-TTA-AT-TAA-GT
1 TAATGTAATTTATGTATAATAT
44503134 T-ATGTAATTTATGTATAATAT
1 TAATGTAATTTATGTATAATAT
*
44503155 TAATGTAAGTTATGTATAATAT
1 TAATGTAATTTATGTATAATAT
44503177 TAAT
1 TAAT
44503181 TAACTAAGTT
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
16 2 0.04
17 5 0.09
18 6 0.11
19 2 0.04
20 6 0.11
21 5 0.09
22 27 0.51
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (22 bp):
TAATGTAATTTATGTATAATAT
Found at i:44503194 original size:25 final size:22
Alignment explanation
Indices: 44503142--44503195 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 22
44503132 GTTATGTAAT
*
44503142 TTATGTATAATATTAATGTAAG
1 TTATGTATAATATTAATCTAAG
44503164 TTATGTATAATATTAATTAACTAAG
1 TTATGTATAATATTAA-T--CTAAG
44503189 TTATGTA
1 TTATGTA
44503196 ATTTATGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
22 16 0.57
23 1 0.04
25 11 0.39
ACGTcount: A:0.41, C:0.02, G:0.11, T:0.46
Consensus pattern (22 bp):
TTATGTATAATATTAATCTAAG
Found at i:44503223 original size:22 final size:22
Alignment explanation
Indices: 44503191--44503354 Score: 75
Period size: 22 Copynumber: 7.7 Consensus size: 22
44503181 TAACTAAGTT
*
44503191 ATGTAATTTATGTATCATATTA
1 ATGTAAGTTATGTATCATATTA
*
44503213 ATGTAAGTTATGTAACATATGT-
1 ATGTAAGTTATGTATCATAT-TA
* *
44503235 A--TAATATTAAT-TAAC-TAAGTT-
1 ATGTAA-GTT-ATGTATCAT-A-TTA
*
44503256 ATGTAATTTATGTATCATATTA
1 ATGTAAGTTATGTATCATATTA
* *
44503278 ATGTAAGTTATGTAACTTATGTA
1 ATGTAAGTTATGTATCATAT-TA
*
44503301 TAT-TAA-TTAAT-TA--A-GTT-
1 -ATGTAAGTT-ATGTATCATATTA
* *
44503318 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATCATATTA
44503340 ATGTAAGTTATGTAT
1 ATGTAAGTTATGTAT
44503355 AATAACATAA
Statistics
Matches: 110, Mismatches: 12, Indels: 40
0.68 0.07 0.25
Matches are distributed among these distances:
16 2 0.02
17 5 0.05
18 5 0.05
19 1 0.01
20 5 0.05
21 15 0.14
22 63 0.57
23 12 0.11
24 2 0.02
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (22 bp):
ATGTAAGTTATGTATCATATTA
Found at i:44503355 original size:22 final size:22
Alignment explanation
Indices: 44503256--44503358 Score: 76
Period size: 22 Copynumber: 4.9 Consensus size: 22
44503246 TAACTAAGTT
* *
44503256 ATGTAATTTATGTATCATATTA
1 ATGTAAGTTATGTATAATATTA
*
44503278 ATGTAAGTTATGTA-ACTTATGTA
1 ATGTAAGTTATGTATA-ATAT-TA
* *
44503301 TAT-TAA-TTA-AT-TAA-GTT-
1 -ATGTAAGTTATGTATAATATTA
*
44503318 ATGTAATTTATGTATAATATTA
1 ATGTAAGTTATGTATAATATTA
44503340 ATGTAAGTTATGTATAATA
1 ATGTAAGTTATGTATAATA
44503359 ACATAAAATT
Statistics
Matches: 62, Mismatches: 9, Indels: 20
0.68 0.10 0.22
Matches are distributed among these distances:
16 2 0.03
17 3 0.05
18 4 0.06
19 2 0.03
20 3 0.05
21 4 0.06
22 37 0.60
23 5 0.08
24 2 0.03
ACGTcount: A:0.39, C:0.02, G:0.12, T:0.48
Consensus pattern (22 bp):
ATGTAAGTTATGTATAATATTA
Found at i:44503435 original size:17 final size:17
Alignment explanation
Indices: 44503377--44503435 Score: 57
Period size: 17 Copynumber: 3.2 Consensus size: 17
44503367 TTAAGTAATG
44503377 TAATTTATGTATAATAT
1 TAATTTATGTATAATAT
*
44503394 TAATTAAT-TAATTAAGTTAT
1 TAATTTATGT-A-TAA--TAT
44503414 GTAATTTATGTATAATAT
1 -TAATTTATGTATAATAT
44503432 TAAT
1 TAAT
44503436 GTAAGTTATG
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
16 1 0.03
17 12 0.35
18 6 0.18
20 6 0.18
21 8 0.24
22 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (17 bp):
TAATTTATGTATAATAT
Found at i:44503529 original size:94 final size:90
Alignment explanation
Indices: 44502727--44503525 Score: 898
Period size: 94 Copynumber: 8.7 Consensus size: 90
44502717 CATATTAATG
*
44502727 TAAGTTATGTAACTTATG--T-ATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATG
1 TAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATG
44502789 TAAGTTATGTATAATAACATAAAAT
66 TAAGTTATGTATAATAACATAAAAT
*
44502814 TAAGTAATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAATTTATGTATAATATT
1 TAAGTTATGTAATTTATGTAT-A-A-T-ATTAATTAATTAAGTTATGTAATTTATGTATAATATT
* *
44502879 AATGTAAGTTATGTATAATATTA-AT-TAAC
62 AATGTAAGTTATGTATAATA--ACATAAAAT
* * * **
44502908 TAAGTTACGTAATTTATGTATCATATTAA-T--GTAAGTTATGTAACATATGTATAATATTAATT
1 TAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA-T
* * * *
44502970 AACTAAGTTATGTAATTTATGTATCATATTAAT
65 --GTAAGTTATGT-A--TA-ATAACATA-AAAT
*
44503003 GTAAGTTATGTAACTTATG--T-ATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAAT
1 -TAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAAT
44503065 GTAAGTTATGTATAATAACATAAAAT
65 GTAAGTTATGTATAATAACATAAAAT
*
44503091 TAAGTAATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAATTTATGTATAATATT
1 TAAGTTATGTAATTTATGTAT-A-A-T-ATTAATTAATTAAGTTATGTAATTTATGTATAATATT
* *
44503156 AATGTAAGTTATGTATAATATTA-AT-TAAC
62 AATGTAAGTTATGTATAATA--ACATAAAAT
* * **
44503185 TAAGTTATGTAATTTATGTATCATATTAA-T--GTAAGTTATGTAACATATGTATAATATTAATT
1 TAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAA-T
* * * *
44503247 AACTAAGTTATGTAATTTATGTATCATATTAAT
65 --GTAAGTTATGT-A--TA-ATAACATA-AAAT
*
44503280 GTAAGTTATGTAACTTATG--T-ATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAAT
1 -TAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAAT
44503342 GTAAGTTATGTATAATAACATAAAAT
65 GTAAGTTATGTATAATAACATAAAAT
*
44503368 TAAGTAATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAATTTATGTATAATATT
1 TAAGTTATGTAATTTATGTAT-A-A-T-ATTAATTAATTAAGTTATGTAATTTATGTATAATATT
*
44503433 AATGTAAGTTATGTATAAGAACATAAAAT
62 AATGTAAGTTATGTATAATAACATAAAAT
*
44503462 TAAGTTATGTAATTTATGTATAATATTAATTAACTAAGTTATGTAATTTATGTATAATATTAAT
1 TAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAAT
44503526 TAATTAATTA
Statistics
Matches: 610, Mismatches: 49, Indels: 103
0.80 0.06 0.14
Matches are distributed among these distances:
87 102 0.17
88 8 0.01
89 17 0.03
90 73 0.12
91 5 0.01
92 8 0.01
93 46 0.08
94 250 0.41
95 12 0.02
96 89 0.15
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (90 bp):
TAAGTTATGTAATTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATAATATTAATG
TAAGTTATGTATAATAACATAAAAT
Found at i:44503662 original size:90 final size:94
Alignment explanation
Indices: 44503496--44503665 Score: 294
Period size: 90 Copynumber: 1.9 Consensus size: 94
44503486 ATTAATTAAC
*
44503496 TAAGTTATGTAATTTATGTATAATATTAATTAATTAATTAAGTTATGTAATTTATGTATAATATT
1 TAAGTTATGTAATTTATGTATAATATTAATTAATTAACTAAGTTATGTAATTTATGTATAATATT
44503561 AATGTAAGTTATGTATAAGAACATAAAAT
66 AATGTAAGTTATGTATAAGAACATAAAAT
44503590 TAAGTTATGTAATTTATGTAT-A-A-T-ATTAATTAACTAAGTTATGTAATTTATGTATAATATT
1 TAAGTTATGTAATTTATGTATAATATTAATTAATTAACTAAGTTATGTAATTTATGTATAATATT
*
44503651 AATGTATGTTATGTA
66 AATGTAAGTTATGTA
44503666 ATTTATGAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 4
0.93 0.03 0.05
Matches are distributed among these distances:
90 50 0.68
91 1 0.01
92 1 0.01
93 1 0.01
94 21 0.28
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.46
Consensus pattern (94 bp):
TAAGTTATGTAATTTATGTATAATATTAATTAATTAACTAAGTTATGTAATTTATGTATAATATT
AATGTAAGTTATGTATAAGAACATAAAAT
Found at i:44503707 original size:16 final size:16
Alignment explanation
Indices: 44503685--44503737 Score: 56
Period size: 16 Copynumber: 3.3 Consensus size: 16
44503675 TAATTAAAAA
44503685 ATGTAAGTTATGTAAG-T
1 ATGTAAG-T-TGTAAGTT
*
44503702 -TGTAAGTTATAAGTT
1 ATGTAAGTTGTAAGTT
*
44503717 ATGTAAGTTGTCAGTT
1 ATGTAAGTTGTAAGTT
44503733 ATGTA
1 ATGTA
44503738 TAATATTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
14 5 0.16
15 2 0.06
16 24 0.77
ACGTcount: A:0.32, C:0.02, G:0.23, T:0.43
Consensus pattern (16 bp):
ATGTAAGTTGTAAGTT
Found at i:44503715 original size:23 final size:23
Alignment explanation
Indices: 44503688--44503734 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
44503678 TTAAAAAATG
44503688 TAAGTTATGTAAGTTGTAAGTTA
1 TAAGTTATGTAAGTTGTAAGTTA
*
44503711 TAAGTTATGTAAGTTGTCAGTTA
1 TAAGTTATGTAAGTTGTAAGTTA
44503734 T
1 T
44503735 GTATAATATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (23 bp):
TAAGTTATGTAAGTTGTAAGTTA
Found at i:44506696 original size:9 final size:8
Alignment explanation
Indices: 44506646--44506744 Score: 52
Period size: 7 Copynumber: 13.0 Consensus size: 8
44506636 ACCGTTGAAA
44506646 CCCTAAAC
1 CCCTAAAC
*
44506654 CCC-AAAT
1 CCCTAAAC
* *
44506661 CCATAACC
1 CCCTAAAC
44506669 CCCT-AAC
1 CCCTAAAC
*
44506676 CCCT-TAC
1 CCCTAAAC
44506683 CCCTAAATC
1 CCCTAAA-C
44506692 CCCT-AAC
1 CCCTAAAC
44506699 CCCTAAA-
1 CCCTAAAC
* *
44506706 GCAT-AAC
1 CCCTAAAC
*
44506713 CCTTAAA-
1 CCCTAAAC
44506720 CCCTAAATCC
1 CCCTAAA--C
44506730 CCCT-AAC
1 CCCTAAAC
44506737 CCCTAAAC
1 CCCTAAAC
44506745 ATCAAATTTT
Statistics
Matches: 68, Mismatches: 13, Indels: 20
0.67 0.13 0.20
Matches are distributed among these distances:
6 2 0.03
7 37 0.54
8 18 0.26
9 7 0.10
10 4 0.06
ACGTcount: A:0.34, C:0.47, G:0.01, T:0.17
Consensus pattern (8 bp):
CCCTAAAC
Found at i:44508656 original size:41 final size:41
Alignment explanation
Indices: 44508570--44508971 Score: 409
Period size: 41 Copynumber: 9.8 Consensus size: 41
44508560 TTTTGTTACT
* * * * * *
44508570 ATTAGCGGCGCCTCGGTAAAAACGCCGCTAAAGGT-CAATAC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATCCGA-GC
* * * * *
44508611 ATTAGCGGCGCTTAGATACAAATGCCGCTGAAGA-CAAGAGA
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATC-CGAGC
* * * *
44508652 ATTAGTGGCGCTCAGTTAAAAACGCCGCTAAAGATCCGAGT
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATCCGAGC
*
44508693 ATTAGCGGCGCTT-GTATAAAAACGCCGCTAAAGATCTGAGC
1 ATTAGCGGCGCTTAG-ATAAAAACGCCGCTAAAGATCCGAGC
* * *
44508734 ATTAGCGGCGCATAGACAAAAACGCCGCTAAAGATTCGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATCCGAGC
* * **
44508775 ATTAGCGGCGCCTACACGAAAACGCCGCTAAAGA-CTCGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATC-CGAGC
* *
44508816 ATTAGCGGCGCATAGAAAAAAACGCCGCTAAAGATCCGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATCCGAGC
* * **
44508857 ATTAGCGGCGCCTACACGAAAACGCCGCTAAAGA-CTCGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATC-CGAGC
* * *
44508898 ATTAGCGGCGCCTAGACAAAAACGCCGCTAAAGATCTGAGC
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATCCGAGC
* * *
44508939 ATTAGCGGCGCTTACACAAAAACACCGCTAAAG
1 ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAG
44508972 GTTTAAAAAT
Statistics
Matches: 306, Mismatches: 46, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.01
41 299 0.98
42 5 0.02
ACGTcount: A:0.34, C:0.26, G:0.24, T:0.16
Consensus pattern (41 bp):
ATTAGCGGCGCTTAGATAAAAACGCCGCTAAAGATCCGAGC
Found at i:44508720 original size:82 final size:82
Alignment explanation
Indices: 44508587--44508971 Score: 479
Period size: 82 Copynumber: 4.7 Consensus size: 82
44508577 GCGCCTCGGT
* * * * * * * * **
44508587 AAAAACGCCGCTAAAGGT-CAATACATTAGCGGCGCTTAGATACAAATGCCGCTGAAGACAAGAG
1 AAAAACGCCGCTAAAGATCCGA-GCATTAGCGGCGCTTACACAAAAACGCCGCTAAAGACTCGAG
* * **
44508651 AATTAGTGGCGC-TCAGTT
65 CATTAGCGGCGCAT-AGAC
* ** *
44508669 AAAAACGCCGCTAAAGATCCGAGTATTAGCGGCGCTTGTATAAAAACGCCGCTAAAGA-TCTGAG
1 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTACACAAAAACGCCGCTAAAGACTC-GAG
44508733 CATTAGCGGCGCATAGAC
65 CATTAGCGGCGCATAGAC
* * *
44508751 AAAAACGCCGCTAAAGATTCGAGCATTAGCGGCGCCTACACGAAAACGCCGCTAAAGACTCGAGC
1 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTACACAAAAACGCCGCTAAAGACTCGAGC
*
44508816 ATTAGCGGCGCATAGAA
66 ATTAGCGGCGCATAGAC
* *
44508833 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCCTACACGAAAACGCCGCTAAAGACTCGAGC
1 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTACACAAAAACGCCGCTAAAGACTCGAGC
*
44508898 ATTAGCGGCGCCTAGAC
66 ATTAGCGGCGCATAGAC
* *
44508915 AAAAACGCCGCTAAAGATCTGAGCATTAGCGGCGCTTACACAAAAACACCGCTAAAG
1 AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTACACAAAAACGCCGCTAAAG
44508972 GTTTAAAAAT
Statistics
Matches: 269, Mismatches: 30, Indels: 8
0.88 0.10 0.03
Matches are distributed among these distances:
82 264 0.98
83 5 0.02
ACGTcount: A:0.35, C:0.25, G:0.24, T:0.16
Consensus pattern (82 bp):
AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTTACACAAAAACGCCGCTAAAGACTCGAGC
ATTAGCGGCGCATAGAC
Found at i:44521999 original size:14 final size:14
Alignment explanation
Indices: 44521982--44522021 Score: 80
Period size: 14 Copynumber: 2.9 Consensus size: 14
44521972 CTCACATTTC
44521982 TTTTCTTTTCTCTA
1 TTTTCTTTTCTCTA
44521996 TTTTCTTTTCTCTA
1 TTTTCTTTTCTCTA
44522010 TTTTCTTTTCTC
1 TTTTCTTTTCTC
44522022 CAGATTTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (14 bp):
TTTTCTTTTCTCTA
Found at i:44525435 original size:18 final size:17
Alignment explanation
Indices: 44525414--44525451 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
44525404 ATATTAAGAA
*
44525414 TTTTATTAAATTATATAT
1 TTTTACTAAATTATAT-T
44525432 TTTTACTAAATTATATT
1 TTTTACTAAATTATATT
44525449 TTT
1 TTT
44525452 AATAATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTACTAAATTATATT
Found at i:44525557 original size:18 final size:17
Alignment explanation
Indices: 44525536--44525573 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
44525526 ATATTAAGAA
44525536 TTTTATTAAATTATATAT
1 TTTTATTAAATTATAT-T
44525554 TTTTATTAAATTATATT
1 TTTTATTAAATTATATT
44525571 TTT
1 TTT
44525574 AATAATAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.20
18 16 0.80
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (17 bp):
TTTTATTAAATTATATT
Found at i:44525564 original size:122 final size:120
Alignment explanation
Indices: 44525343--44525951 Score: 1057
Period size: 122 Copynumber: 5.1 Consensus size: 120
44525333 AAATTTTATA
*
44525343 ATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC---TAAGAATCTTTAA
1 ATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAA
*
44525405 TATTAAGAATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATT
66 TATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATT
44525462 ATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAA
1 ATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAA
44525527 TATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTTTAATAATAATT
66 TATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATT
* *
44525584 ATTTTAAATTATATTTTATAGTATTATGTATTATGATTTTAGTAAATTCATTTAATAATATTTAA
1 ATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAA
44525649 TATTAAGAATTTTATTAAATTATATA-TTTTATTAAATTATATTTAATAATAATT
66 TATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT
44525703 ATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAA
1 ATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTT-A
44525768 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT
65 ATATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT
* * *
44525824 ATTTTAAATTATATTTTATAGTATTATATAATATGATTTTATTAAATTCATATAAGAATATTTAA
1 ATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAA
*
44525889 TATTAAGAATTTTATTAAATTATATATTATTATTAAATTATATTTAATAATAATT
66 TATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT
44525944 -TTGTTAAA
1 ATT-TTAAA
44525952 ATATGATTAA
Statistics
Matches: 474, Mismatches: 10, Indels: 11
0.96 0.02 0.02
Matches are distributed among these distances:
119 125 0.26
120 89 0.19
121 103 0.22
122 157 0.33
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (120 bp):
ATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAA
TATTAAGAATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT
Found at i:44525570 original size:16 final size:16
Alignment explanation
Indices: 44525536--44525600 Score: 66
Period size: 16 Copynumber: 4.2 Consensus size: 16
44525526 ATATTAAGAA
44525536 TTTTATTAAATTATATAT
1 TTTTATTAAA-T-TATAT
44525554 TTTTATTAAATTATAT
1 TTTTATTAAATTATAT
*
44525570 TTTTAAT-AA-TA-AT
1 TTTTATTAAATTATAT
*
44525583 TATT-TTAAATTATAT
1 TTTTATTAAATTATAT
44525598 TTT
1 TTT
44525601 ATAGTATTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
12 1 0.03
13 7 0.17
14 4 0.10
15 6 0.15
16 11 0.28
17 1 0.03
18 10 0.25
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTATTAAATTATAT
Found at i:44525673 original size:22 final size:18
Alignment explanation
Indices: 44525657--44525691 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
44525647 AATATTAAGA
44525657 ATTTTATTAAATTATA-T
1 ATTTTATTAAATTATATT
44525674 ATTTTATTAAATTATATT
1 ATTTTATTAAATTATATT
44525692 TAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 16 0.94
18 1 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTATTAAATTATATT
Found at i:44525766 original size:241 final size:239
Alignment explanation
Indices: 44525343--44525951 Score: 1055
Period size: 241 Copynumber: 2.5 Consensus size: 239
44525333 AAATTTTATA
*
44525343 ATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC--TAAGAATCTTTAAT
1 ATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTAAGAATATTTAAT
*
44525406 ATTAAGAATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAAAT
66 ATTAAGAATTTTATTAAATTATATA-TTTTATTAAATTATA--TTTAATAATAATTATTTTAAAT
44525471 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTT-AATATTAAGA
128 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAAATATTAAGA
44525535 ATTTTATTAAATTATATATTTTTATTAAATTATATTTTTAATAATAATT
193 ATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATT
* *
44525584 ATTTTAAATTATATTTTATAGTATTATGTATTATGATTTTAGTAAATTCATTTAATAATATTTAA
1 ATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA-TTAAGAATATTTAA
44525649 TATTAAGAATTTTATTAAATTATATATTTTATTAAATTATATTTAATAATAATTATTTTAAATTA
65 TATTAAGAATTTTATTAAATTATATATTTTATTAAATTATATTTAATAATAATTATTTTAAATTA
44525714 TATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAAATATTAAGAAT
130 TATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAAATATTAAGAAT
44525779 TTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT
195 TTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT
* *
44525824 ATTTTAAATTATATTTTATAGTATTATATAATATGATTTTATTAAATTCATATAAGAATATTTAA
1 ATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT-TAAGAATATTTAA
44525889 TATTAAGAATTTTATTAAATTATATATTATTATTAAATTATATTTAATAATAATT-TTGTTAAA
65 TATTAAGAATTTTATTAAATTATATATT-TTATTAAATTATATTTAATAATAATTATT-TTAAA
44525952 ATATGATTAA
Statistics
Matches: 353, Mismatches: 8, Indels: 14
0.94 0.02 0.04
Matches are distributed among these distances:
239 1 0.00
240 102 0.29
241 155 0.44
242 44 0.12
243 14 0.04
244 37 0.10
ACGTcount: A:0.42, C:0.01, G:0.04, T:0.53
Consensus pattern (239 bp):
ATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTAAGAATATTTAAT
ATTAAGAATTTTATTAAATTATATATTTTATTAAATTATATTTAATAATAATTATTTTAAATTAT
ATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAAATATTAAGAATT
TTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT
Found at i:44525790 original size:17 final size:18
Alignment explanation
Indices: 44525770--44525810 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
44525760 ATATTTAAAT
44525770 ATTA-AGAATTTTATTAA
1 ATTATAGAATTTTATTAA
* *
44525787 ATTATATATTTTTATTAA
1 ATTATAGAATTTTATTAA
44525805 ATTATA
1 ATTATA
44525811 TTTAATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (18 bp):
ATTATAGAATTTTATTAA
Found at i:44526069 original size:240 final size:239
Alignment explanation
Indices: 44525343--44526050 Score: 798
Period size: 241 Copynumber: 3.0 Consensus size: 239
44525333 AAATTTTATA
* *
44525343 ATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTC---TAAGAATCTTTAA
1 ATTTTAAATTATATTTTATAGTATTATATAATATGATTTTAGTAAATTCATATAAGAATATTTAA
*
44525405 TATTAAGAATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAAA
66 TATTAAGAATTTTATTAAATTATATA-TTTTATTAAATTATA--TTTAATAATAATTATTTTAAA
* * * *
44525470 TTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAATATTAAGA
128 ATATATTTTATAGTATTATATATTATGATATTAATAAATTCATTTAAGAATATTTAATATTAACA
*** * * * * ** **
44525535 ATTTTATTAAATTATATATTTTTATTAAATTATATTTTTAATAATAATT
193 ATAACAATAAATCATATACTTTAAAAAAATTATA--GCTAATAATAATT
* * * *
44525584 ATTTTAAATTATATTTTATAGTATTATGTATTATGATTTTAGTAAATTCATTTAATAATATTTAA
1 ATTTTAAATTATATTTTATAGTATTATATAATATGATTTTAGTAAATTCATATAAGAATATTTAA
*
44525649 TATTAAGAATTTTATTAAATTATATATTTTATTAAATTATATTTAATAATAATTATTTTAAATTA
66 TATTAAGAATTTTATTAAATTATATATTTTATTAAATTATATTTAATAATAATTATTTTAAAATA
* * *
44525714 TATTTTATAGTATTATATATTATGATTTTAGTAAATTCATTTAAGAATATTTAAATATTAAGAAT
131 TATTTTATAGTATTATATATTATGATATTAATAAATTCATTTAAGAATATTT-AATATTAACAAT
*** * * * * ** **
44525779 TTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT
195 AACAATAAATCATATACTTTAAAAAAATTATAGCTAATAATAATT
*
44525824 ATTTTAAATTATATTTTATAGTATTATATAATATGATTTTATTAAATTCATATAAGAATATTTAA
1 ATTTTAAATTATATTTTATAGTATTATATAATATGATTTTAGTAAATTCATATAAGAATATTTAA
44525889 TATTAAGAATTTTATTAAATTATATATTATTATTAAATTATATTTAATAATAATT-TTGTTAAAA
66 TATTAAGAATTTTATTAAATTATATATT-TTATTAAATTATATTTAATAATAATTATT-TTAAAA
* * * *
44525953 TATGATTAAATTAT-TTATTATTTATTATTTATATTAATAAGCTT-A-TT-A-AA-ATTT-A-A-
129 TAT-ATT---TTATAGTATTATATATTA-TGATATTAATAA-ATTCATTTAAGAATATTTAATAT
*
44526009 TAACAATAACAAT-AATCATCTACTTTAAAAAAATTAT-GCTAA
188 TAACAATAACAATAAATCATATACTTTAAAAAAATTATAGCTAA
44526051 GGGTATTCTA
Statistics
Matches: 426, Mismatches: 29, Indels: 30
0.88 0.06 0.06
Matches are distributed among these distances:
235 3 0.01
236 18 0.04
237 8 0.02
238 1 0.00
239 1 0.00
240 103 0.24
241 162 0.38
242 49 0.12
243 15 0.04
244 50 0.12
245 14 0.03
246 2 0.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (239 bp):
ATTTTAAATTATATTTTATAGTATTATATAATATGATTTTAGTAAATTCATATAAGAATATTTAA
TATTAAGAATTTTATTAAATTATATATTTTATTAAATTATATTTAATAATAATTATTTTAAAATA
TATTTTATAGTATTATATATTATGATATTAATAAATTCATTTAAGAATATTTAATATTAACAATA
ACAATAAATCATATACTTTAAAAAAATTATAGCTAATAATAATT
Found at i:44526186 original size:46 final size:44
Alignment explanation
Indices: 44526101--44526190 Score: 126
Period size: 44 Copynumber: 2.0 Consensus size: 44
44526091 CACCTCTATC
* * *
44526101 CCATTCAACTAAACACAAGAATACCATTACGCCTTTATTCCATT
1 CCATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCCATT
*
44526145 CCATTCAACCAAACAAAAGAGTTACCTATTACGCCTCTATTCCATT
1 CCATTCAACCAAACAAAAGA-ATACC-ATTACGCCTCTATTCCATT
44526191 ACGCATCTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 18 0.45
45 4 0.10
46 18 0.45
ACGTcount: A:0.36, C:0.30, G:0.06, T:0.29
Consensus pattern (44 bp):
CCATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCCATT
Found at i:44526193 original size:16 final size:16
Alignment explanation
Indices: 44526172--44526224 Score: 79
Period size: 16 Copynumber: 3.3 Consensus size: 16
44526162 AGAGTTACCT
44526172 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
* * *
44526188 ATTACGCATCTAATCA
1 ATTACGCCTCTATTCC
44526204 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
44526220 ATTAC
1 ATTAC
44526225 AGCGAACCAA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.36
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:44529615 original size:17 final size:17
Alignment explanation
Indices: 44529592--44529960 Score: 161
Period size: 18 Copynumber: 20.5 Consensus size: 17
44529582 GTGAGAATTT
*
44529592 TTTTTGAAACACAAAAA
1 TTTTTGAAACACGAAAA
* * *
44529609 CTTTTGAAATACGAGAA
1 TTTTTGAAACACGAAAA
*
44529626 -TTTTAAGAACACGAAAA
1 TTTTTGA-AACACGAAAA
*
44529643 TTTTTAAAACACGAAAA
1 TTTTTGAAACACGAAAA
44529660 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
* * *
44529678 TTTTTGTAACAAGAGAATT
1 TTTTTGAAACACGA-AA-A
**
44529697 TTTTTGAAAACACGAGGATTT
1 TTTTTG-AAACACGA--A-AA
*
44529718 TTTTTGAAAACACAAAAAA
1 TTTTTG-AAACAC-GAAAA
* *
44529737 TTTGTGAAACACGAGAAT
1 TTTTTGAAACACGA-AAA
*
44529755 TTTTTGAAA-ACGTGAGAA
1 TTTTTGAAACAC--GAAAA
44529773 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
* * * *
44529791 ATTCTGAAACATGAGAATT
1 TTTTTGAAACACGA-AA-A
*
44529810 TTTTTTAAACA--AAAA
1 TTTTTGAAACACGAAAA
* *
44529825 TTTTTGAAACACCAGAA
1 TTTTTGAAACACGAAAA
**
44529842 TTTTTGAAAACACGAGGA
1 TTTTTG-AAACACGAAAA
* ***
44529860 TTTTTGAAAAACGATTT
1 TTTTTGAAACACGAAAA
* ***
44529877 TTTTTAAAACACAGATTTTT
1 TTTTTGAAACAC-GA--AAA
44529897 TGTTTTGAAACACGAAAA
1 T-TTTTGAAACACGAAAA
* **
44529915 TTTTTGAAAACAGGAATT
1 TTTTTG-AAACACGAAAA
* *
44529933 TTTTTTAAGACACGAGAAT
1 TTTTTGAA-ACACGA-AAA
44529952 TTTTTGAAA
1 TTTTTGAAA
44529961 ATACGAAAAC
Statistics
Matches: 273, Mismatches: 53, Indels: 51
0.72 0.14 0.14
Matches are distributed among these distances:
15 10 0.04
16 7 0.03
17 86 0.32
18 95 0.35
19 33 0.12
20 15 0.05
21 26 0.10
22 1 0.00
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:44529662 original size:34 final size:35
Alignment explanation
Indices: 44529592--44529969 Score: 160
Period size: 37 Copynumber: 10.5 Consensus size: 35
44529582 GTGAGAATTT
* * * * *
44529592 TTTTTG-AAACACAAAAACTTTTGAAATACGAGAA
1 TTTTTGAAAACACGAAAATTTTTAAAACACGAAAA
44529626 -TTTT-AAGAACACGAAAATTTTTAAAACACGAAAA
1 TTTTTGAA-AACACGAAAATTTTTAAAACACGAAAA
** * *
44529660 TTTTTGAAAACACGAAAATTTTTGTAACAAGAGAATT
1 TTTTTGAAAACACGAAAATTTTTAAAACACGA-AA-A
** *
44529697 TTTTTGAAAACACGAGGATTTTTTTTGAAAACACAAAAAA
1 TTTTTGAAAACACGA--A-AATTTTT-AAAACAC-GAAAA
* * ** *
44529737 TTTGTG-AAACACGAGAATTTTTTGAAAACGTGAGAA
1 TTTTTGAAAACACGA-AAATTTTT-AAAACACGAAAA
* * * * *
44529773 TTTTTGAAAACACGAAAAATTCTGAAACATGAGAAT
1 TTTTTGAAAACACGAAAATTTTTAAAACACGA-AAA
** * * *
44529809 TTTTTTTAAACA--AAAATTTTTGAAACACCAGAA
1 TTTTTGAAAACACGAAAATTTTTAAAACACGAAAA
** **
44529842 TTTTTGAAAACACGAGGATTTTTGAAAA-ACG-ATT
1 TTTTTGAAAACACGAAAATTTTT-AAAACACGAAAA
* *** *
44529876 TTTTTTAAAACACAGATTTTTTGTTTTGAAACACGAAAA
1 TTTTTGAAAACAC-GA--AAAT-TTTTAAAACACGAAAA
* ** * *
44529915 TTTTTGAAAACAGGAATTTTTTTTAAGACACGAGAAT
1 TTTTTGAAAACACGAA-AATTTTTAAAACACGA-AAA
*
44529952 TTTTTGAAAATACGAAAA
1 TTTTTGAAAACACGAAAA
44529970 CATGAAATTT
Statistics
Matches: 256, Mismatches: 64, Indels: 46
0.70 0.17 0.13
Matches are distributed among these distances:
33 16 0.06
34 48 0.19
35 43 0.17
36 42 0.16
37 58 0.23
38 11 0.04
39 21 0.08
40 10 0.04
41 6 0.02
42 1 0.00
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTAAAACACGAAAA
Found at i:44529936 original size:18 final size:19
Alignment explanation
Indices: 44529633--44529966 Score: 183
Period size: 18 Copynumber: 18.4 Consensus size: 19
44529623 GAATTTTAAG
*
44529633 AACACGA-AAATTTTT-AA
1 AACACGAGAATTTTTTGAA
*
44529650 AACACGA-AAATTTTTGAA
1 AACACGAGAATTTTTTGAA
* *
44529668 AACACGA-AAATTTTTG-T
1 AACACGAGAATTTTTTGAA
*
44529685 AACAAGAGAATTTTTTTGAA
1 AACACGAGAA-TTTTTTGAA
*
44529705 AACACGAGGATTTTTTTTGAA
1 AACACGA-GA-ATTTTTTGAA
* * * *
44529726 AACACAAAAAATTTGTG-A
1 AACACGAGAATTTTTTGAA
44529744 AACACGAGAATTTTTTGAA
1 AACACGAGAATTTTTTGAA
**
44529763 AACGTGAGAA-TTTTTGAA
1 AACACGAGAATTTTTTGAA
** *
44529781 AACACGA-AAAATTCTG-A
1 AACACGAGAATTTTTTGAA
* **
44529798 AACATGAGAATTTTTTTTA
1 AACACGAGAATTTTTTGAA
*
44529817 AACA--A-AAATTTTTG-A
1 AACACGAGAATTTTTTGAA
*
44529832 AACACCAGAA-TTTTTGAA
1 AACACGAGAATTTTTTGAA
*
44529850 AACACGAGGA-TTTTTGAA
1 AACACGAGAATTTTTTGAA
* *
44529868 AA-AC--GATTTTTTTTAA
1 AACACGAGAATTTTTTGAA
*
44529884 AACAC-AG-ATTTTTTGTTTTGA
1 AACACGAGAATTTTTTG----AA
*
44529905 AACACGA-AAATTTTTGAA
1 AACACGAGAATTTTTTGAA
*
44529923 AACA-G-GAATTTTTTTTAA
1 AACACGAGAA-TTTTTTGAA
*
44529941 GACACGAGAATTTTTTGAA
1 AACACGAGAATTTTTTGAA
*
44529960 AATACGA
1 AACACGA
44529967 AAACATGAAA
Statistics
Matches: 246, Mismatches: 44, Indels: 52
0.72 0.13 0.15
Matches are distributed among these distances:
15 6 0.02
16 16 0.07
17 51 0.21
18 93 0.38
19 39 0.16
20 10 0.04
21 23 0.09
22 8 0.03
ACGTcount: A:0.43, C:0.10, G:0.13, T:0.34
Consensus pattern (19 bp):
AACACGAGAATTTTTTGAA
Found at i:44530133 original size:14 final size:14
Alignment explanation
Indices: 44530114--44530176 Score: 83
Period size: 14 Copynumber: 4.5 Consensus size: 14
44530104 GCAAATTGAA
*
44530114 TTTTTCTTTTCTTT
1 TTTTTCTTCTCTTT
* *
44530128 TTTTTCTTTTCTCT
1 TTTTTCTTCTCTTT
44530142 TTTTT-TTCTCTTT
1 TTTTTCTTCTCTTT
44530155 TTTTTCTTCTCTCTT
1 TTTTTCTTCTCT-TT
44530170 TTTTTCT
1 TTTTTCT
44530177 GGCCTGCTTC
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
13 11 0.25
14 24 0.55
15 9 0.20
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTCTTCTCTTT
Found at i:44530134 original size:9 final size:9
Alignment explanation
Indices: 44530115--44530162 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
44530105 CAAATTGAAT
44530115 TTTTCTTTTC
1 TTTT-TTTTC
44530125 TTTTTTTTC
1 TTTTTTTTC
*
44530134 TTTTCTCTT-
1 TTTT-TTTTC
*
44530143 TTTTTTCTC
1 TTTTTTTTC
44530152 TTTTTTTTC
1 TTTTTTTTC
44530161 TT
1 TT
44530163 CTCTCTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
8 2 0.06
9 23 0.72
10 7 0.22
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:44530144 original size:16 final size:16
Alignment explanation
Indices: 44530114--44530174 Score: 64
Period size: 16 Copynumber: 4.2 Consensus size: 16
44530104 GCAAATTGAA
44530114 TTTTTC-TTT-TCTTT
1 TTTTTCTTTTCTCTTT
44530128 TTTTTCTTTTCTC---
1 TTTTTCTTTTCTCTTT
44530141 -TTTT-TTTTCTCTTT
1 TTTTTCTTTTCTCTTT
*
44530155 TTTTTCTTCTCTCTTT
1 TTTTTCTTTTCTCTTT
44530171 TTTT
1 TTTT
44530175 CTGGCCTGCT
Statistics
Matches: 39, Mismatches: 1, Indels: 12
0.75 0.02 0.23
Matches are distributed among these distances:
11 7 0.18
12 4 0.10
14 6 0.15
15 7 0.18
16 15 0.38
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTCTTTTCTCTTT
Found at i:44530148 original size:11 final size:10
Alignment explanation
Indices: 44530114--44530162 Score: 55
Period size: 11 Copynumber: 4.8 Consensus size: 10
44530104 GCAAATTGAA
44530114 TTTTTCTTTT
1 TTTTTCTTTT
*
44530124 CTTTT-TTTT
1 TTTTTCTTTT
*
44530133 CTTTTCTCTTT
1 TTTTTCT-TTT
44530144 TTTTTCTCTTT
1 TTTTTCT-TTT
44530155 TTTTTCTT
1 TTTTTCTT
44530163 CTCTCTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
9 9 0.26
10 6 0.17
11 20 0.57
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:44530153 original size:27 final size:26
Alignment explanation
Indices: 44530114--44530174 Score: 95
Period size: 27 Copynumber: 2.3 Consensus size: 26
44530104 GCAAATTGAA
*
44530114 TTTTTCTTTTCTTTTTTTTCTTTTCTC
1 TTTTT-TTTTCTTTTTTTTCTTCTCTC
44530141 TTTTTTTTCTCTTTTTTTTCTTCTCTC
1 TTTTTTTT-TCTTTTTTTTCTTCTCTC
44530168 TTTTTTT
1 TTTTTTT
44530175 CTGGCCTGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
26 3 0.09
27 29 0.91
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (26 bp):
TTTTTTTTTCTTTTTTTTCTTCTCTC
Found at i:44530312 original size:7 final size:7
Alignment explanation
Indices: 44530300--44530341 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
44530290 TAAAAAACAA
44530300 TTTTTTC
1 TTTTTTC
44530307 TTTTTTC
1 TTTTTTC
*
44530314 -TTTGT-
1 TTTTTTC
44530319 TTTTTTC
1 TTTTTTC
44530326 -TTTTTC
1 TTTTTTC
44530332 TTTTTTC
1 TTTTTTC
44530339 TTT
1 TTT
44530342 CCCCCTTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
6 14 0.47
7 16 0.53
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.86
Consensus pattern (7 bp):
TTTTTTC
Found at i:44530329 original size:5 final size:6
Alignment explanation
Indices: 44530301--44530389 Score: 65
Period size: 6 Copynumber: 14.3 Consensus size: 6
44530291 AAAAAACAAT
** **
44530301 TTTTTC TTTTTTC TTTGTT- TTTTTC TTTTTC TTTTTTC TTTCCC CCTTTC
1 TTTTTC -TTTTTC TTT-TTC TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC
* *
44530351 TTTTTCC TTTTTC TTTTTC TTCTTC -CTTTC TTTCTTC TT
1 TTTTT-C TTTTTC TTTTTC TTTTTC TTTTTC TTT-TTC TT
44530390 CTTCCTTGTT
Statistics
Matches: 64, Mismatches: 12, Indels: 12
0.73 0.14 0.14
Matches are distributed among these distances:
5 5 0.08
6 34 0.53
7 25 0.39
ACGTcount: A:0.00, C:0.24, G:0.01, T:0.75
Consensus pattern (6 bp):
TTTTTC
Found at i:44530895 original size:30 final size:29
Alignment explanation
Indices: 44530861--44531016 Score: 206
Period size: 30 Copynumber: 5.2 Consensus size: 29
44530851 AGCCAAAACC
*
44530861 TAATTTTAAGAAAGTTTAAGGGTTAAAATG
1 TAATTTT-AGAAAGTTTAGGGGTTAAAATG
* *
44530891 TAATTTTAAGAAAGTTTAAGGGTCAAAATG
1 TAATTTT-AGAAAGTTTAGGGGTTAAAATG
* *
44530921 TAA-TTTAGAAAAGTTTAGGGGTTGAAATA
1 TAATTTTAG-AAAGTTTAGGGGTTAAAATG
44530950 TAATTTTGAGAAAGTTTAGGGGTTAAAATG
1 TAATTTT-AGAAAGTTTAGGGGTTAAAATG
*
44530980 TAATTTTAGAAAAGTTTAGGGGTCAAAATG
1 TAATTTTAG-AAAGTTTAGGGGTTAAAATG
44531010 TAATTTT
1 TAATTTT
44531017 TTTAAACACG
Statistics
Matches: 114, Mismatches: 8, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
28 2 0.02
29 24 0.21
30 86 0.75
31 2 0.02
ACGTcount: A:0.40, C:0.01, G:0.22, T:0.37
Consensus pattern (29 bp):
TAATTTTAGAAAGTTTAGGGGTTAAAATG
Found at i:44530954 original size:59 final size:60
Alignment explanation
Indices: 44530861--44531016 Score: 226
Period size: 59 Copynumber: 2.6 Consensus size: 60
44530851 AGCCAAAACC
*
44530861 TAATTTTA-AGAAAGTTTAAGGGTTAAAATGTAATTTTAAGAAAGTTTAAGGGTCAAAATG
1 TAATTTTAGA-AAAGTTTAGGGGTTAAAATGTAATTTTAAGAAAGTTTAAGGGTCAAAATG
* * * * *
44530921 TAA-TTTAGAAAAGTTTAGGGGTTGAAATATAATTTTGAGAAAGTTTAGGGGTTAAAATG
1 TAATTTTAGAAAAGTTTAGGGGTTAAAATGTAATTTTAAGAAAGTTTAAGGGTCAAAATG
*
44530980 TAATTTTAGAAAAGTTTAGGGGTCAAAATGTAATTTT
1 TAATTTTAGAAAAGTTTAGGGGTTAAAATGTAATTTT
44531017 TTTAAACACG
Statistics
Matches: 85, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
59 51 0.60
60 34 0.40
ACGTcount: A:0.40, C:0.01, G:0.22, T:0.37
Consensus pattern (60 bp):
TAATTTTAGAAAAGTTTAGGGGTTAAAATGTAATTTTAAGAAAGTTTAAGGGTCAAAATG
Found at i:44531278 original size:78 final size:76
Alignment explanation
Indices: 44531185--44531390 Score: 288
Period size: 78 Copynumber: 2.6 Consensus size: 76
44531175 GCTCGGCGTG
* * *
44531185 CGACCCGAGGCTCAACTCACCTCTCGTAACATGAGTTGATTCTTGAAAAAA-AGAAATTGAAAAG
1 CGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TTGAAAAAACAAAAATTG-AAA-
44531249 AATACCTCAGCATA
63 AATACCTCAGCATA
*
44531263 CGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAAAACAAAAATTGAAAA
1 CGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTGAAAAAACAAAAATTGAAAA
* * *
44531328 ATATCTCAGCGTG
64 ATACCTCAGCATA
44531341 CGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAA
1 CGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-GAAAAA
44531391 CAGACCTCTC
Statistics
Matches: 116, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
76 4 0.03
77 6 0.05
78 85 0.73
79 12 0.10
80 9 0.08
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (76 bp):
CGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAAAAAACAAAAATTGAAAAAT
ACCTCAGCATA
Found at i:44531405 original size:35 final size:35
Alignment explanation
Indices: 44531359--44531427 Score: 138
Period size: 35 Copynumber: 2.0 Consensus size: 35
44531349 GGCTCAACTC
44531359 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
1 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
44531394 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACA
1 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACA
44531428 TAAATTTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (35 bp):
ACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
Found at i:44531477 original size:110 final size:113
Alignment explanation
Indices: 44531281--44531500 Score: 349
Period size: 110 Copynumber: 2.0 Consensus size: 113
44531271 GGCTCAACTC
* *
44531281 ACCTCTAGCAATATGAGTTGATTTTTTGAAAAAACAAAAATTGAAAAATATCTCAGCGTGCGACC
1 ACCTCTAGCAATATGAGTTGATTTTTAGAAAAAACAAAAATTGAAAAATACCTCAGCGTGCGACC
44531346 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TAGAAAAACAG
66 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAT-GAAAAACAG
* * * *
44531394 ACCTCTCGCAATATGAGTTGA-TTTTAG-AAAAACATAAATT-TAAAATACCTCAGCGTGTGACC
1 ACCTCTAGCAATATGAGTTGATTTTTAGAAAAAACAAAAATTGAAAAATACCTCAGCGTGCGACC
44531456 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATGAAAAA
66 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATGAAAAA
44531501 GACAGAAATT
Statistics
Matches: 100, Mismatches: 6, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
110 62 0.62
111 13 0.13
112 5 0.05
113 20 0.20
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.27
Consensus pattern (113 bp):
ACCTCTAGCAATATGAGTTGATTTTTAGAAAAAACAAAAATTGAAAAATACCTCAGCGTGCGACC
CGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATGAAAAACAG
Found at i:44531526 original size:188 final size:190
Alignment explanation
Indices: 44531203--44531582 Score: 552
Period size: 188 Copynumber: 2.0 Consensus size: 190
44531193 GGCTCAACTC
*
44531203 ACCTCTCGTAACATGAGTTGATTCTTGAAAAAAAGAAATTGAAAAGAATACCTCAGCATACGACC
1 ACCTCTCGCAACATGAGTTGATTCTTGAAAAAAAGAAATT-AAAAGAATACCTCAGCATACGACC
* *
44531268 CGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTTGAAAAAACAAAAATTGAAAAATATC
65 CGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTATGAAAAAACAAAAATTGAAAAATACC
*
44531333 TCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAGAAAAACAG
130 TCAGCGTGCGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTAGAAAAACAG
* * * * * **
44531394 ACCTCTCGCAATATGAGTTGATT-TTAGAAAAACATAAATT-TAA-AATACCTCAGCGTGTGACC
1 ACCTCTCGCAACATGAGTTGATTCTT-GAAAAAAAGAAATTAAAAGAATACCTCAGCATACGACC
* *
44531456 CGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTATGAAAAAGACAGAAATTGAAAAATAC
65 CGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTATGAAAAA-ACAAAAATTGAAAAATAC
* * * *
44531520 CTCAGCGTGTGACCCGAGGCTCAACTCACTTCTAGCAATATGAGTTTATTTTTGAAAAACAG
129 CTCAGCGTGCGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTAGAAAAACAG
44531582 A
1 A
44531583 AACTTAAAAG
Statistics
Matches: 170, Mismatches: 17, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
187 10 0.06
188 123 0.72
189 2 0.01
190 2 0.01
191 33 0.19
ACGTcount: A:0.37, C:0.21, G:0.17, T:0.26
Consensus pattern (190 bp):
ACCTCTCGCAACATGAGTTGATTCTTGAAAAAAAGAAATTAAAAGAATACCTCAGCATACGACCC
GAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTATGAAAAAACAAAAATTGAAAAATACCT
CAGCGTGCGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTAGAAAAACAG
Found at i:44531542 original size:78 final size:77
Alignment explanation
Indices: 44531394--44531984 Score: 777
Period size: 78 Copynumber: 7.6 Consensus size: 77
44531384 AGAAAAACAG
* * * *
44531394 ACCTCTCGCAATATGAGTTGATTTTAG-AAAAACATAAATT-TAAAATACCTCAGCGTGTGACCC
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCC
44531457 GAGGCTCAACTC
66 GAGGCTCAACTC
* *
44531469 ACCTCTCGCAATATGAGTTGATTTATGAAAAAGACAGAAATTGAAAAATACCTCAGCGTGTGACC
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAA-ACAGAAATTGAAAAATACCTCAGCATGTGACC
44531534 CGAGGCTCAACTC
65 CGAGGCTCAACTC
* * * * *
44531547 ACTTCTAGCAATATGAGTTTATTTTTG-AAAAACAGAAACTTAAAAGAAATACCTCGGCATGTGA
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAA-TT-GAA-AAATACCTCAGCATGTGA
*
44531611 CCTGAGGCTCAACTC
63 CCCGAGGCTCAACTC
* * * *
44531626 ACCTCTCACAATATGAGTTGATTTTT--CAAAACAGAAATTTAAAAGAAATACCTCGGCATGTGA
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAA-TT-GAA-AAATACCTCAGCATGTGA
44531689 CCCGAGGCTCAACTC
63 CCCGAGGCTCAACTC
* * *
44531704 ACCTCTCGCAATATGAGTTGATTTTTG-AAAAGCAGAAATTGAAAAATACCTTAGC--GTAACCC
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCC
*
44531766 GAGACTCAACTC
66 GAGGCTCAACTC
* *
44531778 ACCTCTCGCAATATGAGTTGATTTTTTGAAAAAATAGAAATTGAAAAATACCTCAGCGTGTG-CC
1 ACCTCTCGCAATATGAGTTGA-TTTTTGAAAAAACAGAAATTGAAAAATACCTCAGCATGTGACC
44531842 CGAGGCTCAACTC
65 CGAGGCTCAACTC
*
44531855 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAATTGAAGAGAATACCTCGGCATGTG
1 ACCTCTCGCAATATGAGTTGA--TTTTTGAAAAAACAGAAATTGAA-A-AATACCTCAGCATGTG
*
44531920 ACTCGAGGCTCAACTC
62 ACCCGAGGCTCAACTC
* *
44531936 ACCTCTCGCAATATGAGTTGATTTTTGCAAAAACAGAGATTGAAAAATA
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAAAATA
44531985 ATTTGTGAAA
Statistics
Matches: 463, Mismatches: 38, Indels: 28
0.88 0.07 0.05
Matches are distributed among these distances:
74 38 0.08
75 31 0.07
76 46 0.10
77 55 0.12
78 161 0.35
79 83 0.18
80 14 0.03
81 35 0.08
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (77 bp):
ACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCC
GAGGCTCAACTC
Found at i:44531660 original size:266 final size:266
Alignment explanation
Indices: 44531171--44531650 Score: 709
Period size: 266 Copynumber: 1.8 Consensus size: 266
44531161 AGAAATCAAG
* * *
44531171 AATAGCTCGGCGTGCGACCCGAGGCTCAACTCACCTCTCGTAACATGAGTTGATTCTTGAAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTCTTGAAAAAA
44531236 AGAAATTGAAAAGAATACCTCAGCATACGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
66 AGAAATTGAAAAGAATACCTCAGCATACGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
* * *
44531301 ATTTTTTGAAAAAACAAAAATTGAAAAATATCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTC
131 ATTTTTTGAAAAAACAAAAATTAAAAAATACCTCAGCATGCGACCCGAGGCTCAACTCACCTCTC
*
44531366 GCAATATGAGTTGATTTTAGAAAAACAGACCTCTCGCAATATGAGTTGATTTTAGAAAAACATAA
196 ACAATATGAGTTGATTTTAGAAAAACAGACCTCTCGCAATATGAGTTGATTTTAGAAAAACATAA
44531431 ATTTAA
261 ATTTAA
* *
44531437 AATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT-TATGAAAAA
1 AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTCT-TGAAAAA
* ** *
44531501 GACAGAAATTG-AAA-AATACCTCAGCGTGTGACCCGAGGCTCAACTCACTTCTAGCAATATGAG
65 -A-AGAAATTGAAAAGAATACCTCAGCATACGACCCGAGGCTCAACTCACCTCTAGCAATATGAG
* * * * *
44531564 TTTA-TTTTTG-AAAAACAGAAACTTAAAAGAAATACCTCGGCATGTGACCTGAGGCTCAACTCA
128 TTGATTTTTTGAAAAAACA-AAAATT-AAA-AAATACCTCAGCATGCGACCCGAGGCTCAACTCA
44531627 CCTCTCACAATATGAGTTGATTTT
190 CCTCTCACAATATGAGTTGATTTT
44531651 TCAAAACAGA
Statistics
Matches: 190, Mismatches: 18, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
264 7 0.04
265 12 0.06
266 107 0.56
267 56 0.29
268 8 0.04
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.25
Consensus pattern (266 bp):
AATACCTCAGCGTGCGACCCGAGGCTCAACTCACCTCTCGCAACATGAGTTGATTCTTGAAAAAA
AGAAATTGAAAAGAATACCTCAGCATACGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTG
ATTTTTTGAAAAAACAAAAATTAAAAAATACCTCAGCATGCGACCCGAGGCTCAACTCACCTCTC
ACAATATGAGTTGATTTTAGAAAAACAGACCTCTCGCAATATGAGTTGATTTTAGAAAAACATAA
ATTTAA
Found at i:44531688 original size:157 final size:152
Alignment explanation
Indices: 44531394--44531984 Score: 769
Period size: 157 Copynumber: 3.8 Consensus size: 152
44531384 AGAAAAACAG
* * * *
44531394 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACATAAATT-TAAAATACCTCAGCGTGTGACCCG
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCCG
* *
44531458 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTATGAAAAAGACAGAAATTGAAAAATACCTC
66 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAA-ACAGAAATTAAAAAATACCTC
44531523 AGCGTGTGACCCGAGGCTCAACTC
129 AGCGTGTGACCCGAGGCTCAACTC
* * * * *
44531547 ACTTCTAGCAATATGAGTTTATTTTTGAAAAACAGAAACTTAAAAGAAATACCTCGGCATGTGAC
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT-GAA-AAATACCTCAGCATGTGAC
* * *
44531612 CTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT-CAAAACAGAAATTTAAAAGAAATA
63 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TT-AAA-AAATA
* *
44531676 CCTCGGCATGTGACCCGAGGCTCAACTC
125 CCTCAGCGTGTGACCCGAGGCTCAACTC
* * *
44531704 ACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAAATACCTTAGC--GTAACCCG
1 ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCCG
* * *
44531767 AGACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAATAGAAATTGAAAAATACCTC
66 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTG-AAAAACAGAAATTAAAAAATACCTC
44531832 AGCGTGTG-CCCGAGGCTCAACTC
129 AGCGTGTGACCCGAGGCTCAACTC
*
44531855 ACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAATTGAAGAGAATACCTCGGCATGTG
1 ACCTCTCGCAATATGAGTTGA--TTTTTG-AAAAACAGAAATTGAA-A-AATACCTCAGCATGTG
* * *
44531920 ACTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGCAAAAACAGAGATTGAAAAATA
61 ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTAAAAAATA
44531985 ATTTGTGAAA
Statistics
Matches: 381, Mismatches: 40, Indels: 30
0.84 0.09 0.07
Matches are distributed among these distances:
151 36 0.09
152 51 0.13
153 46 0.12
154 36 0.09
155 17 0.04
156 14 0.04
157 144 0.38
158 37 0.10
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (152 bp):
ACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAATACCTCAGCATGTGACCCG
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAAAAATACCTCAG
CGTGTGACCCGAGGCTCAACTC
Found at i:44531956 original size:310 final size:311
Alignment explanation
Indices: 44531394--44531981 Score: 904
Period size: 310 Copynumber: 1.9 Consensus size: 311
44531384 AGAAAAACAG
* * *
44531394 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACATAAATTTAAAATACCTCAGCGTGTGACCCGA
1 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACAGAAATTAAAAATACCTCAGCG-GTAACCCGA
*
44531459 GGCTCAACTCACCTCTCGCAATATGAGTTGATTTATGAAAAAGACAGAAATTGAAAAATACCTCA
65 GACTCAACTCACCTCTCGCAATATGAGTTGATTTATGAAAAAGACAGAAATTGAAAAATACCTCA
*
44531524 GCGTGTGACCCGAGGCTCAACTCACTTCTAGCAATATGAGTTTATTTTTGAAAAACAGAAACTTA
130 GCGTGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTTATTTTTGAAAAACAGAAACTTA
44531589 AAAGAAATACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT-C
195 AAAGAAATACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGC
*
44531653 -AAAACAGAAATTTAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTC
260 AAAAACAGAAATTGAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTC
* * *
44531704 ACCTCTCGCAATATGAGTTGATTTTTGAAAAGCAGAAATTGAAAAATACCTTAGC-GTAACCCGA
1 ACCTCTCGCAATATGAGTTGATTTTAGAAAAACAGAAATT-AAAAATACCTCAGCGGTAACCCGA
* *
44531768 GACTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA-ATAGAAATTGAAAAATACCTC
65 GACTCAACTCACCTCTCGCAATATGAGTTGA-TTTATGAAAAAGACAGAAATTGAAAAATACCTC
* *
44531832 AGCGTGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAAACAGAAA
129 AGCGTGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTT--TATTTTTG-AAAAACAGAAA
* *
44531896 -TT-GAAGAGAATACCTCGGCATGTGA-CTCGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
191 CTTAAAAGA-AATACCTCGGCATGTGACCT-GAGGCTCAACTCACCTCTCACAATATGAGTTGAT
*
44531958 TTTTGCAAAAACAGAGATTGAAAA
254 TTTTGCAAAAACAGAAATTGAAAA
44531982 ATAATTTGTG
Statistics
Matches: 253, Mismatches: 16, Indels: 16
0.89 0.06 0.06
Matches are distributed among these distances:
308 32 0.13
309 72 0.28
310 110 0.43
311 24 0.09
312 15 0.06
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (311 bp):
ACCTCTCGCAATATGAGTTGATTTTAGAAAAACAGAAATTAAAAATACCTCAGCGGTAACCCGAG
ACTCAACTCACCTCTCGCAATATGAGTTGATTTATGAAAAAGACAGAAATTGAAAAATACCTCAG
CGTGTGACCCGAGGCTCAACTCACCTCTAGCAATATGAGTTTATTTTTGAAAAACAGAAACTTAA
AAGAAATACCTCGGCATGTGACCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGCA
AAAACAGAAATTGAAAAGAAATACCTCGGCATGTGACCCGAGGCTCAACTC
Found at i:44532842 original size:1 final size:1
Alignment explanation
Indices: 44532838--44532922 Score: 62
Period size: 1 Copynumber: 85.0 Consensus size: 1
44532828 TGATTTTTCA
* * * * * * * * *
44532838 TTTTTTTTTGTTTCTTTATATTTTTTCTATTTTTTTTTGTTTTTTTTTGTTTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
44532903 TTGTTTTTTTCTATTTTTTT
1 TTTTTTTTTTTTTTTTTTTT
44532923 AGGCATAACA
Statistics
Matches: 60, Mismatches: 24, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.05, C:0.04, G:0.06, T:0.86
Consensus pattern (1 bp):
T
Found at i:44532873 original size:10 final size:10
Alignment explanation
Indices: 44532867--44532922 Score: 87
Period size: 10 Copynumber: 5.7 Consensus size: 10
44532857 ATTTTTTCTA
44532867 TTTTTTTTTG
1 TTTTTTTTTG
44532877 TTTTTTTTTG
1 TTTTTTTTTG
44532887 TTTTTTTTTG
1 TTTTTTTTTG
44532897 -TTTTTTTTG
1 TTTTTTTTTG
* *
44532906 TTTTTTTCTA
1 TTTTTTTTTG
44532916 TTTTTTT
1 TTTTTTT
44532923 AGGCATAACA
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
9 9 0.21
10 34 0.79
ACGTcount: A:0.02, C:0.02, G:0.07, T:0.89
Consensus pattern (10 bp):
TTTTTTTTTG
Found at i:44532910 original size:29 final size:28
Alignment explanation
Indices: 44532831--44532923 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 28
44532821 TTCATCTTGA
* *
44532831 TTTTTCATTTTTTTTTGTTTCTTTATAT
1 TTTTTTATTTTTTTTTGTTTTTTTATAT
* *
44532859 TTTTTCTATTTTTTTTTGTTTTTTTTTGT
1 TTTTT-TATTTTTTTTTGTTTTTTTATAT
* *
44532888 TTTTTTTTGTTTTTTTTGTTTTTTTCTAT
1 TTTTTTAT-TTTTTTTTGTTTTTTTATAT
44532917 TTTTTTA
1 TTTTTTA
44532924 GGCATAACAT
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
28 7 0.13
29 48 0.87
ACGTcount: A:0.06, C:0.04, G:0.05, T:0.84
Consensus pattern (28 bp):
TTTTTTATTTTTTTTTGTTTTTTTATAT
Found at i:44536498 original size:46 final size:45
Alignment explanation
Indices: 44536431--44536792 Score: 415
Period size: 46 Copynumber: 8.6 Consensus size: 45
44536421 TTTGAGTACT
* *
44536431 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
44536477 TCTGATCAAGTGACAAAGTGAT-A-----AG--T-GCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
*
44536513 TCTGATCAAGAGACAAAGTGATAAGTGGTAGTTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
44536559 TCTGATCAAGTGACAAAGTGAT-A-----AG--TA-CTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
44536595 TCTGATCAAGTGACAAAGTGAT-A-----AG--TA-CTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
*
44536631 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
44536677 TCTGATCAAGTGACAAAGTGATAAGTGGTAGTCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAGT-TTAGCTACACTTA
*
44536723 TCTGATCAAGTGACAAAGTGA-AAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGGTAG-TTTAGCTACACTTA
*
44536768 TTTGATCAAG-GAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
44536793 ATCATACGTA
Statistics
Matches: 286, Mismatches: 7, Indels: 48
0.84 0.02 0.14
Matches are distributed among these distances:
36 98 0.34
37 5 0.02
40 4 0.01
42 4 0.01
43 6 0.02
44 8 0.03
45 37 0.13
46 124 0.43
ACGTcount: A:0.35, C:0.15, G:0.21, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGACAAAGTGATAAGTGGTAGTTTAGCTACACTTA
Done.