Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032247.1 Gossypioides kirkii chromosome KI_05
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: 50980411
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 115 of 171
Found at i:36653549 original size:39 final size:39
Alignment explanation
Indices: 36653463--36653664 Score: 172
Period size: 39 Copynumber: 5.2 Consensus size: 39
36653453 TATTAGTCTA
* * * * * *
36653463 GTAGTGTTTATAGTGTCACTACTACTTCAATATAACGTT
1 GTAGTGTTTACAGTGTCACTGCCAGTTCAGTATAACATT
* * *
36653502 G-CGATGTTTACAGTGTCACCGCCAGTTCAGTATAGCATT
1 GTAG-TGTTTACAGTGTCACTGCCAGTTCAGTATAACATT
* * * **
36653541 GTAGTGTTTACAGTATCACTGCCACTTTAGTATATTATT
1 GTAGTGTTTACAGTGTCACTGCCAGTTCAGTATAACATT
* * * * *
36653580 ATAGTGTTTACAGTGTCACTGCCAATCCAATATAACGTT
1 GTAGTGTTTACAGTGTCACTGCCAGTTCAGTATAACATT
* * * **
36653619 GCAGTGTTTATAGTGTCACTACTGGTTCAGTATAACATT
1 GTAGTGTTTACAGTGTCACTGCCAGTTCAGTATAACATT
36653658 GTAGTGT
1 GTAGTGT
36653665 CAGTGTCAGT
Statistics
Matches: 125, Mismatches: 36, Indels: 4
0.76 0.22 0.02
Matches are distributed among these distances:
38 1 0.01
39 123 0.98
40 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (39 bp):
GTAGTGTTTACAGTGTCACTGCCAGTTCAGTATAACATT
Found at i:36653663 original size:78 final size:78
Alignment explanation
Indices: 36653465--36653664 Score: 204
Period size: 78 Copynumber: 2.6 Consensus size: 78
36653455 TTAGTCTAGT
* * * * *
36653465 AGTGTTTATAGTGTCACTACTACTTCAATATAACGTTG-CGATGTTTACAGTGTCACCGCCAGTT
1 AGTGTTTATAGTGTCACTACTACTTCAGTATAACATTGTAG-TGTTTACAGTGTCACCGCCAATC
* * *
36653529 CAGTATAGCATTGT
65 CAATATAACATTGC
* * * * * ** * *
36653543 AGTGTTTACAGTATCACTGCCACTTTAGTATATTATTATAGTGTTTACAGTGTCACTGCCAATCC
1 AGTGTTTATAGTGTCACTACTACTTCAGTATAACATTGTAGTGTTTACAGTGTCACCGCCAATCC
*
36653608 AATATAACGTTGC
66 AATATAACATTGC
**
36653621 AGTGTTTATAGTGTCACTACTGGTTCAGTATAACATTGTAGTGT
1 AGTGTTTATAGTGTCACTACTACTTCAGTATAACATTGTAGTGT
36653665 CAGTGTCAGT
Statistics
Matches: 93, Mismatches: 28, Indels: 2
0.76 0.23 0.02
Matches are distributed among these distances:
78 92 0.99
79 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.38
Consensus pattern (78 bp):
AGTGTTTATAGTGTCACTACTACTTCAGTATAACATTGTAGTGTTTACAGTGTCACCGCCAATCC
AATATAACATTGC
Found at i:36656570 original size:41 final size:44
Alignment explanation
Indices: 36656479--36656570 Score: 99
Period size: 38 Copynumber: 2.2 Consensus size: 44
36656469 TTTAAACTTC
* *
36656479 TATTAAATTTTAATAATTTTCTATAAGTTATTTATAACATTTTT
1 TATTAATTTTTAATAATTTTCTATAAGATATTTATAACATTTTT
36656523 TA--AATTTTTAATAA-TTTCTA-AA-AT-TTTAT-ACTATTTTT
1 TATTAATTTTTAATAATTTTCTATAAGATATTTATAAC-ATTTTT
36656561 GTATTAATTT
1 -TATTAATTT
36656571 AAAATATTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
37 2 0.05
38 11 0.26
39 3 0.07
40 2 0.05
41 11 0.26
42 11 0.26
44 2 0.05
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (44 bp):
TATTAATTTTTAATAATTTTCTATAAGATATTTATAACATTTTT
Found at i:36656621 original size:33 final size:32
Alignment explanation
Indices: 36656571--36656639 Score: 77
Period size: 32 Copynumber: 2.1 Consensus size: 32
36656561 GTATTAATTT
*
36656571 AAAATATTTAATGATTTTTAAGTAATTTTTCTA
1 AAAAAATTTAATGATTTTT-AGTAATTTTTCTA
** *
36656604 AAAAAATTATAAT-ATTTTTCTTCATTTTTCTA
1 AAAAAATT-TAATGATTTTTAGTAATTTTTCTA
36656636 AAAA
1 AAAA
36656640 CTTTTAAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
32 14 0.45
33 13 0.42
34 4 0.13
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.49
Consensus pattern (32 bp):
AAAAAATTTAATGATTTTTAGTAATTTTTCTA
Found at i:36656675 original size:11 final size:11
Alignment explanation
Indices: 36656659--36656684 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
36656649 TATTTTAAAA
36656659 TTTTCTATAAT
1 TTTTCTATAAT
36656670 TTTTCTATAAT
1 TTTTCTATAAT
36656681 TTTT
1 TTTT
36656685 AAATGTCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTCTATAAT
Found at i:36660438 original size:17 final size:17
Alignment explanation
Indices: 36660416--36660449 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
36660406 TGAAAATTAT
36660416 GATTCAAAGTGATCTTG
1 GATTCAAAGTGATCTTG
36660433 GATTCAAAGTGATCTTG
1 GATTCAAAGTGATCTTG
36660450 AGAAGGCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (17 bp):
GATTCAAAGTGATCTTG
Found at i:36662673 original size:24 final size:24
Alignment explanation
Indices: 36662638--36662691 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
36662628 TAGACTAACA
* * *
36662638 AGAGTTTGATTGAAAGAAAGAAAT
1 AGAGTTTAATTGAAACAAAGAAAC
*
36662662 AGAGTTTAATTGAAACAAATAAAC
1 AGAGTTTAATTGAAACAAAGAAAC
36662686 AGAGTT
1 AGAGTT
36662692 CATCTGGAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.04, G:0.20, T:0.26
Consensus pattern (24 bp):
AGAGTTTAATTGAAACAAAGAAAC
Found at i:36668207 original size:30 final size:30
Alignment explanation
Indices: 36668164--36668228 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
36668154 TTTCAAAAAC
* *
36668164 TTTTATAACATTTTAAAAATTTTCTATATA
1 TTTTATAACATTTTAAAAATTATCTATAAA
* * * *
36668194 TTTTTTAATATTTTTATAATTATCTATAAA
1 TTTTATAACATTTTAAAAATTATCTATAAA
36668224 TTTTA
1 TTTTA
36668229 AAATCTATGT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.58
Consensus pattern (30 bp):
TTTTATAACATTTTAAAAATTATCTATAAA
Found at i:36669246 original size:30 final size:30
Alignment explanation
Indices: 36669194--36669250 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
36669184 GTTATTAGCC
*
36669194 AAATAAGGTATCCTATTTATTTAATTTACA
1 AAATAAGGTATCCTATTAATTTAATTTACA
36669224 AAAT-AGGTATCCATATTAATTTAATTT
1 AAATAAGGTATCC-TATTAATTTAATTT
36669251 GATTTGATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (30 bp):
AAATAAGGTATCCTATTAATTTAATTTACA
Found at i:36671224 original size:54 final size:54
Alignment explanation
Indices: 36671165--36671276 Score: 206
Period size: 54 Copynumber: 2.1 Consensus size: 54
36671155 TATGTAGAAT
*
36671165 TTAACCAAATTTTAAAATTAAACCTAAAAACCCCTTTTCTCTATATTTGTCACG
1 TTAACCAAATTTTAAAATTAAACCTAAAAACCCCTTTTCTCCATATTTGTCACG
*
36671219 TTAACCAAATTTTAAAATTAAACTTAAAAACCCCTTTTCTCCATATTTGTCACG
1 TTAACCAAATTTTAAAATTAAACCTAAAAACCCCTTTTCTCCATATTTGTCACG
36671273 TTAA
1 TTAA
36671277 ATTTTTCCTC
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.38
Consensus pattern (54 bp):
TTAACCAAATTTTAAAATTAAACCTAAAAACCCCTTTTCTCCATATTTGTCACG
Found at i:36672374 original size:36 final size:36
Alignment explanation
Indices: 36672288--36672374 Score: 84
Period size: 36 Copynumber: 2.4 Consensus size: 36
36672278 ATATGATTGT
* **
36672288 TGTGAAAGTGAATACGTGGGTATGTTATTCATACCA
1 TGTGAAAGTGAATATGTAAGTATGTTATTCATACCA
* * ** **
36672324 TGGGACAGAAAATATGTAAGTATGTTATTCATGTCA
1 TGTGAAAGTGAATATGTAAGTATGTTATTCATACCA
*
36672360 TGTGATAGTGAATAT
1 TGTGAAAGTGAATAT
36672375 ATTGTGTTGA
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.34
Consensus pattern (36 bp):
TGTGAAAGTGAATATGTAAGTATGTTATTCATACCA
Found at i:36673693 original size:28 final size:27
Alignment explanation
Indices: 36673616--36673701 Score: 84
Period size: 28 Copynumber: 3.2 Consensus size: 27
36673606 TTTGTGTCCA
* *
36673616 CTATT-TTTAGATTTTACAATTTTCCC
1 CTATTGTTAAGATTTTACAATTTCCCC
* * *
36673642 CTATTTTTAAGATTTTATAGTTTCACCC
1 CTATTGTTAAGATTTTACAATTTC-CCC
* * *
36673670 CTATTGTTCATATTTTACAATTTCCCT
1 CTATTGTTAAGATTTTACAATTTCCCC
36673697 CTATT
1 CTATT
36673702 TTTTAGAATT
Statistics
Matches: 48, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
26 5 0.10
27 21 0.44
28 22 0.46
ACGTcount: A:0.23, C:0.20, G:0.05, T:0.52
Consensus pattern (27 bp):
CTATTGTTAAGATTTTACAATTTCCCC
Found at i:36673712 original size:28 final size:26
Alignment explanation
Indices: 36673619--36673713 Score: 91
Period size: 27 Copynumber: 3.5 Consensus size: 26
36673609 GTGTCCACTA
36673619 TTTTTAGATTTTACAATTTTCCCCTAT
1 TTTTTAGATTTTACAA-TTTCCCCTAT
* * *
36673646 TTTTAAGATTTTATAGTTTCACCCCTAT
1 TTTTTAGATTTTACAATTT--CCCCTAT
* * *
36673674 TGTTCATATTTTACAATTTCCCTCTAT
1 TTTTTAGATTTTACAATTTCCC-CTAT
*
36673701 TTTTTAGAATTTA
1 TTTTTAGATTTTA
36673714 TAGTTTTGTC
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
26 6 0.11
27 26 0.49
28 21 0.40
ACGTcount: A:0.24, C:0.17, G:0.05, T:0.54
Consensus pattern (26 bp):
TTTTTAGATTTTACAATTTCCCCTAT
Found at i:36673740 original size:55 final size:54
Alignment explanation
Indices: 36673626--36673747 Score: 138
Period size: 55 Copynumber: 2.2 Consensus size: 54
36673616 CTATTTTTAG
* * *
36673626 ATTTTACAATTTTCCCCTATTTTTAAGATTTTATAGTTTCACCCCTATTGTTCAT
1 ATTTTACAA-TTTCCCCTATTTTTAAGAATTTATAGTTTCACCCCTATTGTACAA
* ** *
36673681 ATTTTACAATTTCCCTCTATTTTTTAGAATTTATAGTTTTGTCCCCTCTT-TACAA
1 ATTTTACAATTTCCC-CTATTTTTAAGAATTTATAG-TTTCACCCCTATTGTACAA
*
36673736 ATTTTAAAATTT
1 ATTTTACAATTT
36673748 TACCCAGAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
54 6 0.11
55 41 0.72
56 10 0.18
ACGTcount: A:0.25, C:0.18, G:0.05, T:0.52
Consensus pattern (54 bp):
ATTTTACAATTTCCCCTATTTTTAAGAATTTATAGTTTCACCCCTATTGTACAA
Found at i:36676486 original size:27 final size:27
Alignment explanation
Indices: 36676404--36676526 Score: 90
Period size: 28 Copynumber: 4.5 Consensus size: 27
36676394 CTGTTTTATG
* *
36676404 ATTTTACAATTTT-CCCCTATTTTTTAG
1 ATTTTACAATTTTCCCCCTA-TTTTCAT
*
36676431 ATTTTATAA-TTTCGCCCCTATTGTTCAT
1 ATTTTACAATTTTC-CCCCTATT-TTCAT
*
36676459 ATTTTAAAATTTTCCCCCT-TTTTCCAT
1 ATTTTACAATTTTCCCCCTATTTT-CAT
* * * * * *
36676486 ATTATATAATTTTGTCCCCTCTTTACAA
1 ATTTTACAATTTT-CCCCCTATTTTCAT
36676514 ATTTTACAATTTT
1 ATTTTACAATTTT
36676527 ACCTAGAATT
Statistics
Matches: 78, Mismatches: 11, Indels: 13
0.76 0.11 0.13
Matches are distributed among these distances:
26 5 0.06
27 26 0.33
28 40 0.51
29 7 0.09
ACGTcount: A:0.24, C:0.20, G:0.03, T:0.52
Consensus pattern (27 bp):
ATTTTACAATTTTCCCCCTATTTTCAT
Found at i:36677810 original size:20 final size:20
Alignment explanation
Indices: 36677785--36677824 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
36677775 TAGAGATCGC
36677785 CTAAACCCCTACTCTAAATT
1 CTAAACCCCTACTCTAAATT
*
36677805 CTAAACCCCTGCTCTAAATT
1 CTAAACCCCTACTCTAAATT
36677825 TTGAGTGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.35, G:0.03, T:0.30
Consensus pattern (20 bp):
CTAAACCCCTACTCTAAATT
Found at i:36678397 original size:11 final size:10
Alignment explanation
Indices: 36678356--36678512 Score: 67
Period size: 10 Copynumber: 15.0 Consensus size: 10
36678346 CCAAATTATC
36678356 ATTAAATGTG
1 ATTAAATGTG
*
36678366 -TAAAATGTG
1 ATTAAATGTG
*
36678375 ACTAAATGTG
1 ATTAAATGTG
36678385 ATTAATATGTG
1 ATTAA-ATGTG
*
36678396 ATGTGATAA-ATG
1 AT-T-A-AATGTG
*
36678408 -TTAAA-AT-
1 ATTAAATGTG
*
36678415 ATT-CATGTG
1 ATTAAATGTG
36678424 ATTAAATGTG
1 ATTAAATGTG
*
36678434 ACTAAATGTG
1 ATTAAATGTG
36678444 ATTAATATGTG
1 ATTAA-ATGTG
36678455 ATGTGATAAATGTTG
1 A--T--TAAATG-TG
*
36678470 AAATATTAATGTG
1 --AT-TAAATGTG
*
36678483 ACT-AATGTG
1 ATTAAATGTG
36678492 ATTAAATGTG
1 ATTAAATGTG
36678502 ATTAATATGTG
1 ATTAA-ATGTG
36678513 TTATGTTAAA
Statistics
Matches: 115, Mismatches: 13, Indels: 37
0.70 0.08 0.22
Matches are distributed among these distances:
7 1 0.01
8 7 0.06
9 20 0.17
10 42 0.37
11 20 0.17
12 3 0.03
13 5 0.04
14 10 0.09
15 6 0.05
17 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.20, T:0.39
Consensus pattern (10 bp):
ATTAAATGTG
Found at i:36678440 original size:59 final size:59
Alignment explanation
Indices: 36678368--36678512 Score: 247
Period size: 59 Copynumber: 2.5 Consensus size: 59
36678358 TAAATGTGTA
* *
36678368 AAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTAAAATATTCATGTGATT
1 AAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTAAAATATTAATGTGACT
*
36678427 AAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTGAAATATTAATGTGACT
1 AAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTAAAATATTAATGTGACT
*
36678486 -AATGTGATTAAATGTGATTAATATGTG
1 AAATGTGACTAAATGTGATTAATATGTG
36678513 TTATGTTAAA
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
58 26 0.32
59 56 0.68
ACGTcount: A:0.39, C:0.03, G:0.20, T:0.39
Consensus pattern (59 bp):
AAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTAAAATATTAATGTGACT
Found at i:36678490 original size:9 final size:9
Alignment explanation
Indices: 36678474--36678507 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
36678464 ATGTTGAAAT
36678474 ATTAATGTG
1 ATTAATGTG
*
36678483 ACTAATGTG
1 ATTAATGTG
36678492 ATTAAATGTG
1 ATT-AATGTG
36678502 ATTAAT
1 ATTAAT
36678508 ATGTGTTATG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (9 bp):
ATTAATGTG
Found at i:36678490 original size:23 final size:26
Alignment explanation
Indices: 36678428--36678487 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
36678418 CATGTGATTA
36678428 AATGTGACTAAATG-TGATTAATATGT
1 AATGTGACTAAATGTTGA-TAATATGT
*
36678454 GATGTGA-TAAATGTTGA-AATAT-T
1 AATGTGACTAAATGTTGATAATATGT
36678477 AATGTGACTAA
1 AATGTGACTAA
36678488 TGTGATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
23 7 0.23
24 8 0.27
25 6 0.20
26 9 0.30
ACGTcount: A:0.40, C:0.03, G:0.20, T:0.37
Consensus pattern (26 bp):
AATGTGACTAAATGTTGATAATATGT
Found at i:36678553 original size:58 final size:58
Alignment explanation
Indices: 36678361--36678550 Score: 249
Period size: 58 Copynumber: 3.3 Consensus size: 58
36678351 TTATCATTAA
36678361 ATGTGTAA-AATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTAAAATATTC
1 ATGTG-AATAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTAAAATATTC
* * *
36678419 ATGTGATTAAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTGAAATATTA
1 ATGTGAAT-AATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTAAAATATTC
* * * * * * *
36678478 ATGTGACTAATGTGATTAAATGTGATTAATATGTGTTATGTTAAATGGTT-AAGTACTC
1 ATGTGAATAATGTGACTAAATGTGATTAATATGTGATGTGATAAAT-GTTAAAATATTC
36678536 ATGTGAATAATGTGA
1 ATGTGAATAATGTGA
36678551 TTACTACGTA
Statistics
Matches: 117, Mismatches: 12, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
57 1 0.01
58 58 0.50
59 58 0.50
ACGTcount: A:0.37, C:0.03, G:0.21, T:0.39
Consensus pattern (58 bp):
ATGTGAATAATGTGACTAAATGTGATTAATATGTGATGTGATAAATGTTAAAATATTC
Found at i:36687358 original size:29 final size:29
Alignment explanation
Indices: 36687312--36687370 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
36687302 TAGAGAATTT
* * *
36687312 TTTATATATAAACAAATTTTATATCTATA
1 TTTATACATAAACAAATTATATATATATA
* *
36687341 TTTATACATATACTAATTATATATATATA
1 TTTATACATAAACAAATTATATATATATA
36687370 T
1 T
36687371 ATATTTCTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.44, C:0.07, G:0.00, T:0.49
Consensus pattern (29 bp):
TTTATACATAAACAAATTATATATATATA
Found at i:36690409 original size:17 final size:18
Alignment explanation
Indices: 36690376--36690409 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36690366 TTTTATAACA
36690376 TTTTAAAATTTTCTATAT
1 TTTTAAAATTTTCTATAT
*
36690394 TTTTAATATTTT-TATA
1 TTTTAAAATTTTCTATA
36690410 ATTATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTAAAATTTTCTATAT
Found at i:36690417 original size:21 final size:21
Alignment explanation
Indices: 36690391--36690433 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
36690381 AAATTTTCTA
36690391 TATTTTTAATATTTTTAT-AAT
1 TATTTTTAAT-TTTTTATGAAT
36690412 TATTTTTAATTTTTTATGAAT
1 TATTTTTAATTTTTTATGAAT
36690433 T
1 T
36690434 TTATCATCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
TATTTTTAATTTTTTATGAAT
Found at i:36690540 original size:18 final size:18
Alignment explanation
Indices: 36690517--36690553 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
36690507 CTCATAAAGT
36690517 AATAAAAAAAATCAATTA
1 AATAAAAAAAATCAATTA
36690535 AATAAAAAAAATCAATTA
1 AATAAAAAAAATCAATTA
36690553 A
1 A
36690554 TCCACCTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (18 bp):
AATAAAAAAAATCAATTA
Found at i:36694470 original size:109 final size:109
Alignment explanation
Indices: 36694279--36694478 Score: 346
Period size: 109 Copynumber: 1.8 Consensus size: 109
36694269 ATAAAGAACA
* *
36694279 TTTAAGTAGAATATTCAATTACTTAGGTTCAAAGAAAAATCATACCCAGTACGTTAGGGCACAAT
1 TTTAAGTAGAATATTCAATTACTTAGGTTCAAAGAAAAACCATACCCAATACGTTAGGGCACAAT
* *
36694344 TTCTTGAGTTCCCTAAAATAAAAGAACATTGAACATTTATCGAT
66 TTCTCGAGGTCCCTAAAATAAAAGAACATTGAACATTTATCGAT
* *
36694388 TTTAAGTAGGATATTCAATTACTTAGGTTCAAAGAAAAACCATACCCAATATGTTAGGGCACAAT
1 TTTAAGTAGAATATTCAATTACTTAGGTTCAAAGAAAAACCATACCCAATACGTTAGGGCACAAT
36694453 TTCTCGAGGTCCCTAAAATAAAAGAA
66 TTCTCGAGGTCCCTAAAATAAAAGAA
36694479 TATTACTTTG
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
109 85 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.29
Consensus pattern (109 bp):
TTTAAGTAGAATATTCAATTACTTAGGTTCAAAGAAAAACCATACCCAATACGTTAGGGCACAAT
TTCTCGAGGTCCCTAAAATAAAAGAACATTGAACATTTATCGAT
Found at i:36694838 original size:6 final size:6
Alignment explanation
Indices: 36694827--36694865 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
36694817 ATTAAAATTT
* *
36694827 AAAATG AAAATG AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
36694866 TGACTTAGTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:36696436 original size:5 final size:5
Alignment explanation
Indices: 36696399--36696468 Score: 54
Period size: 5 Copynumber: 14.2 Consensus size: 5
36696389 TGGATATATT
* * * * * *
36696399 TTTTG TTTTA TTTT- TTTTA TTTTG -GTTG ATTTG TTTTG CTTTG TTTGG
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG
*
36696447 TTTTGG TTTTG TTTTA TTTTG T
1 TTTT-G TTTTG TTTTG TTTTG T
36696469 ACTGGGCCTG
Statistics
Matches: 51, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
4 7 0.14
5 39 0.76
6 5 0.10
ACGTcount: A:0.06, C:0.01, G:0.19, T:0.74
Consensus pattern (5 bp):
TTTTG
Found at i:36696965 original size:45 final size:45
Alignment explanation
Indices: 36696880--36697535 Score: 596
Period size: 45 Copynumber: 15.1 Consensus size: 45
36696870 GCTTCTATGA
* **
36696880 GATGGTAGCTTCAATCTATCCCT-TTGGATTTAGGGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGG--TTAGGGGTAAAAGATTG
* * *
36696926 GATGATGGCTTTAAT-TAGCCCCTCTTGGTTAGTGGTAAAAGATTG
1 GATGGTGGCTTCAATCT-GCCCCTCTTGGTTAGGGGTAAAAGATTG
* * * *
36696971 GATGGTGGCTTTAATCTGCCGCTCTTGATTAGGGGTAAAATATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGGTTAGGGGTAAAAGATTG
* * * *
36697016 GATGGTGGCTTCAACCTACCCCTCTTGACTTAGGGGTAAAATATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTG-GTTAGGGGTAAAAGATTG
* * *
36697062 GATGGTGGTTTCAATCTTCCCCTCTTGATTAGGGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGGTTAGGGGTAAAAGATTG
* * * **
36697107 GATGGTAGCTTCAATCTTCCCCTCTTGACTTAGGGGTAAAAGATCA
1 GATGGTGGCTTCAATCTGCCCCTCTTG-GTTAGGGGTAAAAGATTG
* *
36697153 GATGGTGG-TTCAATTTGCCCCTCTTGATTAGGGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGGTTAGGGGTAAAAGATTG
* * * * *
36697197 GATGATGGCTTTAATCTGCCTCTCTTGATTAGTGGTAAAAGA-TG
1 GATGGTGGCTTCAATCTGCCCCTCTTGGTTAGGGGTAAAAGATTG
* *
36697241 GATGGTGGCTTCAATCTACCCCTCTTGATTA-GGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGGTTAGGGGTAAAAGATTG
* * *
36697285 GATGGTGGCTTCAATCTGCCTCTATTGACTTAGGGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTG-GTTAGGGGTAAAAGATTG
** ** *
36697331 TTTGGT--CTTTTATCTG-CCCTC-TAGTTA-GGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGGTTAGGGGTAAAAGATTG
* * * *
36697371 GATGAT--CTTCAATCTG-CCGTC-CGGTTA-GGGTAAGAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGGTTAGGGGTAAAAGATTG
* * *
36697411 GATGGTGTCTTTAATTTG-CCCTC-TGGTTA-GGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGGTTAGGGGTAAAAGATTG
* * * *
36697453 GATGAT--CTTCAATTTG-CCCTC-TAGTTA-GGGTAAATGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGGTTAGGGGTAAAAGATTG
*
36697493 GA---TGGCTTCAATCTG-CCC-CATGGTTA-GGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTGGTTAGGGGTAAAAGATTG
36697532 GATG
1 GATG
36697536 AATTCAATCT
Statistics
Matches: 518, Mismatches: 76, Indels: 37
0.82 0.12 0.06
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 31 0.06
40 82 0.16
41 3 0.01
42 35 0.07
43 12 0.02
44 85 0.16
45 167 0.32
46 97 0.19
47 4 0.01
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (45 bp):
GATGGTGGCTTCAATCTGCCCCTCTTGGTTAGGGGTAAAAGATTG
Found at i:36697038 original size:90 final size:91
Alignment explanation
Indices: 36696909--36697536 Score: 602
Period size: 91 Copynumber: 7.2 Consensus size: 91
36696899 CCCTTTGGAT
* * *
36696909 TTAGGGGTAAAAGATTGGATGATGGCTTTAAT-TAGCCCCTCTTG-GTTAGTGGTAAAAGATTGG
1 TTAGGGGTAAAAGATTGGATGATGGCTTCAATCTA-CCCCTCTTGACTTAGGGGTAAAAGATTGG
*
36696972 ATGGTGGCTTTAATCTGCCGCTCTTGA
65 ATGGTGGCTTTAATCTGCCCCTCTTGA
* * * *
36696999 TTAGGGGTAAAATATTGGATGGTGGCTTCAACCTACCCCTCTTGACTTAGGGGTAAAATATTGGA
1 TTAGGGGTAAAAGATTGGATGATGGCTTCAATCTACCCCTCTTGACTTAGGGGTAAAAGATTGGA
*
36697064 TGGTGG-TTTCAATCTTCCCCTCTTGA
66 TGGTGGCTTT-AATCTGCCCCTCTTGA
* * * **
36697090 TTAGGGGTAAAAGATTGGATGGTAGCTTCAATCTTCCCCTCTTGACTTAGGGGTAAAAGATCAGA
1 TTAGGGGTAAAAGATTGGATGATGGCTTCAATCTACCCCTCTTGACTTAGGGGTAAAAGATTGGA
* *
36697155 TGGTGG-TTCAATTTGCCCCTCTTGA
66 TGGTGGCTTTAATCTGCCCCTCTTGA
* * * *
36697180 TTAGGGGTAAAAGATTGGATGATGGCTTTAATCTGCCTCTCTTGA-TTAGTGGTAAAAGA-TGGA
1 TTAGGGGTAAAAGATTGGATGATGGCTTCAATCTACCCCTCTTGACTTAGGGGTAAAAGATTGGA
* *
36697243 TGGTGGCTTCAATCTACCCCTCTTGA
66 TGGTGGCTTTAATCTGCCCCTCTTGA
* * * * **
36697269 TTA-GGGTAAAAGATTGGATGGTGGCTTCAATCTGCCTCTATTGACTTAGGGGTAAAAGATTGTT
1 TTAGGGGTAAAAGATTGGATGATGGCTTCAATCTACCCCTCTTGACTTAGGGGTAAAAGATTGGA
* *
36697333 TGGT--CTTTTATCTG-CCCTCTAG-
66 TGGTGGCTTTAATCTGCCCCTCTTGA
* * * * *
36697355 TTA-GGGTAAAAGATTGGATGAT--CTTCAATCT-GCCGTC-CG-GTTA-GGGTAAGAGATTGGA
1 TTAGGGGTAAAAGATTGGATGATGGCTTCAATCTACCCCTCTTGACTTAGGGGTAAAAGATTGGA
* * *
36697413 TGGTGTCTTTAATTTG-CCCTC-TGG
66 TGGTGGCTTTAATCTGCCCCTCTTGA
** * *
36697437 TTA-GGGTAAAAGATTGGATGAT--CTTCAAT-TTGCCCTC-T-AGTTA-GGGTAAATGATTGGA
1 TTAGGGGTAAAAGATTGGATGATGGCTTCAATCTACCCCTCTTGACTTAGGGGTAAAAGATTGGA
* * *
36697495 ---TGGCTTCAATCTG-CCC-CATGG
66 TGGTGGCTTTAATCTGCCCCTCTTGA
36697516 TTA-GGGTAAAAGATTGGATGA
1 TTAGGGGTAAAAGATTGGATGA
36697537 ATTCAATCTA
Statistics
Matches: 467, Mismatches: 59, Indels: 35
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.00
79 37 0.08
80 16 0.03
81 5 0.01
82 65 0.14
83 2 0.00
84 9 0.02
86 21 0.04
87 7 0.01
88 53 0.11
89 46 0.10
90 100 0.21
91 105 0.22
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (91 bp):
TTAGGGGTAAAAGATTGGATGATGGCTTCAATCTACCCCTCTTGACTTAGGGGTAAAAGATTGGA
TGGTGGCTTTAATCTGCCCCTCTTGA
Found at i:36697132 original size:136 final size:136
Alignment explanation
Indices: 36696880--36697535 Score: 640
Period size: 136 Copynumber: 5.0 Consensus size: 136
36696870 GCTTCTATGA
* * *
36696880 GATGGTAGCTTCAATCTATCCCT-TTGGATTTAGGGGTAAAAGATTGGATGATGGCTTTAAT-TA
1 GATGGTGGCTTCAATCTACCCCTCTT-GACTTAGGGGTAAAAGATTGGATGATGGCTTTAATCT-
* * * *
36696943 GCCCCTCTTGGTTAGTGGTAAAAGATTGGATGGTGGCTTTAATCTGCCGCTCTTGATTAGGGGTA
64 GCCCCTCTTGATTAGTGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCTCTTGATTAGGGGTA
*
36697008 AAATATTG
129 AAAGATTG
* * * *
36697016 GATGGTGGCTTCAACCTACCCCTCTTGACTTAGGGGTAAAATATTGGATGGTGG-TTTCAATCTT
1 GATGGTGGCTTCAATCTACCCCTCTTGACTTAGGGGTAAAAGATTGGATGATGGCTTT-AATCTG
* * *
36697080 CCCCTCTTGATTAGGGGTAAAAGATTGGATGGTAGCTTCAATCTTCCCCTCTTGACTTAGGGGTA
65 CCCCTCTTGATTAGTGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCTCTTGA-TTAGGGGTA
**
36697145 AAAGATCA
129 AAAGATTG
* *
36697153 GATGGTGG-TTCAATTTGCCCCTCTTGA-TTAGGGGTAAAAGATTGGATGATGGCTTTAATCTGC
1 GATGGTGGCTTCAATCTACCCCTCTTGACTTAGGGGTAAAAGATTGGATGATGGCTTTAATCTGC
*
36697216 CTCTCTTGATTAGTGGTAAAAGA-TGGATGGTGGCTTCAATCTACCCCTCTTGATTA-GGGTAAA
66 CCCTCTTGATTAGTGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCTCTTGATTAGGGGTAAA
36697279 AGATTG
131 AGATTG
* * * * *
36697285 GATGGTGGCTTCAATCTGCCTCTATTGACTTAGGGGTAAAAGATT-G-T-TTGGTCTTTTATCTG
1 GATGGTGGCTTCAATCTACCCCTCTTGACTTAGGGGTAAAAGATTGGATGATGG-CTTTAATCTG
* * * * * *
36697347 -CCCTCTAG-TTAG-GGTAAAAGATTGGATGAT--CTTCAATCT-GCCGTC-CGGTTA-GGGTAA
65 CCCCTCTTGATTAGTGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCTCTTGATTAGGGGTAA
*
36697404 GAGATTG
130 AAGATTG
* * ** * * *
36697411 GATGGTGTCTTTAAT-TTGCCCTC-TG-GTTA-GGGTAAAAGATTGGATGAT--CTTCAATTTG-
1 GATGGTGGCTTCAATCTACCCCTCTTGACTTAGGGGTAAAAGATTGGATGATGGCTTTAATCTGC
* * * * *
36697469 CCCTCTAG-TTAG-GGTAAATGATTGGA---TGGCTTCAATCT-GCCC-CATGGTTA-GGGTAAA
66 CCCTCTTGATTAGTGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCTCTTGATTAGGGGTAAA
36697526 AGATTG
131 AGATTG
36697532 GATG
1 GATG
36697536 AATTCAATCT
Statistics
Matches: 449, Mismatches: 56, Indels: 45
0.82 0.10 0.08
Matches are distributed among these distances:
119 1 0.00
120 1 0.00
121 33 0.07
122 44 0.10
123 4 0.01
124 3 0.01
125 5 0.01
126 29 0.06
127 4 0.01
128 9 0.02
129 9 0.02
130 11 0.02
131 9 0.02
132 29 0.06
133 20 0.04
134 44 0.10
135 53 0.12
136 116 0.26
137 25 0.06
ACGTcount: A:0.24, C:0.16, G:0.26, T:0.34
Consensus pattern (136 bp):
GATGGTGGCTTCAATCTACCCCTCTTGACTTAGGGGTAAAAGATTGGATGATGGCTTTAATCTGC
CCCTCTTGATTAGTGGTAAAAGATTGGATGGTGGCTTCAATCTACCCCTCTTGATTAGGGGTAAA
AGATTG
Found at i:36699322 original size:17 final size:17
Alignment explanation
Indices: 36699300--36699346 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
36699290 TGGCAATATA
36699300 TTTCTTTTCTTTTCTAT
1 TTTCTTTTCTTTTCTAT
*
36699317 TTTCTTCTTC-TTTCTTT
1 TTTCTT-TTCTTTTCTAT
*
36699334 TTTCTTTTGTTTT
1 TTTCTTTTCTTTT
36699347 GTGATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 2 0.08
17 21 0.81
18 3 0.12
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.79
Consensus pattern (17 bp):
TTTCTTTTCTTTTCTAT
Found at i:36701776 original size:23 final size:21
Alignment explanation
Indices: 36701750--36701797 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
36701740 ATTGTGTCTC
36701750 AAAAAATTATAAAAAAAGAGAAG
1 AAAAAA-TATAAAAAAA-AGAAG
*
36701773 AAAAAATATAGAAAAAAGAAG
1 AAAAAATATAAAAAAAAGAAG
36701794 AAAA
1 AAAA
36701798 GGAAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 9 0.38
22 9 0.38
23 6 0.25
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.10
Consensus pattern (21 bp):
AAAAAATATAAAAAAAAGAAG
Found at i:36716281 original size:13 final size:13
Alignment explanation
Indices: 36716263--36716287 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36716253 CCCATTTTAT
36716263 CATTTTTAGCATG
1 CATTTTTAGCATG
36716276 CATTTTTAGCAT
1 CATTTTTAGCAT
36716288 TTCCTAACTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (13 bp):
CATTTTTAGCATG
Found at i:36724074 original size:18 final size:19
Alignment explanation
Indices: 36724038--36724076 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
36724028 GTTTTGACTC
*
36724038 TTTTACAAATTAATCCTAT
1 TTTTACAAATTAAACCTAT
*
36724057 TTTTA-AAATTAAAGCTAT
1 TTTTACAAATTAAACCTAT
36724075 TT
1 TT
36724077 AAAAGTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (19 bp):
TTTTACAAATTAAACCTAT
Found at i:36724860 original size:27 final size:27
Alignment explanation
Indices: 36724823--36724924 Score: 129
Period size: 26 Copynumber: 3.8 Consensus size: 27
36724813 GTGTCCACTG
36724823 TTTTT-AGATTTTACAATTTTCCCCTA
1 TTTTTCAGATTTTACAATTTTCCCCTA
*
36724849 TTTTTTAGATTTTACAA-TTTCACCCTTA
1 TTTTTCAGATTTTACAATTTTC-CCC-TA
* *
36724877 TTGTTCAGATTTTACAATTTTCCTC-A
1 TTTTTCAGATTTTACAATTTTCCCCTA
*
36724903 TATTTCAGATTTTACAATTTTC
1 TTTTTCAGATTTTACAATTTTC
36724925 TTCATATGTT
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 30 0.45
27 14 0.21
28 19 0.28
29 4 0.06
ACGTcount: A:0.25, C:0.18, G:0.05, T:0.53
Consensus pattern (27 bp):
TTTTTCAGATTTTACAATTTTCCCCTA
Found at i:36726992 original size:36 final size:36
Alignment explanation
Indices: 36726912--36726992 Score: 108
Period size: 36 Copynumber: 2.2 Consensus size: 36
36726902 CTATTGTGAA
* *
36726912 AGTGAATATGTGGTTATGTTATTCATGCCATGAGAC
1 AGTGAATATGTGGGTATGTTATTCATGCCATCAGAC
** * *
36726948 AGAAAATATGTGGGTATGTTATTCATGCCATCTGAT
1 AGTGAATATGTGGGTATGTTATTCATGCCATCAGAC
36726984 AGTGAATAT
1 AGTGAATAT
36726993 ATTATGCTGA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.31, C:0.10, G:0.23, T:0.36
Consensus pattern (36 bp):
AGTGAATATGTGGGTATGTTATTCATGCCATCAGAC
Found at i:36732133 original size:34 final size:34
Alignment explanation
Indices: 36732095--36732160 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
36732085 CTGTAGCATA
*
36732095 ATTGTCCCTGCAT-TATTAATGTCATTGCATTTTC
1 ATTGTCCCTGCATCTA-CAATGTCATTGCATTTTC
* *
36732129 ATTGTCGCTGCATCTACATTGTCATTGCATTT
1 ATTGTCCCTGCATCTACAATGTCATTGCATTT
36732161 CCATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45
Consensus pattern (34 bp):
ATTGTCCCTGCATCTACAATGTCATTGCATTTTC
Found at i:36732134 original size:17 final size:17
Alignment explanation
Indices: 36732114--36732160 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
36732104 GCATTATTAA
*
36732114 TGTCATTGCATTTTCAT
1 TGTCATTGCATTTACAT
** *
36732131 TGTCGCTGCATCTACAT
1 TGTCATTGCATTTACAT
36732148 TGTCATTGCATTT
1 TGTCATTGCATTT
36732161 CCATATATAT
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.17, C:0.21, G:0.15, T:0.47
Consensus pattern (17 bp):
TGTCATTGCATTTACAT
Found at i:36735003 original size:19 final size:21
Alignment explanation
Indices: 36734979--36735024 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
36734969 TGAAATATTC
36734979 ATGTGACTA-ATGTAATTAA-
1 ATGTGACTACATGTAATTAAT
*
36734998 ATGTGACTACATGTGATTAAT
1 ATGTGACTACATGTAATTAAT
36735019 ATGTGA
1 ATGTGA
36735025 TGTGATAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 9 0.38
20 9 0.38
21 6 0.25
ACGTcount: A:0.37, C:0.07, G:0.20, T:0.37
Consensus pattern (21 bp):
ATGTGACTACATGTAATTAAT
Found at i:36735041 original size:21 final size:24
Alignment explanation
Indices: 36734930--36735069 Score: 79
Period size: 24 Copynumber: 6.1 Consensus size: 24
36734920 AATGTGTAAA
*
36734930 ATGTGACTGAATGTGATTAATATGTG
1 ATGTGACT-AATATGA-TAATATGTG
*
36734956 ATGTGA-TAAATATTGA-AATAT-TC
1 ATGTGACT-AATA-TGATAATATGTG
**
36734979 ATGTGACT-A-ATG-TAAT-T-AA
1 ATGTGACTAATATGATAATATGTG
*
36734998 ATGTGACTACATGTGATTAATATGTG
1 ATGTGACTA-ATATGA-TAATATGTG
*
36735024 ATGTGA-TAAT-TGA-AATAT-TC
1 ATGTGACTAATATGATAATATGTG
*
36735044 ATGTGACTAATATGATTATATGTG
1 ATGTGACTAATATGATAATATGTG
36735068 AT
1 AT
36735070 TAAATGTGAT
Statistics
Matches: 89, Mismatches: 11, Indels: 30
0.68 0.08 0.23
Matches are distributed among these distances:
19 9 0.10
20 12 0.13
21 11 0.12
22 6 0.07
23 14 0.16
24 15 0.17
25 7 0.08
26 15 0.17
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.39
Consensus pattern (24 bp):
ATGTGACTAATATGATAATATGTG
Found at i:36735048 original size:65 final size:66
Alignment explanation
Indices: 36734928--36735083 Score: 226
Period size: 65 Copynumber: 2.3 Consensus size: 66
36734918 TAAATGTGTA
*
36734928 AAATGTGACTGAATGTGATTAATATGTGATGTGATAAATATTGAAATATTCATGTGACTAATGTA
1 AAATGTGACT-AATGTGATTAATATGTGATGTGAT-AATATTGAAATATTCATGTGACTAATATA
36734993 ATT
64 ATT
*
36734996 AAATGTGACTACATGTGATTAATATGTGATGTGAT-A-ATTGAAATATTCATGTGACTAATATGA
1 AAATGTGACTA-ATGTGATTAATATGTGATGTGATAATATTGAAATATTCATGTGACTAATATAA
36735059 TT
65 TT
* *
36735061 ATATGTGATTAAATGTGATTAAT
1 AAATGTGACT-AATGTGATTAAT
36735084 TAATATGTGT
Statistics
Matches: 82, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
65 46 0.56
66 2 0.02
67 1 0.01
68 33 0.40
ACGTcount: A:0.38, C:0.04, G:0.19, T:0.39
Consensus pattern (66 bp):
AAATGTGACTAATGTGATTAATATGTGATGTGATAATATTGAAATATTCATGTGACTAATATAAT
T
Found at i:36735049 original size:20 final size:21
Alignment explanation
Indices: 36734967--36735054 Score: 74
Period size: 20 Copynumber: 4.1 Consensus size: 21
36734957 TGTGATAAAT
36734967 ATTGAAATATTCATGTGACTA
1 ATTGAAATATTCATGTGACTA
* **
36734988 A-TGTAAT-TAAATGTGACTA
1 ATTGAAATATTCATGTGACTA
*
36735007 CATGTGATTAATATGTGATGTGA-TA
1 -AT-TGA--AATAT-TCATGTGACTA
36735032 ATTGAAATATTCATGTGACTA
1 ATTGAAATATTCATGTGACTA
36735053 AT
1 AT
36735055 ATGATTATAT
Statistics
Matches: 52, Mismatches: 7, Indels: 16
0.69 0.09 0.21
Matches are distributed among these distances:
19 10 0.19
20 13 0.25
21 10 0.19
22 2 0.04
23 3 0.06
24 5 0.10
25 3 0.06
26 6 0.12
ACGTcount: A:0.38, C:0.07, G:0.17, T:0.39
Consensus pattern (21 bp):
ATTGAAATATTCATGTGACTA
Found at i:36737058 original size:123 final size:123
Alignment explanation
Indices: 36736810--36737167 Score: 576
Period size: 123 Copynumber: 2.9 Consensus size: 123
36736800 ATTAAATATT
* *
36736810 AAAACATGGATATTAATATCTTTTTGGAAAGGATATAATGTTTTAATAACTTTTCATATATTTCT
1 AAAACATGGAAATTAATATCTTTTTGGAAAGGATATAATGTTTTAATAACCTTTCATATATTTCT
* * * * *
36736875 CTAAAGGAATATTTCTATTTGAATATGAGATATTAAAT-AAAGAAAATTGAGTATTAA
66 CTAAAGGAATATTTCCATTTTAATATGAGATATTAAATAAAAGGAAATTGAATACTAA
*
36736932 AAAACATGGAAATTAATATCTTTTTGGAAAGGATATAATGTTTTAATAAACCTTCCATATATTTC
1 AAAACATGGAAATTAATATCTTTTTGGAAAGGATATAATGTTTTAAT-AACCTTTCATATATTTC
*
36736997 TCTAAAGGAATATTTCCATTTTAATATGACATATTAAATAAAAGGAAATTGAATACT-A
65 TCTAAAGGAATATTTCCATTTTAATATGAGATATTAAATAAAAGGAAATTGAATACTAA
* *
36737055 AAAACATGGAAATTAATATCCTTTTGGAAAGGATATAATTTTTTAATGAACCTTTCATATATTTC
1 AAAACATGGAAATTAATATCTTTTTGGAAAGGATATAATGTTTTAAT-AACCTTTCATATATTTC
*
36737120 TCTAAAGGAATATTTCCATTTTAATATGAGATGTTAAATAAAAGGAAA
65 TCTAAAGGAATATTTCCATTTTAATATGAGATATTAAATAAAAGGAAA
36737168 GATAGCAGAA
Statistics
Matches: 219, Mismatches: 15, Indels: 3
0.92 0.06 0.01
Matches are distributed among these distances:
122 46 0.21
123 159 0.73
124 14 0.06
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (123 bp):
AAAACATGGAAATTAATATCTTTTTGGAAAGGATATAATGTTTTAATAACCTTTCATATATTTCT
CTAAAGGAATATTTCCATTTTAATATGAGATATTAAATAAAAGGAAATTGAATACTAA
Found at i:36744257 original size:123 final size:122
Alignment explanation
Indices: 36743874--36744361 Score: 782
Period size: 122 Copynumber: 4.0 Consensus size: 122
36743864 TGATTTCGTT
* *
36743874 AATATT-AAAACATTGATATTAATATCCTTTTGGAAAGGATATAATGTTTTAATAACTTTCCATA
1 AATATTAAAAACATGGAAATTAATATCCTTTTGGAAAGGATATAATGTTTTAATAACTTTCCATA
* *
36743938 TATTTCTCTAAAGGAATAATTCCATTTTAATATGAGATATTAACTAAAAGAAAATTG
66 TATTTCTCTAAAGGAATAATTCCATTTTAATATGAGATATTAAATAAAAGGAAATTG
* *
36743995 AATATTAAAAACATGGAAATTAATATCTTTTTGGAAAGGATATAATGTTTTAATAACTTTCCAGA
1 AATATTAAAAACATGGAAATTAATATCCTTTTGGAAAGGATATAATGTTTTAATAACTTTCCATA
36744060 TATTTCTCTAAAGGAATAATTCCATTTTAATATGAGATATTAAATAAAAGGAAATTG
66 TATTTCTCTAAAGGAATAATTCCATTTTAATATGAGATATTAAATAAAAGGAAATTG
36744117 AATATTAAAAATCATGGAAATTAATATCCTTTTGGAAAGGATATAATGTTTTAATAAACCTTT-C
1 AATATTAAAAA-CATGGAAATTAATATCCTTTTGGAAAGGATATAATGTTTTAAT-AA-CTTTCC
* * *
36744181 ATATATTTCTCTAAATGAATATTTCCATTTTAATATGAGATATTAAATAACAGGAAATTG
63 ATATATTTCTCTAAAGGAATAATTCCATTTTAATATGAGATATTAAATAAAAGGAAATTG
* * *
36744241 AATATTAAAAACATGGAAGTTAATATCCTTTTGGAAATGATATAATGTTTTAATGAACCTTCCAT
1 AATATTAAAAACATGGAAATTAATATCCTTTTGGAAAGGATATAATGTTTTAAT-AACTTTCCAT
* * *
36744306 ATATTTCTCTAAAGGAAGTATTTTCATTTTAATATGAGATATTAAATAATAGGAAA
65 ATATTTCTCTAAAGGAA-TAATTCCATTTTAATATGAGATATTAAATAAAAGGAAA
36744362 GATAGAGAAT
Statistics
Matches: 343, Mismatches: 18, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
121 6 0.02
122 123 0.36
123 104 0.30
124 106 0.31
125 4 0.01
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.38
Consensus pattern (122 bp):
AATATTAAAAACATGGAAATTAATATCCTTTTGGAAAGGATATAATGTTTTAATAACTTTCCATA
TATTTCTCTAAAGGAATAATTCCATTTTAATATGAGATATTAAATAAAAGGAAATTG
Found at i:36744265 original size:21 final size:22
Alignment explanation
Indices: 36744220--36744266 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
36744210 TTAATATGAG
36744220 ATATTAAATAACAGGAAATTGA
1 ATATTAAATAACAGGAAATTGA
*
36744242 ATATTAAA-AACATGGAAGTT-A
1 ATATTAAATAACA-GGAAATTGA
36744263 ATAT
1 ATAT
36744267 CCTTTTGGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.53, C:0.04, G:0.13, T:0.30
Consensus pattern (22 bp):
ATATTAAATAACAGGAAATTGA
Found at i:36747547 original size:18 final size:19
Alignment explanation
Indices: 36747511--36747549 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
36747501 TTTAATTTGA
*
36747511 TTTGATTTGATACATATAT
1 TTTGATTTGATACACATAT
36747530 TTTGATTTGATAC-CATAT
1 TTTGATTTGATACACATAT
36747548 TT
1 TT
36747550 ATTTTCTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.54
Consensus pattern (19 bp):
TTTGATTTGATACACATAT
Found at i:36751521 original size:31 final size:31
Alignment explanation
Indices: 36751486--36751548 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
36751476 AATAGTGAAC
*
36751486 AACTACTTTAGTGGTTATTCTAAGCAATCTA
1 AACTACTTTAGTAGTTATTCTAAGCAATCTA
36751517 AACTACTTTAGTAGTTATTCTAAGCAATCTA
1 AACTACTTTAGTAGTTATTCTAAGCAATCTA
36751548 A
1 A
36751549 TGGCTATGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.11, T:0.38
Consensus pattern (31 bp):
AACTACTTTAGTAGTTATTCTAAGCAATCTA
Found at i:36755015 original size:28 final size:27
Alignment explanation
Indices: 36754913--36755042 Score: 104
Period size: 28 Copynumber: 4.8 Consensus size: 27
36754903 ATGTCCACTG
* *
36754913 TTTTT-AGATTTTACAATCTTCCCCTA
1 TTTTTCAGATTTTATAATTTTCCCCTA
* *
36754939 TTTTTAAGATTTTAT-AGTTTCGCTCCTA
1 TTTTTCAGATTTTATAATTTTC-C-CCTA
* *
36754967 TTGTTCATATTTTATAATTTTCCCCTTA
1 TTTTTCAGATTTTATAATTTTCCCC-TA
* *
36754995 TTTTTCAGATTTTATAGTTTTGTCCCT-
1 TTTTTCAGATTTTATAATTTT-CCCCTA
* * *
36755022 TTTTACAAATTTTACAATTTT
1 TTTTTCAGATTTTATAATTTT
36755043 ATCCAGAATT
Statistics
Matches: 83, Mismatches: 15, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
26 9 0.11
27 28 0.34
28 38 0.46
29 8 0.10
ACGTcount: A:0.22, C:0.16, G:0.06, T:0.55
Consensus pattern (27 bp):
TTTTTCAGATTTTATAATTTTCCCCTA
Found at i:36755034 original size:55 final size:55
Alignment explanation
Indices: 36754920--36755042 Score: 153
Period size: 55 Copynumber: 2.2 Consensus size: 55
36754910 CTGTTTTTAG
* *
36754920 ATTTTACAATCTTCCCCTATTTTTAAGATTTTATAGTTTCGCTCCTATTGTTCAT
1 ATTTTACAATTTTCCCCTATTTTTAAGATTTTATAGTTTCGCTCCTATTGTTCAA
* * *
36754975 ATTTTATAATTTTCCCCTTATTTTTCAGATTTTATAGTTTTG-TCCCT-TT-TTACAA
1 ATTTTACAATTTTCCCC-TATTTTTAAGATTTTATAGTTTCGCT-CCTATTGTT-CAA
36755030 ATTTTACAATTTT
1 ATTTTACAATTTT
36755043 ATCCAGAATT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
54 2 0.03
55 32 0.54
56 25 0.42
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (55 bp):
ATTTTACAATTTTCCCCTATTTTTAAGATTTTATAGTTTCGCTCCTATTGTTCAA
Found at i:36757727 original size:26 final size:27
Alignment explanation
Indices: 36757691--36757774 Score: 107
Period size: 28 Copynumber: 3.1 Consensus size: 27
36757681 GTCCATTGTC
36757691 TTTAGATTTTACAATTTT-CCCCTATT
1 TTTAGATTTTACAATTTTCCCCCTATT
* * *
36757717 TTTAGATTTTATAGTTTTGCCCCTATT
1 TTTAGATTTTACAATTTTCCCCCTATT
* *
36757744 GTTCATATTTTACAATTTTCCCCCTATT
1 -TTTAGATTTTACAATTTTCCCCCTATT
36757772 TTT
1 TTT
36757775 TCCAACTTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
26 16 0.33
27 10 0.21
28 22 0.46
ACGTcount: A:0.20, C:0.19, G:0.06, T:0.55
Consensus pattern (27 bp):
TTTAGATTTTACAATTTTCCCCCTATT
Found at i:36757791 original size:29 final size:28
Alignment explanation
Indices: 36757724--36757791 Score: 66
Period size: 28 Copynumber: 2.4 Consensus size: 28
36757714 ATTTTTAGAT
* *
36757724 TTTATAGTTTTGCCCCTATTGTTCATAT
1 TTTATAGTTTTCCCCCTATTGTTCATAC
* * *
36757752 TTTACAATTTTCCCCCTATTTTTTCCA-AC
1 TTTATAGTTTTCCCCCTA-TTGTT-CATAC
36757781 TTTATAGTTTT
1 TTTATAGTTTT
36757792 GTCCGCTCTT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
28 15 0.48
29 14 0.45
30 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.06, T:0.54
Consensus pattern (28 bp):
TTTATAGTTTTCCCCCTATTGTTCATAC
Found at i:36757811 original size:57 final size:54
Alignment explanation
Indices: 36757696--36757819 Score: 144
Period size: 57 Copynumber: 2.2 Consensus size: 54
36757686 TTGTCTTTAG
* * *
36757696 ATTTTACAATTTTCCCCTATTTTTAGATTTTATAGTTTTGCCCCTATTGTTCAT
1 ATTTTACAATTTTCCCCTATTTTTAGACTTTATAGTTTTGCCCCTATTGTACAA
* *
36757750 ATTTTACAATTTTCCCCCTATTTTTTCCA-ACTTTATAGTTTTGTCCGCTCTT-TACAA
1 ATTTTACAATTTT-CCCCTA-TTTTT--AGACTTTATAGTTTTG-CCCCTATTGTACAA
36757807 ATTTTACAATTTT
1 ATTTTACAATTTT
36757820 ACCCAAAATT
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
54 13 0.22
55 6 0.10
56 5 0.08
57 29 0.48
58 7 0.12
ACGTcount: A:0.22, C:0.20, G:0.06, T:0.52
Consensus pattern (54 bp):
ATTTTACAATTTTCCCCTATTTTTAGACTTTATAGTTTTGCCCCTATTGTACAA
Found at i:36759245 original size:36 final size:36
Alignment explanation
Indices: 36759159--36759245 Score: 122
Period size: 36 Copynumber: 2.4 Consensus size: 36
36759149 AGATGACTCT
*
36759159 TGTGAAAGTGAATATGTGGATATGTTATTCATGCCA
1 TGTGACAGTGAATATGTGGATATGTTATTCATGCCA
* **
36759195 TGAGACAGAAAATATGT-GAGTATGTTATTCATGCCA
1 TGTGACAGTGAATATGTGGA-TATGTTATTCATGCCA
36759231 TGTGACAGTGAATAT
1 TGTGACAGTGAATAT
36759246 ATTGTGCTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 2 0.05
36 41 0.95
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.33
Consensus pattern (36 bp):
TGTGACAGTGAATATGTGGATATGTTATTCATGCCA
Found at i:36759659 original size:35 final size:35
Alignment explanation
Indices: 36759620--36759736 Score: 93
Period size: 35 Copynumber: 3.4 Consensus size: 35
36759610 TAAATGTGTA
*
36759620 AAATGTGACTAAATGTGAGTAATATGTGATGTGAT
1 AAATGTGACTAAATGTGATTAATATGTGATGTGAT
* * * *
36759655 AAATGT---TAAA-AT-ATTCATGTGACTAATGTGATT
1 AAATGTGACTAAATGTGATTAATATG--TGATGTGA-T
* *
36759688 AAATGTGACAAAATGTGATTAATATGTGATGAGAT
1 AAATGTGACTAAATGTGATTAATATGTGATGTGAT
36759723 AAATGTTGAC-AAAT
1 AAATG-TGACTAAAT
36759737 TAATGTGACT
Statistics
Matches: 62, Mismatches: 11, Indels: 18
0.68 0.12 0.20
Matches are distributed among these distances:
30 6 0.10
31 1 0.02
32 11 0.18
33 7 0.11
35 16 0.26
36 13 0.21
37 1 0.02
38 7 0.11
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.34
Consensus pattern (35 bp):
AAATGTGACTAAATGTGATTAATATGTGATGTGAT
Found at i:36759716 original size:11 final size:10
Alignment explanation
Indices: 36759679--36759717 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
36759669 TCATGTGACT
36759679 AATGTGATTA
1 AATGTGATTA
**
36759689 AATGTGACAA
1 AATGTGATTA
36759699 AATGTGATTA
1 AATGTGATTA
36759709 ATATGTGAT
1 A-ATGTGAT
36759718 GAGATAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
10 17 0.71
11 7 0.29
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.36
Consensus pattern (10 bp):
AATGTGATTA
Found at i:36759772 original size:68 final size:68
Alignment explanation
Indices: 36759612--36759759 Score: 219
Period size: 68 Copynumber: 2.2 Consensus size: 68
36759602 ATTATCATTA
* * * *
36759612 AATGTG-TAAAATGTGACTAAATGTGAGTAATATGTGATGTGATAAATGTTAAAATATTCATGTG
1 AATGTGATTAAATGTGACAAAATGTGAGTAATATGTGATGAGATAAATGTTAAAATATTAATGTG
36759676 ACT
66 ACT
* *
36759679 AATGTGATTAAATGTGACAAAATGTGATTAATATGTGATGAGATAAATGTTGACAA-ATTAATGT
1 AATGTGATTAAATGTGACAAAATGTGAGTAATATGTGATGAGATAAATGTT-AAAATATTAATGT
36759743 GACT
65 GACT
36759747 AATGTGATTAAAT
1 AATGTGATTAAAT
36759760 TGATTAATAT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
67 6 0.08
68 64 0.88
69 3 0.04
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (68 bp):
AATGTGATTAAATGTGACAAAATGTGAGTAATATGTGATGAGATAAATGTTAAAATATTAATGTG
ACT
Found at i:36776343 original size:2 final size:2
Alignment explanation
Indices: 36776336--36776360 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
36776326 AATAAAAATT
36776336 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
36776361 CTTTAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36777756 original size:28 final size:27
Alignment explanation
Indices: 36777715--36777786 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
36777705 TATGTCTCCA
**
36777715 CTATTTTTAGATTTTACCATTTTGCCC
1 CTATTTTTAGATTTTAAAATTTTGCCC
*
36777742 CTATTTTGTAGATTTTAAAATTTTGCCT
1 CTATTTT-TAGATTTTAAAATTTTGCCC
*
36777770 CTATTGTTCAGATTTTA
1 CTATT-TTTAGATTTTA
36777787 TTGTTTTGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
27 7 0.18
28 30 0.77
29 2 0.05
ACGTcount: A:0.22, C:0.15, G:0.10, T:0.53
Consensus pattern (27 bp):
CTATTTTTAGATTTTAAAATTTTGCCC
Found at i:36779792 original size:31 final size:29
Alignment explanation
Indices: 36779756--36779823 Score: 75
Period size: 31 Copynumber: 2.3 Consensus size: 29
36779746 ATTAAATCCT
*
36779756 TTATTTTTATT-TTTGTTAAAATTCAACCCTC
1 TTATTTTTATTCCTT-TTAAAATT--ACCCTC
* *
36779787 TTATTTTTGTTCCTTTTAAAATTACCCTT
1 TTATTTTTATTCCTTTTAAAATTACCCTC
36779816 TTATTTTT
1 TTATTTTT
36779824 GTTTCTTTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 13 0.39
31 18 0.55
32 2 0.06
ACGTcount: A:0.22, C:0.15, G:0.03, T:0.60
Consensus pattern (29 bp):
TTATTTTTATTCCTTTTAAAATTACCCTC
Found at i:36779823 original size:29 final size:30
Alignment explanation
Indices: 36779771--36779831 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
36779761 TTTATTTTTG
36779771 TTAAAATTCAACCCTCTTATTTTTGTTCCTT
1 TTAAAATT-AACCCTCTTATTTTTGTTCCTT
* *
36779802 TTAAAATT-ACCCTTTTATTTTTGTTTCTT
1 TTAAAATTAACCCTCTTATTTTTGTTCCTT
36779831 T
1 T
36779832 AAATTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 20 0.71
31 8 0.29
ACGTcount: A:0.21, C:0.18, G:0.03, T:0.57
Consensus pattern (30 bp):
TTAAAATTAACCCTCTTATTTTTGTTCCTT
Found at i:36785824 original size:49 final size:48
Alignment explanation
Indices: 36785746--36786358 Score: 519
Period size: 49 Copynumber: 12.6 Consensus size: 48
36785736 ACCAAAGAAA
* * * * *
36785746 CATGAAGATGT-AATGGGAAAAGTTGAGGCCGTAACAGTGAACCCGATAC
1 CATGAAGATGTGAA--GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * **
36785795 CATGAAGATGTGATAGGAAAGGTTAAGGCCGCAATGGCGAACCCAATAC
1 CATGAAGATGTGA-AGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * ** * *
36785844 CATGAAGATATGAAGGGAAAGGTTAAGGCTACAATGGTGAACCCGGTAC
1 CATGAAGATGTGAA-GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * ** **
36785893 CTTAGAAGATGTAATAGG-AAGGATTGAGGGTGCAACGGCGAATTCGGTAC
1 CAT-GAAGATGTGA-AGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTAC
* *
36785943 CATGAAGATATGACGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
1 CATGAAGATGTGA-AGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * *
36785992 CATGAAGATATGACGGGAAAGGTTGAGGCTGCAACGGTGAACCCGGTAC
1 CATGAAGATGTGA-AGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * *
36786041 GATGAAGATTTGAAGGGAAAGGTTGAGGTCGCAACGGCGAACCTGGTAC
1 CATGAAGATGTGAA-GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* *
36786090 CATGAAGA--TGAAGGGAAAGGTTGAGGCCACAATGGCGAACCCGGTAC
1 CATGAAGATGTGAA-GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* **
36786137 CAT-----T-TGAAGGGAAAGGTTGAGGTCGCAACGGCGAACCTAGTAC
1 CATGAAGATGTGAA-GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * *
36786180 CATGAAGATATGAAGGGAAAGGTTGAGGACGTAACGACGAACCCAGTAC
1 CATGAAGATGTGAA-GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * *
36786229 CTTAGAAGATGTGATGGGAAAGGTTGAGGCTGTAACGACGAACTCGGTAC
1 CAT-GAAGATGTGA-AGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * *
36786279 CATGAAGATGTAAAGGGAAAGGTTGAGGTCGCAACGGCGAATCCGGTAC
1 CATGAAGATGTGAA-GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
*
36786328 CTTAGAAGATGTGATAGG-AAGGATTGAGGCC
1 CAT-GAAGATGTGA-AGGAAAGG-TTGAGGCC
36786359 ATAACAACGA
Statistics
Matches: 469, Mismatches: 74, Indels: 41
0.80 0.13 0.07
Matches are distributed among these distances:
43 37 0.08
47 38 0.08
48 2 0.00
49 293 0.62
50 96 0.20
51 3 0.01
ACGTcount: A:0.33, C:0.16, G:0.33, T:0.17
Consensus pattern (48 bp):
CATGAAGATGTGAAGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
Found at i:36786286 original size:99 final size:98
Alignment explanation
Indices: 36785746--36786357 Score: 563
Period size: 99 Copynumber: 6.3 Consensus size: 98
36785736 ACCAAAGAAA
* * * * * * *
36785746 CATGAAGATGT-AATGGGAAAAGTTGAGGCCGTAACAGTGAACCCGATACCATGAAGATGTGATA
1 CATGAAGATGTGAA-GGGAAAGGTTGAGGCTGCAACGGCGAACCCGGTACCATGAAGATATGA-A
* * **
36785810 -GGAAAGGTTAAGGCCGCAATGGCGAACCCAATAC
64 GGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * * *
36785844 CATGAAGATATGAAGGGAAAGGTTAAGGCTACAATGGTGAACCCGGTACCTTAGAAGATGT-AAT
1 CATGAAGATGTGAAGGGAAAGGTTGAGGCTGCAACGGCGAACCCGGTACCAT-GAAGATATGAA-
* ** **
36785908 AGG-AAGGATTGAGGGTGCAACGGCGAATTCGGTAC
64 GGGAAAGG-TTGAGGCCGCAACGGCGAACCCGGTAC
* * * *
36785943 CATGAAGATATGACGGGAAAGGTTGAGGCCGCAACGGCGAACCCGGTACCATGAAGATATGACGG
1 CATGAAGATGTGAAGGGAAAGGTTGAGGCTGCAACGGCGAACCCGGTACCATGAAGATATGAAGG
* *
36786008 GAAAGGTTGAGGCTGCAACGGTGAACCCGGTAC
66 GAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * *
36786041 GATGAAGATTTGAAGGGAAAGGTTGAGG-TCGCAACGGCGAACCTGGTACCATGAAG--ATGAAG
1 CATGAAGATGTGAAGGGAAAGGTTGAGGCT-GCAACGGCGAACCCGGTACCATGAAGATATGAAG
* *
36786103 GGAAAGGTTGAGGCCACAATGGCGAACCCGGTAC
65 GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
**
36786137 CAT-----T-TGAAGGGAAAGGTTGAGG-TCGCAACGGCGAACCTAGTACCATGAAGATATGAAG
1 CATGAAGATGTGAAGGGAAAGGTTGAGGCT-GCAACGGCGAACCCGGTACCATGAAGATATGAAG
* * * *
36786195 GGAAAGGTTGAGGACGTAACGACGAACCCAGTAC
65 GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
* * * * * * *
36786229 CTTAGAAGATGTGATGGGAAAGGTTGAGGCTGTAACGACGAACTCGGTACCATGAAGATGTAAAG
1 CAT-GAAGATGTGAAGGGAAAGGTTGAGGCTGCAACGGCGAACCCGGTACCATGAAGATATGAAG
* *
36786294 GGAAAGGTTGAGGTCGCAACGGCGAATCCGGTAC
65 GGAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
*
36786328 CTTAGAAGATGTGATA-GG-AAGGATTGAGGC
1 CAT-GAAGATGTGA-AGGGAAAGG-TTGAGGC
36786358 CATAACAACG
Statistics
Matches: 429, Mismatches: 65, Indels: 39
0.80 0.12 0.07
Matches are distributed among these distances:
90 45 0.10
91 1 0.00
92 36 0.08
96 37 0.09
97 1 0.00
98 131 0.31
99 177 0.41
100 1 0.00
ACGTcount: A:0.33, C:0.16, G:0.33, T:0.17
Consensus pattern (98 bp):
CATGAAGATGTGAAGGGAAAGGTTGAGGCTGCAACGGCGAACCCGGTACCATGAAGATATGAAGG
GAAAGGTTGAGGCCGCAACGGCGAACCCGGTAC
Found at i:36786370 original size:50 final size:50
Alignment explanation
Indices: 36786146--36786378 Score: 201
Period size: 50 Copynumber: 4.7 Consensus size: 50
36786136 CCATTTGAAG
* * * * * *
36786146 GGAAAGGTTGAGGTCGCAACGGCGAA-CCTAGTACCAT-GAAGATATGA-A
1 GGAAAGGTTGAGGCCGTAACGACGAATCC-GGTACCTTAGAAGATGTGATA
* * * *
36786194 GGGAAAGGTTGAGGACGTAACGACGAACCCAGTACCTTAGAAGATGTGATG
1 -GGAAAGGTTGAGGCCGTAACGACGAATCCGGTACCTTAGAAGATGTGATA
* * *
36786245 GGAAAGGTTGAGGCTGTAACGACGAA-CTCGGTACCAT-GAAGATGT-AAA
1 GGAAAGGTTGAGGCCGTAACGACGAATC-CGGTACCTTAGAAGATGTGATA
* * *
36786293 GGGAAAGGTTGAGGTCGCAACGGCGAATCCGGTACCTTAGAAGATGTGATA
1 -GGAAAGGTTGAGGCCGTAACGACGAATCCGGTACCTTAGAAGATGTGATA
* * *
36786344 GG-AAGGATTGAGGCCATAACAACGAATCCGATACC
1 GGAAAGG-TTGAGGCCGTAACGACGAATCCGGTACC
36786379 ATGGAAATAT
Statistics
Matches: 151, Mismatches: 24, Indels: 17
0.79 0.12 0.09
Matches are distributed among these distances:
48 1 0.01
49 73 0.48
50 75 0.50
51 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.32, T:0.18
Consensus pattern (50 bp):
GGAAAGGTTGAGGCCGTAACGACGAATCCGGTACCTTAGAAGATGTGATA
Found at i:36786428 original size:99 final size:99
Alignment explanation
Indices: 36786177--36786434 Score: 240
Period size: 99 Copynumber: 2.6 Consensus size: 99
36786167 GCGAACCTAG
* * * * * * *
36786177 TACCATGAAGATATGAAGGGAAAGGTTGAGGACGTAAC-GACGAACCCAGTACCTTAGAAGATGT
1 TACCATGAAGATATAAAAGAAAAGGTTGAGGTCGCAACAG-CGAAACCAATACCTTAGAAGATGT
* ** * *
36786241 GATGGGAAAGGTTGAGGCTGTAACGACGAACTCGG
65 GATAGGAAAGGTTGAGGCCATAACAACGAACTCGA
* * * * * **
36786276 TACCATGAAGATGTAAAGGGAAAGGTTGAGGTCGCAACGGCGAATCCGGTACCTTAGAAGATGTG
1 TACCATGAAGATATAAAAGAAAAGGTTGAGGTCGCAACAGCGAAACCAATACCTTAGAAGATGTG
36786341 ATAGG-AAGGATTGAGGCCATAACAACGAA-TCCGA
66 ATAGGAAAGG-TTGAGGCCATAACAACGAACT-CGA
*
36786375 TACCATGGAA-ATATAAAAAGAAAAGG-TGAGGTCGCAACATC-AAACCTAATACCTTAGAAG
1 TACCAT-GAAGATAT-AAAAGAAAAGGTTGAGGTCGCAACAGCGAAACC-AATACCTTAGAAG
36786435 CATGATGGGA
Statistics
Matches: 134, Mismatches: 19, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
98 9 0.07
99 112 0.84
100 13 0.10
ACGTcount: A:0.38, C:0.16, G:0.28, T:0.18
Consensus pattern (99 bp):
TACCATGAAGATATAAAAGAAAAGGTTGAGGTCGCAACAGCGAAACCAATACCTTAGAAGATGTG
ATAGGAAAGGTTGAGGCCATAACAACGAACTCGA
Found at i:36786916 original size:123 final size:123
Alignment explanation
Indices: 36786692--36787275 Score: 708
Period size: 123 Copynumber: 4.8 Consensus size: 123
36786682 CAGTAGAGTG
* * * * * * * *
36786692 GAGTAAAACTTAAAACCCTATCTTCCTGGTGAGGTACAGAGAAGTAGGTTAGATAATGAAGCGAT
1 GAGTGAAACTTCAGACCCTATCTTCCTGGTGAGGTACAAAGAAGTAGGTCAAACAATGAAGCGGT
* * *
36786757 CATCTTCTTGGTGAGAGACAGAGAAGTGTACCAAAATAATGAGGTAAAGCTCAAATAT
66 CATCTTCCTGGTGAGATACAGAGAAGTGTACCAAAATAATGAGGTAAAGCTCAAATGT
* **
36786815 GAGTGAAACTTCAGACCCTATCTTCCTGGTGAGGTGCAAAGAAGTAGGTCAGGCAATGAAGCGGT
1 GAGTGAAACTTCAGACCCTATCTTCCTGGTGAGGTACAAAGAAGTAGGTCAAACAATGAAGCGGT
* * *
36786880 CATCTTCCTGGTGAGATATAGAGAAGTGTACCAAAATAATGACGTAAAACTCAAATGT
66 CATCTTCCTGGTGAGATACAGAGAAGTGTACCAAAATAATGAGGTAAAGCTCAAATGT
* * * *
36786938 GAGTGAAACCTCAGAACCC-ATCTTCCTGGTGAGGTAC-AGGAAGTAGATCAAACAATGAAGTGG
1 GAGTGAAACTTCAG-ACCCTATCTTCCTGGTGAGGTACAAAGAAGTAGGTCAAACAATGAAGCGG
* *
36787001 TCATCTTCCTGGTGAGATACAGAGAAGTGTATCAAAATAATGAGGTGAAGCTCAAATGT
65 TCATCTTCCTGGTGAGATACAGAGAAGTGTACCAAAATAATGAGGTAAAGCTCAAATGT
* * * *
36787060 GAGTGGAACTTCAGACCCCATCTTCCTGGTGAGGTACAGAGAAGTAGGTCAAACAATGAAGTGGT
1 GAGTGAAACTTCAGACCCTATCTTCCTGGTGAGGTACAAAGAAGTAGGTCAAACAATGAAGCGGT
* * * * *
36787125 CATCTTCTTGGTAAGATACAAAGAAGTGTACCAAAATCATGAGGTGAAGCTCAAATGT
66 CATCTTCCTGGTGAGATACAGAGAAGTGTACCAAAATAATGAGGTAAAGCTCAAATGT
* * * * * * * * ** *
36787183 GAGTGAAACTTCAAATGCC-ATCTTTCTGGTGCGATACAGAGAAGT-GGGCAAAATAACAAAGCA
1 GAGTGAAACTTCAGA-CCCTATCTTCCTGGTGAGGTACAAAGAAGTAGGTC-AAACAATGAAGCG
* *
36787246 GTCATTTTCTTGGTGAGATACAGAGAAGTG
64 GTCATCTTCCTGGTGAGATACAGAGAAGTG
36787276 GGTAAAACAA
Statistics
Matches: 404, Mismatches: 52, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
121 4 0.01
122 108 0.27
123 286 0.71
124 6 0.01
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (123 bp):
GAGTGAAACTTCAGACCCTATCTTCCTGGTGAGGTACAAAGAAGTAGGTCAAACAATGAAGCGGT
CATCTTCCTGGTGAGATACAGAGAAGTGTACCAAAATAATGAGGTAAAGCTCAAATGT
Found at i:36787180 original size:245 final size:245
Alignment explanation
Indices: 36786704--36787227 Score: 735
Period size: 245 Copynumber: 2.1 Consensus size: 245
36786694 GTAAAACTTA
* * * * *
36786704 AAACCCTATCTTCCTGGTGAGGTACAGAGAAGTAGGTTAGATAATGAAGCGATCATCTTCTTGGT
1 AAACCC-ATCTTCCTGGTGAGGTACAGAGAAGTAGATCAAACAATGAAGCGATCATCTTCCTGGT
*
36786769 GAGAGACAGAGAAGTGTACCAAAATAATGAGGTAAAGCTCAAATATGAGTGAAACTTCAGACCCT
65 GAGAGACAGAGAAGTGTACCAAAATAATGAGGTAAAGCTCAAATATGAGTGAAACTTCAGACCCC
* ** * *
36786834 ATCTTCCTGGTGAGGTGCAAAGAAGTAGGTCAGGCAATGAAGCGGTCATCTTCCTGGTGAGATAT
130 ATCTTCCTGGTGAGGTACAAAGAAGTAGGTCAAACAATGAAGCGGTCATCTTCCTGGTAAGATAC
*
36786899 AGAGAAGTGTACCAAAATAATGACGTAAAACTCAAATGTGAGTGAAACCTC
195 AAAGAAGTGTACCAAAATAATGACGTAAAACTCAAATGTGAGTGAAACCTC
* *
36786950 AGAACCCATCTTCCTGGTGAGGTACAG-GAAGTAGATCAAACAATGAAGTGGTCATCTTCCTGGT
1 A-AACCCATCTTCCTGGTGAGGTACAGAGAAGTAGATCAAACAATGAAGCGATCATCTTCCTGGT
* * * * *
36787014 GAGATACAGAGAAGTGTATCAAAATAATGAGGTGAAGCTCAAATGTGAGTGGAACTTCAGACCCC
65 GAGAGACAGAGAAGTGTACCAAAATAATGAGGTAAAGCTCAAATATGAGTGAAACTTCAGACCCC
* * *
36787079 ATCTTCCTGGTGAGGTACAGAGAAGTAGGTCAAACAATGAAGTGGTCATCTTCTTGGTAAGATAC
130 ATCTTCCTGGTGAGGTACAAAGAAGTAGGTCAAACAATGAAGCGGTCATCTTCCTGGTAAGATAC
* * * * *
36787144 AAAGAAGTGTACCAAAATCATGAGGTGAAGCTCAAATGTGAGTGAAACTTC
195 AAAGAAGTGTACCAAAATAATGACGTAAAACTCAAATGTGAGTGAAACCTC
* * * *
36787195 AAATGCCATCTTTCTGGTGCGATACAGAGAAGT
1 AAA-CCCATCTTCCTGGTGAGGTACAGAGAAGT
36787228 GGGCAAAATA
Statistics
Matches: 244, Mismatches: 31, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
244 2 0.01
245 211 0.86
246 26 0.11
247 5 0.02
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.24
Consensus pattern (245 bp):
AAACCCATCTTCCTGGTGAGGTACAGAGAAGTAGATCAAACAATGAAGCGATCATCTTCCTGGTG
AGAGACAGAGAAGTGTACCAAAATAATGAGGTAAAGCTCAAATATGAGTGAAACTTCAGACCCCA
TCTTCCTGGTGAGGTACAAAGAAGTAGGTCAAACAATGAAGCGGTCATCTTCCTGGTAAGATACA
AAGAAGTGTACCAAAATAATGACGTAAAACTCAAATGTGAGTGAAACCTC
Found at i:36787273 original size:47 final size:46
Alignment explanation
Indices: 36787205--36787321 Score: 171
Period size: 47 Copynumber: 2.5 Consensus size: 46
36787195 AAATGCCATC
* * *
36787205 TTTCTGGTGCGATACAGAGAAGTGGGCAAAATAACAAAGCAGTCAT
1 TTTCTGGTGAGATACAGAGAAGTGGGCAAAACAACAAAGCAATCAT
*
36787251 TTTCTTGGTGAGATACAGAGAAGTGGGTAAAACAACAAAGCAATCAT
1 TTTC-TGGTGAGATACAGAGAAGTGGGCAAAACAACAAAGCAATCAT
*
36787298 CTTCCTGGTGAGATACAGAGAAGT
1 -TTTCTGGTGAGATACAGAGAAGT
36787322 AGATCAAAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
46 4 0.06
47 57 0.89
48 3 0.05
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.23
Consensus pattern (46 bp):
TTTCTGGTGAGATACAGAGAAGTGGGCAAAACAACAAAGCAATCAT
Found at i:36789123 original size:31 final size:29
Alignment explanation
Indices: 36789057--36789165 Score: 96
Period size: 29 Copynumber: 3.7 Consensus size: 29
36789047 ATTTTACCTA
* * * *
36789057 TTTATTATGATTTTTTTAAGATTAAATCC
1 TTTATTTTTATTTTTTTAAAATTAAACCC
*
36789086 TTTATTTTTATTTTTGTTAAAATTCAACCC
1 TTTATTTTTATTTTT-TTAAAATTAAACCC
*
36789116 TCTTATTTTTGTTCTTTTTAAAATT--ACCC
1 T-TTATTTTTATT-TTTTTAAAATTAAACCC
* *
36789145 TTTCATTTTTGTTTCTTTAAA
1 TTT-ATTTTTATTTTTTTAAA
36789166 TTTTTTTAAT
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
28 9 0.13
29 27 0.39
30 12 0.17
31 18 0.26
32 3 0.04
ACGTcount: A:0.25, C:0.12, G:0.05, T:0.59
Consensus pattern (29 bp):
TTTATTTTTATTTTTTTAAAATTAAACCC
Found at i:36789154 original size:29 final size:30
Alignment explanation
Indices: 36789084--36789162 Score: 92
Period size: 31 Copynumber: 2.6 Consensus size: 30
36789074 AAGATTAAAT
*
36789084 CCTTTATTTTTATT-TTTGTTAAAATTCAAC
1 CCTTTATTTTTGTTCTTTGTTAAAATT-AAC
36789114 CCTCTTATTTTTGTTCTTT-TTAAAATT-AC
1 CCT-TTATTTTTGTTCTTTGTTAAAATTAAC
36789143 CCTTTCATTTTTGTTTCTTT
1 CCTTT-ATTTTTG-TTCTTT
36789163 AAATTTTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
28 2 0.05
29 12 0.27
30 9 0.20
31 18 0.41
32 3 0.07
ACGTcount: A:0.19, C:0.16, G:0.04, T:0.61
Consensus pattern (30 bp):
CCTTTATTTTTGTTCTTTGTTAAAATTAAC
Found at i:36791512 original size:13 final size:14
Alignment explanation
Indices: 36791494--36791523 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
36791484 GTCAACATAA
36791494 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
36791507 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
36791521 TCA
1 TCA
36791524 ATGTACAGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:36797032 original size:33 final size:31
Alignment explanation
Indices: 36796995--36797067 Score: 78
Period size: 33 Copynumber: 2.3 Consensus size: 31
36796985 TTTTAAGTAT
*
36796995 TTTTTTAAAAAAAATTTATAATATTTTACAACA
1 TTTTTTAAAAAAAATTTATAACATTTTA-AA-A
**
36797028 TTTTTCT-AAAAACTTTTATAACATTTTAAAA
1 TTTTT-TAAAAAAAATTTATAACATTTTAAAA
36797059 -TTTTTAAAA
1 TTTTTTAAAA
36797068 TTTTTAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
29 1 0.03
30 7 0.20
31 1 0.03
32 2 0.06
33 23 0.66
34 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (31 bp):
TTTTTTAAAAAAAATTTATAACATTTTAAAA
Found at i:36797065 original size:9 final size:9
Alignment explanation
Indices: 36797051--36797083 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
36797041 TTTTATAACA
36797051 TTTTAAAAT
1 TTTTAAAAT
36797060 TTTTAAAAT
1 TTTTAAAAT
36797069 TTTTAAAAT
1 TTTTAAAAT
36797078 TATTTA
1 T-TTTA
36797084 TATTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 19 0.83
10 4 0.17
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:36799698 original size:147 final size:147
Alignment explanation
Indices: 36799431--36799722 Score: 523
Period size: 147 Copynumber: 2.0 Consensus size: 147
36799421 AATTTGAACA
* *
36799431 TGAGGGATATCGCTCGAGACTCTGGTAACATGCATGTGTTCTTTTACAATCGAATAAGGGAAAAC
1 TGAGGGACATCACTCGAGACTCTGGTAACATGCATGTGTTCTTTTACAATCGAATAAGGGAAAAC
*
36799496 TGTGTCTAGGGCCACTCGTGGACCACACAGACCATCACACGATTATGTTCCCCAAAAACCCAAGG
66 TGTGCCTAGGGCCACTCGTGGACCACACAGACCATCACACGATTATGTTCCCCAAAAACCCAAGG
*
36799561 TTTTTTTATTTTCACAT
131 TTTTTTGATTTTCACAT
*
36799578 TGAGGGACATCACTCGAGATTCTGGTAACATGCATGTGTTCTTTTACAATCGAATCAA-GGAAAA
1 TGAGGGACATCACTCGAGACTCTGGTAACATGCATGTGTTCTTTTACAATCGAAT-AAGGGAAAA
36799642 CTGTGCCTAGGGCCACTCGTGGACCACACAGACCATCACACGATTATGTTCCCCAAAAACCCAAG
65 CTGTGCCTAGGGCCACTCGTGGACCACACAGACCATCACACGATTATGTTCCCCAAAAACCCAAG
36799707 GTTTTTTGATTTTCAC
130 GTTTTTTGATTTTCAC
36799723 GTGGCCTTAG
Statistics
Matches: 139, Mismatches: 5, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
147 137 0.99
148 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.28
Consensus pattern (147 bp):
TGAGGGACATCACTCGAGACTCTGGTAACATGCATGTGTTCTTTTACAATCGAATAAGGGAAAAC
TGTGCCTAGGGCCACTCGTGGACCACACAGACCATCACACGATTATGTTCCCCAAAAACCCAAGG
TTTTTTGATTTTCACAT
Found at i:36799868 original size:27 final size:27
Alignment explanation
Indices: 36799823--36799985 Score: 141
Period size: 27 Copynumber: 6.0 Consensus size: 27
36799813 GTCTCCCTTA
*
36799823 TTTTTAGATTTTACAAATTTGCCCCTAT
1 TTTTTAGATTTTAC-AATTTTCCCCTAT
36799851 TTTTTAGATTTTACAATTTTCCCCTAT
1 TTTTTAGATTTTACAATTTTCCCCTAT
** * * *
36799878 TTTCCATATTTT-CTAGTTTTTCCCT-T
1 TTTTTAGATTTTAC-AATTTTCCCCTAT
* * * *
36799904 TTATTAGATTTTATTATTTTTTCCCTAT
1 TTTTTAGATTTTA-CAATTTTCCCCTAT
* * * *
36799932 TGTTCAAATTTTACAATTTCCCCCTAT
1 TTTTTAGATTTTACAATTTTCCCCTAT
*
36799959 TTTTTAGATTTTACAGTTTTTCCCCTA
1 TTTTTAGATTTTACA-ATTTTCCCCTA
36799986 CTTTACAAAT
Statistics
Matches: 105, Mismatches: 25, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
26 10 0.10
27 62 0.59
28 33 0.31
ACGTcount: A:0.21, C:0.19, G:0.05, T:0.55
Consensus pattern (27 bp):
TTTTTAGATTTTACAATTTTCCCCTAT
Found at i:36802144 original size:35 final size:36
Alignment explanation
Indices: 36802053--36802191 Score: 183
Period size: 36 Copynumber: 3.9 Consensus size: 36
36802043 TGATCGTTAT
* * *
36802053 TCATTTTGCTCCCTGTTAACCCCAAAGGTCATGATGC
1 TCATTTTACTCCCTGTTGA-CCCAAAGGTCATTATGC
*
36802090 TCGTTTTACTCCCTGTTGACCCAATA-GTCATTATGC
1 TCATTTTACTCCCTGTTGACCCAA-AGGTCATTATGC
36802126 TCATTTT-CTCCCTGTTGACCCAAAGGTCATTATGC
1 TCATTTTACTCCCTGTTGACCCAAAGGTCATTATGC
* * *
36802161 TCATTTTTCTCCTTATTGACCCAAAGGTCAT
1 TCATTTTACTCCCTGTTGACCCAAAGGTCAT
36802192 GCCTATTACC
Statistics
Matches: 92, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
34 1 0.01
35 33 0.36
36 41 0.45
37 17 0.18
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.37
Consensus pattern (36 bp):
TCATTTTACTCCCTGTTGACCCAAAGGTCATTATGC
Found at i:36808892 original size:116 final size:116
Alignment explanation
Indices: 36808757--36809004 Score: 372
Period size: 116 Copynumber: 2.1 Consensus size: 116
36808747 CCTGCAACTT
* * * *
36808757 CTACCGATACAAGTATTTAAGCTA-CAGATACCTCAATGTACAGAACTACTGATACCTGTTATAC
1 CTACCGATACAAGCATTTAAACTACCA-ATACCACAATGTAAAGAACTACTGATACCTGTTATAC
* * *
36808821 AACTACCGAAATAACTCAAGTTAGAGAACAACCTCTCTCTTACCCTGTACTA
65 AACTACCAAAACAACTCAAGTTAAAGAACAACCTCTCTCTTACCCTGTACTA
* *
36808873 CTACCGATACAAGCATTTAAACTACCAATACCACAATGTAAAGAACTATTGATACTTGTTATACA
1 CTACCGATACAAGCATTTAAACTACCAATACCACAATGTAAAGAACTACTGATACCTGTTATACA
* * *
36808938 ACTACCAAAACAACTCAAGTTAAAGAACAGCCTCTCTCTTACCTTGTACTT
66 ACTACCAAAACAACTCAAGTTAAAGAACAACCTCTCTCTTACCCTGTACTA
36808989 CTACCGATACAAGCAT
1 CTACCGATACAAGCAT
36809005 GAGTTCTACC
Statistics
Matches: 119, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
116 117 0.98
117 2 0.02
ACGTcount: A:0.38, C:0.26, G:0.10, T:0.27
Consensus pattern (116 bp):
CTACCGATACAAGCATTTAAACTACCAATACCACAATGTAAAGAACTACTGATACCTGTTATACA
ACTACCAAAACAACTCAAGTTAAAGAACAACCTCTCTCTTACCCTGTACTA
Found at i:36809569 original size:35 final size:36
Alignment explanation
Indices: 36809496--36809596 Score: 114
Period size: 35 Copynumber: 2.8 Consensus size: 36
36809486 TTATTATTCG
* *
36809496 TTTTACTCTCTATTGACCCCAAAGGTCATGATGATCA
1 TTTTACTCCCTATT-AACCCAAAGGTCATGATGATCA
* *
36809533 TTTTACTCCCTATTAACCCAAA-GTCATTATGCTCA
1 TTTTACTCCCTATTAACCCAAAGGTCATGATGATCA
* * * *
36809568 TTTTTCTCCCTGTTAACCTAGAGGTCATG
1 TTTTACTCCCTATTAACCCAAAGGTCATG
36809597 CCTGTTACCA
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
35 29 0.54
36 12 0.22
37 13 0.24
ACGTcount: A:0.25, C:0.26, G:0.12, T:0.38
Consensus pattern (36 bp):
TTTTACTCCCTATTAACCCAAAGGTCATGATGATCA
Found at i:36815325 original size:56 final size:55
Alignment explanation
Indices: 36815258--36815385 Score: 159
Period size: 56 Copynumber: 2.3 Consensus size: 55
36815248 TTTGGAAAAT
* *
36815258 AGTATGCACACACGGTCT-GAGACATGCCCGTGTGCCCAACCCGTGTCTCACTAAAC
1 AGTATGCACACACGAT-TAGAG-CACGCCCGTGTGCCCAACCCGTGTCTCACTAAAC
* * * * *
36815314 AGTATGTACACACGATTAGATGCACGCTCGTGTGCCCAGCCCGTGTGTCACTAAAT
1 AGTATGCACACACGATTAGA-GCACGCCCGTGTGCCCAACCCGTGTCTCACTAAAC
36815370 AGTATGCACACACGAT
1 AGTATGCACACACGAT
36815386 CGGGTACATG
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
55 1 0.02
56 60 0.97
57 1 0.02
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.22
Consensus pattern (55 bp):
AGTATGCACACACGATTAGAGCACGCCCGTGTGCCCAACCCGTGTCTCACTAAAC
Found at i:36818016 original size:52 final size:52
Alignment explanation
Indices: 36817942--36818073 Score: 210
Period size: 52 Copynumber: 2.5 Consensus size: 52
36817932 GTAAACGAAA
*
36817942 AGGTCCGATGACTAAGTGTCATCGTGAGTATATGAATCATTTACGAATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCATTTACGAATTATG
* * * *
36817994 AGGTCCAATGACTATGTATCATCGTGAGTATATGAATCCTTTACGGATTATG
1 AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCATTTACGAATTATG
*
36818046 AGGTCCGATGACTATGTGTCATCATGAG
1 AGGTCCGATGACTATGTGTCATCGTGAG
36818074 CATAAAATGA
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.33
Consensus pattern (52 bp):
AGGTCCGATGACTATGTGTCATCGTGAGTATATGAATCATTTACGAATTATG
Found at i:36825302 original size:29 final size:29
Alignment explanation
Indices: 36825236--36825302 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
36825226 ATCAAATGTG
* *
36825236 TTATTAATTTTTATCATCTCATAATTTAT
1 TTATGAATTTTTATCATCTCATAATTAAT
* *
36825265 TTATTAATTTTTATCATCTTATAATTAA-
1 TTATGAATTTTTATCATCTCATAATTAAT
36825293 TTATAGAATT
1 TTAT-GAATT
36825303 ATTAAAAAGT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 4 0.12
29 30 0.88
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.57
Consensus pattern (29 bp):
TTATGAATTTTTATCATCTCATAATTAAT
Found at i:36825360 original size:30 final size:31
Alignment explanation
Indices: 36825299--36825362 Score: 78
Period size: 30 Copynumber: 2.1 Consensus size: 31
36825289 TTAATTATAG
* * *
36825299 AATTATTAAAAAGTATTAGAAATTTATAAAT
1 AATTATTAAAAACTAATAGAAATTTAAAAAT
36825330 AATTA-TAAAAACTAATA-AAATATTAAAAAT
1 AATTATTAAAAACTAATAGAAAT-TTAAAAAT
36825360 AAT
1 AAT
36825363 AGGTTATATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 4 0.14
30 20 0.69
31 5 0.17
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (31 bp):
AATTATTAAAAACTAATAGAAATTTAAAAAT
Found at i:36825446 original size:21 final size:20
Alignment explanation
Indices: 36825419--36825488 Score: 56
Period size: 21 Copynumber: 3.5 Consensus size: 20
36825409 AATAGTTACC
36825419 AAAATTTTTTTAAATGTTAT
1 AAAATTTTTTTAAATGTTAT
**
36825439 AAACA---TTTTAGAATAATAT
1 AAA-ATTTTTTTA-AATGTTAT
*
36825458 ATAAATTTTATTAAATGTTAT
1 A-AAATTTTTTTAAATGTTAT
36825479 AAATATTTTT
1 AAA-ATTTTT
36825489 GTATTCTCTC
Statistics
Matches: 37, Mismatches: 6, Indels: 13
0.66 0.11 0.23
Matches are distributed among these distances:
18 5 0.14
19 8 0.22
20 7 0.19
21 13 0.35
22 4 0.11
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (20 bp):
AAAATTTTTTTAAATGTTAT
Found at i:36825479 original size:19 final size:19
Alignment explanation
Indices: 36825420--36825482 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
36825410 ATAGTTACCA
*
36825420 AAATTTTTTTAAATGTTAT
1 AAATTTTATTAAATGTTAT
** *
36825439 AAACATTTTAGAATAAT-ATAT
1 -AA-ATTTTATTA-AATGTTAT
36825460 AAATTTTATTAAATGTTAT
1 AAATTTTATTAAATGTTAT
36825479 AAAT
1 AAAT
36825483 ATTTTTGTAT
Statistics
Matches: 33, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
18 3 0.09
19 14 0.42
20 4 0.12
21 9 0.27
22 3 0.09
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.48
Consensus pattern (19 bp):
AAATTTTATTAAATGTTAT
Found at i:36826070 original size:19 final size:19
Alignment explanation
Indices: 36826019--36826061 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
36826009 TCTCAAAGTC
* * *
36826019 ATTTGTAACATTTTTTAAA
1 ATTTTTAACAATTTCTAAA
36826038 ATTTTTAACAATTTCTAAA
1 ATTTTTAACAATTTCTAAA
36826057 ATTTT
1 ATTTT
36826062 ATACTATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (19 bp):
ATTTTTAACAATTTCTAAA
Found at i:36826187 original size:18 final size:18
Alignment explanation
Indices: 36826166--36826203 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
36826156 TTTTATAACA
36826166 TTTTAAAATTTTCTATAT
1 TTTTAAAATTTTCTATAT
*
36826184 TTTTAATATTTTCTATAT
1 TTTTAAAATTTTCTATAT
36826202 TT
1 TT
36826204 ATTTATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTAAAATTTTCTATAT
Found at i:36826212 original size:22 final size:19
Alignment explanation
Indices: 36826181--36826227 Score: 51
Period size: 22 Copynumber: 2.4 Consensus size: 19
36826171 AAATTTTCTA
*
36826181 TATTTTTAATATTTTCTATATT
1 TATTTATAAT-TTTT-TA-ATT
36826203 TATTTATAATTTTTTAATT
1 TATTTATAATTTTTTAATT
36826222 T-TTTAT
1 TATTTAT
36826228 GAAATTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 5 0.21
19 4 0.17
20 2 0.08
21 4 0.17
22 9 0.38
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (19 bp):
TATTTATAATTTTTTAATT
Found at i:36829983 original size:19 final size:19
Alignment explanation
Indices: 36829959--36829996 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
36829949 ATGATCATGT
* *
36829959 CAATGCACATTTTTTAAAA
1 CAATGCAAATTTTGTAAAA
36829978 CAATGCAAATTTTGTAAAA
1 CAATGCAAATTTTGTAAAA
36829997 GTTCATACCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (19 bp):
CAATGCAAATTTTGTAAAA
Found at i:36838878 original size:39 final size:39
Alignment explanation
Indices: 36838835--36838914 Score: 119
Period size: 39 Copynumber: 2.1 Consensus size: 39
36838825 AAATTCTTGT
36838835 TCTGAACAAATGCAGT-CACATAAGC-AGATGCAACCACAA
1 TCTGAACAAATGCA-TCCACATAA-CTAGATGCAACCACAA
*
36838874 TCTGAACAAATGCATCCACATAACTAGATGCAACCATAA
1 TCTGAACAAATGCATCCACATAACTAGATGCAACCACAA
36838913 TC
1 TC
36838915 GCGATTACAG
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
38 2 0.05
39 36 0.95
ACGTcount: A:0.42, C:0.26, G:0.12, T:0.19
Consensus pattern (39 bp):
TCTGAACAAATGCATCCACATAACTAGATGCAACCACAA
Found at i:36846216 original size:6 final size:6
Alignment explanation
Indices: 36846186--36846235 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
36846176 AGTCACTTAA
* *
36846186 AAAAAT AAAAA- AATAAA- AAAGAG AAAAAG AAGAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AA-AAAG AAAAAG AAAAAG AA-AAAG AAAAAG AAAAAG
36846234 AA
1 AA
36846236 TAAATTGCTG
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
5 4 0.10
6 29 0.74
7 6 0.15
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:36850491 original size:20 final size:21
Alignment explanation
Indices: 36850455--36850493 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36850445 CATTTTTTTA
*
36850455 TTTACTTTTATTTGTTTCACT
1 TTTACTTTTAGTTGTTTCACT
36850476 TTTACTTTT-GTTGTTTCA
1 TTTACTTTTAGTTGTTTCA
36850494 AATTCCTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.13, C:0.13, G:0.08, T:0.67
Consensus pattern (21 bp):
TTTACTTTTAGTTGTTTCACT
Found at i:36856274 original size:13 final size:13
Alignment explanation
Indices: 36856256--36856280 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
36856246 CCTTTTGTAT
36856256 CATTTTTAGCATG
1 CATTTTTAGCATG
36856269 CATTTTTAGCAT
1 CATTTTTAGCAT
36856281 TTCATACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (13 bp):
CATTTTTAGCATG
Found at i:36859144 original size:18 final size:18
Alignment explanation
Indices: 36859113--36859147 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
36859103 CGCGCAAGCG
*
36859113 GACCAGATGCGATCACAT
1 GACCAAATGCGATCACAT
*
36859131 GACCAAATGTGATCACA
1 GACCAAATGCGATCACA
36859148 GTCCTAGATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.17
Consensus pattern (18 bp):
GACCAAATGCGATCACAT
Found at i:36859220 original size:18 final size:18
Alignment explanation
Indices: 36859176--36859212 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
36859166 CAATCAGATA
36859176 CAGCCACAAGTTCGAATG
1 CAGCCACAAGTTCGAATG
36859194 CAGCCACAAGTTCGAATG
1 CAGCCACAAGTTCGAATG
36859212 C
1 C
36859213 CACTACAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.30, G:0.22, T:0.16
Consensus pattern (18 bp):
CAGCCACAAGTTCGAATG
Found at i:36866084 original size:20 final size:20
Alignment explanation
Indices: 36866046--36866095 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
36866036 CTACAATTTG
36866046 GTATCGATACTATTCTAAAA
1 GTATCGATACTATTCTAAAA
* *
36866066 TTATCGATACTCGTT-TAAAA
1 GTATCGATACT-ATTCTAAAA
*
36866086 GTATTGATAC
1 GTATCGATAC
36866096 AATGGGCTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (20 bp):
GTATCGATACTATTCTAAAA
Found at i:36869552 original size:23 final size:23
Alignment explanation
Indices: 36869518--36869570 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
36869508 TAGGTGAGAT
36869518 GAGAAAAGAAATGAAGAAAGGAG
1 GAGAAAAGAAATGAAGAAAGGAG
* *
36869541 GAGAAAATAAATGAAGAATGGAG
1 GAGAAAAGAAATGAAGAAAGGAG
*
36869564 AAGAAAA
1 GAGAAAA
36869571 AAGGGGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.30, T:0.08
Consensus pattern (23 bp):
GAGAAAAGAAATGAAGAAAGGAG
Found at i:36872829 original size:16 final size:16
Alignment explanation
Indices: 36872805--36872895 Score: 61
Period size: 16 Copynumber: 6.1 Consensus size: 16
36872795 AAAACTTATC
* *
36872805 TCACTATCTATTGTTT
1 TCACAATCTATAGTTT
*
36872821 TCACAATCTAGAGTTTT
1 TCACAATCTATAG-TTT
*
36872838 TCTCAATCTATAG-TT
1 TCACAATCTATAGTTT
36872853 T--C---CTATAGTTT
1 TCACAATCTATAGTTT
* *
36872864 TCACAGTTTATAGTTT
1 TCACAATCTATAGTTT
*
36872880 TCA-TATCTATAGTTT
1 TCACAATCTATAGTTT
36872895 T
1 T
36872896 ACATCTAAAT
Statistics
Matches: 59, Mismatches: 9, Indels: 15
0.71 0.11 0.18
Matches are distributed among these distances:
10 6 0.10
11 3 0.05
13 2 0.03
15 13 0.22
16 21 0.36
17 14 0.24
ACGTcount: A:0.24, C:0.16, G:0.09, T:0.51
Consensus pattern (16 bp):
TCACAATCTATAGTTT
Found at i:36872844 original size:17 final size:17
Alignment explanation
Indices: 36872818--36872853 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
36872808 CTATCTATTG
36872818 TTTTCACAATCTAGAGT
1 TTTTCACAATCTAGAGT
* *
36872835 TTTTCTCAATCTATAGT
1 TTTTCACAATCTAGAGT
36872852 TT
1 TT
36872854 CCTATAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.25, C:0.17, G:0.08, T:0.50
Consensus pattern (17 bp):
TTTTCACAATCTAGAGT
Found at i:36873442 original size:30 final size:29
Alignment explanation
Indices: 36873382--36873444 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 29
36873372 TTATCGCAAA
* *
36873382 ATAAAAGCCCAACTAAAATTATAAAGTCC
1 ATAAAAGCCCAAATAAAAATATAAAGTCC
36873411 ATAAAAGTCCCAAAATAAAAATATAAA-TCC
1 ATAAAAG-CCC-AAATAAAAATATAAAGTCC
36873441 ATAA
1 ATAA
36873445 CCATGAAAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 7 0.23
30 10 0.33
31 13 0.43
ACGTcount: A:0.57, C:0.17, G:0.05, T:0.21
Consensus pattern (29 bp):
ATAAAAGCCCAAATAAAAATATAAAGTCC
Found at i:36873841 original size:14 final size:15
Alignment explanation
Indices: 36873817--36873847 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
36873807 GAGTTGTTTG
36873817 AAAGCATAAAAATAA
1 AAAGCATAAAAATAA
36873832 AAAG-ATAAAAATAA
1 AAAGCATAAAAATAA
36873846 AA
1 AA
36873848 TAAAGTAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.13
Consensus pattern (15 bp):
AAAGCATAAAAATAA
Found at i:36876992 original size:27 final size:28
Alignment explanation
Indices: 36876908--36876996 Score: 99
Period size: 28 Copynumber: 3.2 Consensus size: 28
36876898 TAGTTACATT
* * *
36876908 TTCCTTAAGAGTTTCATCATACGTACTA
1 TTCCTTTAGAGTTTCACCATACGTAATA
* *
36876936 TTCCATTAGAGTTTCACCATACATAATA
1 TTCCTTTAGAGTTTCACCATACGTAATA
** *
36876964 TTCCTTTAGA-TTTTTCCATACGTATTA
1 TTCCTTTAGAGTTTCACCATACGTAATA
36876991 TTCCTT
1 TTCCTT
36876997 CAAAGTTTTT
Statistics
Matches: 51, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 19 0.37
28 32 0.63
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.44
Consensus pattern (28 bp):
TTCCTTTAGAGTTTCACCATACGTAATA
Found at i:36877188 original size:27 final size:26
Alignment explanation
Indices: 36877158--36877265 Score: 74
Period size: 27 Copynumber: 3.9 Consensus size: 26
36877148 GAAGGTGTTC
36877158 CTTTCCATAGATCACCACAAAGGCTTT
1 CTTT-CATAGATCACCACAAAGGCTTT
* ** *
36877185 CTTTTCAAAGATTTCCACAAAAGC-TT
1 C-TTTCATAGATCACCACAAAGGCTTT
* * *
36877211 CAATTTCATAAATTACCACAAAGGCTTC
1 C--TTTCATAGATCACCACAAAGGCTTT
36877239 CTTTCATTCAGATCTCACCACAAAGGC
1 CTTTCA-T-AGA--TCACCACAAAGGC
36877266 GGACTTCAAG
Statistics
Matches: 62, Mismatches: 12, Indels: 11
0.73 0.14 0.13
Matches are distributed among these distances:
26 8 0.13
27 35 0.56
28 7 0.11
30 12 0.19
ACGTcount: A:0.33, C:0.28, G:0.09, T:0.30
Consensus pattern (26 bp):
CTTTCATAGATCACCACAAAGGCTTT
Found at i:36877243 original size:26 final size:26
Alignment explanation
Indices: 36877155--36877245 Score: 85
Period size: 27 Copynumber: 3.4 Consensus size: 26
36877145 CACGAAGGTG
* *
36877155 TTCCTTTCCATAGATCACCACAAAGGC
1 TTCCTTT-CATAAATTACCACAAAGGC
* * *
36877182 TTTCTTTTCA-AAGATTTCCACAAAAGC
1 -TTCCTTTCATAA-ATTACCACAAAGGC
*
36877209 TTCAATTTCATAAATTACCACAAAGGC
1 TTC-CTTTCATAAATTACCACAAAGGC
36877236 TTCCTTTCAT
1 TTCCTTTCAT
36877246 TCAGATCTCA
Statistics
Matches: 51, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
26 10 0.20
27 33 0.65
28 8 0.16
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (26 bp):
TTCCTTTCATAAATTACCACAAAGGC
Found at i:36885193 original size:27 final size:27
Alignment explanation
Indices: 36885106--36885194 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
36885096 CATGAAGGAA
* *
36885106 TTCCTTTCCGTAGATCGCCACAAAGGC
1 TTCCTTTCCATAGATTGCCACAAAGGC
** * * *
36885133 TTTATTTTCATAAATTGCCATAAAGGC
1 TTCCTTTCCATAGATTGCCACAAAGGC
* *
36885160 TTTCTTTCCATAGATTGCCACAAAAGC
1 TTCCTTTCCATAGATTGCCACAAAGGC
36885187 TTCCTTTC
1 TTCCTTTC
36885195 ATTAAAAACT
Statistics
Matches: 49, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (27 bp):
TTCCTTTCCATAGATTGCCACAAAGGC
Found at i:36888204 original size:34 final size:34
Alignment explanation
Indices: 36888170--36888242 Score: 112
Period size: 34 Copynumber: 2.2 Consensus size: 34
36888160 CATGAGATTA
36888170 AAGGCT-GATTAGGAGGGTTCAAGAACACAAATT
1 AAGGCTGGATTAGGAGGGTTCAAGAACACAAATT
* *
36888203 AATGCTGGATTAGGAGGGTTCAGGAACACAAATT
1 AAGGCTGGATTAGGAGGGTTCAAGAACACAAATT
*
36888237 GAGGCT
1 AAGGCT
36888243 AGAATCAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
33 5 0.14
34 30 0.86
ACGTcount: A:0.36, C:0.12, G:0.30, T:0.22
Consensus pattern (34 bp):
AAGGCTGGATTAGGAGGGTTCAAGAACACAAATT
Found at i:36890146 original size:27 final size:26
Alignment explanation
Indices: 36890066--36890159 Score: 100
Period size: 27 Copynumber: 3.5 Consensus size: 26
36890056 TCAGAATTCT
* *
36890066 CCACAAAGGCATTTTGTCAGAGGTCG
1 CCACAAAGGCATTTTATCAGAGGTCA
** *
36890092 CCACAAAGAAATTTTTATCAAAGGTCA
1 CCACAAAGGCA-TTTTATCAGAGGTCA
*
36890119 CCACAAAGGCATATCTT-TCAGAGTTCA
1 CCACAAAGGCAT-T-TTATCAGAGGTCA
36890146 CCACAAAGGCATTT
1 CCACAAAGGCATTT
36890160 CATAACTGTC
Statistics
Matches: 56, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
25 1 0.02
26 11 0.20
27 42 0.75
28 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.24
Consensus pattern (26 bp):
CCACAAAGGCATTTTATCAGAGGTCA
Found at i:36890602 original size:21 final size:21
Alignment explanation
Indices: 36890578--36890631 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
36890568 CCCAACACAG
* *
36890578 TTCTATCGATACAAGTGA-GAC
1 TTCTAACGATACAAGTCATG-C
* *
36890599 TTCTACCGAAACAAGTCATGC
1 TTCTAACGATACAAGTCATGC
36890620 TTCTAACGATAC
1 TTCTAACGATAC
36890632 TAAAAACTCC
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 26 0.96
22 1 0.04
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.28
Consensus pattern (21 bp):
TTCTAACGATACAAGTCATGC
Found at i:36890756 original size:21 final size:21
Alignment explanation
Indices: 36890715--36890758 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
36890705 CTATGAGTAG
*
36890715 AACTATCGATACCTACTATGC
1 AACTATCGATACCAACTATGC
*
36890736 AACTATTGATA-CAACTCATGC
1 AACTATCGATACCAACT-ATGC
36890757 AA
1 AA
36890759 GTGAACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (21 bp):
AACTATCGATACCAACTATGC
Found at i:36900138 original size:8 final size:8
Alignment explanation
Indices: 36900125--36900150 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
36900115 TCAAAGCTTG
36900125 AATCTTTA
1 AATCTTTA
36900133 AATCTTTA
1 AATCTTTA
36900141 AATCTTTA
1 AATCTTTA
36900149 AA
1 AA
36900151 GATATTGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.46
Consensus pattern (8 bp):
AATCTTTA
Found at i:36900163 original size:17 final size:16
Alignment explanation
Indices: 36900122--36900173 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
36900112 GTGTCAAAGC
**
36900122 TTGAATCTTTAAATCT
1 TTGAATCTTTAAAGAT
*
36900138 TTAAATCTTTAAAGAT
1 TTGAATCTTTAAAGAT
*
36900154 ATTGAATCTTTAAATAT
1 -TTGAATCTTTAAAGAT
36900171 TTG
1 TTG
36900174 GGTTAATGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
16 16 0.53
17 14 0.47
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.48
Consensus pattern (16 bp):
TTGAATCTTTAAAGAT
Found at i:36900646 original size:21 final size:22
Alignment explanation
Indices: 36900622--36900670 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 22
36900612 TTTAGAATTA
36900622 AAACAATATA-ATAAATTTTGT
1 AAACAATATAGATAAATTTTGT
* *
36900643 AAACATTATAGGGTAAATTTTGT
1 AAACAATATA-GATAAATTTTGT
36900666 AAACA
1 AAACA
36900671 TTTTTATCCC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 9 0.38
23 15 0.62
ACGTcount: A:0.49, C:0.06, G:0.10, T:0.35
Consensus pattern (22 bp):
AAACAATATAGATAAATTTTGT
Found at i:36912647 original size:22 final size:22
Alignment explanation
Indices: 36912619--36912662 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
36912609 AAAGAAACTT
*
36912619 CTTTATTTACAATGCAAATAAG
1 CTTTATTTAAAATGCAAATAAG
36912641 CTTTATTTAAAATGCAAATAAG
1 CTTTATTTAAAATGCAAATAAG
36912663 AAACACTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.36
Consensus pattern (22 bp):
CTTTATTTAAAATGCAAATAAG
Found at i:36914691 original size:64 final size:64
Alignment explanation
Indices: 36914587--36914713 Score: 227
Period size: 64 Copynumber: 2.0 Consensus size: 64
36914577 CTATTTAATA
* *
36914587 TGGTAATACAAAGATGGATATTTTATCCAAAATTAGAAGTAAACCTGTTAATGTTCACACTATC
1 TGGTAATACAAAGATGGATATTTTATCCAAAATTAAAAGTAAACCTATTAATGTTCACACTATC
*
36914651 TGGTAATTCAAAGATGGATATTTTATCCAAAATTAAAAGTAAACCTATTAATGTTCACACTAT
1 TGGTAATACAAAGATGGATATTTTATCCAAAATTAAAAGTAAACCTATTAATGTTCACACTAT
36914714 TAGCTCTGAC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (64 bp):
TGGTAATACAAAGATGGATATTTTATCCAAAATTAAAAGTAAACCTATTAATGTTCACACTATC
Found at i:36923107 original size:18 final size:18
Alignment explanation
Indices: 36923084--36923126 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
36923074 TTTTCAGTTG
36923084 TAATTAATATAAAATT-TT
1 TAATTAAT-TAAAATTATT
*
36923102 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
36923120 TAATTAA
1 TAATTAA
36923127 AAATTTATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:36924135 original size:7 final size:7
Alignment explanation
Indices: 36924119--36924150 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
36924109 ACCACTTAAG
36924119 ACAT-TA
1 ACATCTA
36924125 ACATCTA
1 ACATCTA
36924132 ACATCTA
1 ACATCTA
36924139 ACATCTA
1 ACATCTA
36924146 ACATC
1 ACATC
36924151 ACAACACCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.16
7 21 0.84
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (7 bp):
ACATCTA
Found at i:36928253 original size:23 final size:23
Alignment explanation
Indices: 36928226--36928416 Score: 249
Period size: 23 Copynumber: 8.3 Consensus size: 23
36928216 CTTATATCTA
36928226 TGCTTAAATATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
* *
36928249 TGCTTAAGTATTTATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
36928272 TGCTTAAATATT-ATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
*
36928294 TGCTTAAATATTAATATGATTTG
1 TGCTTAAATATTAATGTGATTTG
* * * *
36928317 AGCTCAAATGTTAATGTGATTTA
1 TGCTTAAATATTAATGTGATTTG
* *
36928340 TGCTTAAATATTATTGTGGTTTG
1 TGCTTAAATATTAATGTGATTTG
* *
36928363 TGCTTAAATATTAATATGATTTA
1 TGCTTAAATATTAATGTGATTTG
** *
36928386 TAATTAATTATTAATGTGATTTG
1 TGCTTAAATATTAATGTGATTTG
36928409 TGCTTAAA
1 TGCTTAAA
36928417 AAATTAAGAT
Statistics
Matches: 140, Mismatches: 27, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
22 22 0.16
23 118 0.84
ACGTcount: A:0.31, C:0.05, G:0.16, T:0.48
Consensus pattern (23 bp):
TGCTTAAATATTAATGTGATTTG
Found at i:36928336 original size:91 final size:92
Alignment explanation
Indices: 36928231--36928408 Score: 243
Period size: 91 Copynumber: 1.9 Consensus size: 92
36928221 ATCTATGCTT
* * * *
36928231 AAATATTAATGTGATTTGTGCTTAAGTATT-TATGTGATTTGTGCTTAAATATT-ATGTGATTTG
1 AAATATTAATGTGATTTATGCTTAAATATTAT-TGTGATTTGTGCTTAAATATTAATATGATTTA
**
36928294 TGCTTAAATATTAATATGATTTGAGCTC
65 TAATTAAATATTAATATGATTTGAGCTC
* *
36928322 AAATGTTAATGTGATTTATGCTTAAATATTATTGTGGTTTGTGCTTAAATATTAATATGATTTAT
1 AAATATTAATGTGATTTATGCTTAAATATTATTGTGATTTGTGCTTAAATATTAATATGATTTAT
* *
36928387 AATTAATTATTAATGTGATTTG
66 AATTAAATATTAATATGATTTG
36928409 TGCTTAAAAA
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
91 47 0.63
92 28 0.37
ACGTcount: A:0.31, C:0.04, G:0.16, T:0.48
Consensus pattern (92 bp):
AAATATTAATGTGATTTATGCTTAAATATTATTGTGATTTGTGCTTAAATATTAATATGATTTAT
AATTAAATATTAATATGATTTGAGCTC
Found at i:36928546 original size:36 final size:36
Alignment explanation
Indices: 36928500--36928596 Score: 149
Period size: 36 Copynumber: 2.7 Consensus size: 36
36928490 AAAGTGAATG
36928500 TGTGGGTATGTTCTTCATGCCATGTAATAGAAAATA
1 TGTGGGTATGTTCTTCATGCCATGTAATAGAAAATA
* * *
36928536 TGTGGGTATGTTCTTCATGCCATATGATAGAGAATA
1 TGTGGGTATGTTCTTCATGCCATGTAATAGAAAATA
* *
36928572 TGTAGGTATGTTCTTCATGTCATGT
1 TGTGGGTATGTTCTTCATGCCATGT
36928597 GATTGATTAT
Statistics
Matches: 55, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 55 1.00
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (36 bp):
TGTGGGTATGTTCTTCATGCCATGTAATAGAAAATA
Found at i:36934344 original size:21 final size:21
Alignment explanation
Indices: 36934320--36934367 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
36934310 CCTGCAACTT
36934320 CTACCGGTACATGTATACAAA
1 CTACCGGTACATGTATACAAA
36934341 CTACCGGTACATGTATACAAA
1 CTACCGGTACATGTATACAAA
36934362 CTACCG
1 CTACCG
36934368 ATACTTCTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (21 bp):
CTACCGGTACATGTATACAAA
Found at i:36936037 original size:51 final size:52
Alignment explanation
Indices: 36935961--36936087 Score: 177
Period size: 51 Copynumber: 2.5 Consensus size: 52
36935951 GAAAGAATCT
* * * * *
36935961 GATGACTAAGTGTCATCGTGAGTAAATGAATCCTTTACGGATTAAA-GGTTC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAACTAAATGGTCC
36936012 GATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAACTAAATGGTCC
1 GATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAACTAAATGGTCC
*
36936064 GATGAC-AATATGTCATCGTGAGTA
1 GATGACTAA-GTGTCATCGTGAGTA
36936088 TTAAATGAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
51 44 0.65
52 24 0.35
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (52 bp):
GATGACTAAGTGTCATCGTGAGTAAATGAATCCATGACGAACTAAATGGTCC
Done.