Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 44 of 444
Found at i:10893636 original size:13 final size:13
Alignment explanation
Indices: 10893620--10893644 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10893610 ATGTTGTGAG
10893620 AAAAAATTAATTT
1 AAAAAATTAATTT
10893633 AAAAAATTAATT
1 AAAAAATTAATT
10893645 GTTTAATATT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAAAATTAATTT
Found at i:10894201 original size:23 final size:23
Alignment explanation
Indices: 10894175--10894218 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
10894165 GTTTAGTCCC
10894175 TTAAAAAATAATGAAAT-TATAAA
1 TTAAAAAATAAT-AAATATATAAA
* *
10894198 TTAATACATAATAAATATATA
1 TTAAAAAATAATAAATATATA
10894219 TATTTTGATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 4 0.22
23 14 0.78
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (23 bp):
TTAAAAAATAATAAATATATAAA
Found at i:10895346 original size:44 final size:48
Alignment explanation
Indices: 10895261--10895349 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 48
10895251 TCTTTCATTG
*
10895261 ATTATTTATTTTATTTATACCTTTATTATTGTTACCAATTTATTATGT
1 ATTATTTATTTTATTTATACATTTATTATTGTTACCAATTTATTATGT
*
10895309 ATTA-TTATTTTA-TTAT-CATTTATT-TAT-TTACCTATTTATTA
1 ATTATTTATTTTATTTATACATTTATTAT-TGTTACCAATTTATTA
10895350 CCTTTTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 14 0.37
45 8 0.21
46 4 0.11
47 8 0.21
48 4 0.11
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (48 bp):
ATTATTTATTTTATTTATACATTTATTATTGTTACCAATTTATTATGT
Found at i:10898244 original size:1 final size:1
Alignment explanation
Indices: 10898238--10898266 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
10898228 TTGGAAATTC
10898238 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAA
10898267 GAACCCTCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:10900363 original size:4 final size:4
Alignment explanation
Indices: 10900346--10900375 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
10900336 ATCAATGAAC
*
10900346 AAAT AAAT ACAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AA
10900376 TTTCATGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:10903697 original size:2 final size:2
Alignment explanation
Indices: 10903690--10903715 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10903680 CTTTTGAAAG
10903690 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10903716 TTAAATAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10904047 original size:19 final size:19
Alignment explanation
Indices: 10904023--10904060 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
10904013 TTATAGTTAG
10904023 AATTTTTTTTAGATAAATT
1 AATTTTTTTTAGATAAATT
10904042 AATTTTTTTTAGATAAATT
1 AATTTTTTTTAGATAAATT
10904061 GAGGATGGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
AATTTTTTTTAGATAAATT
Found at i:10906114 original size:20 final size:19
Alignment explanation
Indices: 10906082--10906120 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
10906072 AAATTAAAAA
*
10906082 GAAAAATTACAAACATTAT
1 GAAAAATTACAAAAATTAT
*
10906101 GAAAAATTTCCAAAAATTAT
1 GAAAAA-TTACAAAAATTAT
10906121 TTTTTTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.56, C:0.10, G:0.05, T:0.28
Consensus pattern (19 bp):
GAAAAATTACAAAAATTAT
Found at i:10906641 original size:23 final size:23
Alignment explanation
Indices: 10906615--10906687 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
10906605 AAGTTTTATT
10906615 ATCATTTACTTTATAGAATTAAG
1 ATCATTTACTTTATAGAATTAAG
* * *
10906638 ATCATAATTA--TTAT-TATTTAAA
1 ATCAT--TTACTTTATAGAATTAAG
* *
10906660 ATAAGTTACTTTATAGAATTAAG
1 ATCATTTACTTTATAGAATTAAG
10906683 ATCAT
1 ATCAT
10906688 AATTATTATT
Statistics
Matches: 35, Mismatches: 10, Indels: 10
0.64 0.18 0.18
Matches are distributed among these distances:
20 3 0.09
22 12 0.34
23 17 0.49
25 3 0.09
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.44
Consensus pattern (23 bp):
ATCATTTACTTTATAGAATTAAG
Found at i:10906671 original size:45 final size:45
Alignment explanation
Indices: 10906620--10906710 Score: 182
Period size: 45 Copynumber: 2.0 Consensus size: 45
10906610 TTATTATCAT
10906620 TTACTTTATAGAATTAAGATCATAATTATTATTATTTAAAATAAG
1 TTACTTTATAGAATTAAGATCATAATTATTATTATTTAAAATAAG
10906665 TTACTTTATAGAATTAAGATCATAATTATTATTATTTAAAATAAG
1 TTACTTTATAGAATTAAGATCATAATTATTATTATTTAAAATAAG
10906710 T
1 T
10906711 GACAAGTAAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (45 bp):
TTACTTTATAGAATTAAGATCATAATTATTATTATTTAAAATAAG
Found at i:10911303 original size:23 final size:23
Alignment explanation
Indices: 10911277--10911325 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
10911267 TAGTTAAGAT
10911277 TATAAAACTTAATTTAAAAAATA
1 TATAAAACTTAATTTAAAAAATA
* * *
10911300 TATAAAATTTATTTTAAATAATA
1 TATAAAACTTAATTTAAAAAATA
10911323 TAT
1 TAT
10911326 TTTAGAGTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (23 bp):
TATAAAACTTAATTTAAAAAATA
Found at i:10911816 original size:12 final size:12
Alignment explanation
Indices: 10911799--10911824 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10911789 AAAGTATTTT
10911799 TTTAAAAATTAA
1 TTTAAAAATTAA
10911811 TTTAAAAATTAA
1 TTTAAAAATTAA
10911823 TT
1 TT
10911825 ATTTAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTAAAAATTAA
Found at i:10916052 original size:3 final size:3
Alignment explanation
Indices: 10916038--10916167 Score: 142
Period size: 3 Copynumber: 43.7 Consensus size: 3
10916028 TCAATCGACT
* * ** *
10916038 TTA TTT TTA TTA TTAA TT- CTA TTA TTA CCA TTTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA
* *
10916084 TT- TTC TTA CTA TTA CTTA -TA TT- TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
10916127 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10916168 GTTGTTGTTG
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
2 7 0.07
3 93 0.87
4 7 0.07
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:10916575 original size:25 final size:26
Alignment explanation
Indices: 10916539--10916591 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
10916529 TTTTCATATC
*
10916539 ATTTATTCTAAA-TATCTTATACATT
1 ATTTATTCTAAACCATCTTATACATT
*
10916564 ATTTATGT-TAAACCATCTTATATATT
1 ATTTAT-TCTAAACCATCTTATACATT
10916590 AT
1 AT
10916592 CTAGTTTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.51
Consensus pattern (26 bp):
ATTTATTCTAAACCATCTTATACATT
Found at i:10916987 original size:22 final size:23
Alignment explanation
Indices: 10916942--10916998 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
10916932 GTTTTTATGT
*
10916942 ATTATTTA-TTTAAAATTGTCTC
1 ATTATTTATTTTAAAATGGTCTC
*
10916964 ATTATTTATTTTAAAA-GGTTTC
1 ATTATTTATTTTAAAATGGTCTC
10916986 ATGTAGTTTATTT
1 AT-TA-TTTATTT
10916999 CATTCTTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
22 14 0.47
23 9 0.30
24 7 0.23
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (23 bp):
ATTATTTATTTTAAAATGGTCTC
Found at i:10920104 original size:3 final size:3
Alignment explanation
Indices: 10920080--10920136 Score: 62
Period size: 3 Copynumber: 19.3 Consensus size: 3
10920070 AATATTCTTG
* * * *
10920080 TTA TTT TTA -TA TTA TTA GTA TTA TTA CTA TTA TTA TCA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
10920127 TTA TCA TTA T
1 TTA TTA TTA T
10920137 CATATATATA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:10920259 original size:18 final size:18
Alignment explanation
Indices: 10920238--10920272 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10920228 GTTTTTGTAT
*
10920238 TTTAATATTATTTTTATA
1 TTTAATATTATTGTTATA
*
10920256 TTTATTATTATTGTTAT
1 TTTAATATTATTGTTAT
10920273 TATAATAGTG
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:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTAATATTATTGTTATA
Found at i:10920311 original size:14 final size:14
Alignment explanation
Indices: 10920292--10920338 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
10920282 GTAAACTTTT
*
10920292 ATTTATGTATATAG
1 ATTTATATATATAG
*
10920306 ATTTATATATATAT
1 ATTTATATATATAG
*
10920320 ATATATATATATAG
1 ATTTATATATATAG
10920334 TATTT
1 -ATTT
10920339 TTGTTATGTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 24 0.89
15 3 0.11
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.53
Consensus pattern (14 bp):
ATTTATATATATAG
Found at i:10920314 original size:2 final size:2
Alignment explanation
Indices: 10920299--10920332 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
10920289 TTTATTTATG
* *
10920299 TA TA TA GA TT TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10920333 GTATTTTTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10920424 original size:18 final size:19
Alignment explanation
Indices: 10920375--10920425 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
10920365 CCATTACTAT
10920375 TATA-ATTTTTAATATAGTG
1 TATATATTTTT-ATATAGTG
* * *
10920394 AATATCTTGTTATATA-TG
1 TATATATTTTTATATAGTG
10920412 TATATATTTTTATA
1 TATATATTTTTATA
10920426 ACATCATTGT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
18 13 0.52
19 8 0.32
20 4 0.16
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.55
Consensus pattern (19 bp):
TATATATTTTTATATAGTG
Found at i:10920497 original size:20 final size:21
Alignment explanation
Indices: 10920474--10920543 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
10920464 GTTACATACG
*
10920474 TATATATTATGTGTATT-TTA
1 TATATATTATGTATATTATTA
10920494 TATATATTATGTATATTATTA
1 TATATATTATGTATATTATTA
* * ** *
10920515 TCTTTATTATACATATTACGTA
1 TATATATTATGTATATTA-TTA
10920537 TATATAT
1 TATATAT
10920544 ATTAAATATC
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.40
21 17 0.43
22 7 0.17
ACGTcount: A:0.34, C:0.04, G:0.06, T:0.56
Consensus pattern (21 bp):
TATATATTATGTATATTATTA
Found at i:10920506 original size:18 final size:19
Alignment explanation
Indices: 10920474--10920512 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
10920464 GTTACATACG
*
10920474 TATATATTATGTGTATTTTA
1 TATATATTA-GTGTATATTA
10920494 TATATATTA-TGTATATTA
1 TATATATTAGTGTATATTA
10920512 T
1 T
10920513 TATCTTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
20 9 0.50
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (19 bp):
TATATATTAGTGTATATTA
Found at i:10920595 original size:23 final size:22
Alignment explanation
Indices: 10920579--10920625 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
10920569 TATATATGTA
*
10920579 TATATCTTTAATATATAAATAAG
1 TATATCTTT-ATATATATATAAG
*
10920602 TATATCTTTATATA-ATATTAG
1 TATATCTTTATATATATATAAG
10920623 TAT
1 TAT
10920626 TGTTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 8 0.36
22 5 0.23
23 9 0.41
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (22 bp):
TATATCTTTATATATATATAAG
Found at i:10922554 original size:23 final size:23
Alignment explanation
Indices: 10922528--10922572 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
10922518 AGTGTCGATT
10922528 TAAGAGAATGATAGATGTCAATA
1 TAAGAGAATGATAGATGTCAATA
*
10922551 TAAGAGAATGATAGGTGTCAAT
1 TAAGAGAATGATAGATGTCAAT
10922573 CCTTGAAGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.44, C:0.04, G:0.24, T:0.27
Consensus pattern (23 bp):
TAAGAGAATGATAGATGTCAATA
Found at i:10928794 original size:15 final size:15
Alignment explanation
Indices: 10928772--10928846 Score: 80
Period size: 15 Copynumber: 4.9 Consensus size: 15
10928762 CAATGGAAAG
*
10928772 GATGAAAATGTTATC
1 GATGAAAAGGTTATC
*
10928787 GATTAAAAGGTTATC
1 GATGAAAAGGTTATC
*
10928802 -ACTGAAAAGGTTATT
1 GA-TGAAAAGGTTATC
*
10928817 GATGAAAAGGTTATT
1 GATGAAAAGGTTATC
*
10928832 GATTAAAAAGGTTAT
1 GA-TGAAAAGGTTAT
10928847 ACAAATAATA
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
14 1 0.02
15 39 0.75
16 12 0.23
ACGTcount: A:0.41, C:0.04, G:0.21, T:0.33
Consensus pattern (15 bp):
GATGAAAAGGTTATC
Found at i:10931210 original size:67 final size:66
Alignment explanation
Indices: 10931083--10931215 Score: 216
Period size: 64 Copynumber: 2.0 Consensus size: 66
10931073 ATAAAGATAG
*
10931083 TTCATAACAATTCTAAACTATATCATCATCAATATTATATATACATACAATTCCACTATTATTAT
1 TTCATAACAATTCCAAAC-ATATCATCATCAATATTATATATACATACAATTCCACTATTATTAT
10931148 AA
65 AA
**
10931150 TTCATAACAATTCCAAAC-TAT-ATCATCAATATTATATATACATACAATTCCTTTATTATTATA
1 TTCATAACAATTCCAAACATATCATCATCAATATTATATATACATACAATTCCACTATTATTATA
10931213 A
66 A
10931214 TT
1 TT
10931216 TGCTGCCACT
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
64 43 0.68
65 3 0.05
67 17 0.27
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.41
Consensus pattern (66 bp):
TTCATAACAATTCCAAACATATCATCATCAATATTATATATACATACAATTCCACTATTATTATA
A
Found at i:10933488 original size:52 final size:52
Alignment explanation
Indices: 10933417--10933521 Score: 149
Period size: 52 Copynumber: 2.0 Consensus size: 52
10933407 CTTATAGGCC
* * *
10933417 TACACATAGGAACAGAAACAGG-CTAAGCTTTTGTTGTATTTCATGCGTTATG
1 TACACATAGGAACAAAAACAGGCCCAA-CTTTTGTTGTATTTCATGCATTATG
**
10933469 TACACATAGGGGCAAAAACAGGCCCAACTTTTGTTGTATTTCATGCATTATG
1 TACACATAGGAACAAAAACAGGCCCAACTTTTGTTGTATTTCATGCATTATG
10933521 T
1 T
10933522 TTTTACACCT
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
52 44 0.94
53 3 0.06
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.32
Consensus pattern (52 bp):
TACACATAGGAACAAAAACAGGCCCAACTTTTGTTGTATTTCATGCATTATG
Found at i:10935778 original size:44 final size:45
Alignment explanation
Indices: 10935688--10935816 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
10935678 GACAGAACGA
*
10935688 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
10935734 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
10935778 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
10935817 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:10943167 original size:44 final size:45
Alignment explanation
Indices: 10943077--10943205 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
10943067 GACAGAACGA
*
10943077 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
10943123 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
10943167 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
10943206 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:10945112 original size:32 final size:32
Alignment explanation
Indices: 10945063--10945123 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
10945053 TGTCAATCAT
*
10945063 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAAAAAGCTTAAAACATAATAAA
* *
10945095 TTCAATATCTAAAAAGCTTGAAACATAAT
1 TTCAATATCCAAAAAGCTTAAAACATAAT
10945124 CAATATCTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAAAAAGCTTAAAACATAATAAA
Found at i:10945147 original size:27 final size:26
Alignment explanation
Indices: 10945096--10945150 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 26
10945086 CATAATAAAT
*
10945096 TCAATATCTAAAAAGCTTGAAACATAA
1 TCAATATCTAAAAA-CTTCAAACATAA
10945123 TCAATATCTAACAAA-TTCAAGACATAA
1 TCAATATCTAA-AAACTTCAA-ACATAA
10945150 T
1 T
10945151 AATTTCAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
26 4 0.16
27 18 0.72
28 3 0.12
ACGTcount: A:0.51, C:0.16, G:0.05, T:0.27
Consensus pattern (26 bp):
TCAATATCTAAAAACTTCAAACATAA
Found at i:10946681 original size:15 final size:15
Alignment explanation
Indices: 10946661--10946700 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
10946651 TTTTCAAGCA
*
10946661 ATGACTAAAGTTACT
1 ATGACTAAAGTTACC
10946676 ATGACTAAAGTTACC
1 ATGACTAAAGTTACC
*
10946691 ATGATTAAAG
1 ATGACTAAAG
10946701 GGAATGGAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (15 bp):
ATGACTAAAGTTACC
Found at i:10950402 original size:31 final size:31
Alignment explanation
Indices: 10950367--10950425 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
10950357 TGGAAAAAAC
*
10950367 TTGAAGAATGGAAGAAAAAGAAGGCTTAAAG
1 TTGAAGAACGGAAGAAAAAGAAGGCTTAAAG
10950398 TTGAAGAACGGAAGAAAAAGAAGGCTTA
1 TTGAAGAACGGAAGAAAAAGAAGGCTTA
10950426 CCTGGATGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.51, C:0.05, G:0.29, T:0.15
Consensus pattern (31 bp):
TTGAAGAACGGAAGAAAAAGAAGGCTTAAAG
Found at i:10951148 original size:6 final size:6
Alignment explanation
Indices: 10951137--10951166 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
10951127 TTTTCTATTC
10951137 GCTTCT GCTTCT GCTTCT GCTTCT GCTTCT
1 GCTTCT GCTTCT GCTTCT GCTTCT GCTTCT
10951167 CCCTCTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.17, T:0.50
Consensus pattern (6 bp):
GCTTCT
Found at i:10951173 original size:18 final size:18
Alignment explanation
Indices: 10951137--10951173 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
10951127 TTTTCTATTC
* *
10951137 GCTTCTGCTTCTGCTTCT
1 GCTTCTGCTTCTCCCTCT
10951155 GCTTCTGCTTCTCCCTCT
1 GCTTCTGCTTCTCCCTCT
10951173 G
1 G
10951174 TTTTTCTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.00, C:0.38, G:0.16, T:0.46
Consensus pattern (18 bp):
GCTTCTGCTTCTCCCTCT
Found at i:10953422 original size:25 final size:25
Alignment explanation
Indices: 10953371--10953422 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
10953361 AGCTAAATAT
* *
10953371 AACTTTGAATGAATTGCATAATAAA
1 AACTGTGAATGAATTGCATAAAAAA
*
10953396 AACTGTGAATGAA-TGGATAAAACAA
1 AACTGTGAATGAATTGCATAAAA-AA
10953421 AA
1 AA
10953423 TAGATTGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.52, C:0.08, G:0.15, T:0.25
Consensus pattern (25 bp):
AACTGTGAATGAATTGCATAAAAAA
Found at i:10955491 original size:26 final size:28
Alignment explanation
Indices: 10955459--10955512 Score: 76
Period size: 26 Copynumber: 1.9 Consensus size: 28
10955449 AAAACAAAAA
10955459 TAAATATAA-TAAATATTT-TATTTTAC
1 TAAATATAATTAAATATTTATATTTTAC
10955485 TAAATATAATTTTAAATATTTATATTTT
1 TAAATATAA--TTAAATATTTATATTTT
10955513 GGGTGGGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 9 0.38
29 9 0.38
30 6 0.25
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (28 bp):
TAAATATAATTAAATATTTATATTTTAC
Found at i:10955942 original size:19 final size:17
Alignment explanation
Indices: 10955918--10955952 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
10955908 GTAGTTTTCT
10955918 AAATTATAGAAAAATATAG
1 AAATTA-AG-AAAATATAG
10955937 AAATTAAGAAAATATA
1 AAATTAAGAAAATATA
10955953 CATAGAGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.50
18 2 0.12
19 6 0.38
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (17 bp):
AAATTAAGAAAATATAG
Found at i:10956778 original size:18 final size:18
Alignment explanation
Indices: 10956752--10956798 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 18
10956742 TTATATATTC
*
10956752 TTTAGAAATATTTTGAAT
1 TTTAAAAATATTTTGAAT
10956770 TTTAAAAATTATTTTGAAT
1 TTTAAAAA-TATTTTGAAT
10956789 TCTTAAAAAT
1 T-TTAAAAAT
10956799 TATATTGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 7 0.27
19 12 0.46
20 7 0.27
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.49
Consensus pattern (18 bp):
TTTAAAAATATTTTGAAT
Found at i:10956796 original size:20 final size:19
Alignment explanation
Indices: 10956760--10956810 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
10956750 TCTTTAGAAA
10956760 TATTTTGAATTTTAAAAAT
1 TATTTTGAATTTTAAAAAT
10956779 TATTTTGAATTCTTAAAAAT
1 TATTTTGAATT-TTAAAAAT
*
10956799 TATATTG-ATTTT
1 TATTTTGAATTTT
10956811 TTTTTTGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 2 0.07
19 14 0.47
20 14 0.47
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (19 bp):
TATTTTGAATTTTAAAAAT
Found at i:10970474 original size:13 final size:13
Alignment explanation
Indices: 10970456--10970491 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
10970446 AGTTGGCAAT
10970456 GCTTTTGAAAAGC
1 GCTTTTGAAAAGC
10970469 GCTTTTGAAAAGC
1 GCTTTTGAAAAGC
10970482 GCTTTTGAAA
1 GCTTTTGAAA
10970492 GATGCCGTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (13 bp):
GCTTTTGAAAAGC
Found at i:10972515 original size:28 final size:28
Alignment explanation
Indices: 10972452--10972515 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 28
10972442 AATAATTTAA
*
10972452 AAAATTTAATTAATTATCAAAATAACCC
1 AAAATTTAATTAAATATCAAAATAACCC
*** * *
10972480 ATTTTTTAATTAAATATGAAAATAACCT
1 AAAATTTAATTAAATATCAAAATAACCC
10972508 AAAATTTA
1 AAAATTTA
10972516 CAGTAAAAAT
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.38
Consensus pattern (28 bp):
AAAATTTAATTAAATATCAAAATAACCC
Found at i:10972809 original size:24 final size:25
Alignment explanation
Indices: 10972756--10972815 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
10972746 TTTTTTTTAC
*
10972756 TTTTTTTATTTTTGTTATATTGTTT
1 TTTTTTTCTTTTTGTTATATTGTTT
*
10972781 CTTTTTTCTTTTT-TT-TACTT-TTT
1 TTTTTTTCTTTTTGTTATA-TTGTTT
10972804 TTTTTTGTCTTT
1 TTTTTT-TCTTT
10972816 ATCTTTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 10 0.33
24 9 0.30
25 11 0.37
ACGTcount: A:0.07, C:0.07, G:0.05, T:0.82
Consensus pattern (25 bp):
TTTTTTTCTTTTTGTTATATTGTTT
Found at i:10972909 original size:22 final size:23
Alignment explanation
Indices: 10972866--10972921 Score: 78
Period size: 22 Copynumber: 2.4 Consensus size: 23
10972856 GAAATGCATA
10972866 TTTGAAATGTTTTATAATATATATT
1 TTTGAAA--TTTTATAATATATATT
*
10972891 TTTTAAATTTTA-AATATATATT
1 TTTGAAATTTTATAATATATATT
10972913 TTTGAAATT
1 TTTGAAATT
10972922 ATTTTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 18 0.62
23 5 0.17
25 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (23 bp):
TTTGAAATTTTATAATATATATT
Found at i:10972969 original size:13 final size:13
Alignment explanation
Indices: 10972953--10972977 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10972943 TATTTTAAAA
10972953 TTTTAAATATTAT
1 TTTTAAATATTAT
10972966 TTTTAAATATTA
1 TTTTAAATATTA
10972978 AATATATTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAAATATTAT
Found at i:10972991 original size:20 final size:20
Alignment explanation
Indices: 10972875--10972988 Score: 109
Period size: 20 Copynumber: 5.8 Consensus size: 20
10972865 ATTTGAAATG
10972875 TTTTATAATATATATTTTTTAAA
1 TTTTA-AATAT-TA-TTTTTAAA
10972898 TTTTAAATATATATTTTTGAAA
1 TTTTAAATAT-TATTTTT-AAA
10972920 ---T---TATT-TTTTTAAA
1 TTTTAAATATTATTTTTAAA
*
10972933 TTTTAAATATTATTTTAAAA
1 TTTTAAATATTATTTTTAAA
10972953 TTTTAAATATTATTTTTAAA
1 TTTTAAATATTATTTTTAAA
*
10972973 TATTAAATA-TATTTTT
1 TTTTAAATATTATTTTT
10972989 TAATAATATA
Statistics
Matches: 80, Mismatches: 3, Indels: 20
0.78 0.03 0.19
Matches are distributed among these distances:
13 3 0.04
14 5 0.06
15 1 0.01
16 4 0.05
19 12 0.15
20 34 0.43
21 5 0.06
22 11 0.14
23 5 0.06
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (20 bp):
TTTTAAATATTATTTTTAAA
Found at i:10972996 original size:22 final size:20
Alignment explanation
Indices: 10972921--10973006 Score: 95
Period size: 20 Copynumber: 4.2 Consensus size: 20
10972911 TTTTTGAAAT
*
10972921 TATTTTTTT-AAATTTTAAA
1 TATTTTTTTAAAATATTAAA
* *
10972940 TATTATTTTAAAATTTTAAA
1 TATTTTTTTAAAATATTAAA
10972960 TATTATTTTT-AAATATTAAA
1 TATT-TTTTTAAAATATTAAA
*
10972980 TATATTTTTTAATAATATAAAA
1 TAT-TTTTTTAA-AATATTAAA
10973002 TATTT
1 TATTT
10973007 AAATATTTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
19 8 0.14
20 31 0.53
21 8 0.14
22 11 0.19
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTTTTTAAAATATTAAA
Found at i:10973003 original size:42 final size:39
Alignment explanation
Indices: 10972921--10973006 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 39
10972911 TTTTTGAAAT
* * *
10972921 TATTTTTTTAAATTTTAAATATTATTTTAAAATTTTAAA
1 TATTTTTTTAAATATTAAATATTATTTTAAAATATAAAA
*
10972960 TATTATTTTTAAATATTAAATATATTTTTTAATAATATAAAA
1 TATT-TTTTTAAATATTAAATAT-TATTTTAA-AATATAAAA
10973002 TATTT
1 TATTT
10973007 AAATATTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
39 4 0.10
40 17 0.43
41 8 0.20
42 11 0.28
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (39 bp):
TATTTTTTTAAATATTAAATATTATTTTAAAATATAAAA
Found at i:10973073 original size:19 final size:19
Alignment explanation
Indices: 10972924--10973090 Score: 72
Period size: 20 Copynumber: 8.2 Consensus size: 19
10972914 TTGAAATTAT
10972924 TTTTTTAA-ATTTTAAATA
1 TTTTTTAATATTTTAAATA
*
10972942 TTATTTTAAAATTTTAAATA
1 TT-TTTTAATATTTTAAATA
*
10972962 TTATTTTTAA-ATATTAAATATA
1 -T-TTTTTAATAT-TTTAA-ATA
* *
10972984 TTTTTTAATAATATAAA-A
1 TTTTTTAATATTTTAAATA
* *
10973002 TATTTAAATATTTTAAAGATA
1 TTTTTTAATATTTT-AA-ATA
* * * *
10973023 TGACATTTCAA-ATTTATTATTA
1 T---TTTTTAATATTT-TAAATA
*
10973045 GTTTTATAATATTTTAAATA
1 -TTTTTTAATATTTTAAATA
10973065 TTTTTTAATTTATTTTATAATA
1 TTTTTTAA--TATTTTA-AATA
10973087 TTTT
1 TTTT
10973091 AAATTATGAT
Statistics
Matches: 113, Mismatches: 17, Indels: 34
0.69 0.10 0.21
Matches are distributed among these distances:
18 13 0.12
19 16 0.14
20 31 0.27
21 26 0.23
22 14 0.12
23 6 0.05
24 7 0.06
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTTTTAATATTTTAAATA
Found at i:10973084 original size:31 final size:33
Alignment explanation
Indices: 10973041--10973114 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 33
10973031 CAAATTTATT
10973041 ATTAGTTTTATAATATTTTAAA-TAT-TTTTTAA
1 ATTA-TTTTATAATATTTTAAATTATATTTTTAA
*
10973073 TTTATTTTATAATATTTTAAATTATGATTTTTAA
1 ATTATTTTATAATATTTTAAATTAT-ATTTTTAA
10973107 ATTATTTT
1 ATTATTTT
10973115 TAAAGATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
31 17 0.46
32 6 0.16
34 14 0.38
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (33 bp):
ATTATTTTATAATATTTTAAATTATATTTTTAA
Found at i:10973095 original size:21 final size:21
Alignment explanation
Indices: 10973054--10973118 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 21
10973044 AGTTTTATAA
*
10973054 TATTTTAAATATTTTTTAATT
1 TATTTTAAATATTTTTAAATT
10973075 TATTTTATAATA-TTTTAAATT
1 TATTTTA-AATATTTTTAAATT
10973096 ATGATTTTTAAATTATTTTTAAA
1 -T-A-TTTTAAA-TATTTTTAAA
10973119 GATATTCAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
21 15 0.41
22 5 0.14
23 3 0.08
24 7 0.19
25 7 0.19
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TATTTTAAATATTTTTAAATT
Found at i:10973239 original size:15 final size:16
Alignment explanation
Indices: 10973200--10973236 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
10973190 AATTAATTAG
10973200 AAAAAAA-TATTTGCT
1 AAAAAAATTATTTGCT
*
10973215 AAAAAAATTATTTGTT
1 AAAAAAATTATTTGCT
10973231 AAAAAA
1 AAAAAA
10973237 TTAATTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.59, C:0.03, G:0.05, T:0.32
Consensus pattern (16 bp):
AAAAAAATTATTTGCT
Found at i:10973272 original size:21 final size:20
Alignment explanation
Indices: 10973247--10973303 Score: 60
Period size: 21 Copynumber: 2.8 Consensus size: 20
10973237 TTAATTAATT
10973247 TAAAATATATATATTAAAAAG
1 TAAAA-ATATATATTAAAAAG
* * *
10973268 TAAAAATTTAAATTAAAAAAT
1 TAAAAATATATATT-AAAAAG
*
10973289 TAAAAAAATATATTA
1 TAAAAATATATATTA
10973304 TAACTGGTCA
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 8 0.28
21 21 0.72
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAAAATATATATTAAAAAG
Found at i:10973818 original size:40 final size:41
Alignment explanation
Indices: 10973774--10973858 Score: 145
Period size: 40 Copynumber: 2.1 Consensus size: 41
10973764 GTGTTAGTTA
*
10973774 TAATTTTTTAATTTTAGTACACATTCATACATTTGTATA-T
1 TAATTTTTTAATTTTAGTACACATTCATACATTTATATACT
*
10973814 TAATTTTTTAATTTTAGTACACATTCATAGATTTATATACT
1 TAATTTTTTAATTTTAGTACACATTCATACATTTATATACT
10973855 TAAT
1 TAAT
10973859 ATATATTTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
40 37 0.88
41 5 0.12
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (41 bp):
TAATTTTTTAATTTTAGTACACATTCATACATTTATATACT
Found at i:10973869 original size:40 final size:40
Alignment explanation
Indices: 10973782--10973869 Score: 115
Period size: 40 Copynumber: 2.2 Consensus size: 40
10973772 TATAATTTTT
* * *
10973782 TAATTTTAGTACACATTCATACATTTGTATATTAATTTTT
1 TAATTTTAGTACACATTCATACATTTATATATTAATTATA
*
10973822 TAATTTTAGTACACATTCATAGATTTATATACTTAA-TATA
1 TAATTTTAGTACACATTCATACATTTATATA-TTAATTATA
*
10973862 TATTTTTA
1 TAATTTTA
10973870 ATAGGATTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 38 0.90
41 4 0.10
ACGTcount: A:0.35, C:0.09, G:0.05, T:0.51
Consensus pattern (40 bp):
TAATTTTAGTACACATTCATACATTTATATATTAATTATA
Found at i:10973937 original size:10 final size:9
Alignment explanation
Indices: 10973893--10973938 Score: 58
Period size: 9 Copynumber: 5.0 Consensus size: 9
10973883 AAATATATTT
10973893 AAAATTTAA
1 AAAATTTAA
10973902 AAAATTTAA
1 AAAATTTAA
10973911 AAAATTT-A
1 AAAATTTAA
*
10973919 AATATATTAA
1 AAAAT-TTAA
10973929 AAAATATTAA
1 AAAAT-TTAA
10973939 GTATAACCAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
8 5 0.15
9 18 0.55
10 10 0.30
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
AAAATTTAA
Found at i:10973938 original size:19 final size:18
Alignment explanation
Indices: 10973883--10974004 Score: 74
Period size: 18 Copynumber: 6.8 Consensus size: 18
10973873 GGATTTAGGG
*
10973883 AAATATATT-TAAAATTT
1 AAATATATTAAAAAATTT
*
10973900 AAA-AAATTTAAAAAATTT
1 AAATATA-TTAAAAAATTT
10973918 AAATATATTAAAAAATATT
1 AAATATATTAAAAAAT-TT
* ** *
10973937 AAGTATA--ACCAATTTT
1 AAATATATTAAAAAATTT
* * *
10973953 AAA-ATTTTAATATATTT
1 AAATATATTAAAAAATTT
* *
10973970 AATATATTTTTAAAAAAATT
1 AA-ATA-TATTAAAAAATTT
10973990 AAATATATTAAAAAA
1 AAATATATTAAAAAA
10974005 ATGTTAAGTA
Statistics
Matches: 79, Mismatches: 17, Indels: 17
0.70 0.15 0.15
Matches are distributed among these distances:
15 2 0.03
16 6 0.08
17 16 0.20
18 29 0.37
19 14 0.18
20 12 0.15
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (18 bp):
AAATATATTAAAAAATTT
Found at i:10973983 original size:72 final size:73
Alignment explanation
Indices: 10973906--10974060 Score: 267
Period size: 73 Copynumber: 2.1 Consensus size: 73
10973896 ATTTAAAAAA
*
10973906 TTTAAAAAATTTAAATATATT-AAAAAATATTAAGTATAACCAATTTTAAAATTTTAATATATTT
1 TTTAAAAAATTTAAATATATTAAAAAAATATTAAGTATAACCAATTTTAAAATTTTAATATATTC
10973970 AATATATT
66 AATATATT
* * *
10973978 TTTAAAAAAATTAAATATATTAAAAAAATGTTAAGTATAACGAATTTTAAAATTTTAATATATTC
1 TTTAAAAAATTTAAATATATTAAAAAAATATTAAGTATAACCAATTTTAAAATTTTAATATATTC
10974043 AATATATT
66 AATATATT
10974051 TTTAAAAAAT
1 TTTAAAAAAT
10974061 ATATTTTAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
72 20 0.26
73 57 0.74
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.43
Consensus pattern (73 bp):
TTTAAAAAATTTAAATATATTAAAAAAATATTAAGTATAACCAATTTTAAAATTTTAATATATTC
AATATATT
Found at i:10974071 original size:13 final size:15
Alignment explanation
Indices: 10974043--10974071 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10974033 TAATATATTC
10974043 AATATATTTTTAAAA
1 AATATATTTTTAAAA
10974058 AATATA-TTTTAAAA
1 AATATATTTTTAAAA
10974072 TGTTAATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATATTTTTAAAA
Found at i:10974142 original size:17 final size:16
Alignment explanation
Indices: 10974120--10974181 Score: 70
Period size: 17 Copynumber: 3.6 Consensus size: 16
10974110 AAAAAAAGAT
10974120 TTTTAATATATTTAAAA
1 TTTTAA-ATATTTAAAA
*
10974137 TTTTAAAAATTTTAAAAA
1 TTTTAAATA-TTT-AAAA
*
10974155 ATTTAAATATATTAAAA
1 TTTTAAATAT-TTAAAA
10974172 TTTTAAATAT
1 TTTTAAATAT
10974182 GATAAAAGAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
16 2 0.05
17 23 0.61
18 13 0.34
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTTTAAATATTTAAAA
Found at i:10974156 original size:10 final size:9
Alignment explanation
Indices: 10974133--10974178 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
10974123 TAATATATTT
10974133 AAAATTTTA
1 AAAATTTTA
10974142 AAAATTTTA
1 AAAATTTTA
*
10974151 AAAAATTTA
1 AAAATTTTA
* *
10974160 AATATATT-
1 AAAATTTTA
10974168 AAAATTTTA
1 AAAATTTTA
10974177 AA
1 AA
10974179 TATGATAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
8 6 0.20
9 24 0.80
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (9 bp):
AAAATTTTA
Found at i:10974158 original size:26 final size:26
Alignment explanation
Indices: 10974120--10974178 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
10974110 AAAAAAAGAT
* * *
10974120 TTTTAATATATTTAAA-ATTTTAAAAA
1 TTTTAAAAAATTTAAATATATT-AAAA
10974146 TTTTAAAAAATTTAAATATATTAAAA
1 TTTTAAAAAATTTAAATATATTAAAA
10974172 TTTTAAA
1 TTTTAAA
10974179 TATGATAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 25 0.86
27 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (26 bp):
TTTTAAAAAATTTAAATATATTAAAA
Found at i:10974187 original size:17 final size:16
Alignment explanation
Indices: 10974120--10974188 Score: 57
Period size: 17 Copynumber: 4.0 Consensus size: 16
10974110 AAAAAAAGAT
*
10974120 TTTTAATATATTTAAAA
1 TTTTAA-ATATATAAAA
* *
10974137 TTTTAAAAATTTTAAAAA
1 TTTTAAATA-TAT-AAAA
*
10974155 ATTTAAATATATTAAAA
1 TTTTAAATATA-TAAAA
10974172 TTTTAAATATGATAAAA
1 TTTTAAATAT-ATAAAA
10974189 GAAAATGTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
16 2 0.05
17 28 0.65
18 13 0.30
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (16 bp):
TTTTAAATATATAAAA
Found at i:10974297 original size:75 final size:80
Alignment explanation
Indices: 10974155--10974300 Score: 212
Period size: 75 Copynumber: 1.9 Consensus size: 80
10974145 ATTTTAAAAA
* *
10974155 ATTTAAATATATTAAAATTTTAAATATGATAAAAGAAAATGTTAAGTATAACCAATTTTAAATTT
1 ATTTAAATATATTAAAATTTTAAACATGATAAAAGAAAATGTTAAGTATAACCAATTTTAAAATT
10974220 TTAATAACTGAATAT
66 TTAATAACTGAATAT
* * *
10974235 ATTT-AATATATTAAAATTTTGAACAT-ATTAAA-AAAAT-TT-AGTATAACTAATTTTAAAATT
1 ATTTAAATATATTAAAATTTTAAACATGATAAAAGAAAATGTTAAGTATAACCAATTTTAAAATT
10974295 TTAATA
66 TTAATA
10974301 TATTTTTTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
75 25 0.41
76 2 0.03
77 5 0.08
78 5 0.08
79 20 0.33
80 4 0.07
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (80 bp):
ATTTAAATATATTAAAATTTTAAACATGATAAAAGAAAATGTTAAGTATAACCAATTTTAAAATT
TTAATAACTGAATAT
Found at i:10975541 original size:16 final size:16
Alignment explanation
Indices: 10975520--10975550 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10975510 CCAATATAAA
*
10975520 ATATTAAAATATTATT
1 ATATTAAAAAATTATT
10975536 ATATTAAAAAATTAT
1 ATATTAAAAAATTAT
10975551 AAAAAATACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATATTAAAAAATTATT
Found at i:10975695 original size:15 final size:15
Alignment explanation
Indices: 10975655--10975702 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
10975645 GAATATCTTT
10975655 AAAATTA-ATTT-T-
1 AAAATTATATTTATA
10975667 AAAATTAATAATTTATA
1 AAAATT-AT-ATTTATA
10975684 AAAATTATATTTA-A
1 AAAATTATATTTATA
10975698 AAAAT
1 AAAAT
10975703 ATTTAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.19
13 1 0.03
14 6 0.19
15 9 0.29
16 3 0.10
17 6 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AAAATTATATTTATA
Found at i:10975700 original size:13 final size:13
Alignment explanation
Indices: 10975655--10975730 Score: 61
Period size: 13 Copynumber: 5.7 Consensus size: 13
10975645 GAATATCTTT
*
10975655 AAAATTA-ATTTT
1 AAAATTATATTTA
10975667 AAAATTAATAATTTATA
1 AAAATT-AT-A-TT-TA
10975684 AAAATTATATTTA
1 AAAATTATATTTA
10975697 AAAA--ATATTT-
1 AAAATTATATTTA
10975707 AAAATATATATTTA
1 AAAAT-TATATTTA
10975721 AAATATTATA
1 AAA-ATTATA
10975731 AAACATATAA
Statistics
Matches: 53, Mismatches: 1, Indels: 18
0.74 0.01 0.25
Matches are distributed among these distances:
10 4 0.08
11 6 0.11
12 6 0.11
13 13 0.25
14 9 0.17
15 4 0.08
16 4 0.08
17 7 0.13
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
AAAATTATATTTA
Found at i:10975706 original size:11 final size:13
Alignment explanation
Indices: 10975684--10975726 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
10975674 ATAATTTATA
10975684 AAAAT-TATATTT
1 AAAATATATATTT
10975696 AAAA-A-ATATTT
1 AAAATATATATTT
10975707 AAAATATATATTT
1 AAAATATATATTT
10975720 AAAATAT
1 AAAATAT
10975727 TATAAAACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 10 0.36
12 5 0.18
13 13 0.46
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
AAAATATATATTT
Found at i:10975744 original size:22 final size:22
Alignment explanation
Indices: 10975698--10975744 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
10975688 TTATATTTAA
* *
10975698 AAAATATTTAAAATATATATTT
1 AAAATATTTAAAACATATATAT
10975720 AAAATATTATAAAACATATA-AT
1 AAAATATT-TAAAACATATATAT
10975742 AAA
1 AAA
10975745 TTTGAAAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
AAAATATTTAAAACATATATAT
Found at i:10975802 original size:24 final size:24
Alignment explanation
Indices: 10975761--10975816 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
10975751 AGGTCATATC
*
10975761 TTTAAAAATAATATATTTTAAATA
1 TTTAAAAATAATATATTTAAAATA
* *
10975785 GTTTAAAATTCATA-ATTTAAAATA
1 -TTTAAAAATAATATATTTAAAATA
10975809 TTATAAAA
1 TT-TAAAA
10975817 CAAAGTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
23 2 0.07
24 14 0.52
25 11 0.41
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
TTTAAAAATAATATATTTAAAATA
Found at i:10975923 original size:18 final size:17
Alignment explanation
Indices: 10975900--10975948 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
10975890 ATATCTTTAA
*
10975900 AATATTTAAATAT-TTT
1 AATATTTAAAAATATTT
*
10975916 ATATTATTAAAAAATATTT
1 A-A-TATTTAAAAATATTT
10975935 AATATTTAAAAATA
1 AATATTTAAAAATA
10975949 ATATTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
16 1 0.04
17 12 0.44
18 10 0.37
19 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATATTTAAAAATATTT
Found at i:10975932 original size:20 final size:19
Alignment explanation
Indices: 10975907--10975976 Score: 86
Period size: 20 Copynumber: 3.5 Consensus size: 19
10975897 TAAAATATTT
*
10975907 AAATATTTTATATTATTAAA
1 AAATATTTAATATT-TTAAA
*
10975927 AAATATTTAATATTTAAAA
1 AAATATTTAATATTTTAAA
*
10975946 ATAATATTTAAAATTTTAAA
1 A-AATATTTAATATTTTAAA
10975966 AAATAATTTAA
1 AAAT-ATTTAA
10975977 AAATAATATT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.18
20 36 0.82
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATATTTAATATTTTAAA
Found at i:10975950 original size:13 final size:13
Alignment explanation
Indices: 10975934--10975991 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
10975924 AAAAAATATT
10975934 TAATATTTAAAAA
1 TAATATTTAAAAA
10975947 TAATATTT-AAAA
1 TAATATTTAAAAA
*
10975959 T--T-TTAAAAAA
1 TAATATTTAAAAA
10975969 T-A-ATTTAAAAA
1 TAATATTTAAAAA
10975980 TAATATTTAAAA
1 TAATATTTAAAA
10975992 TTTAGAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 2 0.05
10 6 0.16
11 8 0.21
12 6 0.16
13 16 0.42
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATATTTAAAAA
Found at i:10975974 original size:134 final size:137
Alignment explanation
Indices: 10975690--10976000 Score: 332
Period size: 134 Copynumber: 2.3 Consensus size: 137
10975680 TATAAAAATT
10975690 ATATTTAAAAAAT-ATTTAAAATATATATTTAAAATATTATAAAACATATAATAAATTTGAAAGG
1 ATATTTAAAAAATAATTTAAAATATATATTTAAAATATTATAAAACATATAATAAATTTGAAAGG
*
10975754 TCATATCTTTAAAAATAATATATTTTAAATAGTTTAAAATTCATAATTTAAAATATTATAAAACA
66 TCATATCTTTAAAAATAATATATTTTAAATAG-TTAAAA-TAATAATTTAAAATATTATAAAACA
10975819 AAGTAAAAA
129 AAGTAAAAA
* *
10975828 ATATTT----AA-AATTTAAAATATACATTTAAAATATTATAAAAC-TAATAATAATTTTGAAAG
1 ATATTTAAAAAATAATTTAAAATATATATTTAAAATATTATAAAACAT-ATAATAAATTTGAAAG
* * *
10975887 GTTATATCTTTAAAATATTTAA-ATATTTTATATTA-TTAAAA-AAT-ATTTAATAT-TTA-AAA
65 GTCATATCTTTAAAA-A--TAATATATTTTA-AATAGTTAAAATAATAATTTAAAATATTATAAA
* **
10975946 ATAATA-TTTAAA
126 ACAA-AGTAAAAA
*
10975958 AT-TTTAAAAAATAATTTAAAA-ATAATATTTAAAAT-TTAGAAAA
1 ATATTTAAAAAATAATTTAAAATAT-ATATTTAAAATATTATAAAA
10976001 TTTCAAAAAT
Statistics
Matches: 149, Mismatches: 11, Indels: 31
0.78 0.06 0.16
Matches are distributed among these distances:
129 3 0.02
130 12 0.08
131 4 0.03
132 8 0.05
133 14 0.09
134 81 0.54
135 7 0.05
136 8 0.05
137 6 0.04
138 6 0.04
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (137 bp):
ATATTTAAAAAATAATTTAAAATATATATTTAAAATATTATAAAACATATAATAAATTTGAAAGG
TCATATCTTTAAAAATAATATATTTTAAATAGTTAAAATAATAATTTAAAATATTATAAAACAAA
GTAAAAA
Found at i:10975975 original size:12 final size:11
Alignment explanation
Indices: 10975938--10975983 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
10975928 AATATTTAAT
10975938 ATTTAAAAATA
1 ATTTAAAAATA
*
10975949 ATATTTAAAAT-
1 AT-TTAAAAATA
10975960 -TTTAAAAAATA
1 ATTT-AAAAATA
10975971 ATTTAAAAATA
1 ATTTAAAAATA
10975982 AT
1 AT
10975984 ATTTAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
9 2 0.07
10 6 0.21
11 11 0.38
12 10 0.34
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
ATTTAAAAATA
Found at i:10975975 original size:33 final size:33
Alignment explanation
Indices: 10975938--10976044 Score: 139
Period size: 33 Copynumber: 3.2 Consensus size: 33
10975928 AATATTTAAT
10975938 ATTTAAAAATAATATTTAAAATTTTAAAAAATA
1 ATTTAAAAATAATATTTAAAATTTTAAAAAATA
*
10975971 ATTTAAAAATAATATTTAAAA-TTTAGAAAAT-
1 ATTTAAAAATAATATTTAAAATTTTAAAAAATA
* *
10976002 -TTCAAAAATATATATTTAAAATTTTAAAATATA
1 ATTTAAAAATA-ATATTTAAAATTTTAAAAAATA
10976035 TATTATAAAA
1 -ATT-TAAAA
10976045 CATTTCAAAT
Statistics
Matches: 63, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
30 9 0.14
31 10 0.16
32 17 0.27
33 21 0.33
35 2 0.03
36 4 0.06
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (33 bp):
ATTTAAAAATAATATTTAAAATTTTAAAAAATA
Found at i:10975979 original size:21 final size:21
Alignment explanation
Indices: 10975922--10976049 Score: 70
Period size: 21 Copynumber: 6.0 Consensus size: 21
10975912 TTTTATATTA
*
10975922 TTAAAAAAT-ATTT-AATA-T
1 TTAAAAAATAATTTAAAAATT
*
10975940 TT-AAAAATAATATTTAAAATT
1 TTAAAAAATAAT-TTAAAAATT
*
10975961 TTAAAAAATAATTTAAAAATA
1 TTAAAAAATAATTTAAAAATT
* ***
10975982 ATATTTAA-AATTTAGAAAATT
1 TTAAAAAATAATTTA-AAAATT
*
10976003 TCAAAAATATATATTT-AAAATT
1 TTAAAAA-ATA-ATTTAAAAATT
*
10976025 TTAAAATATATATTATAAAACATT
1 TTAAAAAATA-ATT-TAAAA-ATT
10976049 T
1 T
10976050 CAAATATACA
Statistics
Matches: 83, Mismatches: 15, Indels: 18
0.72 0.13 0.16
Matches are distributed among these distances:
17 6 0.07
18 4 0.05
19 2 0.02
20 9 0.11
21 28 0.34
22 22 0.27
23 4 0.05
24 8 0.10
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (21 bp):
TTAAAAAATAATTTAAAAATT
Found at i:10975993 original size:20 final size:20
Alignment explanation
Indices: 10975924--10976044 Score: 86
Period size: 20 Copynumber: 5.8 Consensus size: 20
10975914 TTATATTATT
*
10975924 AAAA-AATATTTAATATTTA
1 AAAATAATATTTAAAATTTA
*
10975943 AAAATAATATTTAAAATTTT
1 AAAATAATATTTAAAATTTA
*
10975963 AAAA-AATAATTTAAAA-ATA
1 AAAATAAT-ATTTAAAATTTA
** *
10975982 ATATTTAAAATTTAGAAAATTTCA
1 A-AAATAATATTT--AAAATTT-A
*
10976006 AAAATATATATTTAAAATTTT
1 AAAATA-ATATTTAAAATTTA
10976027 AAAATATATATTATAAAA
1 AAAATA-ATATT-TAAAA
10976045 CATTTCAAAT
Statistics
Matches: 80, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
19 9 0.11
20 30 0.38
21 14 0.17
22 16 0.20
23 4 0.05
24 7 0.09
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.40
Consensus pattern (20 bp):
AAAATAATATTTAAAATTTA
Found at i:10976054 original size:23 final size:21
Alignment explanation
Indices: 10976011--10976057 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 21
10976001 TTTCAAAAAT
*
10976011 ATATATTTAAAATTTTAAAAT
1 ATATATTTAAAAATTTAAAAT
*
10976032 ATATATTATAAAACATTTCAAAT
1 ATATATT-TAAAA-ATTTAAAAT
10976055 ATA
1 ATA
10976058 CAATTCAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 5 0.23
23 10 0.45
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (21 bp):
ATATATTTAAAAATTTAAAAT
Found at i:10976096 original size:14 final size:13
Alignment explanation
Indices: 10976074--10976122 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 13
10976064 AAGTTTTTTA
*
10976074 AAATTAATAATAAT
1 AAATAAATAA-AAT
10976088 AAATAAATAAAAT
1 AAATAAATAAAAT
10976101 AAAATAAAATAAAAT
1 -AAAT-AAATAAAAT
10976116 AAATAAA
1 AAATAAA
10976123 GATAAAGACA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
13 6 0.19
14 17 0.53
15 9 0.28
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:10976102 original size:5 final size:5
Alignment explanation
Indices: 10976079--10976128 Score: 61
Period size: 5 Copynumber: 10.2 Consensus size: 5
10976069 TTTTAAAATT
10976079 AATAA TAAT-A AAT-A AATAA AATAA AATAA AATAA AAT-A AATAA AGATAA
1 AATAA -AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA A-ATAA
10976128 A
1 A
10976129 GACAAAACTT
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
4 11 0.27
5 22 0.54
6 8 0.20
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (5 bp):
AATAA
Found at i:10976119 original size:19 final size:19
Alignment explanation
Indices: 10976072--10976128 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 19
10976062 TCAAGTTTTT
*
10976072 TAAAATTAATAATAAT-AAA
1 TAAAATAAATAA-AATAAAA
10976091 T-AAATAAAATAAAATAAAA
1 TAAAAT-AAATAAAATAAAA
10976110 TAAAATAAATAAAGATAAA
1 TAAAATAAATAAA-ATAAA
10976129 GACAAAACTT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
18 7 0.21
19 17 0.52
20 9 0.27
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (19 bp):
TAAAATAAATAAAATAAAA
Found at i:10983090 original size:138 final size:137
Alignment explanation
Indices: 10982724--10983129 Score: 566
Period size: 138 Copynumber: 3.0 Consensus size: 137
10982714 GCATAGATAA
*
10982724 AATTAATATATGAATTTGATTTATACAAAATATTAATTGTATATATTTTACTGAATTTATTAATA
1 AATTAATATATGAATTTGATTTATAC-AAATATTAATTGTATATATTTTACCGAATTTATTAATA
* * **
10982789 TAAATGATTATATTAATTAATTTCGGTCAAAATATAAAAGATATGGAAATTAATATTC-TTT--A
65 TAAATAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATTAAAATTAATATTCTTTTGGA
10982851 AAGAATAT
130 AAGAATAT
* *
10982859 AATTAATATATGAATTTGATTCATGCAAA-A-T-A-T-TATAT-TTTGT--CGAATTTATTAATA
1 AATTAATATATGAATTTGATTTATACAAATATTAATTGTATATATTT-TACCGAATTTATTAATA
* * *
10982916 TAAATAATTATGTTAATTAATTTTGGTAAAAATATAAAAGACATTAAAATTAATATTCTTTTGGA
65 TAAATAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATTAAAATTAATATTCTTTTGGA
10982981 AAGAATAT
130 AAGAATAT
*
10982989 AATTAATATATAAATTTGATTTATACAAGATATTAATTGTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTTATACAA-ATATTAATTGTATATATTTTACCGAATTTATTAATA
* ** *
10983054 TAAACAATTATATTAATTAATTTCCATCAAAATATAAAAGACATTTAAATTAATATTCTTTTGGA
65 TAAATAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATTAAAATTAATATTCTTTTGGA
10983119 AAGAA-AT
130 AAGAATAT
10983126 AATT
1 AATT
10983130 TATTTTTCTA
Statistics
Matches: 238, Mismatches: 20, Indels: 24
0.84 0.07 0.09
Matches are distributed among these distances:
127 64 0.27
128 6 0.03
129 6 0.03
130 35 0.15
131 2 0.01
132 2 0.01
133 2 0.01
134 4 0.02
135 25 0.11
136 6 0.03
137 9 0.04
138 77 0.32
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.42
Consensus pattern (137 bp):
AATTAATATATGAATTTGATTTATACAAATATTAATTGTATATATTTTACCGAATTTATTAATAT
AAATAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATTAAAATTAATATTCTTTTGGAA
AGAATAT
Found at i:10984180 original size:3 final size:3
Alignment explanation
Indices: 10984174--10984250 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
10984164 AATAATAATA
10984174 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
10984222 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
10984251 TAAGAAGTAG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:10984667 original size:23 final size:23
Alignment explanation
Indices: 10984625--10984668 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
10984615 TAAATATTAT
*
10984625 TTTATTAATATTTTGCTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
10984648 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
10984669 AAAATGGTAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:10989819 original size:28 final size:28
Alignment explanation
Indices: 10989784--10989839 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
10989774 TTTATGTAAC
10989784 AACTTAGCTTTGCTCAAGAGAGGTATGT
1 AACTTAGCTTTGCTCAAGAGAGGTATGT
*
10989812 AACTTAGCTTTGTTCAAGAGAGGTATGT
1 AACTTAGCTTTGCTCAAGAGAGGTATGT
10989840 CTTATTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (28 bp):
AACTTAGCTTTGCTCAAGAGAGGTATGT
Found at i:10993063 original size:42 final size:40
Alignment explanation
Indices: 10992935--10993062 Score: 129
Period size: 40 Copynumber: 3.1 Consensus size: 40
10992925 GCTTTTTGGC
10992935 ATTTTTGTGAATCTTTTTT-AAGCTTCA-TTATAAGTCTTAT
1 ATTTTTGTGAATCTTTTTTAAAGCTT-AGTTATAA-TCTTAT
* ** *
10992975 ATATTTGTGAAT-TCTTTTTATCG-TTAGTTATAAATTTTAT
1 ATTTTTGTGAATCT-TTTTTAAAGCTTAGTTAT-AATCTTAT
*
10993015 CATTTTTGTAAATCTTTTTTAAAGCTTAGTTATATATCTTAT
1 -ATTTTTGTGAATCTTTTTTAAAGCTTAGTTATA-ATCTTAT
10993057 ATTTTT
1 ATTTTT
10993063 TTGTGAAATT
Statistics
Matches: 71, Mismatches: 9, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
39 2 0.03
40 27 0.38
41 27 0.38
42 15 0.21
ACGTcount: A:0.27, C:0.08, G:0.09, T:0.57
Consensus pattern (40 bp):
ATTTTTGTGAATCTTTTTTAAAGCTTAGTTATAATCTTAT
Found at i:10993084 original size:82 final size:80
Alignment explanation
Indices: 10992934--10993105 Score: 188
Period size: 82 Copynumber: 2.1 Consensus size: 80
10992924 AGCTTTTTGG
* * * *
10992934 CATTTTTGTGAATCTTTTTTAAGCTTCATTATAAGTCTTATATATTTGTGAATTCTTTTTATCGT
1 CATTTTTGTAAATCTTTTTTAAGCTTCATTATAAGTCTTATATATTTGTGAA-TATTTGTATCAT
* *
10992999 TAGTTATAAATTTTAT
65 TAGTTACAAATCTTAT
*
10993015 CATTTTTGTAAATCTTTTTTAAAGCTT-AGTTATATA-TCTTATATTTTTTTGTGAA-ATTTGTA
1 CATTTTTGTAAATCTTTTTT-AAGCTTCA-TTATA-AGTCTTATA--TATTTGTGAATATTTGTA
*
10993077 TTATTAGTTACAAATCTTAT
61 TCATTAGTTACAAATCTTAT
*
10993097 AATTTTTGT
1 CATTTTTGT
10993106 TTCATTTTTG
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
81 20 0.26
82 47 0.61
83 1 0.01
84 9 0.12
ACGTcount: A:0.27, C:0.08, G:0.09, T:0.56
Consensus pattern (80 bp):
CATTTTTGTAAATCTTTTTTAAGCTTCATTATAAGTCTTATATATTTGTGAATATTTGTATCATT
AGTTACAAATCTTAT
Found at i:10997799 original size:63 final size:63
Alignment explanation
Indices: 10997700--10997833 Score: 259
Period size: 63 Copynumber: 2.1 Consensus size: 63
10997690 ATATGTCCCG
10997700 ATCAACAAACTTAATCATGTGCAGACTAGAAATTCAACTTTTATAGGATTGAGAGTCCCAATT
1 ATCAACAAACTTAATCATGTGCAGACTAGAAATTCAACTTTTATAGGATTGAGAGTCCCAATT
10997763 ATCAACAAACTTAATCATGTGCAGACTAGAAATTCAACTTTTATAGGATTGAGAGTCCCAATT
1 ATCAACAAACTTAATCATGTGCAGACTAGAAATTCAACTTTTATAGGATTGAGAGTCCCAATT
*
10997826 TTCAACAA
1 ATCAACAA
10997834 TCCGTTGATG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 70 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (63 bp):
ATCAACAAACTTAATCATGTGCAGACTAGAAATTCAACTTTTATAGGATTGAGAGTCCCAATT
Found at i:11003299 original size:172 final size:171
Alignment explanation
Indices: 11002996--11003413 Score: 525
Period size: 172 Copynumber: 2.4 Consensus size: 171
11002986 AAAGCCCTAA
* *
11002996 AACTTTTAAATAGTTTAGTGACCAACTTGTAATGTTTTTGAAATTGAGTGACCAAGGCATAAACT
1 AACTTTTAAATAGTTTAGTGACCAACTTGTAAT-TTTTTGAAATTGAGTGACCAAAGTATAAACT
* * * * * **
11003061 TACTAATAGTTGAGTGACCTTGGTTGTAGTTTGCCCTATGATGAATAGTAAATTAACGGTCACAT
65 TACTAATAGTTAAGTGACCCTAGCTGTAGTTTACCCTATGATGAATAGTAAATTAACGACCACAT
*
11003126 CAAACATCCATTAGCAATTTAATGA-CCAATAACTTAAATGAC
130 CAAACATCCATTAGCAACTTAAT-ACCCAATAACTTAAATGAC
* * * *
11003168 AACTTTTAAATAGTTTAATGACCAACTTGTAACTTTTTTGAAATTGAGTAATCAAAGTGTAAACT
1 AACTTTTAAATAGTTTAGTGACCAACTTGTAA-TTTTTTGAAATTGAGTGACCAAAGTATAAACT
* ** * *
11003233 TACTAATAGTTAAGTGACCCTAGCTGTAGTTTACTCTATGATGAATTTTGAATTAATGACCACAT
65 TACTAATAGTTAAGTGACCCTAGCTGTAGTTTACCCTATGATGAATAGTAAATTAACGACCACAT
* * ** *
11003298 CATACATCCATTAGCAACTTAATACCCAATAAGTTCGATGAT
130 CAAACATCCATTAGCAACTTAATACCCAATAACTTAAATGAC
* ** * * *
11003340 AACTTTCAAATAGTTTAGTGATTAATTTGTAATTTTTTAAAATT-AGTGACCAAAATATAAACTT
1 AACTTTTAAATAGTTTAGTGACCAACTTGTAATTTTTTGAAATTGAGTGACCAAAGTATAAACTT
11003404 ACTAATAGTT
66 ACTAATAGTT
11003414 GGTGACCTTG
Statistics
Matches: 210, Mismatches: 34, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
170 26 0.12
171 12 0.06
172 171 0.81
173 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
Consensus pattern (171 bp):
AACTTTTAAATAGTTTAGTGACCAACTTGTAATTTTTTGAAATTGAGTGACCAAAGTATAAACTT
ACTAATAGTTAAGTGACCCTAGCTGTAGTTTACCCTATGATGAATAGTAAATTAACGACCACATC
AAACATCCATTAGCAACTTAATACCCAATAACTTAAATGAC
Found at i:11004087 original size:11 final size:11
Alignment explanation
Indices: 11004059--11004091 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
11004049 CCTGTTACAA
*
11004059 ATTAATTAAAT
1 ATTAATTATAT
11004070 ATT-ATTATAT
1 ATTAATTATAT
11004080 ATTAATTATAT
1 ATTAATTATAT
11004091 A
1 A
11004092 CCTCAAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTAATTATAT
Found at i:11016562 original size:24 final size:22
Alignment explanation
Indices: 11016528--11016591 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 22
11016518 ATAAAACAAT
11016528 ATATAA-T-TTAATAAAATTCTTA
1 ATATAATTATTAATAAAA-T-TTA
*
11016550 ATATAATTATTAATAATATTTA
1 ATATAATTATTAATAAAATTTA
*
11016572 ATATAAAATTATTATTAAAA
1 ATAT--AATTATTAATAAAA
11016592 ATATTTCAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
22 13 0.37
23 2 0.06
24 20 0.57
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
ATATAATTATTAATAAAATTTA
Found at i:11016590 original size:12 final size:12
Alignment explanation
Indices: 11016535--11016596 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
11016525 AATATATAAT
*
11016535 TTAATAAAATTC
1 TTAATAAAATTA
*
11016547 TTAATATAATTA
1 TTAATAAAATTA
*
11016559 TTAATAATATT-
1 TTAATAAAATTA
*
11016570 TAATATAAAATTA
1 TTA-ATAAAATTA
* *
11016583 TTATTAAAAATA
1 TTAATAAAATTA
11016595 TT
1 TT
11016597 TCAATTCCTA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
11 2 0.05
12 35 0.90
13 2 0.05
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
TTAATAAAATTA
Found at i:11016730 original size:23 final size:23
Alignment explanation
Indices: 11016696--11016742 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
11016686 TACGGTATGA
*
11016696 TAATCCTCTAATAATATTTTATT
1 TAATCCTCTAATAACATTTTATT
*
11016719 TAATCCTTTAATAACATTTTATT
1 TAATCCTCTAATAACATTTTATT
11016742 T
1 T
11016743 TAATAGTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.34, C:0.13, G:0.00, T:0.53
Consensus pattern (23 bp):
TAATCCTCTAATAACATTTTATT
Found at i:11018278 original size:62 final size:62
Alignment explanation
Indices: 11018201--11018320 Score: 195
Period size: 62 Copynumber: 1.9 Consensus size: 62
11018191 CACACAATGA
* * *
11018201 ACCATTAATCACAAATCTTTAAAACTCAGTTCAAATGCAATAGCATCTTAAGTACCATCACT
1 ACCATTAATCACAAATCTTCAAAACTCAATTCAAATGCAATAGCATCTTAAGAACCATCACT
* *
11018263 ACCATTAATCTCAAATCTTCATAACTCAATTCAAATGCAATAGCATCTTAAGAACCAT
1 ACCATTAATCACAAATCTTCAAAACTCAATTCAAATGCAATAGCATCTTAAGAACCAT
11018321 AACGCAATGA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
62 53 1.00
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.29
Consensus pattern (62 bp):
ACCATTAATCACAAATCTTCAAAACTCAATTCAAATGCAATAGCATCTTAAGAACCATCACT
Found at i:11019458 original size:17 final size:17
Alignment explanation
Indices: 11019436--11019469 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
11019426 AGTTAAAAGT
11019436 ATATTGACAAATTTAGC
1 ATATTGACAAATTTAGC
11019453 ATATTGACAAATTTAGC
1 ATATTGACAAATTTAGC
11019470 CCTTAGCGTT
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:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (17 bp):
ATATTGACAAATTTAGC
Found at i:11019557 original size:31 final size:31
Alignment explanation
Indices: 11019516--11019585 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
11019506 TCCATTTTTT
* * * * *
11019516 GAGTTAAATTTGGCCCTCAACCTTTTAAAAA
1 GAGTTGAATTTGACCATCAACATTTCAAAAA
11019547 GAGTTGAATTTGACCATCAACATTTCAAAAA
1 GAGTTGAATTTGACCATCAACATTTCAAAAA
11019578 GAGTTGAA
1 GAGTTGAA
11019586 ATATTGTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (31 bp):
GAGTTGAATTTGACCATCAACATTTCAAAAA
Found at i:11019738 original size:18 final size:19
Alignment explanation
Indices: 11019699--11019739 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
11019689 TTATGAACTT
*
11019699 TTTTGTAATTTATTTTGAA
1 TTTTGTAATTTATTTTAAA
11019718 TTTTG-AATTT-TTTTAATA
1 TTTTGTAATTTATTTTAA-A
11019736 TTTT
1 TTTT
11019740 TATAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 10 0.50
19 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (19 bp):
TTTTGTAATTTATTTTAAA
Found at i:11022152 original size:126 final size:127
Alignment explanation
Indices: 11021848--11022154 Score: 334
Period size: 129 Copynumber: 2.4 Consensus size: 127
11021838 AACAGTAAAT
* * * * * *
11021848 CGAAACCCAGCACGATTGGGCACGATTTATCGAATTTCCAAATACGAAACATTGCCTCATTTTAA
1 CGAAACCCAGCACGATTGGGCACGATTTCTCAAACTTCCAAACACGAAATATCGCCTCATTTTAA
* * *
11021913 TTTAAGGAAACATAGATGAAATTTCAAAAGGATATTCTATATTCTAGTCAATTGAGAAAAAAAA
66 TTTAAGAAAACATAGATGAAATCTCAAAAGGATATTCCATA-TCTA-TCAATTGAGAAAAAAAA
* * * * *
11021977 CGAAACCCAGCACAATTGGGCACGATCTCTCAAACTCCCAAACATGAAATATCGCCTCGTTTTAA
1 CGAAACCCAGCACGATTGGGCACGATTTCTCAAACTTCCAAACACGAAATATCGCCTCATTTTAA
* * * **
11022042 TTTAAGAAAACAT-GAATGAGATCTCACAAGGATATTCCATA-GT-TCAATTGA-ATGAAAAAGT
66 TTTAAGAAAACATAG-ATGAAATCTCAAAAGGATATTCCATATCTATCAATTGAGA--AAAAAAA
* * * *
11022103 CGTAACCCAGCACGATTGAGCATGATTTCTCAAACTTCCAAACCCGAAATAT
1 CGAAACCCAGCACGATTGGGCACGATTTCTCAAACTTCCAAACACGAAATAT
11022155 TTCCTTATGC
Statistics
Matches: 148, Mismatches: 27, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
124 1 0.01
125 8 0.05
126 49 0.33
127 1 0.01
128 1 0.01
129 88 0.59
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.26
Consensus pattern (127 bp):
CGAAACCCAGCACGATTGGGCACGATTTCTCAAACTTCCAAACACGAAATATCGCCTCATTTTAA
TTTAAGAAAACATAGATGAAATCTCAAAAGGATATTCCATATCTATCAATTGAGAAAAAAAA
Found at i:11024207 original size:45 final size:45
Alignment explanation
Indices: 11024120--11024208 Score: 119
Period size: 45 Copynumber: 2.0 Consensus size: 45
11024110 GGTGGCTTAA
* *
11024120 ATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATTTTCG
1 ATCTGCTCCATAGTCGATACATAGAGATAAGACTCGCAATTTTCG
*
11024165 ATCTGCTCTATAG-CTGATACATAGAGATAAGA-TCTGCAATTTTC
1 ATCTGCTCCATAGTC-GATACATAGAGATAAGACTC-GCAATTTTC
11024209 AGCCTGTTAC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
44 3 0.08
45 36 0.92
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.31
Consensus pattern (45 bp):
ATCTGCTCCATAGTCGATACATAGAGATAAGACTCGCAATTTTCG
Found at i:11024360 original size:133 final size:133
Alignment explanation
Indices: 11024143--11024418 Score: 471
Period size: 133 Copynumber: 2.1 Consensus size: 133
11024133 TCGATACATG
* * **
11024143 GAGATAAGACTCGCCATTTTCGATCTGCTCTATAGCTGATACATAGAGATAAGATCTGCAATTTT
1 GAGATAAGGCTCGCCATTTTCGATCTGCTCCATAGCCAATACATAGAGATAAGATCTGCAATTTT
*
11024208 CAGCCTGTTACCCTACTGCTTAGGGGGTTAAAGCTCGTATCTTCAACCTGCTCTCTTGCTACCTC
66 CAGCCTGTTACACTACTGCTTAGGGGGTTAAAGCTCGTATCTTCAACCTGCTCTCTTGCTACCTC
11024273 AAA
131 AAA
*
11024276 GAGATAAGGCTCGCCATTTTCGATCTGCTCCATAGCCAATACATGGAGATAAGATCTGCAATTTT
1 GAGATAAGGCTCGCCATTTTCGATCTGCTCCATAGCCAATACATAGAGATAAGATCTGCAATTTT
* *
11024341 CAGCCTGTTACACTACTGCTTAGGGGGTTAATGCTCGTATCTTCAACCTGCTCTCTTGCTACCTT
66 CAGCCTGTTACACTACTGCTTAGGGGGTTAAAGCTCGTATCTTCAACCTGCTCTCTTGCTACCTC
*
11024406 AGA
131 AAA
11024409 GAGATAAGGC
1 GAGATAAGGC
11024419 CGGTGGTTTA
Statistics
Matches: 134, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
133 134 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (133 bp):
GAGATAAGGCTCGCCATTTTCGATCTGCTCCATAGCCAATACATAGAGATAAGATCTGCAATTTT
CAGCCTGTTACACTACTGCTTAGGGGGTTAAAGCTCGTATCTTCAACCTGCTCTCTTGCTACCTC
AAA
Found at i:11024558 original size:310 final size:309
Alignment explanation
Indices: 11023983--11024859 Score: 1344
Period size: 310 Copynumber: 2.8 Consensus size: 309
11023973 AGATTTGCCC
* * * *
11023983 TTTCTGATTTGCT-CATAGCCGGTACATGGAGATAAGATCTGTAATTTTCATCCTGTTACCCAAC
1 TTTC-GATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTAC
* * * *
11024047 TGCCTAGGGGGTTAAGGCTCGTATGTTCAACCTACTATCTTGCTACCTCAGAGAGATAAGGCCGG
65 TGCTTAGGGGGTTAA-GCTCGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGG
* *
11024112 TGGCTTAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCAT-TTTCGATCTGCTCTAT
129 TGGCTTAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTT-GATCTGCTCCAT
* * * *
11024176 AGCTGATACATAGAGATAAGATCTGCAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAAG
193 AGCCGATACATGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGG
*
11024241 CTCGTATCTTCAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCTCGCCAT
258 CTCGTATCTCCAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCTCGCCAT
* * *
11024293 TTTCGATCTGCTCCATAGCCAATACATGGAGATAAGATCTGCAATTTTCAGCCTGTTACACTACT
1 TTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACT
*
11024358 GCTTAGGGGGTTAATGCTCGTATCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCCGGT
66 GCTTAGGGGGTTAA-GCTCGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGT
* * * **
11024423 GGTTTAAATATGCTCCATAGCCGATACATGAAGATAAGACTTTCCATCTTTGATCTGCTCCATAG
130 GGCTTAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTGATCTGCTCCATAG
*
11024488 CCGATACATGGAGATAAGATCTATAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCT
195 CCGATACATGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCT
* * * *
11024553 CGTATCTCCAGCCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTTGCCAT
260 CGTATCTCCAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCTCGCCAT
*
11024603 TTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGTTACCCTACT
1 TTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACT
* ** * *
11024668 ACTTAGGGGGTTAAGACTTATATCTTCAACCTGCTCTCTTGCTACCTCAGGGAGATAAGGTCGGT
66 GCTTAGGGGGTTAAG-CTCGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGT
* *
11024733 GGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTAATCTGCTCCATAG
130 GGCTTAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTGATCTGCTCCATAG
* *
11024798 CCAATACATGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGAGGGTTAAG
195 CCGATACATGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAG
11024860 ACTTGTGGCT
Statistics
Matches: 514, Mismatches: 50, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
309 8 0.02
310 503 0.98
311 3 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.31
Consensus pattern (309 bp):
TTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACT
GCTTAGGGGGTTAAGCTCGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTG
GCTTAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTGATCTGCTCCATAGC
CGATACATGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTC
GTATCTCCAACCTGCTCTCTTGCTACCTCAAAGAGATAAGGCTCGCCAT
Found at i:11024641 original size:133 final size:132
Alignment explanation
Indices: 11024454--11024771 Score: 433
Period size: 133 Copynumber: 2.4 Consensus size: 132
11024444 CGATACATGA
* *
11024454 AGATAAGACTTTCCATCTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTC
1 AGATAAGGCTTGCCAT-TTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTC
* * * * *
11024519 AGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCGTATCTCCAGCCTGCTCTCTTGCTACCTTA
65 AGCCTGTTACCCTACTACTTAGGGGGTTAAGACTCATATCTCCAACCTGCTCTCTTGCTACCTCA
11024584 GAG
130 GAG
*
11024587 AGATAAGGCTTGCCATTTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTC
1 AGATAAGGCTTGCCATTTT-GATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTC
* * *
11024652 AGTCTGTTACCCTACTACTTAGGGGGTTAAGACTTATATCTTCAACCTGCTCTCTTGCTACCTCA
65 AGCCTGTTACCCTACTACTTAGGGGGTTAAGACTCATATCTCCAACCTGCTCTCTTGCTACCTCA
*
11024717 GGG
130 GAG
* * ***
11024720 AGATAAGGTCGGTGGC--TAAAATCTGCTCCATAGCCGATACATGGAGATAAGA
1 AGATAAGG-C-TTGCCATTTTGATCTGCTCCATAGCCGATACATGGAGATAAGA
11024772 CTCGCCATCT
Statistics
Matches: 165, Mismatches: 17, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
132 35 0.21
133 126 0.76
134 1 0.01
135 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (132 bp):
AGATAAGGCTTGCCATTTTGATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTCA
GCCTGTTACCCTACTACTTAGGGGGTTAAGACTCATATCTCCAACCTGCTCTCTTGCTACCTCAG
AG
Found at i:11024893 original size:88 final size:88
Alignment explanation
Indices: 11024784--11024947 Score: 283
Period size: 88 Copynumber: 1.9 Consensus size: 88
11024774 CGCCATCTTT
* *
11024784 AATCTGCTCCATAGCCAATACATGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTT
1 AATCTGCTCCATAGCCAATACATGGAGATAAGATCTATAATTTTCAGCCTATTACCCTACTGCTT
11024849 AGAGGGTTAAGACTTGTGGCTAA
66 AGAGGGTTAAGACTTGTGGCTAA
* *
11024872 AATCTGCTCCATAGCCGATACATGGAGATAAGATCTATAATTTTTAGCCTATTACCCTACTGCTT
1 AATCTGCTCCATAGCCAATACATGGAGATAAGATCTATAATTTTCAGCCTATTACCCTACTGCTT
*
11024937 AGGGGGTTAAG
66 AGAGGGTTAAG
11024948 GCTCGCAACT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 71 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (88 bp):
AATCTGCTCCATAGCCAATACATGGAGATAAGATCTATAATTTTCAGCCTATTACCCTACTGCTT
AGAGGGTTAAGACTTGTGGCTAA
Found at i:11025120 original size:64 final size:64
Alignment explanation
Indices: 11025019--11025145 Score: 182
Period size: 64 Copynumber: 2.0 Consensus size: 64
11025009 TCATGTGTCT
* * * *
11025019 ATGCTTATGCCAAATAGTTAAGATACTATGATCAAAATGAATCAACCGCTCTTAGCTAGATGTG
1 ATGCTTATGCCAAATAATTAAGATACTATGATCAAAATGAATCAAACGCTCCTAACTAGATGTG
* * * *
11025083 ATGCTTATGTCAAATAATTAGGATGCTATGATCAAAATGAATCAAATGCTCCTAACTAGATGT
1 ATGCTTATGCCAAATAATTAAGATACTATGATCAAAATGAATCAAACGCTCCTAACTAGATGT
11025146 ATTATGAATG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAAGATACTATGATCAAAATGAATCAAACGCTCCTAACTAGATGTG
Found at i:11036613 original size:126 final size:127
Alignment explanation
Indices: 11036302--11036614 Score: 328
Period size: 128 Copynumber: 2.5 Consensus size: 127
11036292 ACGGTAAATC
* * * * * * * *
11036302 GAAACCCAGCAAGATTGGGCACGATTTATCGAATTTCCAAATACGAAACATTGCCTCATTTTAAT
1 GAAACCCAGCACGATTGGGCACGATTTCTCAAACTTCCAAACACGAAATATTACCTTATTTTAAT
* * ** *
11036367 TTAAGGAAACATAGATGAAATTTCAAAAGGATATTCTGTATTCTAGTCGATTGAGAAAAAAAA
66 TTAAGAAAACATAGATGAAATCTCAAAAGGATATTCCATATTCTAGTCGAAT-AGAAAAAAAA
* * * *
11036430 GAAACCCAGCACGATTGGGCACAATCTCTCAAACTCCCAAACACGAAATATCACCTTATTTTAAT
1 GAAACCCAGCACGATTGGGCACGATTTCTCAAACTTCCAAACACGAAATATTACCTTATTTTAAT
* * ***
11036495 TTAAGAAAACAT-GAAT-AAGATCTCACAAGGATATTCCATAGTTC-AGTTGAAT-GAAAAAGTC
66 TTAAGAAAACATAG-ATGAA-ATCTCAAAAGGATATTCCATA-TTCTAGTCGAATAGAAAAAAAA
* * * *
11036556 GTAACCTAGCACGATTGAGCACGATTTCTCAAACTTCCAAACACGAAATATTTCCTTAT
1 GAAACCCAGCACGATTGGGCACGATTTCTCAAACTTCCAAACACGAAATATTACCTTAT
11036615 GCTGAGGGTT
Statistics
Matches: 152, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
126 57 0.38
127 3 0.02
128 89 0.59
129 3 0.02
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.27
Consensus pattern (127 bp):
GAAACCCAGCACGATTGGGCACGATTTCTCAAACTTCCAAACACGAAATATTACCTTATTTTAAT
TTAAGAAAACATAGATGAAATCTCAAAAGGATATTCCATATTCTAGTCGAATAGAAAAAAAA
Found at i:11037011 original size:21 final size:22
Alignment explanation
Indices: 11036985--11037028 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
11036975 ATAATGGTAA
11036985 ACTAATAATAGTA-A-AAATAGT
1 ACTAATAAT-GTATATAAATAGT
11037006 ACTAATAATGTATATAAATAGT
1 ACTAATAATGTATATAAATAGT
11037028 A
1 A
11037029 GTATAAGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.14
21 10 0.48
22 8 0.38
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.32
Consensus pattern (22 bp):
ACTAATAATGTATATAAATAGT
Found at i:11040867 original size:3 final size:3
Alignment explanation
Indices: 11040859--11040903 Score: 54
Period size: 3 Copynumber: 14.3 Consensus size: 3
11040849 AAGGAGAATG
* *
11040859 AGA AGA AGA AGGA AGA AGA AGGA AGA TGA AGA AGA AAA AGA AGA A
1 AGA AGA AGA A-GA AGA AGA A-GA AGA AGA AGA AGA AGA AGA AGA A
11040904 AAAAAGGGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
3 30 0.83
4 6 0.17
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:11040875 original size:10 final size:10
Alignment explanation
Indices: 11040860--11040903 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
11040850 AGGAGAATGA
11040860 GAAGAAGAAG
1 GAAGAAGAAG
11040870 GAAGAAGAAG
1 GAAGAAGAAG
*
11040880 GAAGATGAA-
1 GAAGAAGAAG
*
11040889 GAAGAA-AAA
1 GAAGAAGAAG
11040898 GAAGAA
1 GAAGAA
11040904 AAAAAGGGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
8 2 0.06
9 11 0.35
10 18 0.58
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (10 bp):
GAAGAAGAAG
Found at i:11041297 original size:114 final size:113
Alignment explanation
Indices: 11041173--11041613 Score: 690
Period size: 114 Copynumber: 3.9 Consensus size: 113
11041163 TTTTATAGTT
* *
11041173 GATTAGGTTATATAAATTGTTAATGTTTAGTAGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
* *
11041238 TAATATATTTTAAAAAAATAATTTTATAGCTACTTTATTTGTAATTTAA
66 TAATATATTTT-AAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* * *
11041287 GATTAGGTTATATAAATTCTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTAATTTTCTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
*
11041352 TAATATATTTTAAAAAAATATTTTTATAGCTATTTTATTAGTAATTTAA
66 TAATATATTTT-AAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
* *
11041401 GGTTAGGTTATATAAATTGTTAGTGTTTAGTGATTTAGTGTATTAGTGTATTGTGATTTTTTTAG
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
*
11041466 TAATATATTTTAAAAAATATTTTTATAGCTATTTTATTAGTAATTTAA
66 TAATATATTTTAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
*
11041514 GATTAGGTTATAT--ATTGTTAGTGTTTAGTGGTTTAGTGTGTGTTAGTGTATTGTGATTTTTTT
1 GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTA--GTGTATTAGTGTATTGTGA-TTTTTT
* *
11041577 TAGTAATGTA-TTTAAAAAATAATTTTATAGTTATTTT
63 TAGTAATATATTTTAAAAAATAATTTTATAGCTATTTT
11041614 GTGTTAGTAT
Statistics
Matches: 305, Mismatches: 19, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
111 21 0.07
113 92 0.30
114 192 0.63
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.52
Consensus pattern (113 bp):
GATTAGGTTATATAAATTGTTAGTGTTTAGTGGTTTAGTGTATTAGTGTATTGTGATTTTTTTAG
TAATATATTTTAAAAAATAATTTTATAGCTATTTTATTAGTAATTTAA
Found at i:11041699 original size:15 final size:16
Alignment explanation
Indices: 11041671--11041702 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
11041661 TGTGTTTTTT
11041671 TAATGTAATTTTTATA
1 TAATGTAATTTTTATA
11041687 TAATGTAA-TTTTATA
1 TAATGTAATTTTTATA
11041702 T
1 T
11041703 TATATATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TAATGTAATTTTTATA
Found at i:11043831 original size:33 final size:31
Alignment explanation
Indices: 11043737--11043853 Score: 81
Period size: 33 Copynumber: 3.6 Consensus size: 31
11043727 TTTATCTCAA
* * * *
11043737 TACTCTACTCCTTCTGGCCAATATCGACCCATG
1 TACTCTACTCCTCCCGGCC-ATATCCACCC-CG
* * * *
11043770 TACTCAACTCCTCCAGAGCCGTACCCACCACCG
1 TACTCTACTCCTCCCG-GCCATATCCACC-CCG
*
11043803 TACTCTACTCCTCCCGGCCTATATCCACCGCCA
1 TACTCTACTCCTCCCGGCC-ATATCCACC-CCG
* *
11043836 TATTCTACTCCTCTCGGC
1 TACTCTACTCCTCCCGGC
11043854 TCAAGTTCAT
Statistics
Matches: 66, Mismatches: 15, Indels: 6
0.76 0.17 0.07
Matches are distributed among these distances:
32 3 0.05
33 59 0.89
34 4 0.06
ACGTcount: A:0.20, C:0.44, G:0.11, T:0.26
Consensus pattern (31 bp):
TACTCTACTCCTCCCGGCCATATCCACCCCG
Found at i:11046375 original size:2 final size:2
Alignment explanation
Indices: 11046368--11046408 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
11046358 TCCTTTATTT
11046368 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA T
11046409 TCCTATGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11046897 original size:17 final size:16
Alignment explanation
Indices: 11046860--11046898 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
11046850 AATAAACAAT
11046860 TAAA-TAAATTGGAAA
1 TAAATTAAATTGGAAA
11046875 TAAAATTAAATTGGGAAA
1 T-AAATTAAATT-GGAAA
11046893 TAAATT
1 TAAATT
11046899 CGGATTTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 1 0.05
16 3 0.14
17 11 0.52
18 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.13, T:0.31
Consensus pattern (16 bp):
TAAATTAAATTGGAAA
Found at i:11048777 original size:22 final size:22
Alignment explanation
Indices: 11048749--11048811 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
11048739 CCTTTTTCTT
11048749 TTTTTCTTTATTATTTGTTTTA
1 TTTTTCTTTATTATTTGTTTTA
* *
11048771 TTTTTCTTTTTTCTATT-TTTTA
1 TTTTTCTTTATTAT-TTGTTTTA
11048793 TTTGTTC---ATTATTTGTTTT
1 TTT-TTCTTTATTATTTGTTTT
11048812 TATAATATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
19 2 0.06
20 7 0.21
22 20 0.59
23 5 0.15
ACGTcount: A:0.11, C:0.06, G:0.05, T:0.78
Consensus pattern (22 bp):
TTTTTCTTTATTATTTGTTTTA
Found at i:11048796 original size:31 final size:30
Alignment explanation
Indices: 11048741--11048798 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
11048731 CTATTTGTCC
*
11048741 TTTTTCTTTTTTTCTTTATTATTTGTTTTA
1 TTTTTCTTTTTTTATTTATTATTTGTTTTA
*
11048771 TTTTTCTTTTTTCTATTTTTTATTTGTT
1 TTTTTCTTTTTT-TATTTATTATTTGTT
11048799 CATTATTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 12 0.48
31 13 0.52
ACGTcount: A:0.09, C:0.07, G:0.03, T:0.81
Consensus pattern (30 bp):
TTTTTCTTTTTTTATTTATTATTTGTTTTA
Found at i:11052380 original size:41 final size:41
Alignment explanation
Indices: 11052324--11052411 Score: 117
Period size: 41 Copynumber: 2.1 Consensus size: 41
11052314 CAAAAATTGT
* *
11052324 AAAACATAGAGCAATAGCGGCTTTTTACCA-AAAACGCCGCTA
1 AAAACATAGAACAATAGCGGCGTTTT--CAGAAAACGCCGCTA
11052366 AAAAC-TAGAACAATAGCGGCGTTTTCAGTAAAACGCCGCTA
1 AAAACATAGAACAATAGCGGCGTTTTCAG-AAAACGCCGCTA
11052407 AAAAC
1 AAAAC
11052412 CAGAGTATTA
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
39 2 0.05
41 35 0.83
42 5 0.12
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.18
Consensus pattern (41 bp):
AAAACATAGAACAATAGCGGCGTTTTCAGAAAACGCCGCTA
Found at i:11052424 original size:41 final size:41
Alignment explanation
Indices: 11052354--11052450 Score: 131
Period size: 41 Copynumber: 2.4 Consensus size: 41
11052344 CTTTTTACCA
* *
11052354 AAAACGCCGCTAAAAACTAGAACAATAGCGGCGTTTTCAGT
1 AAAACGCCGCTAAAAACCAGAACAATAGCGGCGCTTTCAGT
** * * *
11052395 AAAACGCCGCTAAAAACCAGAGTATTAGCGTCGCTTTCTGT
1 AAAACGCCGCTAAAAACCAGAACAATAGCGGCGCTTTCAGT
11052436 AAAACGCCGCTAAAA
1 AAAACGCCGCTAAAA
11052451 GTCATATAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 49 1.00
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.20
Consensus pattern (41 bp):
AAAACGCCGCTAAAAACCAGAACAATAGCGGCGCTTTCAGT
Found at i:11052822 original size:50 final size:50
Alignment explanation
Indices: 11052768--11052864 Score: 124
Period size: 50 Copynumber: 1.9 Consensus size: 50
11052758 AAGGTTGGGG
* *
11052768 TTTAAGGTTTAGGGGTTAGGGGTTAGGGGTCT-AGGATTAAGAGTTTATAT
1 TTTAAGATTTAGGGGTTAGGGGTTAAGGGT-TAAGGATTAAGAGTTTATAT
* * * *
11052818 TTTAAGATTTAGGGTTTATGGGTTAAGGGTTAAGGGTTAGGAGTTTA
1 TTTAAGATTTAGGGGTTAGGGGTTAAGGGTTAAGGATTAAGAGTTTA
11052865 AGGTTTAGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
49 1 0.03
50 39 0.98
ACGTcount: A:0.25, C:0.01, G:0.35, T:0.39
Consensus pattern (50 bp):
TTTAAGATTTAGGGGTTAGGGGTTAAGGGTTAAGGATTAAGAGTTTATAT
Found at i:11052865 original size:15 final size:14
Alignment explanation
Indices: 11052826--11052872 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
11052816 ATTTTAAGAT
*
11052826 TTAGGGTTTATGGG
1 TTAGGGTTTAAGGG
11052840 TTAAGGG-TTAAGGG
1 TT-AGGGTTTAAGGG
*
11052854 TTAGGAGTTTAAGGT
1 TTAGG-GTTTAAGGG
11052869 TTAG
1 TTAG
11052873 TTAATTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 3 0.11
14 11 0.39
15 14 0.50
ACGTcount: A:0.23, C:0.00, G:0.38, T:0.38
Consensus pattern (14 bp):
TTAGGGTTTAAGGG
Done.