Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold419
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1725835
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.29
Warning! 213561 characters in sequence are not A, C, G, or T
File 4 of 5
Found at i:641326 original size:31 final size:31
Alignment explanation
Indices: 641291--642469 Score: 1432
Period size: 31 Copynumber: 38.0 Consensus size: 31
641281 ACGGCATTCT
641291 ATGTAAGTAAATATTACCCGGTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* * * * * *
641322 ATGTAATTAAATATTACACGATAAGCTAACA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* *
641353 ATGTAATTATAA-ATTACTCGGTAAGTTTATA
1 ATGTAAGTA-AATATTACCCGGTAAGTTTATA
* **
641384 ATGTAATTAAATATTATACGGTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* * *
641415 ATGAAAGTAAATATTACCCGGTAAGCTTAAA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* * *
641446 ATATAAGTGAGTATTACCCGGTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
*
641477 ATGTAAGTAAATATTACCCGGTAAGTTTATG
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* *
641508 ATGAAAGTAAATATTACCCGTTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
*
641539 ATGTAAGTAAATATTACCCGGTAAGTTCATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* * * *
641570 ATGAAAGTAAATACTACCCGGTAAGCTTAAA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* *
641601 ATATAAGAAAATATTACCCGGTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* *
641632 ATGTAATTAAATATTACCCGGTAAGTTTACA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* * * *
641663 ATGCAATTATAAT-TTACTCGGTAAGCTTGA-A
1 ATGTAAGTA-AATATTACCCGGTAAG-TTTATA
* *
641694 ATATAAGTAAATATTATCCGGTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* *
641725 ATGTAAGTAAATAATACCCGGTAAGTTTATG
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
*
641756 ATGTAATTAAATATTACCCGGTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* * * *
641787 ATGAAAGTTAATATTACCCGGTAAGCTTAAA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* * * *
641818 ATATCAGTTAATATTACCTGGTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
*
641849 ATGTAAGTAAATATAACCCGGTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
*
641880 ATGTAAGTAAATATTGCCCGGTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* * * * * *
641911 ATGGAAGTAAATATTACGCAGTATGCTTAGA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* *
641942 ATATAAGTAAATATTACCTGGTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
641973 ATGTAAGTAAATATTACCCGGTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
*
642004 ATGTAAGTGAATATTACCCGGTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* *
642035 ATGTAAGTGAATATTACCTGGTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* **
642066 ATGTAATTAAATATTACAAGGTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
** *
642097 ATGTAAGTAAATATTACAAGGTAAGTTTAAA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
*
642128 ATGTAATTAAATATTACCCGGTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* * * *
642159 ATGTAAGTGAATATTACCTGCTAAGTTTAAA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* *
642190 ATGTAAGTGAATATTGCCCGGTAAGTTTAATA
1 ATGTAAGTAAATATTACCCGGTAAGTTT-ATA
* * *
642222 ATGAAAGTAGATATTACCCGGTAAGTTTAAA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* * * * * *
642253 ATGTAATTAAACATTACACGATAAGTTAACA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* *
642284 ATGTAATTATAA-ATTACTCGGTAAGTTTATA
1 ATGTAAGTA-AATATTACCCGGTAAGTTTATA
* **
642315 ATGTAATTAAATATTACAAGGTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
** * *
642346 ATGTATTTAGATATTACCCGTTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
*
642377 ATGTAAGTGAATATTACCCGGTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
* *
642408 ATGTAAGTGAATATTACCCAGG-AAGTTTGTA
1 ATGTAAGTAAATATTACCC-GGTAAGTTTATA
642439 ATGTAAGTAAATATTACCCGGTAAGTTTATA
1 ATGTAAGTAAATATTACCCGGTAAGTTTATA
642470 CAACTAGGTA
Statistics
Matches: 983, Mismatches: 154, Indels: 22
0.85 0.13 0.02
Matches are distributed among these distances:
30 12 0.01
31 933 0.95
32 38 0.04
ACGTcount: A:0.40, C:0.09, G:0.16, T:0.35
Consensus pattern (31 bp):
ATGTAAGTAAATATTACCCGGTAAGTTTATA
Found at i:650377 original size:125 final size:125
Alignment explanation
Indices: 650143--650396 Score: 404
Period size: 125 Copynumber: 2.0 Consensus size: 125
650133 ACTGATTCTT
650143 TGATATATAATCTACACGTGGTTCGTCACAGTGGTGGGGGTTGGGGGGGATAACAAAAAACTACA
1 TGATATATAATCTACACGTGGTTCGTCACAGTGGTGGGGG-TGGGGGGGATAACAAAAAACTACA
* * *
650208 TTGTTATTTTTATATTAACAAGAATGTATATAACATACTGTATAACGGGTAATTTTTACTGC
65 TTG-TATTTTTATATTAACAAGAATGTAAATAACATACCGTATAACGAGTAATTTTTACTGC
* *
650270 NTGATATTTAATCTACACGTGGTTCGTCACCGTGGTTGGGGG-GGGGGGGATAACAAAAAACTAC
1 -TGATATATAATCTACACGTGGTTCGTCACAGTGG-TGGGGGTGGGGGGGATAACAAAAAACTAC
*
650334 ATTG-CTTTTTATATTAACAAGAATGTAAATAACATACCGTATAACGAGTAATTTTTACTGC
64 ATTGTATTTTTATATTAACAAGAATGTAAATAACATACCGTATAACGAGTAATTTTTACTGC
650395 TG
1 TG
650397 TGATTTTTTT
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
124 2 0.02
125 53 0.45
127 26 0.22
128 32 0.27
129 6 0.05
ACGTcount: A:0.32, C:0.13, G:0.22, T:0.33
Consensus pattern (125 bp):
TGATATATAATCTACACGTGGTTCGTCACAGTGGTGGGGGTGGGGGGGATAACAAAAAACTACAT
TGTATTTTTATATTAACAAGAATGTAAATAACATACCGTATAACGAGTAATTTTTACTGC
Found at i:651693 original size:2 final size:2
Alignment explanation
Indices: 651686--651734 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
651676 ACTCGAGGAC
651686 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
651728 AG AG AG A
1 AG AG AG A
651735 TATTTTCCTG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:652244 original size:5 final size:5
Alignment explanation
Indices: 652234--652316 Score: 58
Period size: 5 Copynumber: 16.0 Consensus size: 5
652224 GTAAAGTGCA
* * * * * *
652234 AAACG AAACG AAACC AATCG AAACG AAACC AAACC AATCG AAACG AAACC
1 AAACG AAACG AAACG AAACG AAACG AAACG AAACG AAACG AAACG AAACG
* * *
652284 AAACC AGACG AAACCA AAATTCG AAACG AAACG
1 AAACG AAACG AAA-CG AAA--CG AAACG AAACG
652317 GAATTTAAAC
Statistics
Matches: 61, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
5 53 0.87
6 4 0.07
7 4 0.07
ACGTcount: A:0.55, C:0.27, G:0.13, T:0.05
Consensus pattern (5 bp):
AAACG
Found at i:652297 original size:20 final size:20
Alignment explanation
Indices: 652234--652289 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
652224 GTAAAGTGCA
*
652234 AAACGAAACGAAACCAATCG
1 AAACGAAACCAAACCAATCG
652254 AAACGAAACCAAACCAATCG
1 AAACGAAACCAAACCAATCG
652274 AAACGAAACCAAACCA
1 AAACGAAACCAAACCA
652290 GACGAAACCA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.57, C:0.29, G:0.11, T:0.04
Consensus pattern (20 bp):
AAACGAAACCAAACCAATCG
Found at i:652506 original size:2 final size:2
Alignment explanation
Indices: 652499--652525 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
652489 TTTAGAGTTT
652499 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
652526 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:662705 original size:3 final size:3
Alignment explanation
Indices: 662691--662734 Score: 81
Period size: 3 Copynumber: 15.0 Consensus size: 3
662681 NNTATGGTTG
662691 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
662735 ATTGATTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:665644 original size:10 final size:9
Alignment explanation
Indices: 665614--665643 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
665604 TTGAAAATGG
665614 TTGACAATT
1 TTGACAATT
665623 TTGACAAATT
1 TTGAC-AATT
665633 TTGACAATT
1 TTGACAATT
665642 TT
1 TT
665644 TTATAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (9 bp):
TTGACAATT
Found at i:676091 original size:29 final size:29
Alignment explanation
Indices: 676058--676580 Score: 843
Period size: 29 Copynumber: 18.1 Consensus size: 29
676048 TATTCCTTAG
* * *
676058 ATAATACTAAATTCGCTGTATAGGGTTAT
1 ATAATACTAAATGCACTGTATGGGGTTAT
* *
676087 ATAATACTAGATGCACTGTATAGGGTTAT
1 ATAATACTAAATGCACTGTATGGGGTTAT
* *
676116 ATAATACTAGATGCACTGTATAGGGTTAT
1 ATAATACTAAATGCACTGTATGGGGTTAT
*
676145 ATAATACTAGATGCACTGTATGGGGTTAT
1 ATAATACTAAATGCACTGTATGGGGTTAT
* *
676174 ATAATACTAGATGCACTGTATAGGGTTAT
1 ATAATACTAAATGCACTGTATGGGGTTAT
* *
676203 ATAATACTAGA--CACTGTATAGGGTTAT
1 ATAATACTAAATGCACTGTATGGGGTTAT
* *
676230 ATAATACTAGATGCACTGTATAGGGTTAT
1 ATAATACTAAATGCACTGTATGGGGTTAT
676259 ATAATACTAAATGCACTGTATGGGGTTAT
1 ATAATACTAAATGCACTGTATGGGGTTAT
*
676288 ATTATACTAAATGCACTGTATGGGGTTAT
1 ATAATACTAAATGCACTGTATGGGGTTAT
*
676317 ATTATACTAAATGCACTGTATGGGGTTAT
1 ATAATACTAAATGCACTGTATGGGGTTAT
*
676346 ATAATACTAAATGCACTGTATGGGGTCAT
1 ATAATACTAAATGCACTGTATGGGGTTAT
* *
676375 ATTATACTAAATGCACTGTATCGGGTTAT
1 ATAATACTAAATGCACTGTATGGGGTTAT
676404 ATAATACTAAATGCACTGTATGGGGTTAT
1 ATAATACTAAATGCACTGTATGGGGTTAT
676433 ATAATACTAAATGCACTGTATGGGGTTAT
1 ATAATACTAAATGCACTGTATGGGGTTAT
*
676462 ATAATACTAAATGCACTGTATAGGGTTAT
1 ATAATACTAAATGCACTGTATGGGGTTAT
*
676491 ATAATACTAAATGCACTGTATTGGGTTAT
1 ATAATACTAAATGCACTGTATGGGGTTAT
676520 ATAATACTAAATGCACTGTATGGGGTTAT
1 ATAATACTAAATGCACTGTATGGGGTTAT
676549 ATAATACTAAATGCACTGTATGGGGTTAT
1 ATAATACTAAATGCACTGTATGGGGTTAT
676578 ATA
1 ATA
676581 GTATAGAATT
Statistics
Matches: 474, Mismatches: 18, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
27 27 0.06
29 447 0.94
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.35
Consensus pattern (29 bp):
ATAATACTAAATGCACTGTATGGGGTTAT
Found at i:679398 original size:22 final size:22
Alignment explanation
Indices: 679373--679482 Score: 112
Period size: 22 Copynumber: 5.0 Consensus size: 22
679363 ATTTATAAAC
* *
679373 ACTAATATACCCAGTCCTATAT
1 ACTAATGTACACAGTCCTATAT
* *
679395 ACTAATGTAAACAGTCCTAGAT
1 ACTAATGTACACAGTCCTATAT
* * * *
679417 ACCAATGTACAAAGCCCCATAT
1 ACTAATGTACACAGTCCTATAT
* *
679439 ACTATTGTACAAAGTCCTATAT
1 ACTAATGTACACAGTCCTATAT
* *
679461 ACCAATATACACAGTCCTATAT
1 ACTAATGTACACAGTCCTATAT
679483 GTAACAAACG
Statistics
Matches: 70, Mismatches: 18, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 70 1.00
ACGTcount: A:0.39, C:0.25, G:0.08, T:0.28
Consensus pattern (22 bp):
ACTAATGTACACAGTCCTATAT
Found at i:686817 original size:53 final size:53
Alignment explanation
Indices: 686738--686873 Score: 175
Period size: 53 Copynumber: 2.6 Consensus size: 53
686728 TATTATTAGG
* * * * * *
686738 GTCTTCAGTTTCCAATGGACGACCTTATCGAGATTGTAATGTTTCTTTTTAAG
1 GTCTTCTGTTTCCAACGGAAGACCTTATAGAGATGGTAATGTTTCTTTTTAAA
*
686791 GTCTT-TCGTTTCCAACGGAAGACCTTATAGTGATGGTAATGTTTCTTTTTAAA
1 GTCTTCT-GTTTCCAACGGAAGACCTTATAGAGATGGTAATGTTTCTTTTTAAA
* *
686844 GTCTTCTGTCTCCCACGGAAGACCTTATAG
1 GTCTTCTGTTTCCAACGGAAGACCTTATAG
686874 TGAATGTAGT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
53 71 0.99
54 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (53 bp):
GTCTTCTGTTTCCAACGGAAGACCTTATAGAGATGGTAATGTTTCTTTTTAAA
Found at i:687572 original size:4 final size:4
Alignment explanation
Indices: 687563--687589 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
687553 AGTTTAAGTG
687563 TTGT TTGT TTGT TTGT TTGT TTGT TTG
1 TTGT TTGT TTGT TTGT TTGT TTGT TTG
687590 GTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.26, T:0.74
Consensus pattern (4 bp):
TTGT
Found at i:716744 original size:29 final size:29
Alignment explanation
Indices: 716711--716775 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
716701 ACCAAATAAA
* * *
716711 GACACTGGTACTTATTTATCTGTACTATT
1 GACACAGGTACTGATTTATCTGGACTATT
**
716740 GACACAGGTACTGATTTATCTGGACTAAC
1 GACACAGGTACTGATTTATCTGGACTATT
716769 GACACAG
1 GACACAG
716776 TACCTGTTGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.32
Consensus pattern (29 bp):
GACACAGGTACTGATTTATCTGGACTATT
Found at i:723512 original size:44 final size:43
Alignment explanation
Indices: 723416--723506 Score: 157
Period size: 42 Copynumber: 2.1 Consensus size: 43
723406 TCGTACTATT
*
723416 ACAACGCCACACAACATGCCGTACGTACAACAAGCAGTACTAAC
1 ACAACGCCACACAACACGCCGTACG-ACAACAAGCAGTACTAAC
723460 ACAACGCCACACAACACGCCGTAC-ACAACAAGCAGTACTAAC
1 ACAACGCCACACAACACGCCGTACGACAACAAGCAGTACTAAC
723502 ACAAC
1 ACAAC
723507 ACGCCATACA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 23 0.50
44 23 0.50
ACGTcount: A:0.43, C:0.36, G:0.12, T:0.09
Consensus pattern (43 bp):
ACAACGCCACACAACACGCCGTACGACAACAAGCAGTACTAAC
Found at i:723552 original size:45 final size:45
Alignment explanation
Indices: 723500--723585 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
723490 AGCAGTACTA
723500 ACACAACACGCCATACACAACAATCAGTCAAACTAAAACAACGCC
1 ACACAACACGCCATACACAACAATCAGTCAAACTAAAACAACGCC
* * *
723545 ACACAACACGCCGTACACAACAATCAGTCATACTAACACAA
1 ACACAACACGCCATACACAACAATCAGTCAAACTAAAACAA
723586 TATTACACAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.48, C:0.35, G:0.07, T:0.10
Consensus pattern (45 bp):
ACACAACACGCCATACACAACAATCAGTCAAACTAAAACAACGCC
Found at i:723594 original size:45 final size:45
Alignment explanation
Indices: 723500--723600 Score: 139
Period size: 45 Copynumber: 2.2 Consensus size: 45
723490 AGCAGTACTA
*
723500 ACACAACACGCCATACACAACAATCAGTCAAACTAAAACAACGCC
1 ACACAACACGCCATACACAACAATCAGTCAAACTAAAACAACACC
* * * * **
723545 ACACAACACGCCGTACACAACAATCAGTCATACTAACACAATATT
1 ACACAACACGCCATACACAACAATCAGTCAAACTAAAACAACACC
723590 ACACAACACGC
1 ACACAACACGC
723601 GGTTGCACTA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.47, C:0.35, G:0.07, T:0.12
Consensus pattern (45 bp):
ACACAACACGCCATACACAACAATCAGTCAAACTAAAACAACACC
Found at i:738853 original size:40 final size:40
Alignment explanation
Indices: 738802--738917 Score: 170
Period size: 40 Copynumber: 3.0 Consensus size: 40
738792 AAAGAAAAAT
738802 AAACAAACCAATGTATCTAATCAAAGGAAAACAAACAAAC
1 AAACAAACCAATGTATCTAATCAAAGGAAAACAAACAAAC
738842 AAACAAACCAATGTATCTAATCAAAGGAAAACAAACAAAC
1 AAACAAACCAATGTATCTAATCAAAGGAAAACAAACAAAC
* *
738882 --A-AAA-CAGTGTAT-TCAATCAAATGAAAACAAACAAAC
1 AAACAAACCAATGTATCT-AATCAAAGGAAAACAAACAAAC
738918 CGAATGAACT
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
35 1 0.01
36 28 0.38
37 3 0.04
38 1 0.01
40 40 0.55
ACGTcount: A:0.59, C:0.19, G:0.08, T:0.14
Consensus pattern (40 bp):
AAACAAACCAATGTATCTAATCAAAGGAAAACAAACAAAC
Found at i:738874 original size:36 final size:36
Alignment explanation
Indices: 738802--738917 Score: 153
Period size: 36 Copynumber: 3.1 Consensus size: 36
738792 AAAGAAAAAT
738802 AAACAAACCAATGTATCTAATCAAAGGAAAACAAACAAAC
1 AAACAAACCAATGTATCTAATCAAAGG---A-AAACAAAC
738842 AAACAAACCAATGTATCTAATCAAAGGAAAACAAAC
1 AAACAAACCAATGTATCTAATCAAAGGAAAACAAAC
* * *
738878 AAACAAAACAGTGTAT-TCAATCAAATGAAAACAAAC
1 AAACAAACCAATGTATCT-AATCAAAGGAAAACAAAC
738914 AAAC
1 AAAC
738918 CGAATGAACT
Statistics
Matches: 72, Mismatches: 3, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
35 1 0.01
36 43 0.60
37 1 0.01
40 27 0.38
ACGTcount: A:0.59, C:0.19, G:0.08, T:0.14
Consensus pattern (36 bp):
AAACAAACCAATGTATCTAATCAAAGGAAAACAAAC
Found at i:742579 original size:4 final size:4
Alignment explanation
Indices: 742570--742601 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
742560 ATGATACACT
742570 GACA GACA GACA GACA GACA -A-A GACA GACA GA
1 GACA GACA GACA GACA GACA GACA GACA GACA GA
742602 GAACAATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
2 1 0.04
3 2 0.08
4 23 0.88
ACGTcount: A:0.53, C:0.22, G:0.25, T:0.00
Consensus pattern (4 bp):
GACA
Found at i:742856 original size:31 final size:30
Alignment explanation
Indices: 742821--742883 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
742811 TGATACACTG
*
742821 CCCCTCCCCCCAGGTAATACCAACTAGCTGC
1 CCCCT-CCCCAAGGTAATACCAACTAGCTGC
742852 CCCCTCCCCAAGGTAATACCAACTAGCTGC
1 CCCCTCCCCAAGGTAATACCAACTAGCTGC
742882 CC
1 CC
742884 TTACCTGAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 26 0.84
31 5 0.16
ACGTcount: A:0.24, C:0.48, G:0.13, T:0.16
Consensus pattern (30 bp):
CCCCTCCCCAAGGTAATACCAACTAGCTGC
Found at i:750468 original size:38 final size:37
Alignment explanation
Indices: 750423--750601 Score: 263
Period size: 38 Copynumber: 4.8 Consensus size: 37
750413 AGTTTATCAA
*
750423 CACACTGTATCTATAGATACAGTAGACAATCCTACAAG
1 CACACTGTATCTATAGACACAGTAGACAATCCTAC-AG
750461 CACACTGTATCTATAGACACAGTAGACAATCCTACTAG
1 CACACTGTATCTATAGACACAGTAGACAATCCTAC-AG
750499 CACACTGTATCTATAGACACAGTAGACAATCCTATCAG
1 CACACTGTATCTATAGACACAGTAGACAATCCTA-CAG
*
750537 CACACTGTATCTATAGACACAGTAGACAGT--TGATCAG
1 CACACTGTATCTATAGACACAGTAGACAATCCT-A-CAG
* *
750574 AACACTGTATTTATAGACACAGTAGACA
1 CACACTGTATCTATAGACACAGTAGACA
750602 TTCTCTATAA
Statistics
Matches: 134, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
36 1 0.01
37 31 0.23
38 101 0.75
39 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (37 bp):
CACACTGTATCTATAGACACAGTAGACAATCCTACAG
Found at i:750557 original size:17 final size:17
Alignment explanation
Indices: 750461--750557 Score: 54
Period size: 17 Copynumber: 5.2 Consensus size: 17
750451 ATCCTACAAG
750461 CACACTGTATCTATAGA
1 CACACTGTATCTATAGA
* *
750478 CACAGTAGACAATCCTACTAG-
1 CACACT-G--TAT-CTA-TAGA
750499 CACACTGTATCTATAGA
1 CACACTGTATCTATAGA
* *
750516 CACAGTAGACAATCCTATCAG-
1 CACACT-G--TAT-CTAT-AGA
750537 CACACTGTATCTATAGA
1 CACACTGTATCTATAGA
750554 CACA
1 CACA
750558 GTAGACAGTT
Statistics
Matches: 60, Mismatches: 8, Indels: 24
0.65 0.09 0.26
Matches are distributed among these distances:
16 5 0.08
17 21 0.35
18 6 0.10
20 6 0.10
21 17 0.28
22 5 0.08
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.24
Consensus pattern (17 bp):
CACACTGTATCTATAGA
Found at i:750638 original size:59 final size:59
Alignment explanation
Indices: 750546--750660 Score: 155
Period size: 59 Copynumber: 1.9 Consensus size: 59
750536 GCACACTGTA
* *
750546 TCTATAGACACAGTAGACAGTTGATCAGAACACTGTATTTA-TAGACACAGTAGACATTC
1 TCTATAAACACAGTAGACAGTTGATCAGAACACTGTA-TCAGTAGACACAGTAGACATTC
*
750605 TCTATAAACAGAGTAGACAGTCT-ATCA-ATACACTGTATCAGTAGACACAGTAGACA
1 TCTATAAACACAGTAGACAGT-TGATCAGA-ACACTGTATCAGTAGACACAGTAGACA
750661 GAGACTGGTA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
58 3 0.06
59 46 0.92
60 1 0.02
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (59 bp):
TCTATAAACACAGTAGACAGTTGATCAGAACACTGTATCAGTAGACACAGTAGACATTC
Found at i:750742 original size:12 final size:12
Alignment explanation
Indices: 750725--750751 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
750715 CTGTTTCCCC
750725 TTGTCCTTGTCT
1 TTGTCCTTGTCT
750737 TTGTCCTTGTCT
1 TTGTCCTTGTCT
750749 TTG
1 TTG
750752 CCACCGCCCG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.00, C:0.22, G:0.19, T:0.59
Consensus pattern (12 bp):
TTGTCCTTGTCT
Found at i:761797 original size:21 final size:21
Alignment explanation
Indices: 761773--761817 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
761763 ACCCTGACCT
* *
761773 TTGTCCTTTGCGTCCTTGCCC
1 TTGTCCTTTCCATCCTTGCCC
*
761794 TTGTCCTTTCCATCCTTGGCC
1 TTGTCCTTTCCATCCTTGCCC
761815 TTG
1 TTG
761818 GGGTCAGCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.36, G:0.18, T:0.44
Consensus pattern (21 bp):
TTGTCCTTTCCATCCTTGCCC
Found at i:765179 original size:26 final size:26
Alignment explanation
Indices: 765117--765302 Score: 331
Period size: 26 Copynumber: 7.2 Consensus size: 26
765107 CTGGAACGAT
765117 CAAGTAGACAGATTGTATGTACATTA
1 CAAGTAGACAGATTGTATGTACATTA
765143 -AAGTAGACAGATTGTATGTACATTA
1 CAAGTAGACAGATTGTATGTACATTA
*
765168 CAAGTAGACAGATTGCATGTACATTA
1 CAAGTAGACAGATTGTATGTACATTA
*
765194 CAAGTATACAGATTGTATGTACATTA
1 CAAGTAGACAGATTGTATGTACATTA
*
765220 CAAGTATACAGATTGTATGTACATTA
1 CAAGTAGACAGATTGTATGTACATTA
765246 -AAGTAGACAGATTGTATGTACATTA
1 CAAGTAGACAGATTGTATGTACATTA
765271 CAAGTAGACAGATTGTATGTACATTA
1 CAAGTAGACAGATTGTATGTACATTA
765297 CAAGTA
1 CAAGTA
765303 ACTGTTCATA
Statistics
Matches: 154, Mismatches: 4, Indels: 4
0.95 0.02 0.02
Matches are distributed among these distances:
25 49 0.32
26 105 0.68
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.31
Consensus pattern (26 bp):
CAAGTAGACAGATTGTATGTACATTA
Found at i:765250 original size:77 final size:78
Alignment explanation
Indices: 765117--765302 Score: 331
Period size: 77 Copynumber: 2.4 Consensus size: 78
765107 CTGGAACGAT
765117 CAAGTAGACAGATTGTATGTACATTA-AAGTAGACAGATTGTATGTACATTACAAGTAGACAGAT
1 CAAGTAGACAGATTGTATGTACATTACAAGTAGACAGATTGTATGTACATTACAAGTAGACAGAT
765181 TGCATGTACATTA
66 TGCATGTACATTA
* *
765194 CAAGTATACAGATTGTATGTACATTACAAGTATACAGATTGTATGTACATTA-AAGTAGACAGAT
1 CAAGTAGACAGATTGTATGTACATTACAAGTAGACAGATTGTATGTACATTACAAGTAGACAGAT
*
765258 TGTATGTACATTA
66 TGCATGTACATTA
765271 CAAGTAGACAGATTGTATGTACATTACAAGTA
1 CAAGTAGACAGATTGTATGTACATTACAAGTA
765303 ACTGTTCATA
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
77 80 0.77
78 24 0.23
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.31
Consensus pattern (78 bp):
CAAGTAGACAGATTGTATGTACATTACAAGTAGACAGATTGTATGTACATTACAAGTAGACAGAT
TGCATGTACATTA
Found at i:765296 original size:103 final size:103
Alignment explanation
Indices: 765117--765302 Score: 354
Period size: 103 Copynumber: 1.8 Consensus size: 103
765107 CTGGAACGAT
765117 CAAGTAGACAGATTGTATGTACATTAAAGTAGACAGATTGTATGTACATTACAAGTAGACAGATT
1 CAAGTAGACAGATTGTATGTACATTAAAGTAGACAGATTGTATGTACATTACAAGTAGACAGATT
765182 GCATGTACATTACAAGTATACAGATTGTATGTACATTA
66 GCATGTACATTACAAGTATACAGATTGTATGTACATTA
*
765220 CAAGTATACAGATTGTATGTACATTAAAGTAGACAGATTGTATGTACATTACAAGTAGACAGATT
1 CAAGTAGACAGATTGTATGTACATTAAAGTAGACAGATTGTATGTACATTACAAGTAGACAGATT
*
765285 GTATGTACATTACAAGTA
66 GCATGTACATTACAAGTA
765303 ACTGTTCATA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 81 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.31
Consensus pattern (103 bp):
CAAGTAGACAGATTGTATGTACATTAAAGTAGACAGATTGTATGTACATTACAAGTAGACAGATT
GCATGTACATTACAAGTATACAGATTGTATGTACATTA
Found at i:769984 original size:4 final size:4
Alignment explanation
Indices: 769977--770087 Score: 177
Period size: 4 Copynumber: 27.8 Consensus size: 4
769967 AAAAACCCAA
* * * * *
769977 AATG AATG AATA AATA AATA AATA AATA AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
770025 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG AATG
770073 AATG AATG AATG AAT
1 AATG AATG AATG AAT
770088 AAATAAATAA
Statistics
Matches: 105, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 105 1.00
ACGTcount: A:0.55, C:0.00, G:0.20, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:770000 original size:12 final size:12
Alignment explanation
Indices: 769981--770125 Score: 155
Period size: 12 Copynumber: 12.1 Consensus size: 12
769971 ACCCAAAATG
*
769981 AATGAATAAATA
1 AATGAATGAATA
* *
769993 AATAAATAAATA
1 AATGAATGAATA
*
770005 AATGAATGAATG
1 AATGAATGAATA
*
770017 AATGAATGAATG
1 AATGAATGAATA
*
770029 AATGAATGAATG
1 AATGAATGAATA
*
770041 AATGAATGAATG
1 AATGAATGAATA
*
770053 AATGAATGAATG
1 AATGAATGAATA
*
770065 AATGAATGAATG
1 AATGAATGAATA
770077 AATGAATGAATA
1 AATGAATGAATA
* *
770089 AATAAATAAATA
1 AATGAATGAATA
* *
770101 AATAAATAAATA
1 AATGAATGAATA
* *
770113 AATAAATAAATA
1 AATGAATGAATA
770125 A
1 A
770126 TACAAATGAA
Statistics
Matches: 126, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 126 1.00
ACGTcount: A:0.61, C:0.00, G:0.14, T:0.25
Consensus pattern (12 bp):
AATGAATGAATA
Found at i:770092 original size:4 final size:4
Alignment explanation
Indices: 770085--770125 Score: 82
Period size: 4 Copynumber: 10.2 Consensus size: 4
770075 TGAATGAATG
770085 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA A
1 AATA AATA AATA AATA AATA AATA AATA AATA AATA AATA A
770126 TACAAATGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:771342 original size:2 final size:2
Alignment explanation
Indices: 771335--771390 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
771325 TAGTACATAG
771335 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
771377 GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA
771391 TTCATATACA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:777453 original size:55 final size:52
Alignment explanation
Indices: 777287--777453 Score: 151
Period size: 55 Copynumber: 3.1 Consensus size: 52
777277 CAACGAAATA
*
777287 AGCAACAAACCAGAACCAGAAATAGAACTACAGCAACAAATTATGCTCTAACCAC
1 AGCAAC-AA-CAG-ACCAGAAATAGAACTACAGCAACAAATAATGCTCTAACCAC
* * * * * *
777342 AGCAATAATTCAGA--A-CAACAGAACTACAGCAACCAAATAATGTTCTAAACAA
1 AGCAACAA--CAGACCAGAAATAGAACTACAGCAA-CAAATAATGCTCTAACCAC
* *
777394 AGCAACAACGAGTACCAGAAATAGAACTACAGCATCAAAATAATGCTCTAACCGC
1 AGCAACAAC-AG-ACCAGAAATAGAACTACAGCAAC-AAATAATGCTCTAACCAC
777449 AGCAA
1 AGCAA
777454 TAATTGAACT
Statistics
Matches: 88, Mismatches: 16, Indels: 16
0.73 0.13 0.13
Matches are distributed among these distances:
50 1 0.01
51 17 0.19
52 24 0.27
54 5 0.06
55 41 0.47
ACGTcount: A:0.49, C:0.25, G:0.12, T:0.14
Consensus pattern (52 bp):
AGCAACAACAGACCAGAAATAGAACTACAGCAACAAATAATGCTCTAACCAC
Found at i:785043 original size:12 final size:12
Alignment explanation
Indices: 785026--785061 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
785016 GCGAGCAGCC
785026 TACATCAAACCT
1 TACATCAAACCT
785038 TACATCAAACCT
1 TACATCAAACCT
785050 TACATCAAACCT
1 TACATCAAACCT
785062 ATCTCCAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (12 bp):
TACATCAAACCT
Found at i:791724 original size:26 final size:28
Alignment explanation
Indices: 791689--791744 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
791679 ACTACCACCC
*
791689 CCACCCCCACC-CC-CCACACACACACA
1 CCACCACCACCACCACCACACACACACA
*
791715 CCACCACCACCACCACCAGACACACACA
1 CCACCACCACCACCACCACACACACACA
791743 CC
1 CC
791745 TCGGCCCTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 10 0.38
27 2 0.08
28 14 0.54
ACGTcount: A:0.34, C:0.64, G:0.02, T:0.00
Consensus pattern (28 bp):
CCACCACCACCACCACCACACACACACA
Found at i:793482 original size:39 final size:36
Alignment explanation
Indices: 793382--793494 Score: 172
Period size: 36 Copynumber: 3.1 Consensus size: 36
793372 ACGAGCCGTT
*
793382 AGTCACCAGATGGAACTAATGGTTTGGCTTTGACGG
1 AGTCACCAGATGGAACTAATGGTTTGGCTTTGACAG
793418 AGTCACCAGATGGAACTAATGGTTTGGCTTTGACAG
1 AGTCACCAGATGGAACTAATGGTTTGGCTTTGACAG
* *
793454 AGTGACCCACTACTGGAACTAATGGTTTGGCTTTGACAG
1 AGTCA-CCA-GA-TGGAACTAATGGTTTGGCTTTGACAG
793493 AG
1 AG
793495 GGAACTAATG
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
36 39 0.55
37 3 0.04
38 1 0.01
39 28 0.39
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (36 bp):
AGTCACCAGATGGAACTAATGGTTTGGCTTTGACAG
Found at i:793506 original size:27 final size:27
Alignment explanation
Indices: 793468--793571 Score: 208
Period size: 27 Copynumber: 3.9 Consensus size: 27
793458 ACCCACTACT
793468 GGAACTAATGGTTTGGCTTTGACAGAG
1 GGAACTAATGGTTTGGCTTTGACAGAG
793495 GGAACTAATGGTTTGGCTTTGACAGAG
1 GGAACTAATGGTTTGGCTTTGACAGAG
793522 GGAACTAATGGTTTGGCTTTGACAGAG
1 GGAACTAATGGTTTGGCTTTGACAGAG
793549 GGAACTAATGGTTTGGCTTTGAC
1 GGAACTAATGGTTTGGCTTTGAC
793572 GGAGTGACCC
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.25, C:0.12, G:0.33, T:0.31
Consensus pattern (27 bp):
GGAACTAATGGTTTGGCTTTGACAGAG
Found at i:793808 original size:51 final size:51
Alignment explanation
Indices: 793732--794601 Score: 545
Period size: 51 Copynumber: 17.4 Consensus size: 51
793722 ATAGAGTATA
* * *
793732 AGACTAACAGTTTGGATTTGACTAAGAGCCCGGCTATTGCATCACTGACAC
1 AGACTTACAGTTTGGATTTGACTAAGAGCCCGGCTATTGTATCACTGACAT
* * * *
793783 AGACTTACAGTCTGAATTTGACTAAGAACCCGGCTATAGTTATTCACTGACATAT
1 AGACTTACAGTTTGGATTTGACTAAGAGCCCGGCTATTG-TA-TCACTGAC--AT
* * *
793838 AGACTAACAGTTTGGATTTGACTAAGAGCCTGGCTATTGTATCACTGACAC
1 AGACTTACAGTTTGGATTTGACTAAGAGCCCGGCTATTGTATCACTGACAT
* * * * *
793889 AGACTTACAGTCTGAATTTGATTAAGAACCCGGCTATAGTTTATCACTGACATAT
1 AGACTTACAGTTTGGATTTGACTAAGAGCCCGGCTAT--TGTATCACTGAC--AT
* ***** * *
793944 AGACTGACAGTTTGGATTTGACT---AGTTTATC-ACTG-A-CA-T-ATAT
1 AGACTTACAGTTTGGATTTGACTAAGAGCCCGGCTATTGTATCACTGACAT
*
793987 AGACTGACAGTTTGGATTTGACT---A-----G---TT-TATCACTGACATAT
1 AGACTTACAGTTTGGATTTGACTAAGAGCCCGGCTATTGTATCACTGAC--AT
* *
794028 AGACTGACAGTTTGGATTTGACTAAGAGCCCGGCTATTGTATCACTGACAC
1 AGACTTACAGTTTGGATTTGACTAAGAGCCCGGCTATTGTATCACTGACAT
* * * *
794079 AGACTTACAGTCTGAATTTGACTACTA-AG-ACGGCTATAGTTATTCACTGACATAT
1 AGACTTACAGTTTGGATTTGACTA--AGAGCCCGGCTATTG-TA-TCACTGAC--AT
* * *
794134 AGACTAACAGTTTGGATTTGACTAAGAGCCTGGCTATTGTATCACTGACAC
1 AGACTTACAGTTTGGATTTGACTAAGAGCCCGGCTATTGTATCACTGACAT
* * * * *
794185 AGACTTACAGTCTGAATTTGACTACGAACCCGGCTATTGTATCACTGACAC
1 AGACTTACAGTTTGGATTTGACTAAGAGCCCGGCTATTGTATCACTGACAT
* * ***** * *
794236 AGACTTACAGTCTGAATTTGACT---AG-TTTATTACTG-A-CA-T-ATAT
1 AGACTTACAGTTTGGATTTGACTAAGAGCCCGGCTATTGTATCACTGACAT
*
794279 AGACTGACAGTTTGGATTTGACT---A-----G---TT-TATCACTGACATAT
1 AGACTTACAGTTTGGATTTGACTAAGAGCCCGGCTATTGTATCACTGAC--AT
* * * * * *
794320 AGACTGACAGTCTGAATTTGACTAAGAACCCGGCTATAGTTTATCA---ATAT
1 AGACTTACAGTTTGGATTTGACTAAGAGCCCGGCTAT--TGTATCACTGACAT
* * *
794370 AGACTAACAGTTTGGATTTGACTAAGAGCCCGGCTATTGTGTCACTGACAC
1 AGACTTACAGTTTGGATTTGACTAAGAGCCCGGCTATTGTATCACTGACAT
* * * *
794421 AGACTTACAGTCTGAATTTGACTAAGAACCCGG-TTTTAGTTTATCACTGACATAT
1 AGACTTACAGTTTGGATTTGACTAAGAGCCCGGCTATT-G--TATCACTGAC--AT
* * * *
794476 AGACTAACAGTTTGGATTTGACTAAGAGCCTGGCTATTGTATTACTGACAC
1 AGACTTACAGTTTGGATTTGACTAAGAGCCCGGCTATTGTATCACTGACAT
* * * * *
794527 AGACTTACAGTCTGAATTTGACTAAGAACCCGGCTATAGTTTATCACTGACAC
1 AGACTTACAGTTTGGATTTGACTAAGAGCCCGGCTAT--TGTATCACTGACAT
794580 AGACTTACAGTTTGGATTTGAC
1 AGACTTACAGTTTGGATTTGAC
794602 CAGGAGGCCC
Statistics
Matches: 646, Mismatches: 108, Indels: 128
0.73 0.12 0.15
Matches are distributed among these distances:
36 4 0.01
37 4 0.01
38 2 0.00
39 2 0.00
41 48 0.07
43 49 0.08
44 3 0.00
45 3 0.00
46 2 0.00
47 6 0.01
48 7 0.01
49 3 0.00
50 38 0.06
51 231 0.36
52 11 0.02
53 105 0.16
54 7 0.01
55 118 0.18
56 3 0.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (51 bp):
AGACTTACAGTTTGGATTTGACTAAGAGCCCGGCTATTGTATCACTGACAT
Found at i:793917 original size:106 final size:106
Alignment explanation
Indices: 793732--794259 Score: 624
Period size: 106 Copynumber: 5.2 Consensus size: 106
793722 ATAGAGTATA
* *
793732 AGACTAACAGTTTGGATTTGACTAAGAGCCCGGCTATTGCATCACTGACACAGACTTACAGTCTG
1 AGACTAACAGTTTGGATTTGACTAAGAGCCTGGCTATTGTATCACTGACACAGACTTACAGTCTG
793797 AATTTGACTAAGAACCCGGCTATAGTTATTCACTGACATAT
66 AATTTGACTAAGAACCCGGCTATAGTTATTCACTGACATAT
793838 AGACTAACAGTTTGGATTTGACTAAGAGCCTGGCTATTGTATCACTGACACAGACTTACAGTCTG
1 AGACTAACAGTTTGGATTTGACTAAGAGCCTGGCTATTGTATCACTGACACAGACTTACAGTCTG
*
793903 AATTTGATTAAGAACCCGGCTATAGTT-TATCACTGACATAT
66 AATTTGACTAAGAACCCGGCTATAGTTAT-TCACTGACATAT
* ** ** * * * * *
793944 AGACTGACAGTTTGGATTTGACT---AGTTTATC-ACTG-A-CA-T-ATATAGACTGACAGTTTG
1 AGACTAACAGTTTGGATTTGACTAAGAGCCTGGCTATTGTATCACTGACACAGACTTACAGTCTG
*
794001 GATTTGACT----A----G---T--TTA-TCACTGACATAT
66 AATTTGACTAAGAACCCGGCTATAGTTATTCACTGACATAT
* *
794028 AGACTGACAGTTTGGATTTGACTAAGAGCCCGGCTATTGTATCACTGACACAGACTTACAGTCTG
1 AGACTAACAGTTTGGATTTGACTAAGAGCCTGGCTATTGTATCACTGACACAGACTTACAGTCTG
** **
794093 AATTTGACTACTAAGACGGCTATAGTTATTCACTGACATAT
66 AATTTGACTAAGAACCCGGCTATAGTTATTCACTGACATAT
794134 AGACTAACAGTTTGGATTTGACTAAGAGCCTGGCTATTGTATCACTGACACAGACTTACAGTCTG
1 AGACTAACAGTTTGGATTTGACTAAGAGCCTGGCTATTGTATCACTGACACAGACTTACAGTCTG
* * *
794199 AATTTGACTACGAACCCGGCTATTG-TA-TCACTGAC--AC
66 AATTTGACTAAGAACCCGGCTATAGTTATTCACTGACATAT
* * *
794236 AGACTTACAGTCTGAATTTGACTA
1 AGACTAACAGTTTGGATTTGACTA
794260 GTTTATTACT
Statistics
Matches: 362, Mismatches: 36, Indels: 52
0.80 0.08 0.12
Matches are distributed among these distances:
84 35 0.10
85 2 0.01
87 4 0.01
88 3 0.01
89 1 0.00
90 3 0.01
91 1 0.00
92 22 0.06
94 1 0.00
96 1 0.00
98 21 0.06
99 1 0.00
100 3 0.01
101 1 0.00
102 25 0.07
103 5 0.01
104 8 0.02
105 6 0.02
106 219 0.60
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (106 bp):
AGACTAACAGTTTGGATTTGACTAAGAGCCTGGCTATTGTATCACTGACACAGACTTACAGTCTG
AATTTGACTAAGAACCCGGCTATAGTTATTCACTGACATAT
Found at i:794001 original size:43 final size:41
Alignment explanation
Indices: 793925--794051 Score: 236
Period size: 41 Copynumber: 3.0 Consensus size: 41
793915 AACCCGGCTA
793925 TAGTTTATCACTGACATATAGACTGACAGTTTGGATTTGAC
1 TAGTTTATCACTGACATATAGACTGACAGTTTGGATTTGAC
793966 TAGTTTATCACTGACATATATAGACTGACAGTTTGGATTTGAC
1 TAGTTTATCACTGAC--ATATAGACTGACAGTTTGGATTTGAC
794009 TAGTTTATCACTGACATATAGACTGACAGTTTGGATTTGAC
1 TAGTTTATCACTGACATATAGACTGACAGTTTGGATTTGAC
794050 TA
1 TA
794052 AGAGCCCGGC
Statistics
Matches: 84, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
41 43 0.51
43 41 0.49
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (41 bp):
TAGTTTATCACTGACATATAGACTGACAGTTTGGATTTGAC
Found at i:794339 original size:41 final size:41
Alignment explanation
Indices: 794224--794343 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 41
794214 CCGGCTATTG
* *
794224 TATCACTGAC--ACAGACTTACAGTCTGAATTTGACTAGTT
1 TATCACTGACATATAGACTGACAGTCTGAATTTGACTAGTT
* * *
794263 TATTACTGACATATATAGACTGACAGTTTGGATTTGACTAGTT
1 TATCACTGAC--ATATAGACTGACAGTCTGAATTTGACTAGTT
794306 TATCACTGACATATAGACTGACAGTCTGAATTTGACTA
1 TATCACTGACATATAGACTGACAGTCTGAATTTGACTA
794344 AGAACCCGGC
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
39 9 0.13
41 26 0.38
43 34 0.49
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.35
Consensus pattern (41 bp):
TATCACTGACATATAGACTGACAGTCTGAATTTGACTAGTT
Found at i:794514 original size:106 final size:106
Alignment explanation
Indices: 794306--794601 Score: 444
Period size: 106 Copynumber: 2.8 Consensus size: 106
794296 TTGACTAGTT
* *
794306 TATCACTGACATATAGACTGACAGTCTGAATTTGACTAAGAACCCGGCTATAGTTTAT--C--A-
1 TATCACTGAC--ACAGACTTACAGTCTGAATTTGACTAAGAACCCGGCTATAGTTTATCACTGAC
794366 ATATAGACTAACAGTTTGGATTTGACTAAGAGCCCGGCTATTG
64 ATATAGACTAACAGTTTGGATTTGACTAAGAGCCCGGCTATTG
* * *
794409 TGTCACTGACACAGACTTACAGTCTGAATTTGACTAAGAACCCGGTTTTAGTTTATCACTGACAT
1 TATCACTGACACAGACTTACAGTCTGAATTTGACTAAGAACCCGGCTATAGTTTATCACTGACAT
*
794474 ATAGACTAACAGTTTGGATTTGACTAAGAGCCTGGCTATTG
66 ATAGACTAACAGTTTGGATTTGACTAAGAGCCCGGCTATTG
*
794515 TATTACTGACACAGACTTACAGTCTGAATTTGACTAAGAACCCGGCTATAGTTTATCACTGAC--
1 TATCACTGACACAGACTTACAGTCTGAATTTGACTAAGAACCCGGCTATAGTTTATCACTGACAT
* *
794578 ACAGACTTACAGTTTGGATTTGAC
66 ATAGACTAACAGTTTGGATTTGAC
794602 CAGGAGGCCC
Statistics
Matches: 176, Mismatches: 12, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
101 42 0.24
103 10 0.06
104 22 0.12
105 1 0.01
106 101 0.57
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (106 bp):
TATCACTGACACAGACTTACAGTCTGAATTTGACTAAGAACCCGGCTATAGTTTATCACTGACAT
ATAGACTAACAGTTTGGATTTGACTAAGAGCCCGGCTATTG
Found at i:797788 original size:36 final size:36
Alignment explanation
Indices: 797706--797944 Score: 329
Period size: 36 Copynumber: 6.7 Consensus size: 36
797696 ATAGTTCCGT
* * *
797706 TCTGGACACACCGAGACTAACAATAATCC-GGCCAA
1 TCTGGACACACCGGGACTAGCAATAATCCAGGCCGA
* *
797741 TCTGGACACACCGAGACTAGCAATAATCCAGGCCGT
1 TCTGGACACACCGGGACTAGCAATAATCCAGGCCGA
*
797777 TCTGGACACACCGGGACTAACAATAATCC-GGCCGA
1 TCTGGACACACCGGGACTAGCAATAATCCAGGCCGA
* * *
797812 TCTGGGCACACTGGGACTAGCAATAATCCAGGCCGC
1 TCTGGACACACCGGGACTAGCAATAATCCAGGCCGA
* *
797848 TCTGGACACACTGGGACTAGCAATAATCCAGGCCGT
1 TCTGGACACACCGGGACTAGCAATAATCCAGGCCGA
*
797884 TCTGGACACACCGGGACTAGCAATAATCCGGGCCGA
1 TCTGGACACACCGGGACTAGCAATAATCCAGGCCGA
* * *
797920 TCTGGGCACACTGAGACTAGCAATA
1 TCTGGACACACCGGGACTAGCAATA
797945 GACAGTAGCA
Statistics
Matches: 184, Mismatches: 18, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
35 59 0.32
36 125 0.68
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.16
Consensus pattern (36 bp):
TCTGGACACACCGGGACTAGCAATAATCCAGGCCGA
Found at i:797822 original size:71 final size:71
Alignment explanation
Indices: 797702--797944 Score: 342
Period size: 71 Copynumber: 3.4 Consensus size: 71
797692 CGCCATAGTT
* *
797702 CCGTTCTGGACACACCGAGACTAACAATAATCCGGCCAATCTGGACACACCGAGACTAGCAATAA
1 CCGTTCTGGACACACCGAGACTAACAATAATCCGGCCGATCTGGACACACCGGGACTAGCAATAA
797767 TCCAGG
66 TCCAGG
* * *
797773 CCGTTCTGGACACACCGGGACTAACAATAATCCGGCCGATCTGGGCACACTGGGACTAGCAATAA
1 CCGTTCTGGACACACCGAGACTAACAATAATCCGGCCGATCTGGACACACCGGGACTAGCAATAA
797838 TCCAGG
66 TCCAGG
* * * * *
797844 CCGCTCTGGACACACTGGGACTAGCAATAATCCAGGCCGTTCTGGACACACCGGGACTAGCAATA
1 CCGTTCTGGACACACCGAGACTAACAATAATCC-GGCCGATCTGGACACACCGGGACTAGCAATA
*
797909 ATCCGGG
65 ATCCAGG
* * * *
797916 CCGATCTGGGCACACTGAGACTAGCAATA
1 CCGTTCTGGACACACCGAGACTAACAATA
797945 GACAGTAGCA
Statistics
Matches: 156, Mismatches: 15, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
71 96 0.62
72 60 0.38
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.16
Consensus pattern (71 bp):
CCGTTCTGGACACACCGAGACTAACAATAATCCGGCCGATCTGGACACACCGGGACTAGCAATAA
TCCAGG
Found at i:797891 original size:107 final size:107
Alignment explanation
Indices: 797706--797944 Score: 381
Period size: 107 Copynumber: 2.2 Consensus size: 107
797696 ATAGTTCCGT
* * *
797706 TCTGGACACACCGAGACTAACAATAATCCGGCCAATCTGGACACACCGAGACTAGCAATAATCCA
1 TCTGGGCACACTGAGACTAGCAATAATCCGGCCAATCTGGACACACCGAGACTAGCAATAATCCA
797771 GGCCGTTCTGGACACACCGGGACTAACAATAATCC-GGCCGA
66 GGCCGTTCTGGACACACCGGGACTAACAATAATCCGGGCCGA
* ** * *
797812 TCTGGGCACACTGGGACTAGCAATAATCCAGGCCGCTCTGGACACACTGGGACTAGCAATAATCC
1 TCTGGGCACACTGAGACTAGCAATAATCC-GGCCAATCTGGACACACCGAGACTAGCAATAATCC
*
797877 AGGCCGTTCTGGACACACCGGGACTAGCAATAATCCGGGCCGA
65 AGGCCGTTCTGGACACACCGGGACTAACAATAATCCGGGCCGA
797920 TCTGGGCACACTGAGACTAGCAATA
1 TCTGGGCACACTGAGACTAGCAATA
797945 GACAGTAGCA
Statistics
Matches: 121, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
106 25 0.21
107 66 0.55
108 30 0.25
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.16
Consensus pattern (107 bp):
TCTGGGCACACTGAGACTAGCAATAATCCGGCCAATCTGGACACACCGAGACTAGCAATAATCCA
GGCCGTTCTGGACACACCGGGACTAACAATAATCCGGGCCGA
Found at i:815529 original size:2 final size:2
Alignment explanation
Indices: 815522--815599 Score: 147
Period size: 2 Copynumber: 39.0 Consensus size: 2
815512 GTAGACAGGT
*
815522 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GG GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
815564 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
815600 TGTTATTAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:817359 original size:2 final size:2
Alignment explanation
Indices: 817352--817378 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
817342 GGTACCAAAG
817352 CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA C
817379 TCTCTCTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:821540 original size:21 final size:21
Alignment explanation
Indices: 821511--821558 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
821501 ATGTTTGTAA
*
821511 AGTTTACGGACAGAAAACTAT
1 AGTTAACGGACAGAAAACTAT
*
821532 AGTTAACGGGCAGAAAACTAT
1 AGTTAACGGACAGAAAACTAT
821553 AGTTAA
1 AGTTAA
821559 GGTCAGAGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.44, C:0.12, G:0.21, T:0.23
Consensus pattern (21 bp):
AGTTAACGGACAGAAAACTAT
Found at i:822032 original size:18 final size:18
Alignment explanation
Indices: 821977--822033 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
821967 ATTTGATCAC
*
821977 ATAATACAATATCATAAAAT
1 ATAATACAATATCAT--ATT
821997 ATAATACAATAT-AGTATT
1 ATAATACAATATCA-TATT
*
822015 ATATTACAATATCATATT
1 ATAATACAATATCATATT
822033 A
1 A
822034 CATAATACAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
18 18 0.55
19 2 0.06
20 13 0.39
ACGTcount: A:0.53, C:0.09, G:0.02, T:0.37
Consensus pattern (18 bp):
ATAATACAATATCATATT
Found at i:822266 original size:15 final size:15
Alignment explanation
Indices: 822238--822385 Score: 86
Period size: 15 Copynumber: 9.3 Consensus size: 15
822228 ATACATACTG
* *
822238 ATCATATGACACAAT
1 ATCATATAATACAAT
*
822253 AAT-ATATATTACAAT
1 -ATCATATAATACAAT
822268 ATCATATAATACAAT
1 ATCATATAATACAAT
*
822283 TTCATGTGATAAGATA-ATAT
1 ATCA--T-AT-A-ATACA-AT
822303 ATCATATAA-ACCAAT
1 ATCATATAATA-CAAT
*
822318 ATCATATCATACAAT
1 ATCATATAATACAAT
** *
822333 ATTGTATGATACAAT
1 ATCATATAATACAAT
*
822348 ATTATATAATATTACAAT
1 ATCATAT-A-A-TACAAT
822366 ATCATATAATACAAT
1 ATCATATAATACAAT
*
822381 TTCAT
1 ATCAT
822386 GTGATATAAT
Statistics
Matches: 105, Mismatches: 14, Indels: 27
0.72 0.10 0.18
Matches are distributed among these distances:
14 3 0.03
15 66 0.63
16 6 0.06
17 5 0.05
18 15 0.14
19 2 0.02
20 8 0.08
ACGTcount: A:0.47, C:0.12, G:0.04, T:0.36
Consensus pattern (15 bp):
ATCATATAATACAAT
Found at i:822318 original size:50 final size:49
Alignment explanation
Indices: 822248--822430 Score: 168
Period size: 50 Copynumber: 3.8 Consensus size: 49
822238 ATCATATGAC
822248 ACAATAATATATAT-T--A-CAATATCATATAATACAATTTCATGTGAT
1 ACAATAATATATATATAAACCAATATCATATAATACAATTTCATGTGAT
* * *
822293 A-AGATAATATATCATATAAACCAATATCATATCATACAATATT-GTATGAT
1 ACA-ATAATATAT-ATATAAACCAATATCATATAATACAAT-TTCATGTGAT
* *
822343 ACAATATTATATA-ATATTA-CAATATCATATAATACAATTTCATGTGAT
1 ACAATAATATATATATA-AACCAATATCATATAATACAATTTCATGTGAT
* ** *
822391 ATAATTCTATAT-TACTGAAACCAATATCATATTATACAAT
1 ACAATAATATATATA-T-AAACCAATATCATATAATACAAT
822431 ATTGTATGAA
Statistics
Matches: 111, Mismatches: 13, Indels: 23
0.76 0.09 0.16
Matches are distributed among these distances:
44 1 0.01
45 10 0.09
46 2 0.02
47 3 0.03
48 36 0.32
49 5 0.05
50 51 0.46
51 3 0.03
ACGTcount: A:0.46, C:0.12, G:0.04, T:0.37
Consensus pattern (49 bp):
ACAATAATATATATATAAACCAATATCATATAATACAATTTCATGTGAT
Found at i:822365 original size:18 final size:18
Alignment explanation
Indices: 822342--822376 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
822332 TATTGTATGA
*
822342 TACAATATTATATAATAT
1 TACAATATCATATAATAT
822360 TACAATATCATATAATA
1 TACAATATCATATAATA
822377 CAATTTCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (18 bp):
TACAATATCATATAATAT
Found at i:822402 original size:98 final size:98
Alignment explanation
Indices: 822242--822464 Score: 316
Period size: 98 Copynumber: 2.3 Consensus size: 98
822232 ATACTGATCA
*
822242 TATGACACAATA--ATAT-ATATTACAATATCATATAATACAATTTCATGTGATAAGATAATATA
1 TATGAAACAATATTATATAATATTACAATATCATATAATACAATTTCATGTGATAAGATAATATA
822304 TCATA-T-AAACCAATATCATATCATACAATATTG
66 T--TACTGAAACCAATATCATATCATACAATATTG
* **
822337 TATGATACAATATTATATAATATTACAATATCATATAATACAATTTCATGTGATATA-ATTCTAT
1 TATGAAACAATATTATATAATATTACAATATCATATAATACAATTTCATGTGATA-AGATAATAT
*
822401 ATTACTGAAACCAATATCATATTATACAATATTG
65 ATTACTGAAACCAATATCATATCATACAATATTG
*
822435 TATGAAACAATATTATAGAATA-TACAATAT
1 TATGAAACAATATTATATAATATTACAATAT
822465 TGTATCATAG
Statistics
Matches: 116, Mismatches: 6, Indels: 10
0.88 0.05 0.08
Matches are distributed among these distances:
95 11 0.09
96 2 0.02
97 13 0.11
98 89 0.77
99 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (98 bp):
TATGAAACAATATTATATAATATTACAATATCATATAATACAATTTCATGTGATAAGATAATATA
TTACTGAAACCAATATCATATCATACAATATTG
Found at i:822430 original size:15 final size:15
Alignment explanation
Indices: 822301--822432 Score: 61
Period size: 15 Copynumber: 8.3 Consensus size: 15
822291 ATAAGATAAT
*
822301 ATATCATA-TAAACCA
1 ATATCATATTATA-CA
*
822316 ATATCATATCATACA
1 ATATCATATTATACA
** *
822331 ATATTGTATGATACA
1 ATATCATATTATACA
*
822346 ATATTATATAATATTACA
1 ATATCATAT--TA-TACA
*
822364 ATATCATATAATACA
1 ATATCATATTATACA
* * * *
822379 ATTTCATGTGATATA
1 ATATCATATTATACA
822394 AT-TCTATATTACTGAAACCA
1 ATATC-ATATTA-T---A-CA
822414 ATATCATATTATACA
1 ATATCATATTATACA
822429 ATAT
1 ATAT
822433 TGTATGAAAC
Statistics
Matches: 90, Mismatches: 16, Indels: 22
0.70 0.12 0.17
Matches are distributed among these distances:
14 2 0.02
15 57 0.63
16 5 0.06
17 1 0.01
18 12 0.13
19 2 0.02
20 9 0.10
21 2 0.02
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (15 bp):
ATATCATATTATACA
Found at i:822713 original size:20 final size:20
Alignment explanation
Indices: 822690--822742 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
822680 ATATAATATC
822690 ATATTGTATCATATCAAACA
1 ATATTGTATCATATCAAACA
* *
822710 ATATTGTTTCATATCATACA
1 ATATTGTATCATATCAAACA
* *
822730 ATACTATATCATA
1 ATATTGTATCATA
822743 GGAATCATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.40
Consensus pattern (20 bp):
ATATTGTATCATATCAAACA
Found at i:823692 original size:177 final size:176
Alignment explanation
Indices: 823391--824004 Score: 765
Period size: 177 Copynumber: 3.5 Consensus size: 176
823381 CATCCGAAAC
*
823391 CAGACTCAGCATTCAAGCCTGTCAGGTGCATCAGTATCATAAGACGCATCATCCATACAAGTTTG
1 CAGATTCAGCATTCAAGCCTGTCAGGTGCATCAGTATCATAAGACGCATCATCCATACAAGTTTG
* *
823456 GTGAAGTAAAGACCAGTAGTAACTAAGATATAAT-C-ATCAGAGGGCACCTGCAACAAAAACTTT
66 GTGAAGTTAGGACCAGTAGTAACTAAGATAT--TGCTATCA-AGGGCACCTGCAACAAAAACTTT
* * * *
823519 AACCAGCTCTAAAAACCTTAACCTCTTCCAGCATCCGAAACCTATTGCT
128 AACCTGCTCCAAAAACCTTAACCTCCTCCAGCATCCGAAACCTATAGCT
* *
823568 CAGATTCAGCATTCAAGCTTGTCAGGTGCATCAGTATCAAAAGACGCATCATCCATACAAGTTTG
1 CAGATTCAGCATTCAAGCCTGTCAGGTGCATCAGTATCATAAGACGCATCATCCATACAAGTTTG
* **
823633 GTGAAGTTAGGACCAGTAGTAACTTAGATATTGCTATCAATGGGCACCCACAACAAAAACTTTAA
66 GTGAAGTTAGGACCAGTAGTAACTAAGATATTGCTATCAA-GGGCACCTGCAACAAAAACTTTAA
823698 CCTGCTCCAAAAACCTTAACCTCCTCCAGCATCCGAAACCTATAGCT
130 CCTGCTCCAAAAACCTTAACCTCCTCCAGCATCCGAAACCTATAGCT
* * * * * *
823745 CAGATTCAGCAGTCAAGCCTGTCTGGTGCATCAGTATCATAAGGCACACCATCCATGCAAGTTTG
1 CAGATTCAGCATTCAAGCCTGTCAGGTGCATCAGTATCATAAGACGCATCATCCATACAAGTTTG
* *
823810 GTGATG-TACGGACCAGCAGTAACTAAGATATTGCTATCAAAGGGCACCTGCAACAAAAACTTTA
66 GTGAAGTTA-GGACCAGTAGTAACTAAGATATTGCTATC-AAGGGCACCTGCAACAAAAACTTTA
* * * * *
823874 ACCTGGTCCAACAACCTTAACCTCCTCCAGCATCTGAAA--TTTAGGACC
129 ACCTGCTCCAAAAACCTTAACCTCCTCCAGCATCCGAAACCTATA-G-CT
* * * * * * * * *
823922 CAGATTCAGCATCCAAGTCTTTCAAGTCCATAAGTAGGTC--CAGATGCATCATCCATGCAAGTT
1 CAGATTCAGCATTCAAGCCTGTCAGGTGCATCAGTA--TCATAAGACGCATCATCCATACAAGTT
* *
823985 TGGTGAAGATAGGACAAGTA
64 TGGTGAAGTTAGGACCAGTA
824005 ATAGCTTAGA
Statistics
Matches: 381, Mismatches: 46, Indels: 20
0.85 0.10 0.04
Matches are distributed among these distances:
175 4 0.01
176 5 0.01
177 366 0.96
178 4 0.01
179 2 0.01
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (176 bp):
CAGATTCAGCATTCAAGCCTGTCAGGTGCATCAGTATCATAAGACGCATCATCCATACAAGTTTG
GTGAAGTTAGGACCAGTAGTAACTAAGATATTGCTATCAAGGGCACCTGCAACAAAAACTTTAAC
CTGCTCCAAAAACCTTAACCTCCTCCAGCATCCGAAACCTATAGCT
Found at i:823710 original size:19 final size:19
Alignment explanation
Indices: 823686--823725 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
823676 GCACCCACAA
* *
823686 CAAAAACTTTAACCTGCTC
1 CAAAAACCTTAACCTCCTC
823705 CAAAAACCTTAACCTCCTC
1 CAAAAACCTTAACCTCCTC
823724 CA
1 CA
823726 GCATCCGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.38, G:0.03, T:0.23
Consensus pattern (19 bp):
CAAAAACCTTAACCTCCTC
Found at i:824061 original size:6 final size:6
Alignment explanation
Indices: 824050--824087 Score: 60
Period size: 6 Copynumber: 6.3 Consensus size: 6
824040 ACCAGGTCCG
824050 GACGCC GACGCC GACGCC GACGCC -ACCGCC GACGCC GA
1 GACGCC GACGCC GACGCC GACGCC GA-CGCC GACGCC GA
824088 GGGTATAGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 1 0.03
6 28 0.93
7 1 0.03
ACGTcount: A:0.18, C:0.50, G:0.32, T:0.00
Consensus pattern (6 bp):
GACGCC
Found at i:836978 original size:35 final size:34
Alignment explanation
Indices: 836931--836999 Score: 120
Period size: 35 Copynumber: 2.0 Consensus size: 34
836921 ATGGCCGCGG
*
836931 CAGGTGCAATAATCCTCTTCAAAGAATTGTTCCA
1 CAGGGGCAATAATCCTCTTCAAAGAATTGTTCCA
836965 NCAGGGGCAATAATCCTCTTCAAAGAATTGTTCCA
1 -CAGGGGCAATAATCCTCTTCAAAGAATTGTTCCA
837000 TAAATTCATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.32, C:0.23, G:0.16, T:0.28
Consensus pattern (34 bp):
CAGGGGCAATAATCCTCTTCAAAGAATTGTTCCA
Found at i:843728 original size:99 final size:99
Alignment explanation
Indices: 843575--845068 Score: 1986
Period size: 99 Copynumber: 15.1 Consensus size: 99
843565 TTTGCTATTG
* * * *
843575 AGTAAAAGTTGTACAGTGCTATGACGTCCATTTTTACAAGCTG-TATAGAGAGGACTTTCCCCGT
1 AGTAAAAGTTGTACAGTGCTATCATGTCCATTTTCACAAGCTGCAAT-GAGAGGACTTTCCCCGT
** *
843639 ATTTAGCACATAAATTAATGTCTGCTCCACTACTC
65 ATTTATTACATAAATTAATGTCTGCTCCATTACTC
843674 AGTAAAAGTTGTACAGTGCTATCATGTCCATCTTT-ACAAGCTGCAATGAGAGGACTTTCCCCGT
1 AGTAAAAGTTGTACAGTGCTATCATGTCCAT-TTTCACAAGCTGCAATGAGAGGACTTTCCCCGT
* * * *
843738 ATTCATTAAATAAATTAATGTCTGTTTCATTACTC
65 ATTTATTACATAAATTAATGTCTGCTCCATTACTC
* * * * *
843773 AGTAAAAGTTGCACAATGCTATCACGTCCATTTTCACAAGCTACAATGAGAGGACTTTCCCCATA
1 AGTAAAAGTTGTACAGTGCTATCATGTCCATTTTCACAAGCTGCAATGAGAGGACTTTCCCCGTA
*
843838 TTCATTACATAAATTAATGTCTGCTCCATTACTC
66 TTTATTACATAAATTAATGTCTGCTCCATTACTC
* ** *
843872 AGTAAAAATTGTACAGCCCTATCATGTCCATTTTCACAAGCT--ATATAGAGAGGACTTTCCCCA
1 AGTAAAAGTTGTACAGTGCTATCATGTCCATTTTCACAAGCTGCA-AT-GAGAGGACTTTCCCCG
*
843935 TATTCATTACATAAATTAATGTCTGCTCCATTACTC
64 TATTTATTACATAAATTAATGTCTGCTCCATTACTC
* * * *
843971 AGTAAAAATTGTACAGTGCTATTATGTCCATTTTCACAAGCTGCAATGAGAGGAC-CTCTACC-T
1 AGTAAAAGTTGTACAGTGCTATCATGTCCATTTTCACAAGCTGCAATGAGAGGACTTTC-CCCGT
* * * *
844034 AATTTATCAAAGAAATTAACGTCTGCTCCATTACTC
65 -ATTTATTACATAAATTAATGTCTGCTCCATTACTC
* *
844070 AGTAAAAGTTGTACAGTGCTATGACGTCCATTTTCACAAGCT--ATATAGAGAGGACTTTCCCCG
1 AGTAAAAGTTGTACAGTGCTATCATGTCCATTTTCACAAGCTGCA-AT-GAGAGGACTTTCCCCG
*
844133 TATTTATCACATAAATTAATGTCTGCTCCATTACTC
64 TATTTATTACATAAATTAATGTCTGCTCCATTACTC
* *
844169 AGTAAAACTTGTACAGCGCTATCCA-GTCCATCTTT-ACAAGCTGCAATGAGAGGACTTTCCCCG
1 AGTAAAAGTTGTACAGTGCTAT-CATGTCCAT-TTTCACAAGCTGCAATGAGAGGACTTTCCCCG
* *
844232 TATTCATTAAATAAATTAATGTCTGCTCCATTACTC
64 TATTTATTACATAAATTAATGTCTGCTCCATTACTC
* **
844268 AGTAAAACTTGTACAGTGCTATCATGTCCATTTTCACAAGCTGCAATGAGAGGAC-TTCTACGTA
1 AGTAAAAGTTGTACAGTGCTATCATGTCCATTTTCACAAGCTGCAATGAGAGGACTTTCCCCGT-
* *
844332 ATTTATCACATAAATTAATGTCTGCTCCATTAGTC
65 ATTTATTACATAAATTAATGTCTGCTCCATTACTC
*
844367 AGTAAAAGTTGTACAGCGCTATCCA-GTCCATCTTT-ACAAGC--CATATAGAGAGGACTTTCCC
1 AGTAAAAGTTGTACAGTGCTAT-CATGTCCAT-TTTCACAAGCTGCA-AT-GAGAGGACTTTCCC
844428 CGTATTTATTACATAAATTAATGTCTGCTCCATTACTC
62 CGTATTTATTACATAAATTAATGTCTGCTCCATTACTC
* * **
844466 AGTAAAAGTTGTACAGTGCTATGACGTCCATTTTCACAAGCT-TTATAGAGAGGACTTTCCCCGT
1 AGTAAAAGTTGTACAGTGCTATCATGTCCATTTTCACAAGCTGCAAT-GAGAGGACTTTCCCCGT
* * *
844530 ATTTATCACATAAATGAATGTCTGCTCCATTAGTC
65 ATTTATTACATAAATTAATGTCTGCTCCATTACTC
* * *
844565 AGTAAAAGTTGTACAGCGCTATCCA-GTCCACCTTT-ACAAGCTGCAATGAGAGGACTTTCCCTG
1 AGTAAAAGTTGTACAGTGCTAT-CATGTCCA-TTTTCACAAGCTGCAATGAGAGGACTTTCCCCG
* *
844628 TATTCATTAAATAAATTAATGTCTGCTCCATTACTC
64 TATTTATTACATAAATTAATGTCTGCTCCATTACTC
* * * * * *
844664 AGTAAAACTTGTACAGTGCTATCATGTCTATTTTTACAAGCTGCAATGAGAGGAC-CTCTACCGA
1 AGTAAAAGTTGTACAGTGCTATCATGTCCATTTTCACAAGCTGCAATGAGAGGACTTTC-CCCGT
* * * *
844728 ATTTATCAAATAAATTAACGTCTGCTCCACTACTC
65 ATTTATTACATAAATTAATGTCTGCTCCATTACTC
* *
844763 AGTAAAAGTTGTACAGTGCTATCATGTCCATTTTTACAAGCTGCAATGAGAGGACTTTCCCTGTA
1 AGTAAAAGTTGTACAGTGCTATCATGTCCATTTTCACAAGCTGCAATGAGAGGACTTTCCCCGTA
844828 TTTATTACATAAATTAATGTCTGCTCCATTACTC
66 TTTATTACATAAATTAATGTCTGCTCCATTACTC
* *
844862 AGTAAAACTTGTACAGTGCTATCATGTCCATTTTCATAAGCT--ATATAGAGAGGACTTTCCCCG
1 AGTAAAAGTTGTACAGTGCTATCATGTCCATTTTCACAAGCTGCA-AT-GAGAGGACTTTCCCCG
**
844925 TATTTAGCACATAAATTAATGTCTGCTCCATTACTC
64 TATTTATTACATAAATTAATGTCTGCTCCATTACTC
* *
844961 AGTAAAACTTGTACAGTGCTATCATGTCAATTTTCACAAGCTGCAATGAGAGGACTTTCCCCGTA
1 AGTAAAAGTTGTACAGTGCTATCATGTCCATTTTCACAAGCTGCAATGAGAGGACTTTCCCCGTA
*
845026 TTTATTACATAAATTAACGTCTGCTCCATTACTC
66 TTTATTACATAAATTAATGTCTGCTCCATTACTC
845060 AGTAAAAGT
1 AGTAAAAGT
845069 GTTAGAGTTT
Statistics
Matches: 1243, Mismatches: 113, Indels: 78
0.87 0.08 0.05
Matches are distributed among these distances:
97 5 0.00
98 36 0.03
99 1162 0.93
100 37 0.03
101 3 0.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.33
Consensus pattern (99 bp):
AGTAAAAGTTGTACAGTGCTATCATGTCCATTTTCACAAGCTGCAATGAGAGGACTTTCCCCGTA
TTTATTACATAAATTAATGTCTGCTCCATTACTC
Found at i:861892 original size:2 final size:2
Alignment explanation
Indices: 861885--861924 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
861875 ACCGAAGGGC
861885 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
861925 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:864911 original size:2 final size:2
Alignment explanation
Indices: 864904--864956 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
864894 ACCGAAGGGC
864904 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
864946 TG TG TG TG TG T
1 TG TG TG TG TG T
864957 TAAACCGAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:866253 original size:2 final size:2
Alignment explanation
Indices: 866246--866301 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
866236 AACATTCAAT
866246 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
866288 CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA
866302 TGAATAAGCA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:904924 original size:26 final size:26
Alignment explanation
Indices: 904888--904937 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
904878 AGTGACAATT
**
904888 GGGACCGGTTTGTCATGGTAACATAG
1 GGGACCGGTTTACCATGGTAACATAG
*
904914 GGGATCGGTTTACCATGGTAACAT
1 GGGACCGGTTTACCATGGTAACAT
904938 GTGAAAATGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.24, C:0.16, G:0.32, T:0.28
Consensus pattern (26 bp):
GGGACCGGTTTACCATGGTAACATAG
Found at i:909717 original size:96 final size:96
Alignment explanation
Indices: 909604--909915 Score: 552
Period size: 96 Copynumber: 3.2 Consensus size: 96
909594 ATTTGTTTGA
909604 TACTTACTGTAATCAGACATGTCCAAAAAATTGTAAAGAAAGTGTATGTGATAGATTCACTGGTG
1 TACTTACTGTAATCAGACATGTCCAAAAAATTGTAAAGAAAGTGTATGTGATAGATTCACTGGTG
* * *
909669 AATGTGAAAATTGTATAAATAATACATTCGG
66 AATGTGAACATTGTTTAAAGAATACATTCGG
909700 TACTTACTGTAATCAGACATGTCCAAAAAATTGTAAAGAAAGTGTATGTGATAGATTCACTGGTG
1 TACTTACTGTAATCAGACATGTCCAAAAAATTGTAAAGAAAGTGTATGTGATAGATTCACTGGTG
909765 AATGTGAACATTGTTTAAAGAATACATTCGG
66 AATGTGAACATTGTTTAAAGAATACATTCGG
* * * **
909796 TACTTACTGTAATCAGACATGTCCAAGAAATTGTAAAGAAGGTTTATGTGATAGGGTCACTGGTG
1 TACTTACTGTAATCAGACATGTCCAAAAAATTGTAAAGAAAGTGTATGTGATAGATTCACTGGTG
909861 AATGTGAACATTGTTTAAAGAATACATTCGG
66 AATGTGAACATTGTTTAAAGAATACATTCGG
909892 TACTTACTGTAATCAGACATGTCC
1 TACTTACTGTAATCAGACATGTCC
909916 TGTTACCTGC
Statistics
Matches: 208, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 208 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (96 bp):
TACTTACTGTAATCAGACATGTCCAAAAAATTGTAAAGAAAGTGTATGTGATAGATTCACTGGTG
AATGTGAACATTGTTTAAAGAATACATTCGG
Found at i:910881 original size:21 final size:21
Alignment explanation
Indices: 910855--910951 Score: 108
Period size: 21 Copynumber: 4.7 Consensus size: 21
910845 TACACCATAG
910855 CATAGCATAGCATTGAAATCT
1 CATAGCATAGCATTGAAATCT
* *
910876 CATAGCATAGCATTGGAACCT
1 CATAGCATAGCATTGAAATCT
* *
910897 CATAGCATAGCATTGGAATTT
1 CATAGCATAGCATTGAAATCT
*
910918 CATACCATAGCA-T-ACAATCT
1 CATAGCATAGCATTGA-AATCT
* *
910938 CATAGAATCGCATT
1 CATAGCATAGCATT
910952 CGTCATATTA
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
20 14 0.22
21 50 0.78
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (21 bp):
CATAGCATAGCATTGAAATCT
Found at i:911204 original size:21 final size:21
Alignment explanation
Indices: 911178--911225 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
911168 CATTTCAATT
*
911178 TCTCATAGCATAGCATACAAA
1 TCTCATAGCATACCATACAAA
911199 TCTCATAGCATACCATACAAA
1 TCTCATAGCATACCATACAAA
911220 TCTCAT
1 TCTCAT
911226 CTATTAGCAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.40, C:0.27, G:0.06, T:0.27
Consensus pattern (21 bp):
TCTCATAGCATACCATACAAA
Found at i:912826 original size:96 final size:96
Alignment explanation
Indices: 912707--912922 Score: 337
Period size: 96 Copynumber: 2.2 Consensus size: 96
912697 ATAGGTTTGA
* * *
912707 TACTTACTGTAATCAGACATGTCCAAATAATTGCGAAGAAGGT-ATATGTGATA-GATTCACTGG
1 TACTTACTGTAATCAGACATGTCCAAAAAATTGCGAAGAAGGTAAT-TGTAAAAGGATT-ACTGG
912770 TGAATGTGAACATTGTTTAAAGAATACATTCGG
64 TGAATGTGAACATTGTTTAAAGAATACATTCGG
* * *
912803 TGCTTACTGTAATCAGACATGTCCAAAAAATTGTGAAGAAGGTAATTGTAAAAGGGTTACTGGTG
1 TACTTACTGTAATCAGACATGTCCAAAAAATTGCGAAGAAGGTAATTGTAAAAGGATTACTGGTG
*
912868 AATGTGAACATTGTTTAAAGAATACATTTGG
66 AATGTGAACATTGTTTAAAGAATACATTCGG
912899 TACTTACTGTAATCAGACATGTCC
1 TACTTACTGTAATCAGACATGTCC
912923 TGTTAACTGC
Statistics
Matches: 110, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
96 105 0.95
97 5 0.05
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.31
Consensus pattern (96 bp):
TACTTACTGTAATCAGACATGTCCAAAAAATTGCGAAGAAGGTAATTGTAAAAGGATTACTGGTG
AATGTGAACATTGTTTAAAGAATACATTCGG
Found at i:916405 original size:21 final size:21
Alignment explanation
Indices: 916385--916464 Score: 110
Period size: 21 Copynumber: 3.8 Consensus size: 21
916375 TGGAATTGGA
916385 ATTTCCAACTTTAATA-TTGGA-
1 ATTTCCAACTTTAA-AGTT-GAT
916406 ATTTCCAACTTTAAAGTTGAT
1 ATTTCCAACTTTAAAGTTGAT
*
916427 TTTTCCAACTTTAAAGTTGAT
1 ATTTCCAACTTTAAAGTTGAT
*
916448 TTTTCCAACTTTAAAGT
1 ATTTCCAACTTTAAAGT
916465 AGTTTAAAGT
Statistics
Matches: 56, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
20 3 0.05
21 53 0.95
ACGTcount: A:0.31, C:0.15, G:0.09, T:0.45
Consensus pattern (21 bp):
ATTTCCAACTTTAAAGTTGAT
Found at i:916453 original size:42 final size:42
Alignment explanation
Indices: 916380--916825 Score: 342
Period size: 42 Copynumber: 10.7 Consensus size: 42
916370 GGAATTGGAA
*
916380 TTGGAATTTCCAACTTTAATA-TTGGA-ATTTCCAACTTTAAAG
1 TTGGAATTTCCAACTTTAA-AGTT-GATTTTTCCAACTTTAAAG
*
916422 TT-GATTTTTCCAACTTTAAAGTTGATTTTTCCAACTTTAAA-
1 TTGGA-ATTTCCAACTTTAAAGTTGATTTTTCCAACTTTAAAG
*
916463 ---G----T---AGTTTAAAGTTGATTTTTCCAACTTTAAAG
1 TTGGAATTTCCAACTTTAAAGTTGATTTTTCCAACTTTAAAG
* *
916495 TT-GATTTTTCCAACTTTAAAGTTGATTGAAAATTCCAACTTTAAAG
1 TTGGA-ATTTCCAACTTTAAAGTTGATT----TTTCCAACTTTAAAG
* ** * *
916541 TTGATTGAAAATTCCAACTTTAATCTTGGA-ATTTCCAGCTTTAAAG
1 TTG---G-AATTTCCAACTTTAAAGTT-GATTTTTCCAACTTTAAAG
*
916587 TTGGAATTTCCAATTTTAAAGTTGATTTTTCCAACTTTAAAG
1 TTGGAATTTCCAACTTTAAAGTTGATTTTTCCAACTTTAAAG
* * * **
916629 TT-GATTTTTCCAACTTTAAAGTTGGA-ATTTCCAACTTCAATC
1 TTGGA-ATTTCCAACTTTAAAGTT-GATTTTTCCAACTTTAAAG
*
916671 TTGGAATTTCCAACTTT-AAGTTGATCTTTCCAACTTTAAAG
1 TTGGAATTTCCAACTTTAAAGTTGATTTTTCCAACTTTAAAG
* **
916712 TTGGAATTTCCAACTTTAAAGTTGGA-ATTTCCAACTTTAATT
1 TTGGAATTTCCAACTTTAAAGTT-GATTTTTCCAACTTTAAAG
* ** *
916754 TTGGAATTTCCAAATTTAATCTTGGA-TTTTCCAACTTTAAAT
1 TTGGAATTTCCAACTTTAAAGTT-GATTTTTCCAACTTTAAAG
**
916796 TTGGAAAAAT-CAACTTTAAAGTTGATTTTT
1 TTGG-AATTTCCAACTTTAAAGTTGATTTTT
916826 ATTATATTTA
Statistics
Matches: 329, Mismatches: 42, Indels: 66
0.75 0.10 0.15
Matches are distributed among these distances:
31 28 0.09
34 2 0.01
39 2 0.01
40 2 0.01
41 45 0.14
42 190 0.58
43 10 0.03
46 32 0.10
50 15 0.05
51 3 0.01
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (42 bp):
TTGGAATTTCCAACTTTAAAGTTGATTTTTCCAACTTTAAAG
Found at i:916457 original size:63 final size:62
Alignment explanation
Indices: 916386--916825 Score: 372
Period size: 63 Copynumber: 7.0 Consensus size: 62
916376 GGAATTGGAA
916386 TTTCCAACTTTAATATTGGAATTTCCAACTTTAAAGTTGATTTTTCCAACTTTAAAGTTGATT
1 TTTCCAACTTTAA-ATTGGAATTTCCAACTTTAAAGTTGATTTTTCCAACTTTAAAGTTGATT
*
916449 TTTCCAACTTTAAA---G----T---AGTTTAAAGTTGATTTTTCCAACTTTAAAGTTGATT
1 TTTCCAACTTTAAATTGGAATTTCCAACTTTAAAGTTGATTTTTCCAACTTTAAAGTTGATT
* * **
916501 TTTCCAACTTTAAAGTTGATTGAAAATTCCAACTTTAAAGTTGATTGAAAATTCCAACTTTAATC
1 TTTCCAACTTTAAA-TTG---G-AATTTCCAACTTTAAAGTTGATT----TTTCCAACTTTAAAG
*
916566 TTGGA-A
57 TT-GATT
* *
916572 TTTCCAGCTTTAAAGTTGGAATTTCCAATTTTAAAGTTGATTTTTCCAACTTTAAAGTTGATT
1 TTTCCAACTTTAAA-TTGGAATTTCCAACTTTAAAGTTGATTTTTCCAACTTTAAAGTTGATT
* ** * *
916635 TTTCCAACTTTAAAGTTGGAATTTCCAACTTCAATCTTGGA-ATTTCCAACTTT-AAGTTGATC
1 TTTCCAACTTTAAA-TTGGAATTTCCAACTTTAAAGTT-GATTTTTCCAACTTTAAAGTTGATT
* ** *
916697 TTTCCAACTTTAAAGTTGGAATTTCCAACTTTAAAGTTGGA-ATTTCCAACTTTAATTTTGGA-A
1 TTTCCAACTTTAAA-TTGGAATTTCCAACTTTAAAGTT-GATTTTTCCAACTTTAAAGTT-GATT
* * * * ****
916760 TTTCCAAATTTAATCTTGGATTTTCCAACTTTAAATTTGGAAAAAT-CAACTTTAAAGTTGATT
1 TTTCCAACTTTAA-ATTGGAATTTCCAACTTTAAAGTT-GATTTTTCCAACTTTAAAGTTGATT
916823 TTT
1 TTT
916826 ATTATATTTA
Statistics
Matches: 315, Mismatches: 35, Indels: 54
0.78 0.09 0.13
Matches are distributed among these distances:
52 49 0.16
55 1 0.00
59 2 0.01
62 63 0.20
63 124 0.39
64 7 0.02
67 35 0.11
68 1 0.00
71 31 0.10
72 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (62 bp):
TTTCCAACTTTAAATTGGAATTTCCAACTTTAAAGTTGATTTTTCCAACTTTAAAGTTGATT
Found at i:916474 original size:31 final size:31
Alignment explanation
Indices: 916436--916495 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
916426 TTTTTCCAAC
916436 TTTAAAGTTGATTTTTCCAACTTTAAAGTAG
1 TTTAAAGTTGATTTTTCCAACTTTAAAGTAG
916467 TTTAAAGTTGATTTTTCCAACTTTAAAGT
1 TTTAAAGTTGATTTTTCCAACTTTAAAGT
916496 TGATTTTTCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.47
Consensus pattern (31 bp):
TTTAAAGTTGATTTTTCCAACTTTAAAGTAG
Found at i:916491 original size:21 final size:21
Alignment explanation
Indices: 916467--916819 Score: 324
Period size: 21 Copynumber: 16.5 Consensus size: 21
916457 TTTAAAGTAG
*
916467 TTTAAAGTT-GATTTTTCCAAC
1 TTTAAAGTTGGA-ATTTCCAAC
*
916488 TTTAAAGTT-GATTTTTCCAAC
1 TTTAAAGTTGGA-ATTTCCAAC
*
916509 TTTAAAGTTGATTGAAAATTCCAAC
1 TTTAAAGTTG---G-AATTTCCAAC
*
916534 TTTAAAGTTGATTGAAAATTCCAAC
1 TTTAAAGTTG---G-AATTTCCAAC
** *
916559 TTTAATCTTGGAATTTCCAGC
1 TTTAAAGTTGGAATTTCCAAC
*
916580 TTTAAAGTTGGAATTTCCAAT
1 TTTAAAGTTGGAATTTCCAAC
*
916601 TTTAAAGTT-GATTTTTCCAAC
1 TTTAAAGTTGGA-ATTTCCAAC
*
916622 TTTAAAGTT-GATTTTTCCAAC
1 TTTAAAGTTGGA-ATTTCCAAC
916643 TTTAAAGTTGGAATTTCCAAC
1 TTTAAAGTTGGAATTTCCAAC
* **
916664 TTCAATCTTGGAATTTCCAAC
1 TTTAAAGTTGGAATTTCCAAC
*
916685 TTT-AAGTT-GATCTTTCCAAC
1 TTTAAAGTTGGA-ATTTCCAAC
916705 TTTAAAGTTGGAATTTCCAAC
1 TTTAAAGTTGGAATTTCCAAC
916726 TTTAAAGTTGGAATTTCCAAC
1 TTTAAAGTTGGAATTTCCAAC
** *
916747 TTTAATTTTGGAATTTCCAAA
1 TTTAAAGTTGGAATTTCCAAC
** *
916768 TTTAATCTTGGATTTTCCAAC
1 TTTAAAGTTGGAATTTCCAAC
* **
916789 TTTAAATTTGGAAAAAT-CAAC
1 TTTAAAGTTGG-AATTTCCAAC
916810 TTTAAAGTTG
1 TTTAAAGTTG
916820 ATTTTTATTA
Statistics
Matches: 288, Mismatches: 33, Indels: 22
0.84 0.10 0.06
Matches are distributed among these distances:
19 2 0.01
20 16 0.06
21 221 0.77
22 7 0.02
25 41 0.14
26 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (21 bp):
TTTAAAGTTGGAATTTCCAAC
Found at i:916493 original size:52 final size:52
Alignment explanation
Indices: 916415--916516 Score: 204
Period size: 52 Copynumber: 2.0 Consensus size: 52
916405 AATTTCCAAC
916415 TTTAAAGTTGATTTTTCCAACTTTAAAGTTGATTTTTCCAACTTTAAAGTAG
1 TTTAAAGTTGATTTTTCCAACTTTAAAGTTGATTTTTCCAACTTTAAAGTAG
916467 TTTAAAGTTGATTTTTCCAACTTTAAAGTTGATTTTTCCAACTTTAAAGT
1 TTTAAAGTTGATTTTTCCAACTTTAAAGTTGATTTTTCCAACTTTAAAGT
916517 TGATTGAAAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (52 bp):
TTTAAAGTTGATTTTTCCAACTTTAAAGTTGATTTTTCCAACTTTAAAGTAG
Found at i:919887 original size:21 final size:21
Alignment explanation
Indices: 919861--919935 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
919851 CGGTTACGAC
919861 AACGGAAACGGAGATTATGGG
1 AACGGAAACGGAGATTATGGG
919882 AACGGAAACGGAG---ATGGG
1 AACGGAAACGGAGATTATGGG
**
919900 AACGGAAACGGAGATTATGAT
1 AACGGAAACGGAGATTATGGG
*
919921 TACGGAAACGGAGAT
1 AACGGAAACGGAGAT
919936 AACGGTGGAG
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
18 18 0.38
21 30 0.62
ACGTcount: A:0.40, C:0.11, G:0.36, T:0.13
Consensus pattern (21 bp):
AACGGAAACGGAGATTATGGG
Found at i:919900 original size:18 final size:18
Alignment explanation
Indices: 919861--919914 Score: 81
Period size: 18 Copynumber: 2.8 Consensus size: 18
919851 CGGTTACGAC
919861 AACGGAAACGGAGATTATGGG
1 AACGGAAACGGAG---ATGGG
919882 AACGGAAACGGAGATGGG
1 AACGGAAACGGAGATGGG
919900 AACGGAAACGGAGAT
1 AACGGAAACGGAGAT
919915 TATGATTACG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 20 0.61
21 13 0.39
ACGTcount: A:0.41, C:0.11, G:0.39, T:0.09
Consensus pattern (18 bp):
AACGGAAACGGAGATGGG
Found at i:919926 original size:39 final size:39
Alignment explanation
Indices: 919861--919935 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
919851 CGGTTACGAC
*
919861 AACGGAAACGGAGATTATGGGAACGGAAACGGAGATGGG
1 AACGGAAACGGAGATTATGAGAACGGAAACGGAGATGGG
**
919900 AACGGAAACGGAGATTATGATTACGGAAACGGAGAT
1 AACGGAAACGGAGATTATGAGAACGGAAACGGAGAT
919936 AACGGTGGAG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.40, C:0.11, G:0.36, T:0.13
Consensus pattern (39 bp):
AACGGAAACGGAGATTATGAGAACGGAAACGGAGATGGG
Found at i:919940 original size:15 final size:14
Alignment explanation
Indices: 919930--919967 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
919920 TTACGGAAAC
919930 GGAGATAACGG--T
1 GGAGATAACGGAAT
919942 GGAGATAACGGAGAT
1 GGAGATAACGGA-AT
919957 GGAGATAACGG
1 GGAGATAACGG
919968 GGACGGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.48
15 12 0.52
ACGTcount: A:0.37, C:0.08, G:0.42, T:0.13
Consensus pattern (14 bp):
GGAGATAACGGAAT
Found at i:921311 original size:2 final size:2
Alignment explanation
Indices: 921306--921341 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
921296 GTGTGCGTGT
* *
921306 GA GA GA GA GA GA AA GA GA GT GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
921342 ATTAGATTGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (2 bp):
GA
Found at i:921990 original size:172 final size:174
Alignment explanation
Indices: 921608--921992 Score: 408
Period size: 178 Copynumber: 2.2 Consensus size: 174
921598 ATATAATACA
* *
921608 TGAATGTCACTACAT-ATGTGTAAATAACTAAATGTAATGTCTATTTGAAAAAAGTCAGAAAACT
1 TGAATGTCACTACATGA-GTGTAAATAACTAAATGTAATGTCAATTTGAAAAAAGACAGAAAACT
* * * * *
921672 TGATAGAAAATAAGAAACAAAGGAATTAGATTGGAAGGGAGAGAGGAAGTGAGAGGACTTATTAA
65 TAATAGAAAATAAGAAACAAAGAAATCAGATTGGAAGGGAGAGAAGAAGTGAGAGGACATATT--
* ** * *
921737 AACTTTTTGTTTTAAGTGAAGCAATTTTTTTCTATGGAGATACTTTACC
128 -A-TTTTTGTTTCAAGTGAAGCAATTTTTTTCTATAAAAATACTTCACC
* * *
921786 TGAATGTCACTACAAGTGTGTAAATAACTAAATGCT-ATGTCAATTTGAAAAAGAGAGACAGATA
1 TGAATGTCACTACATGAGTGTAAATAACTAAATG-TAATGTCAATTTG-AAAA-A-AGACAGAAA
* * * *
921850 ACTTAATAGCAAATATGAAA-AAAGAAATCGGATTGGAAGGGAGAGAAGAAGAT-AGAGGACATG
62 ACTTAATAGAAAATAAGAAACAAAGAAATCAGATTGGAAGGGAGAGAAGAAG-TGAGAGGACATA
* * * *
921913 TT-TTTTTG-TTCAATTGAAGCAA-TTTTTTCTTTAAAAAT-GTTCGCC
126 TTATTTTTGTTTCAAGTGAAGCAATTTTTTTCTATAAAAATACTTCACC
*
921958 TGAATGTCACCACATGAGTGTAAATAACTAAATGT
1 TGAATGTCACTACATGAGTGTAAATAACTAAATGT
921993 GGTGTTAATT
Statistics
Matches: 175, Mismatches: 26, Indels: 19
0.80 0.12 0.09
Matches are distributed among these distances:
171 1 0.01
172 35 0.20
173 12 0.07
174 12 0.07
175 6 0.03
178 41 0.23
179 5 0.03
180 38 0.22
181 25 0.14
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.30
Consensus pattern (174 bp):
TGAATGTCACTACATGAGTGTAAATAACTAAATGTAATGTCAATTTGAAAAAAGACAGAAAACTT
AATAGAAAATAAGAAACAAAGAAATCAGATTGGAAGGGAGAGAAGAAGTGAGAGGACATATTATT
TTTGTTTCAAGTGAAGCAATTTTTTTCTATAAAAATACTTCACC
Found at i:922012 original size:2 final size:2
Alignment explanation
Indices: 922005--922046 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
921995 TGTTAATTTT
922005 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
922047 TTGATAGGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:922218 original size:2 final size:2
Alignment explanation
Indices: 922211--922260 Score: 82
Period size: 2 Copynumber: 24.5 Consensus size: 2
922201 TCAATTTGAA
*
922211 AG AG AG AG AG AG AG AG AG AG AG AG AA ATG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A-G AG AG AG AG AG AG AG
922254 AG AG AG A
1 AG AG AG A
922261 AAAGTTGATA
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 44 0.98
3 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.46, T:0.02
Consensus pattern (2 bp):
AG
Found at i:922679 original size:2 final size:2
Alignment explanation
Indices: 922608--922667 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
922598 ATGGCAATTT
922608 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
922650 GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA
922668 AAATAAGAGA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:922829 original size:2 final size:2
Alignment explanation
Indices: 922822--922857 Score: 56
Period size: 2 Copynumber: 18.0 Consensus size: 2
922812 ATGTTAATAT
922822 GA GA GA GA GA GA GA GA GA GA GA GA GA -A TGA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA -GA GA GA GA
922858 TGTCAATAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.94
3 1 0.03
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (2 bp):
GA
Found at i:923564 original size:2 final size:2
Alignment explanation
Indices: 923557--923604 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
923547 ATGTTAATAT
923557 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
923599 GA GA GA
1 GA GA GA
923605 TGAAATATAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:923762 original size:2 final size:2
Alignment explanation
Indices: 923755--923802 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
923745 ATGTCAATTT
923755 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
923797 GA GA GA
1 GA GA GA
923803 CTAAGTTAGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:924326 original size:2 final size:2
Alignment explanation
Indices: 924319--924374 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
924309 GATGGCAATT
924319 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
924361 AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG
924375 TCGGTGAAAT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:924472 original size:2 final size:2
Alignment explanation
Indices: 924465--924538 Score: 130
Period size: 2 Copynumber: 37.0 Consensus size: 2
924455 GTGTTCAAAT
*
924465 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA AA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
924507 GA GA GA GA GA GA GA AA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
924539 TCTCATGTAG
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
GA
Found at i:924885 original size:2 final size:2
Alignment explanation
Indices: 924836--924869 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
924826 AAATAAGCAT
*
924836 GA GA GA GA GA GA GA GA GA GG GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
924870 AATAAATAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
GA
Found at i:924893 original size:32 final size:34
Alignment explanation
Indices: 924847--924917 Score: 92
Period size: 32 Copynumber: 2.1 Consensus size: 34
924837 AGAGAGAGAG
* *
924847 AGAGAGAGGGAGAGAGA-GAGAGAAAT-AAATAA
1 AGAGAGAGGAAGAGAGAGGAGAGAAATGAAAAAA
* *
924879 AGAGAGATGAAGAGAGAGGGGAGAAATGAAAAAA
1 AGAGAGAGGAAGAGAGAGGAGAGAAATGAAAAAA
924913 AGAGA
1 AGAGA
924918 AAGAGAATAC
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 15 0.45
33 8 0.24
34 10 0.30
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.06
Consensus pattern (34 bp):
AGAGAGAGGAAGAGAGAGGAGAGAAATGAAAAAA
Found at i:924922 original size:30 final size:33
Alignment explanation
Indices: 924845--924923 Score: 85
Period size: 34 Copynumber: 2.4 Consensus size: 33
924835 TGAGAGAGAG
*
924845 AGAGAGAGAGGGAGAGAGAGAGAGAAATAAATAA
1 AGAGAGAGA-AGAGAGAGAGAGAGAAATAAATAA
*
924879 AGAGAGATGAAGAGAGAG-GGGAGAAATGAAA-AA
1 AGAGAGA-GAAGAGAGAGAGAGAGAAAT-AAATAA
924912 A-AGAGA-AAGAGA
1 AGAGAGAGAAGAGA
924924 ATACAGAGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
30 6 0.15
32 5 0.12
33 11 0.27
34 17 0.41
35 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.38, T:0.05
Consensus pattern (33 bp):
AGAGAGAGAAGAGAGAGAGAGAGAAATAAATAA
Found at i:925176 original size:2 final size:2
Alignment explanation
Indices: 925169--925229 Score: 77
Period size: 2 Copynumber: 30.5 Consensus size: 2
925159 TGATAGTTAT
* * *
925169 GA GA GA GA GA GA GA GA GA GA GA GA GA GA CA GA GA CA GA GA CA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
* *
925211 GA GA TA CA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA G
925230 TGAGTAGTGA
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.49, C:0.07, G:0.43, T:0.02
Consensus pattern (2 bp):
GA
Found at i:927609 original size:2 final size:2
Alignment explanation
Indices: 927602--927670 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
927592 TTTACGAGTA
927602 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
927644 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
927671 TCTGCTGTAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:936602 original size:3 final size:3
Alignment explanation
Indices: 936596--936681 Score: 172
Period size: 3 Copynumber: 28.7 Consensus size: 3
936586 CCCCCCCGAA
936596 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
936644 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
936682 ATATAAAATC
Statistics
Matches: 83, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 83 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:938166 original size:2 final size:2
Alignment explanation
Indices: 938156--938207 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
938146 AAAAAAAACC
* * *
938156 CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CG CT CT CG
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
938198 AT CT CT CT CT
1 CT CT CT CT CT
938208 AACGTACGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.02, C:0.46, G:0.04, T:0.48
Consensus pattern (2 bp):
CT
Found at i:941053 original size:2 final size:2
Alignment explanation
Indices: 941046--941095 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
941036 TTTCATTTAT
941046 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
941088 TC TC TC TC
1 TC TC TC TC
941096 ATGGATTCAC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:941614 original size:14 final size:16
Alignment explanation
Indices: 941579--941617 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
941569 GACTAGATAT
*
941579 CACCTTTATGAGGCAT
1 CACCTTTATGAGGCAC
941595 CACCTTTATGA-G-AC
1 CACCTTTATGAGGCAC
941609 CACCTTTAT
1 CACCTTTAT
941618 CATATTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.45
15 1 0.05
16 11 0.50
ACGTcount: A:0.26, C:0.28, G:0.13, T:0.33
Consensus pattern (16 bp):
CACCTTTATGAGGCAC
Found at i:941968 original size:15 final size:15
Alignment explanation
Indices: 941950--941979 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
941940 ATATAGTAGT
941950 ATATAATACAATATC
1 ATATAATACAATATC
*
941965 ATATTATACAATATC
1 ATATAATACAATATC
941980 GTATCATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATACAATATC
Found at i:942215 original size:20 final size:20
Alignment explanation
Indices: 942192--942229 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
942182 ATATCGTAGA
942192 GTATCAT-ATTATACAATTTT
1 GTATCATAATT-TACAATTTT
942212 GTATCATAATTTACAATT
1 GTATCATAATTTACAATT
942230 CTATGCATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (20 bp):
GTATCATAATTTACAATTTT
Found at i:942366 original size:25 final size:25
Alignment explanation
Indices: 942337--942385 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
942327 TATAATATTG
*
942337 TATCATATAAAACAATAGTGTATCA
1 TATCATATAAAACAATAGTATATCA
* *
942362 TATCATATCATACAATAGTATATC
1 TATCATATAAAACAATAGTATATC
942386 TTAGGAATCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.45, C:0.14, G:0.06, T:0.35
Consensus pattern (25 bp):
TATCATATAAAACAATAGTATATCA
Found at i:948420 original size:20 final size:20
Alignment explanation
Indices: 948395--948437 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
948385 TATCATATTG
*
948395 TATCATATAATATTGCAATA
1 TATCATATAATAGTGCAATA
*
948415 TATCATATAATAGTGTAATA
1 TATCATATAATAGTGCAATA
948435 TAT
1 TAT
948438 ATTATGTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.42
Consensus pattern (20 bp):
TATCATATAATAGTGCAATA
Found at i:948587 original size:26 final size:25
Alignment explanation
Indices: 948533--948592 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 25
948523 ATATTGTAAT
* * *
948533 ATATCATATTAAATCATATAATATG
1 ATATTATATTAAATCATACAATATC
*
948558 ATATTATATTAAATGGATACAATATC
1 ATATTATATTAAAT-CATACAATATC
948584 ATATTATAT
1 ATATTATAT
948593 CATAATCCAC
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 13 0.43
26 17 0.57
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.42
Consensus pattern (25 bp):
ATATTATATTAAATCATACAATATC
Found at i:955605 original size:16 final size:16
Alignment explanation
Indices: 955584--955614 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
955574 AAATTTGTTA
955584 TACGGATATAACGAAT
1 TACGGATATAACGAAT
955600 TACGGATATAACGAA
1 TACGGATATAACGAA
955615 GTAAATCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (16 bp):
TACGGATATAACGAAT
Found at i:963028 original size:17 final size:17
Alignment explanation
Indices: 963006--963044 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
962996 TATACTTAAC
*
963006 CGGCAATTATGGGTACT
1 CGGCAATAATGGGTACT
*
963023 CGGCAATAATGGGTATT
1 CGGCAATAATGGGTACT
963040 CGGCA
1 CGGCA
963045 GTAAAAGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.26, C:0.18, G:0.31, T:0.26
Consensus pattern (17 bp):
CGGCAATAATGGGTACT
Found at i:963769 original size:21 final size:21
Alignment explanation
Indices: 963745--964129 Score: 252
Period size: 21 Copynumber: 18.5 Consensus size: 21
963735 CGATCTTTGC
*
963745 CATTTGTATTGTATAAATATT
1 CATTTGTATTGTATAAATTTT
963766 CATTTGTATTGTAT-AATTTT
1 CATTTGTATTGTATAAATTTT
963786 CTATTTGTATTGTAT-AATTTT
1 C-ATTTGTATTGTATAAATTTT
* * ** * *
963807 CAATTATATACTATAACTTTA
1 CATTTGTATTGTATAAATTTT
*
963828 CATGTT-TATTCTAT-AATGTTT
1 CAT-TTGTATTGTATAAAT-TTT
*
963849 CCATTTGTATTGT-TTAATTTCT
1 -CATTTGTATTGTATAAATTT-T
* * *
963871 TATTTGTATTCTAT-GATTTT
1 CATTTGTATTGTATAAATTTT
* *
963891 CTATTTGCATTGTATACA-TTT
1 C-ATTTGTATTGTATAAATTTT
*
963912 CATTTGTATTGTATAATTTTT
1 CATTTGTATTGTATAAATTTT
** *
963933 CATTTGTATACTAT-ATTTTT
1 CATTTGTATTGTATAAATTTT
*
963953 CCATTTGCATTGTATAAA-TTT
1 -CATTTGTATTGTATAAATTTT
963974 CATTTGTATTGTAT-AATTTT
1 CATTTGTATTGTATAAATTTT
963994 CTATTTGTATTGTAT-AATTTAT
1 C-ATTTGTATTGTATAAATTT-T
*
964016 TATTTAG-ATTGTATAAA-TTT
1 CATTT-GTATTGTATAAATTTT
*
964036 CATTTGTATTGTAT-TATATTT
1 CATTTGTATTGTATAAAT-TTT
* *
964057 --TTTGATATTCT-TTAATTTT
1 CATTTG-TATTGTATAAATTTT
* *
964076 CCATTTGTATTCTAT-AACTTT
1 -CATTTGTATTGTATAAATTTT
964097 CAATTT-TAATTTGTATAAA-TTT
1 C-ATTTGT-A-TTGTATAAATTTT
*
964119 CATTTGCATTG
1 CATTTGTATTG
964130 CATTACGTAG
Statistics
Matches: 294, Mismatches: 37, Indels: 67
0.74 0.09 0.17
Matches are distributed among these distances:
19 12 0.04
20 78 0.27
21 167 0.57
22 35 0.12
23 2 0.01
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.57
Consensus pattern (21 bp):
CATTTGTATTGTATAAATTTT
Found at i:963929 original size:62 final size:60
Alignment explanation
Indices: 963767--964124 Score: 287
Period size: 62 Copynumber: 5.8 Consensus size: 60
963757 ATAAATATTC
* * * * * * *
963767 ATTTGTATTGTATAATTTTCTATTTGTATTGTATAATTTTCAATTATATACTATAACTTTAC-
1 ATTTGCATTGTATAAATTTC-ATTTGTATTGTATAATTTTTATTTGTATTCTAT-A-TTTTCT
* * * *
963829 ATGTT-TATTCTATAATGTTTCCATTTGTATTGTTTAATTTCTTATTTGTATTCTATGATTTTCT
1 AT-TTGCATTGTATAA-ATTT-CATTTGTATTGTATAATTT-TTATTTGTATTCTAT-ATTTTCT
* * *
963893 ATTTGCATTGTATACATTTCATTTGTATTGTATAATTTTTCATTTGTATACTATATTTTTCC
1 ATTTGCATTGTATAAATTTCATTTGTATTGTATAATTTTT-ATTTGTATTCTATA-TTTTCT
*
963955 ATTTGCATTGTATAAATTTCATTTGTATTGTATAATTTTCTATTTGTATTGTATAATTTAT-T
1 ATTTGCATTGTATAAATTTCATTTGTATTGTATAATTTT-TATTTGTATTCTAT-ATTT-TCT
* * * *
964017 ATTTAG-ATTGTATAAATTTCATTTGTATTGTATTATATTT-TTTGATATTCTTTAATTTTCC
1 ATTT-GCATTGTATAAATTTCATTTGTATTGTATAATTTTTATTTG-TATTCTAT-ATTTTCT
* * * * *
964078 ATTTGTATTCTATAACTTTCAATTT-TAATTTGTATAAATTTCATTTG
1 ATTTGCATTGTATAAATTTC-ATTTGT-A-TTGTATAATTTTTATTTG
964125 CATTGCATTA
Statistics
Matches: 246, Mismatches: 31, Indels: 36
0.79 0.10 0.12
Matches are distributed among these distances:
60 6 0.02
61 32 0.13
62 138 0.56
63 44 0.18
64 26 0.11
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.58
Consensus pattern (60 bp):
ATTTGCATTGTATAAATTTCATTTGTATTGTATAATTTTTATTTGTATTCTATATTTTCT
Found at i:963931 original size:41 final size:40
Alignment explanation
Indices: 963745--964129 Score: 268
Period size: 41 Copynumber: 9.3 Consensus size: 40
963735 CGATCTTTGC
*
963745 CATTTGTATTGTATAAATATTC-ATTTGTATTGTATAATTTT
1 CATTTGTATTGTAT-AATTTTCTATTTGTATTGTATAA-TTT
* * **
963786 CTATTTGTATTGTATAATTTTC-AATTATATACTATAACTTT
1 C-ATTTGTATTGTATAATTTTCTATTTGTATTGTATAA-TTT
* * *
963827 ACATGTT-TATTCTATAATGTTTCCATTTGTATTGTTTAATTT
1 -CAT-TTGTATTGTATAAT-TTTCTATTTGTATTGTATAATTT
* * *
963869 CTTATTTGTATTCTATGATTTTCTATTTGCATTGTATACATTT
1 C--ATTTGTATTGTATAATTTTCTATTTGTATTGTATA-ATTT
** *
963912 CATTTGTATTGTATAATTTT-TCATTTGTATACTATATTTTT
1 CATTTGTATTGTATAATTTTCT-ATTTGTATTGTATA-ATTT
* *
963953 CCATTTGCATTGTATAAATTTC-ATTTGTATTGTATAATTTT
1 -CATTTGTATTGTATAATTTTCTATTTGTATTGTATAA-TTT
963994 CTATTTGTATTGTATAATTTAT-TATTTAG-ATTGTATAAATTT
1 C-ATTTGTATTGTATAATTT-TCTATTT-GTATTGTAT-AATTT
* * * *
964036 CATTTGTATTGTATTATATT-T-TTTGATATTCTTTAATTTT
1 CATTTGTATTGTATAATTTTCTATTTG-TATTGTATAA-TTT
* * *
964076 CCATTTGTATTCTATAACTTTCAATTT-TAATTTGTATAAATTT
1 -CATTTGTATTGTATAATTTTCTATTTGT-A-TTGTAT-AATTT
*
964119 CATTTGCATTG
1 CATTTGTATTG
964130 CATTACGTAG
Statistics
Matches: 274, Mismatches: 43, Indels: 53
0.74 0.12 0.14
Matches are distributed among these distances:
38 1 0.00
39 5 0.02
40 12 0.04
41 129 0.47
42 85 0.31
43 40 0.15
44 2 0.01
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.57
Consensus pattern (40 bp):
CATTTGTATTGTATAATTTTCTATTTGTATTGTATAATTT
Found at i:972148 original size:326 final size:325
Alignment explanation
Indices: 971555--972696 Score: 1836
Period size: 326 Copynumber: 3.5 Consensus size: 325
971545 TAACGCTTTT
* * * *
971555 AATCTCAAGTGAGATATAAACCCCTGAAATAAGCCAGAAACGCTGGAAGCCACTTGGTGTTACCA
1 AATCTCAAGTGAGATATAAACCCCTAAAATAAGCCAGAAACCCTGGGAGCCACTTGGTGGTACCA
971620 CTACAGCCCAAATTTGAGACCGGGAAATAATAGCCCCATAGGTACCCTACACTGCCCTGGTATCC
66 CTACAGCCCAAATTTGAGACCGGGAAATAATAGCCCCATAGGTACCCTACACTGCCCTGGTATCC
*
971685 GTTTGATGCACACTTCAAAGATAAAAGAGATAATGACCCGCCTTTCACCCCTATATTATTGTGAA
131 GTTTAATGCACACTTCAAAGATAAAAGAGATAATGACCCGCCTTTCACCCCTATATTATTGTGAA
* * *
971750 ATGCTAAAGTATGACAAAGTTCGGGTGACCTAACTGAACCCTTGCATGTGTCATAGGTGCCCTTT
196 ATGCTAAAATATGACAAAGTTCGGGTGACCTAACT-AACCCTTGCAGGGGTCATAGGTGCCCTTT
*
971815 AACGCTTATTATGAATACCCCTTGAGGTCCTCTACTTAATCCTCGTGTGTCCAAGTTCTTGTGGT
260 AACGCTTATTATGAATACCCCTTGAGGTCCTCTACTTAATCCTCGTGTTTCCAAGTTCTTGTGGT
971880 C
325 C
* *
971881 AATCTCAAGTGAGATATAAACCCCTAAAATGAGCCAGAAACCCTGGGAGCCACTTGGTGATACCA
1 AATCTCAAGTGAGATATAAACCCCTAAAATAAGCCAGAAACCCTGGGAGCCACTTGGTGGTACCA
* * * *
971946 CTACAGCCCAAATTTGAGACTGGGAAATAATAGCCCCATTGGTCCCCTACATTGCCCTGGTATCC
66 CTACAGCCCAAATTTGAGACCGGGAAATAATAGCCCCATAGGTACCCTACACTGCCCTGGTATCC
* * *
972011 GTTTAATGCACACTTCAAAGATAAAAGAGATAATGGCCCGCCTTTCACCCCTATATCAATGTGAA
131 GTTTAATGCACACTTCAAAGATAAAAGAGATAATGACCCGCCTTTCACCCCTATATTATTGTGAA
* * * *
972076 ATGCTAAAATATGATAAAGGTCGGGTGAGCTTACTACACCCTTGCAGGGGTCATAGGTGCCCTTT
196 ATGCTAAAATATGACAAAGTTCGGGTGACCTAACTA-ACCCTTGCAGGGGTCATAGGTGCCCTTT
** *
972141 AACGCTTATTATGAATACCTCC-TGAGGTCCTCTACCAAATCCTAGTGTTTCCAAGTTCTTGTGG
260 AACGCTTATTATGAATACC-CCTTGAGGTCCTCTACTTAATCCTCGTGTTTCCAAGTTCTTGTGG
972205 TC
324 TC
* * * * *
972207 AATTTCAAGTGAGATATAAACCCCTGAAATAAGTCAGAAACCATGGGAGTCACTTGGTGGTACCA
1 AATCTCAAGTGAGATATAAACCCCTAAAATAAGCCAGAAACCCTGGGAGCCACTTGGTGGTACCA
972272 CTACAGCCCAAATTTGAGACCGGGAAATAATAGCCCCATAGGTACCCTACACTGCCCTGGTATCC
66 CTACAGCCCAAATTTGAGACCGGGAAATAATAGCCCCATAGGTACCCTACACTGCCCTGGTATCC
* * *
972337 GTTTGATGCACACTTCAAAGATAAAAGAGATAATGCCCCGCCTTTCACCTCTATATTATTGTGAA
131 GTTTAATGCACACTTCAAAGATAAAAGAGATAATGACCCGCCTTTCACCCCTATATTATTGTGAA
*
972402 ATGCTAAAATATGACAAAGTTCGGGTGACCTAACTGGACCCTTGCAGGGGTCATAGGTGCCCTTT
196 ATGCTAAAATATGACAAAGTTCGGGTGACCTAACT-AACCCTTGCAGGGGTCATAGGTGCCCTTT
* * *
972467 AACGCTTATTATGAATACCCATTGAGGTCCTCTACTTAATCCTCGTGTTTTCAAGTTCTTGTGAT
260 AACGCTTATTATGAATACCCCTTGAGGTCCTCTACTTAATCCTCGTGTTTCCAAGTTCTTGTGGT
972532 C
325 C
* *
972533 AATCTCAAGTGAGATATAAACCCCTAAAATGAGCCAGAAACCCTGGGAGTCACTTGGTGGTACCA
1 AATCTCAAGTGAGATATAAACCCCTAAAATAAGCCAGAAACCCTGGGAGCCACTTGGTGGTACCA
* * * * *
972598 CTACAGCCCAAATTTGAGACCGGAAAATAATAGCCCCATTGGTCCCCTACATTGCCCTGGTATCT
66 CTACAGCCCAAATTTGAGACCGGGAAATAATAGCCCCATAGGTACCCTACACTGCCCTGGTATCC
*
972663 GTTTAATGCACACTTTAAAGATAAAAGAGATAAT
131 GTTTAATGCACACTTCAAAGATAAAAGAGATAAT
972697 CTTTAGAGAT
Statistics
Matches: 749, Mismatches: 63, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
325 2 0.00
326 745 0.99
327 2 0.00
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (325 bp):
AATCTCAAGTGAGATATAAACCCCTAAAATAAGCCAGAAACCCTGGGAGCCACTTGGTGGTACCA
CTACAGCCCAAATTTGAGACCGGGAAATAATAGCCCCATAGGTACCCTACACTGCCCTGGTATCC
GTTTAATGCACACTTCAAAGATAAAAGAGATAATGACCCGCCTTTCACCCCTATATTATTGTGAA
ATGCTAAAATATGACAAAGTTCGGGTGACCTAACTAACCCTTGCAGGGGTCATAGGTGCCCTTTA
ACGCTTATTATGAATACCCCTTGAGGTCCTCTACTTAATCCTCGTGTTTCCAAGTTCTTGTGGTC
Found at i:972706 original size:22 final size:22
Alignment explanation
Indices: 972675--972718 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
972665 TTAATGCACA
972675 CTTTAAAGATAAAAGAGATAAT
1 CTTTAAAGATAAAAGAGATAAT
*
972697 CTTTAGAGATAAAAGAGATAAT
1 CTTTAAAGATAAAAGAGATAAT
972719 AATAAGGCAA
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:0.52, C:0.05, G:0.16, T:0.27
Consensus pattern (22 bp):
CTTTAAAGATAAAAGAGATAAT
Found at i:978671 original size:1 final size:1
Alignment explanation
Indices: 978665--978721 Score: 96
Period size: 1 Copynumber: 57.0 Consensus size: 1
978655 GATCTTTTAT
* *
978665 AAAAAAAAAAACAAAAAAAAAAAAAAAAAAAAAAANAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
978722 CTCGAAATAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 52 1.00
ACGTcount: A:0.96, C:0.02, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:979440 original size:2 final size:2
Alignment explanation
Indices: 979433--979478 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
979423 TTATAAAAGA
979433 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
979475 GT GT
1 GT GT
979479 TTTATGGGGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
GT
Found at i:979558 original size:59 final size:59
Alignment explanation
Indices: 979466--979584 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
979456 TGTGTGTGTG
* *
979466 TGTGTGTGTGTGTTTTATGGGGTATCGAAACCAACCCTTCTATGAGTACGAAAGAAGCT
1 TGTGTGTGTGAGTTTTACGGGGTATCGAAACCAACCCTTCTATGAGTACGAAAGAAGCT
979525 TGTGTGTGTGAGTTTTACGGGGTATCGAAACCAACCCTTCTATGAGTACGAAAGAAGCT
1 TGTGTGTGTGAGTTTTACGGGGTATCGAAACCAACCCTTCTATGAGTACGAAAGAAGCT
979584 T
1 T
979585 AATCTTAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (59 bp):
TGTGTGTGTGAGTTTTACGGGGTATCGAAACCAACCCTTCTATGAGTACGAAAGAAGCT
Found at i:980169 original size:3 final size:3
Alignment explanation
Indices: 980161--980235 Score: 109
Period size: 3 Copynumber: 25.3 Consensus size: 3
980151 TTTTATAAAT
* *
980161 TTA TTA TTA TTA TTA -CA TGAA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
980206 TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
980236 CATTTTGTTT
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
2 3 0.05
3 61 0.92
4 2 0.03
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:981656 original size:30 final size:28
Alignment explanation
Indices: 981620--981675 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
981610 GCTTCAAATG
*
981620 ATTCAAATGACATTGAATTCTAATATTTGA
1 ATTCAAATG-CA-TCAATTCTAATATTTGA
*
981650 ATTCAAATGCATCAATTTTAATATTT
1 ATTCAAATGCATCAATTCTAATATTT
981676 TCATAATATG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.54
29 2 0.08
30 9 0.38
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (28 bp):
ATTCAAATGCATCAATTCTAATATTTGA
Found at i:994953 original size:2 final size:2
Alignment explanation
Indices: 994946--995005 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
994936 AGCTATAATT
994946 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
994988 GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA
995006 ACCTTAAAGA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:996248 original size:2 final size:2
Alignment explanation
Indices: 996243--996311 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
996233 TATATAAATA
996243 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
996285 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
996312 GCATATTTGC
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:1011211 original size:14 final size:14
Alignment explanation
Indices: 1011192--1011219 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
1011182 TTTTCCTTAA
1011192 TTTGAAAGAAACTT
1 TTTGAAAGAAACTT
1011206 TTTGAAAGAAACTT
1 TTTGAAAGAAACTT
1011220 ATCTTTCGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.07, G:0.14, T:0.36
Consensus pattern (14 bp):
TTTGAAAGAAACTT
Found at i:1013005 original size:23 final size:22
Alignment explanation
Indices: 1012964--1013008 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
1012954 TGTGATAACA
1012964 GCATATATTCTAAACTATAATT
1 GCATATATTCTAAACTATAATT
1012986 GCATCATATTCTCAAA-TATAATT
1 GCAT-ATATTCT-AAACTATAATT
1013009 AATGCATGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 4 0.19
23 14 0.67
24 3 0.14
ACGTcount: A:0.40, C:0.16, G:0.04, T:0.40
Consensus pattern (22 bp):
GCATATATTCTAAACTATAATT
Found at i:1019713 original size:7 final size:8
Alignment explanation
Indices: 1019687--1019712 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
1019677 AATTTATGGC
1019687 AAATAGCA
1 AAATAGCA
1019695 AAATAGCA
1 AAATAGCA
1019703 AAATAGCA
1 AAATAGCA
1019711 AA
1 AA
1019713 TGCTTAATCT
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:0.65, C:0.12, G:0.12, T:0.12
Consensus pattern (8 bp):
AAATAGCA
Found at i:1026199 original size:15 final size:17
Alignment explanation
Indices: 1026163--1026200 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1026153 AAGAAAATGT
*
1026163 TTGATTTTTCGACTACC
1 TTGATTTTTCAACTACC
1026180 TTGATTTTTCAAC-A-C
1 TTGATTTTTCAACTACC
1026195 TTGATT
1 TTGATT
1026201 GATAGAGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 1 0.05
17 12 0.60
ACGTcount: A:0.21, C:0.18, G:0.11, T:0.50
Consensus pattern (17 bp):
TTGATTTTTCAACTACC
Done.