Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000250.1 Hibiscus syriacus cultivar Beakdansim tig00000452_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2850692
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 12
Found at i:469206 original size:2 final size:2
Alignment explanation
Indices: 469199--469297 Score: 144
Period size: 2 Copynumber: 49.5 Consensus size: 2
469189 TTTATTGTAT
* * * *
469199 AC AC AC AC AC AA AC AC AC AC AT TC AC AC AC AC AA AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
469241 AC AC AC AC AC AC AC AC AC AC AA AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
469283 AC AT AC AC AC AC AC A
1 AC AC AC AC AC AC AC A
469298 TACATATATA
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 85 1.00
ACGTcount: A:0.53, C:0.44, G:0.00, T:0.03
Consensus pattern (2 bp):
AC
Found at i:471453 original size:12 final size:12
Alignment explanation
Indices: 471436--471466 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
471426 GAATACAAAT
471436 ATGCAAATACAG
1 ATGCAAATACAG
471448 ATGCAAATACAG
1 ATGCAAATACAG
471460 ATGCAAA
1 ATGCAAA
471467 AAATGTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (12 bp):
ATGCAAATACAG
Found at i:472919 original size:20 final size:23
Alignment explanation
Indices: 472891--472941 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
472881 CCAAGCTGTC
*
472891 ATAACTATTT-TT-TTT-AAAAA
1 ATAATTATTTATTATTTAAAAAA
472911 ATAATTATTTATTATTTAAAAAA
1 ATAATTATTTATTATTTAAAAAA
472934 ATAATTAT
1 ATAATTAT
472942 GACTTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.33
21 2 0.07
22 3 0.11
23 13 0.48
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (23 bp):
ATAATTATTTATTATTTAAAAAA
Found at i:482428 original size:31 final size:30
Alignment explanation
Indices: 482387--482485 Score: 103
Period size: 31 Copynumber: 3.2 Consensus size: 30
482377 AAAAATAATT
* *
482387 AAATTTTAATTTAATCTTTGAATTCTAGATA
1 AAATATTAATTTAATCTTTAAATT-TAGATA
* *
482418 AAATGA-TAATTTTGATC-TTAAATTTAAGACA
1 AAAT-ATTAA-TTTAATCTTTAAATTT-AGATA
482449 AAATATTAATTTAATCTTTAAAATTTAGATA
1 AAATATTAATTTAATCTTT-AAATTTAGATA
482480 AAATAT
1 AAATAT
482486 CATTTTGACT
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
30 8 0.14
31 36 0.64
32 12 0.21
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.43
Consensus pattern (30 bp):
AAATATTAATTTAATCTTTAAATTTAGATA
Found at i:484672 original size:21 final size:20
Alignment explanation
Indices: 484634--484672 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
484624 TTCAAATTTC
484634 TATTTAAATTTGATTATAAA
1 TATTTAAATTTGATTATAAA
484654 TATTTATAATATT-ATTATA
1 TATTTA-AAT-TTGATTATA
484673 CTATTCGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 9 0.53
22 2 0.12
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
TATTTAAATTTGATTATAAA
Found at i:486644 original size:22 final size:21
Alignment explanation
Indices: 486595--486638 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
486585 TTCAACAAAT
* *
486595 CTCTTCATTAAATGGTTTTAA
1 CTCTTCATTAAAAGGTCTTAA
486616 CTCTTCATTAAAAAGGTCTTAA
1 CTCTTCATT-AAAAGGTCTTAA
486638 C
1 C
486639 CTTTCAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (21 bp):
CTCTTCATTAAAAGGTCTTAA
Found at i:487491 original size:24 final size:22
Alignment explanation
Indices: 487420--487484 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 22
487410 TTATTTGTTG
*
487420 GGATTAGTTTTTCTTTTCCTTT
1 GGATAAGTTTTTCTTTTCCTTT
* **
487442 GGATGAGTTTATTCTTTTGAATTTT
1 GGATAAGTTT-TTCTTTT--CCTTT
487467 GGATAAGTTTTTCTTTTC
1 GGATAAGTTTTTCTTTTC
487485 TGGTTTGTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
22 9 0.26
23 7 0.20
24 7 0.20
25 12 0.34
ACGTcount: A:0.15, C:0.09, G:0.17, T:0.58
Consensus pattern (22 bp):
GGATAAGTTTTTCTTTTCCTTT
Found at i:493859 original size:95 final size:95
Alignment explanation
Indices: 493690--493889 Score: 240
Period size: 95 Copynumber: 2.1 Consensus size: 95
493680 ATTAATGTGG
* * * * * *
493690 GTATCGATACTATGAGGAAGGTATCAATACCATTGATTCCAGAATGCAAAAATGGTATCGATACC
1 GTATCGATACTAAGAGAAAGGTATCAATACCATGGATTCCAGAAAGCAAAAATGATATCAATACC
** * *
493755 GTAATGGAGTATCAGTACTATAGTATATG-A
66 AAAAGGGAGTATCAGTACCATAGTATA-GAA
* * * * *
493785 GTATCGATACTAAGAGAAATGTATCGATACCATGGATTCCATAAAGCAGAAATGATATCAATACT
1 GTATCGATACTAAGAGAAAGGTATCAATACCATGGATTCCAGAAAGCAAAAATGATATCAATACC
*
493850 AAAAGGGAGTATCGGTACCATAGTATAGAA
66 AAAAGGGAGTATCAGTACCATAGTATAGAA
493880 GTATCGATAC
1 GTATCGATAC
493890 AATGGTAGCG
Statistics
Matches: 88, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
94 1 0.01
95 87 0.99
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (95 bp):
GTATCGATACTAAGAGAAAGGTATCAATACCATGGATTCCAGAAAGCAAAAATGATATCAATACC
AAAAGGGAGTATCAGTACCATAGTATAGAA
Found at i:494319 original size:54 final size:54
Alignment explanation
Indices: 494234--494576 Score: 510
Period size: 54 Copynumber: 6.4 Consensus size: 54
494224 TTATGTGTAT
* *
494234 TATAGGCACTATGTGTGCAACCCATAGAATTCATCATATGTTGATGAACGACTG
1 TATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* * * * * *
494288 TATAGCCATTATGTGTGCTACCCACATAATTCATCATATGTTGATGAATGACCT
1 TATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
*
494342 TATAGACACTATGTGTGCAACCCAC-GAAATTCATCATATGTTGATGAACGACCG
1 TATAGGCACTATGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACGACCG
*
494396 TATAGGCACTATGTATGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
1 TATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* *
494450 TATAGGAACTATGTGTGCAACCCACGGAATTCATCATATGTTGATGAACGACCG
1 TATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
* *
494504 TATAGGCACTATGTGTGCAACCCAC-GTAATTCATCATATATTGATGAATGACCG
1 TATAGGCACTATGTGTGCAACCCACAG-AATTCATCATATGTTGATGAACGACCG
* *
494558 TATTGGAACTATGTGTGCA
1 TATAGGCACTATGTGTGCA
494577 TCTCAACAAA
Statistics
Matches: 262, Mismatches: 24, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
53 1 0.00
54 260 0.99
55 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.29
Consensus pattern (54 bp):
TATAGGCACTATGTGTGCAACCCACAGAATTCATCATATGTTGATGAACGACCG
Found at i:494408 original size:27 final size:27
Alignment explanation
Indices: 494378--494517 Score: 71
Period size: 27 Copynumber: 5.2 Consensus size: 27
494368 AAATTCATCA
494378 TATGTTGATGAACGACCGTATAGGCAC
1 TATGTTGATGAACGACCGTATAGGCAC
* * **
494405 TATG-T-ATGCAACCCACAG-A-ATTCATC
1 TATGTTGATG-AA-CGACCGTATAGGCA-C
*
494431 ATATGTTGATGAACGACCGTATAGGAAC
1 -TATGTTGATGAACGACCGTATAGGCAC
* * **
494459 TATG-TG-TGCAAC-CCACGGA-ATTCATC
1 TATGTTGATG-AACGAC-CGTATAGGCA-C
494485 ATATGTTGATGAACGACCGTATAGGCAC
1 -TATGTTGATGAACGACCGTATAGGCAC
494513 TATGT
1 TATGT
494518 GTGCAACCCA
Statistics
Matches: 79, Mismatches: 18, Indels: 32
0.61 0.14 0.25
Matches are distributed among these distances:
25 11 0.14
26 14 0.18
27 29 0.37
28 14 0.18
29 11 0.14
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (27 bp):
TATGTTGATGAACGACCGTATAGGCAC
Found at i:502112 original size:71 final size:71
Alignment explanation
Indices: 502036--502171 Score: 245
Period size: 71 Copynumber: 1.9 Consensus size: 71
502026 ACTTCTAAAT
* * *
502036 TATTTTTATTAATAATATAATAAGTCTCTAAATTCCCTTTAGGCAAAGCTTTGAATCCCGGTTAA
1 TATTTTTATTAATAATATAATAAGCCTCTAAATTCCCTTTAGGCAAAGCTTTAAATCCCAGTTAA
502101 ATATTA
66 ATATTA
502107 TATTTTTATTAATAATATAATAAGCCTCTAAATTCCCTTTAGGCAAAGCTTTAAATCCCAGTTAA
1 TATTTTTATTAATAATATAATAAGCCTCTAAATTCCCTTTAGGCAAAGCTTTAAATCCCAGTTAA
502172 CCCTCTTGAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
71 62 1.00
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.40
Consensus pattern (71 bp):
TATTTTTATTAATAATATAATAAGCCTCTAAATTCCCTTTAGGCAAAGCTTTAAATCCCAGTTAA
ATATTA
Found at i:502448 original size:25 final size:25
Alignment explanation
Indices: 502414--502464 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
502404 CCAATTATGA
*
502414 ATCAAATAAAATTAATTAAAATTTT
1 ATCAAATAAAACTAATTAAAATTTT
502439 ATCAAATAAAACTAATTAAAATTTT
1 ATCAAATAAAACTAATTAAAATTTT
502464 A
1 A
502465 ACCCCTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (25 bp):
ATCAAATAAAACTAATTAAAATTTT
Found at i:504300 original size:18 final size:18
Alignment explanation
Indices: 504274--504321 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
504264 ATTAATGGCA
*
504274 AAATGAATATTTCTCATT
1 AAATGAATATTTCTAATT
*
504292 AAATTAATATTTCTAATT
1 AAATGAATATTTCTAATT
*
504310 AAATGTATATTT
1 AAATGAATATTT
504322 TATTCATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.42, C:0.06, G:0.04, T:0.48
Consensus pattern (18 bp):
AAATGAATATTTCTAATT
Found at i:506191 original size:8 final size:8
Alignment explanation
Indices: 506178--507665 Score: 2053
Period size: 8 Copynumber: 186.2 Consensus size: 8
506168 AACATTATAC
506178 ATGTATGT
1 ATGTATGT
506186 ATGTATGT
1 ATGTATGT
506194 ATGTATGT
1 ATGTATGT
506202 ATGTATGT
1 ATGTATGT
506210 ATGTATGT
1 ATGTATGT
506218 ATGTATGT
1 ATGTATGT
506226 ATGTATGT
1 ATGTATGT
506234 ATGTATGT
1 ATGTATGT
506242 ATGTATGT
1 ATGTATGT
506250 ATGTATGT
1 ATGTATGT
506258 ATGTATGT
1 ATGTATGT
506266 ATGTATGT
1 ATGTATGT
506274 ATGTATGT
1 ATGTATGT
506282 ATGTATGT
1 ATGTATGT
506290 ATGTATGT
1 ATGTATGT
506298 ATGTATGT
1 ATGTATGT
506306 ATGTATGT
1 ATGTATGT
506314 ATGTATGT
1 ATGTATGT
506322 ATGTATGT
1 ATGTATGT
506330 ATGTATGT
1 ATGTATGT
506338 ATGTATGT
1 ATGTATGT
506346 ATGTATGT
1 ATGTATGT
506354 ATGTATGT
1 ATGTATGT
506362 ATGTATGT
1 ATGTATGT
506370 ATGTATGT
1 ATGTATGT
506378 ATGTATGT
1 ATGTATGT
506386 ATGTATGT
1 ATGTATGT
506394 ATGTATGT
1 ATGTATGT
506402 ATGTATGT
1 ATGTATGT
506410 ATGTATGT
1 ATGTATGT
506418 ATGTATGT
1 ATGTATGT
506426 ATGTATGT
1 ATGTATGT
506434 ATGTATGT
1 ATGTATGT
506442 ATGTATGT
1 ATGTATGT
*
506450 ATGTATGC
1 ATGTATGT
*
506458 ATGTATGC
1 ATGTATGT
506466 ATGTATGT
1 ATGTATGT
506474 ATGTATGT
1 ATGTATGT
*
506482 ATGTATGC
1 ATGTATGT
506490 ATGTATGT
1 ATGTATGT
506498 ATGTATGT
1 ATGTATGT
506506 ATGTATGT
1 ATGTATGT
506514 ATGTATGT
1 ATGTATGT
506522 ATGTATGT
1 ATGTATGT
*
506530 ATGCATGT
1 ATGTATGT
*
506538 ATGTATGC
1 ATGTATGT
*
506546 ATGTATGC
1 ATGTATGT
* *
506554 ATGCATGC
1 ATGTATGT
*
506562 ATGTATGC
1 ATGTATGT
*
506570 ATGTATGC
1 ATGTATGT
*
506578 ATGTATGC
1 ATGTATGT
506586 ATGTATGT
1 ATGTATGT
506594 ATGTATGT
1 ATGTATGT
*
506602 ATGTATGC
1 ATGTATGT
*
506610 ATGTATGC
1 ATGTATGT
*
506618 ATGTATGC
1 ATGTATGT
*
506626 ATGTATGC
1 ATGTATGT
506634 ATGTATGT
1 ATGTATGT
506642 ATGTATGT
1 ATGTATGT
506650 ATGTATGT
1 ATGTATGT
506658 ATGTATGT
1 ATGTATGT
506666 A--TATGT
1 ATGTATGT
506672 ATGTATGT
1 ATGTATGT
506680 ATGTATGT
1 ATGTATGT
*
506688 ATATATGT
1 ATGTATGT
506696 ATGTATGT
1 ATGTATGT
506704 ATGTATGT
1 ATGTATGT
*
506712 ATATATGT
1 ATGTATGT
506720 ATGTATGT
1 ATGTATGT
506728 ATGTATGT
1 ATGTATGT
506736 ATGTATGT
1 ATGTATGT
506744 ATGTATGT
1 ATGTATGT
506752 ATGTATGT
1 ATGTATGT
506760 ATGTATGT
1 ATGTATGT
506768 ATGTATGT
1 ATGTATGT
506776 ATGTATGT
1 ATGTATGT
*
506784 ATCTATGT
1 ATGTATGT
506792 ATGTATGT
1 ATGTATGT
* *
506800 ATGCATGC
1 ATGTATGT
*
506808 ATGTATGC
1 ATGTATGT
* *
506816 ATGCATGC
1 ATGTATGT
*
506824 ATGTATGC
1 ATGTATGT
*
506832 ATGTATGC
1 ATGTATGT
*
506840 ATGTATGC
1 ATGTATGT
*
506848 ATGTATGC
1 ATGTATGT
*
506856 ATGTATGC
1 ATGTATGT
*
506864 ATGTATGC
1 ATGTATGT
*
506872 ATGTATGC
1 ATGTATGT
506880 ATGTATGT
1 ATGTATGT
* *
506888 ATGCATGC
1 ATGTATGT
*
506896 ATGCATGT
1 ATGTATGT
*
506904 ATGCATGT
1 ATGTATGT
*
506912 ATGCATGT
1 ATGTATGT
*
506920 ATGCATGT
1 ATGTATGT
*
506928 ATGCATGT
1 ATGTATGT
*
506936 ATGCATGT
1 ATGTATGT
*
506944 ATGCATGT
1 ATGTATGT
*
506952 ATGCATGT
1 ATGTATGT
506960 ATGTATGT
1 ATGTATGT
*
506968 ATGCATGT
1 ATGTATGT
*
506976 ATGCATGT
1 ATGTATGT
*
506984 ATGCATGT
1 ATGTATGT
*
506992 ATGCATGT
1 ATGTATGT
*
507000 ATGCATGT
1 ATGTATGT
*
507008 ATGCATGT
1 ATGTATGT
*
507016 ATGTATGC
1 ATGTATGT
*
507024 ATGTATGC
1 ATGTATGT
*
507032 ATGTATGC
1 ATGTATGT
*
507040 ATGTATGC
1 ATGTATGT
*
507048 ATGTATGC
1 ATGTATGT
*
507056 ATGTATGC
1 ATGTATGT
*
507064 ATGTATGC
1 ATGTATGT
*
507072 ATGTATGC
1 ATGTATGT
*
507080 ATGTATGC
1 ATGTATGT
*
507088 ATGTATGC
1 ATGTATGT
*
507096 ATGTATGC
1 ATGTATGT
*
507104 ATGTATGC
1 ATGTATGT
*
507112 ATGTATGC
1 ATGTATGT
*
507120 ATGTATGC
1 ATGTATGT
*
507128 ATGTATGC
1 ATGTATGT
*
507136 ATGTATGC
1 ATGTATGT
*
507144 ATGTATGC
1 ATGTATGT
507152 ATGTATGT
1 ATGTATGT
*
507160 ATGTATGC
1 ATGTATGT
507168 ATGTATGT
1 ATGTATGT
507176 ATGTATGT
1 ATGTATGT
507184 ATGTATGT
1 ATGTATGT
507192 ATGTATGT
1 ATGTATGT
*
507200 ATGTATAT
1 ATGTATGT
507208 ATGTATGT
1 ATGTATGT
507216 ATGTATGT
1 ATGTATGT
507224 ATGTATGT
1 ATGTATGT
507232 ATGTATGT
1 ATGTATGT
507240 ATGTATGT
1 ATGTATGT
507248 ATGTATGT
1 ATGTATGT
507256 ATGTATGT
1 ATGTATGT
507264 ATGTATGT
1 ATGTATGT
507272 ATGTATGT
1 ATGTATGT
507280 ATGTATGT
1 ATGTATGT
507288 ATGTATGT
1 ATGTATGT
507296 ATGTATGT
1 ATGTATGT
* *
507304 ATGCATGC
1 ATGTATGT
*
507312 ATGTATGC
1 ATGTATGT
* *
507320 ATGCATGC
1 ATGTATGT
*
507328 ATGTATGC
1 ATGTATGT
*
507336 ATGTATGC
1 ATGTATGT
*
507344 ATGTATGC
1 ATGTATGT
*
507352 ATGTATGC
1 ATGTATGT
*
507360 ATGTATGC
1 ATGTATGT
*
507368 ATGTATGC
1 ATGTATGT
*
507376 ATGTATGC
1 ATGTATGT
*
507384 ATGTATGC
1 ATGTATGT
*
507392 ATGTATGC
1 ATGTATGT
*
507400 ATGTATGC
1 ATGTATGT
*
507408 ATGTATGC
1 ATGTATGT
*
507416 ATGCATGT
1 ATGTATGT
*
507424 ATGCATGT
1 ATGTATGT
* *
507432 ATGCATGC
1 ATGTATGT
*
507440 ATGCATGT
1 ATGTATGT
*
507448 ATGCATGT
1 ATGTATGT
*
507456 ATGCATGT
1 ATGTATGT
*
507464 ATGCATGT
1 ATGTATGT
*
507472 ATGCATGT
1 ATGTATGT
* *
507480 ATGCATGA
1 ATGTATGT
*
507488 ATGCATGT
1 ATGTATGT
*
507496 ATGCATGT
1 ATGTATGT
*
507504 ATGCATGT
1 ATGTATGT
*
507512 ATGCATGT
1 ATGTATGT
*
507520 ATGCATGT
1 ATGTATGT
*
507528 ATGCATGT
1 ATGTATGT
*
507536 ATGCATGT
1 ATGTATGT
*
507544 ATGCATGT
1 ATGTATGT
507552 ATGTATGT
1 ATGTATGT
507560 ATGTATGT
1 ATGTATGT
507568 ATGTATGT
1 ATGTATGT
507576 ATGTATGT
1 ATGTATGT
507584 ATGTATGT
1 ATGTATGT
507592 ATGTATGT
1 ATGTATGT
507600 ATGTATGT
1 ATGTATGT
507608 ATGTATGT
1 ATGTATGT
507616 ATGTATGT
1 ATGTATGT
507624 ATGTATGT
1 ATGTATGT
507632 ATGTATGT
1 ATGTATGT
507640 ATGTATGT
1 ATGTATGT
*
507648 ATGTATGC
1 ATGTATGT
507656 ATGTATGT
1 ATGTATGT
507664 AT
1 AT
507666 ACATATATCG
Statistics
Matches: 1428, Mismatches: 50, Indels: 4
0.96 0.03 0.00
Matches are distributed among these distances:
6 6 0.00
8 1422 1.00
ACGTcount: A:0.25, C:0.07, G:0.25, T:0.43
Consensus pattern (8 bp):
ATGTATGT
Found at i:507691 original size:23 final size:24
Alignment explanation
Indices: 507663--507721 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 24
507653 TGCATGTATG
* *
507663 TATACATATATCGATATCAT-ATA
1 TATACATACATCAATATCATAATA
*
507686 TATACATGCATCAATATCATACATA
1 TATACATACATCAATATCATA-ATA
507711 TATACATACAT
1 TATACATACAT
507722 ACATGCATCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 17 0.57
25 13 0.43
ACGTcount: A:0.44, C:0.17, G:0.03, T:0.36
Consensus pattern (24 bp):
TATACATACATCAATATCATAATA
Found at i:508256 original size:30 final size:31
Alignment explanation
Indices: 508222--508281 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
508212 CCACTTTTGG
508222 TCACTTGCG-TTTTATTTAATGAAGATATGA
1 TCACTTGCGTTTTTATTTAATGAAGATATGA
* *
508252 TCACTTTCGTTTTTATTTAATTAAGATATG
1 TCACTTGCGTTTTTATTTAATGAAGATATG
508282 GTCATCCCGA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 8 0.30
31 19 0.70
ACGTcount: A:0.28, C:0.10, G:0.13, T:0.48
Consensus pattern (31 bp):
TCACTTGCGTTTTTATTTAATGAAGATATGA
Found at i:509917 original size:5 final size:5
Alignment explanation
Indices: 509907--509932 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
509897 TTAATGTTAT
509907 AATTA AATTA AATTA AATTA AATTA A
1 AATTA AATTA AATTA AATTA AATTA A
509933 CTAATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTA
Found at i:516170 original size:17 final size:17
Alignment explanation
Indices: 516119--516190 Score: 56
Period size: 17 Copynumber: 4.2 Consensus size: 17
516109 AATTAAGAGT
* * *
516119 TAGTTTAATAAATAAAT
1 TAGTTTAATTAATGAAC
* * *
516136 TAGTTTGATGAATTAAC
1 TAGTTTAATTAATGAAC
516153 TAGTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
*
516170 TAACTTT-ATTCAATGAAC
1 T-AGTTTAATT-AATGAAC
516188 TAG
1 TAG
516191 ATGCATGAAT
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
17 32 0.73
18 12 0.27
ACGTcount: A:0.42, C:0.07, G:0.11, T:0.40
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:528588 original size:20 final size:20
Alignment explanation
Indices: 528563--528607 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
528553 TTTATCCGAA
*
528563 AAAAATCCGGTCTGGGGTTT
1 AAAAATCCGGTCTGAGGTTT
528583 AAAAATCCGGTCTGAGGTTT
1 AAAAATCCGGTCTGAGGTTT
528603 AAAAA
1 AAAAA
528608 ATTGGATGAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (20 bp):
AAAAATCCGGTCTGAGGTTT
Found at i:528893 original size:22 final size:22
Alignment explanation
Indices: 528859--528913 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
528849 CACCATTCAA
* *
528859 TGATAGATCTCCAAAATCAGAG
1 TGATAAATTTCCAAAATCAGAG
528881 TGATAAATTTCCAAAATCAGAG
1 TGATAAATTTCCAAAATCAGAG
528903 TGATAAATTTC
1 TGATAAATTTC
528914 GAAGCTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (22 bp):
TGATAAATTTCCAAAATCAGAG
Found at i:529084 original size:20 final size:20
Alignment explanation
Indices: 529059--529097 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
529049 ACTAGTCATT
*
529059 CAATTAGCGGTGCATGAATC
1 CAATTAGCGGCGCATGAATC
529079 CAATTAGCGGCGCATGAAT
1 CAATTAGCGGCGCATGAAT
529098 TAAACGATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.23
Consensus pattern (20 bp):
CAATTAGCGGCGCATGAATC
Found at i:534237 original size:54 final size:54
Alignment explanation
Indices: 534167--534505 Score: 534
Period size: 54 Copynumber: 6.3 Consensus size: 54
534157 ACGCGGGGGG
** ** * *
534167 TGCACACATAGTGCCAATAAAGAAATTCATAAACCAATTATTAATTTCTTAGGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGT
* * * *
534221 TGCACATATAATGCCAATACGGAAATTTATAAAGTTATTATGAATTTCTTAAGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGT
*
534275 TGCACACATAGTGCCAATACAGAAATTCATAAACTTATTATGAATTTCTTAAGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGT
*
534329 TGCACACACAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGT
*
534383 TGAACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGT
*
534437 TGCACACATAGTGCCAATACGAAAATTCATAAACTTATTATGAATTTCTTAAGT
1 TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGT
**
534491 TGTTCACATAGTGCC
1 TGCACACATAGTGCC
534506 CATTAGGTAA
Statistics
Matches: 262, Mismatches: 23, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 262 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.33
Consensus pattern (54 bp):
TGCACACATAGTGCCAATACGGAAATTCATAAACTTATTATGAATTTCTTAAGT
Found at i:538535 original size:42 final size:42
Alignment explanation
Indices: 538477--538910 Score: 200
Period size: 42 Copynumber: 9.9 Consensus size: 42
538467 TGGATGACTT
538477 GAAGGATTT-AATCATCATGCTCGAAAGACTTACTGATGACCC
1 GAAGGATTTCAA-CATCATGCTCGAAAGACTTACTGATGACCC
* * *
538519 GAAGGATTTCAACATCATCCTCAAAAGACTTACTGATGGTACTTAC
1 GAAGGATTTCAACATCATGCTCGAAAGACTTACTGAT-G-AC--CC
* ** * * ** *
538565 TAATGGATTTGCTTC-TCTACT-CTTCAGTGAAGGCTTACAAATTACCC
1 GAA-GGATTT-CAACATC-A-TGC-TC-G-AAAGACTTACTGATGACCC
* **
538612 GAAGGATTT-AATCATCATGCTCGAAAGACTCACAAATGACCC
1 GAAGGATTTCAA-CATCATGCTCGAAAGACTTACTGATGACCC
* * *
538654 GAAGAATTT-AATTATCATGCTCGAAAGACTTACTGATGACCT
1 GAAGGATTTCAA-CATCATGCTCGAAAGACTTACTGATGACCC
** **
538696 GAAGGATTTCAGTATCATGCTCGAAAGACTTACTGATGCTATTTAC
1 GAAGGATTTCAACATCATGCTCGAAAGACTTACTGATG--A--CCC
* * * * * ** * *
538742 TAATGGATTTGCTTTACTACTCTTTGGT-GAATG-CTTACAAATTATCC
1 GAA-GGATTT-C--AAC-A-TC-ATGCTCGAAAGACTTACTGATGACCC
* * *
538789 GAAAGATTT-AATCATCATGCTCAAAAGACTTACTGATGGCCC
1 GAAGGATTTCAA-CATCATGCTCGAAAGACTTACTGATGACCC
* * * **
538831 GAAGGACTTCATCATCATGCTTGAAAGACTTACAAATGACCC
1 GAAGGATTTCAACATCATGCTCGAAAGACTTACTGATGACCC
* * * *
538873 AAATGATTTCATCATCATGCTCGAAAGACTTATTGATG
1 GAAGGATTTCAACATCATGCTCGAAAGACTTACTGATG
538911 GCACATACTG
Statistics
Matches: 292, Mismatches: 69, Indels: 62
0.69 0.16 0.15
Matches are distributed among these distances:
40 3 0.01
41 5 0.02
42 191 0.65
43 7 0.02
44 6 0.02
45 3 0.01
46 18 0.06
47 21 0.07
48 5 0.02
49 6 0.02
51 18 0.06
52 6 0.02
53 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (42 bp):
GAAGGATTTCAACATCATGCTCGAAAGACTTACTGATGACCC
Found at i:538702 original size:177 final size:177
Alignment explanation
Indices: 538477--539048 Score: 716
Period size: 177 Copynumber: 3.2 Consensus size: 177
538467 TGGATGACTT
* *
538477 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTCAACATCATCCTCA
1 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTCAACATCATGCTCG
*
538542 AAAGACTTACTGATGGTACTTACTAATGGATTTGCTTCTCTACTCTTCAGTGAAGGCTTACAAAT
66 AAAGACTTACTGATGGTACTTACTAATGGATTTGCTTCTCTACTCTTCGGTGAAGGCTTACAAAT
538607 TACCCGAAGGATTTAATCATCATGCTCGAAAGACTCACAAATGACCC
131 TACCCGAAGGATTTAATCATCATGCTCGAAAGACTCACAAATGACCC
* * * **
538654 GAAGAATTTAATTATCATGCTCGAAAGACTTACTGATGACCTGAAGGATTTCAGTATCATGCTCG
1 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTCAACATCATGCTCG
* * * *
538719 AAAGACTTACTGATGCTATTTACTAATGGATTTGCTT-TACTACTCTTTGGTGAATGCTTACAAA
66 AAAGACTTACTGATGGTACTTACTAATGGATTTGCTTCT-CTACTCTTCGGTGAAGGCTTACAAA
* * * * ** *
538783 TTATCCGAAAGATTTAATCATCATGCTCAAAAGACTTACTGATGGCCC
130 TTACCCGAAGGATTTAATCATCATGCTCGAAAGACTCACAAATGACCC
* * * ** * * *
538831 GAAGGACTTCATCATCATGCTTGAAAGACTTACAAATGACCCAAATGATTTCATCATCATGCTCG
1 GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTCAACATCATGCTCG
* * * * * * * *
538896 AAAGACTTATTGATGGCACATACTGATGAACTTACTTCACTACTCTTCGGTGAAGGCTTACAAAT
66 AAAGACTTACTGATGGTACTTACTAATGGATTTGCTTCTCTACTCTTCGGTGAAGGCTTACAAAT
* * * * *
538961 TACCCGAAGGATTTAATCATCATGCTCGAAAAACTTA-ATGATGGCTC
131 TACCCGAAGGATTTAATCATCATGCTCGAAAGACTCACA-AATGACCC
*
539008 GAAGGACTTATTCATCATCATGCTCGAAAGACTTACTGATG
1 GAAGGA--T-TTAATCATCATGCTCGAAAGACTTACTGATG
539049 GCACTTACTG
Statistics
Matches: 336, Mismatches: 53, Indels: 9
0.84 0.13 0.02
Matches are distributed among these distances:
176 1 0.00
177 307 0.91
180 28 0.08
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (177 bp):
GAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTCAACATCATGCTCG
AAAGACTTACTGATGGTACTTACTAATGGATTTGCTTCTCTACTCTTCGGTGAAGGCTTACAAAT
TACCCGAAGGATTTAATCATCATGCTCGAAAGACTCACAAATGACCC
Found at i:538983 original size:135 final size:136
Alignment explanation
Indices: 538828--539455 Score: 851
Period size: 135 Copynumber: 4.6 Consensus size: 136
538818 TTACTGATGG
* * * * * * *
538828 CCCGAAGGACTTCATCATCATGCTTGAAAGACTTACAAATGACCCAAATGA-T-TTCATCATCAT
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTA-AGATGGCCCGAAGGACTATTCATCATCAT
* * ** * *
538891 GCTCGAAAGACTTATTGATGGCACATACTGATGAACTTACTTCACTACTCTTCGGTGAAGGCTTA
65 GCTCGAAAGACTTACTGATGGCACTTACTGATGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTA
*
538956 CAAATTA
130 CAAACTA
* *
538963 CCCGAAGGATTTAATCATCATGCTCGAAAAACTTAATGATGGCTCGAAGGACTTATTCATCATCA
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTAA-GATGGCCCGAAGGAC-TATTCATCATCA
* *
539028 TGCTCGAAAGACTTACTGATGGCACTTACTGATG-GGTTGCTTCACTACTCTTCTGTGAAGGCTT
64 TGCTCGAAAGACTTACTGATGGCACTTACTGATGAGTTTGCTTCACTACTCTTCCGTGAAGGCTT
*
539092 ACAAACAA
129 ACAAACTA
* *
539100 CCTGAAGGATTTAATCATCATACTCGAAAGACTT-A-AT--CCCGAAGGACTTATTCATCATCAT
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTAAGATGGCCCGAAGGAC-TATTCATCATCAT
* *
539161 GCTCAAAAGACTTACTGATGGCACTTACTGATGAGTTTGCTTCACTACTCTTCCGTGGAGGCTTA
65 GCTCGAAAGACTTACTGATGGCACTTACTGATGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTA
539226 CAAACTA
130 CAAACTA
* *
539233 CCCGTAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACT-TT-ATCATCAT
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTA-AGATGGCCCGAAGGACTATTCATCATCAT
* *
539296 GCTTGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCTTCACTACTCTTCCGTGAAGGCTTA
65 GCTCGAAAGACTTACTGATGGCACTTACTGATGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTA
*
539361 AAAACTA
130 CAAACTA
* *
539368 CCCGAAGGATTTAATCATCATGTTCAAAAGACTTAATGATGGCCCGAAGGACTTATTCATCATCA
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTAA-GATGGCCCGAAGGAC-TATTCATCATCA
*
539433 TGCTCAAAAGACTTACTGATGGC
64 TGCTCGAAAGACTTACTGATGGC
539456 CCGAAGGACT
Statistics
Matches: 438, Mismatches: 41, Indels: 25
0.87 0.08 0.05
Matches are distributed among these distances:
132 55 0.13
133 65 0.15
134 3 0.01
135 162 0.37
136 6 0.01
137 67 0.15
138 80 0.18
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (136 bp):
CCCGAAGGATTTAATCATCATGCTCGAAAGACTTAAGATGGCCCGAAGGACTATTCATCATCATG
CTCGAAAGACTTACTGATGGCACTTACTGATGAGTTTGCTTCACTACTCTTCCGTGAAGGCTTAC
AAACTA
Found at i:539024 original size:42 final size:44
Alignment explanation
Indices: 538965--539050 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 44
538955 ACAAATTACC
538965 CGAAGGA-TT-TAATCATCATGCTCGAAAAACTTAATGATGGCT
1 CGAAGGACTTATAATCATCATGCTCGAAAAACTTAATGATGGCT
* * *
539007 CGAAGGACTTATTCATCATCATGCTCGAAAGACTTACTGATGGC
1 CGAAGGACTTA-TAATCATCATGCTCGAAAAACTTAATGATGGC
539051 ACTTACTGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 7 0.18
43 2 0.05
45 29 0.76
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
CGAAGGACTTATAATCATCATGCTCGAAAAACTTAATGATGGCT
Found at i:539056 original size:13 final size:13
Alignment explanation
Indices: 539038--539062 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
539028 TGCTCGAAAG
539038 ACTTACTGATGGC
1 ACTTACTGATGGC
539051 ACTTACTGATGG
1 ACTTACTGATGG
539063 GTTGCTTCAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:539292 original size:42 final size:43
Alignment explanation
Indices: 539233--539496 Score: 166
Period size: 42 Copynumber: 6.0 Consensus size: 43
539223 TTACAAACTA
*
539233 CCCGTAGGA-TTTAATCATCATGCTCGAAAGACTTACTGATGG
1 CCCGAAGGACTTTAATCATCATGCTCGAAAGACTTACTGATGG
*
539275 CCCGAAGGACTTT-ATCATCATGCTTGAAAGACTTACTGATGG
1 CCCGAAGGACTTTAATCATCATGCTCGAAAGACTTACTGATGG
* * ** * * *** *
539317 CACTTACTGATGG-GTTTGCTTCA-CTACT-CTTCCGTGAAGGCTTAAAAACT-A
1 C-C---C-GAAGGACTTT-AATCATC-A-TGC-T-CG-AAAGACTTACTGA-TGG
* * *
539368 CCCGAAGGA-TTTAATCATCATGTTCAAAAGACTTAATGATGG
1 CCCGAAGGACTTTAATCATCATGCTCGAAAGACTTACTGATGG
* *
539410 CCCGAAGGACTTATTCATCATCATGCTCAAAAGACTTACTGATGG
1 CCCGAAGGAC-T-TTAATCATCATGCTCGAAAGACTTACTGATGG
* * *
539455 CCCGAAGGAC-TTCATCATCATGCTCGAAATACATACTGATGG
1 CCCGAAGGACTTTAATCATCATGCTCGAAAGACTTACTGATGG
539497 AACTTGCTGA
Statistics
Matches: 173, Mismatches: 28, Indels: 42
0.71 0.12 0.17
Matches are distributed among these distances:
41 1 0.01
42 84 0.49
43 5 0.03
44 3 0.02
45 43 0.25
46 12 0.07
47 6 0.03
48 5 0.03
49 2 0.01
50 2 0.01
51 9 0.05
52 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.28
Consensus pattern (43 bp):
CCCGAAGGACTTTAATCATCATGCTCGAAAGACTTACTGATGG
Found at i:539323 original size:13 final size:13
Alignment explanation
Indices: 539305--539329 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
539295 TGCTTGAAAG
539305 ACTTACTGATGGC
1 ACTTACTGATGGC
539318 ACTTACTGATGG
1 ACTTACTGATGG
539330 GTTTGCTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:539389 original size:93 final size:91
Alignment explanation
Indices: 539275--539587 Score: 266
Period size: 93 Copynumber: 3.4 Consensus size: 91
539265 TTACTGATGG
* *
539275 CCCGAAGGACTTT-ATCATCATGCTTGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCTTC
1 CCCGAAGGA-TTTAATCATCATGCTCGAAAGACTTACTGATGGCACTT-CTGATGGGTTTGATTC
*
539339 ACTACTCTTCCGTGAAGGCTTAAAAACTA
64 ACTACTCTTCCGTGAAGGCTTACAAA-TA
* * * * **
539368 CCCGAAGGATTTAATCATCATGTTCAAAAGACTTAATGATGGC-C--C-GAAGGACTT-ATTCA-
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCACTTCTGATGGGTTTGATTCAC
* ** * ** *
539427 T-CATCATGCTC-AAAAGACTTACTGATGG
66 TAC-TC-TTC-CGTGAAGGCTTACAAAT-A
* * * * * *
539455 CCCGAAGGACTTCATCATCATGCTCGAAATACATACTGATGGAACTTGCTGATGGGTTTGTTTCA
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCACTT-CTGATGGGTTTGATTCA
*
539520 CTACTCTTCTGTGAAGGCTTACAAATTA
65 CTACTCTTCCGTGAAGGCTTACAAA-TA
*
539548 CCCGCAGGATTTAATCATCATGCTCGAAAGACTTACTGAT
1 CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGAT
539588 AGACTTTATC
Statistics
Matches: 164, Mismatches: 41, Indels: 30
0.70 0.17 0.13
Matches are distributed among these distances:
85 1 0.01
86 4 0.02
87 49 0.30
88 8 0.05
89 1 0.01
91 1 0.01
92 10 0.06
93 85 0.52
94 4 0.02
95 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (91 bp):
CCCGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCACTTCTGATGGGTTTGATTCAC
TACTCTTCCGTGAAGGCTTACAAATA
Found at i:539445 original size:45 final size:42
Alignment explanation
Indices: 539368--539479 Score: 161
Period size: 45 Copynumber: 2.6 Consensus size: 42
539358 TTAAAAACTA
* * *
539368 CCCGAAGGATTTAATCATCATGTTCAAAAGACTTAATGATGG
1 CCCGAAGGACTTCATCATCATGCTCAAAAGACTTAATGATGG
*
539410 CCCGAAGGACTTATTCATCATCATGCTCAAAAGACTTACTGATGG
1 CCCGAAGGAC---TTCATCATCATGCTCAAAAGACTTAATGATGG
539455 CCCGAAGGACTTCATCATCATGCTC
1 CCCGAAGGACTTCATCATCATGCTC
539480 GAAATACATA
Statistics
Matches: 63, Mismatches: 4, Indels: 6
0.86 0.05 0.08
Matches are distributed among these distances:
42 24 0.38
45 39 0.62
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (42 bp):
CCCGAAGGACTTCATCATCATGCTCAAAAGACTTAATGATGG
Found at i:539451 original size:180 final size:180
Alignment explanation
Indices: 539246--539587 Score: 549
Period size: 180 Copynumber: 1.9 Consensus size: 180
539236 GTAGGATTTA
* * * *
539246 ATCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTTATCATCATGCTTGAAAGACTTAC
1 ATCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACATAC
*
539311 TGATGGCACTTACTGATGGGTTTGCTTCACTACTCTTCCGTGAAGGCTTAAAAACTACCCGAAGG
66 TGATGGAACTTACTGATGGGTTTGCTTCACTACTCTTCCGTGAAGGCTTAAAAACTACCCGAAGG
*
539376 ATTTAATCATCATGTTCAAAAGACTTAATGATGGCCCGAAGGACTTATTC
131 ATTTAATCATCATGCTCAAAAGACTTAATGATGGCCCGAAGGACTTATTC
*
539426 ATCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAATACATAC
1 ATCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACATAC
* * * * * *
539491 TGATGGAACTTGCTGATGGGTTTGTTTCACTACTCTTCTGTGAAGGCTTACAAATTACCCGCAGG
66 TGATGGAACTTACTGATGGGTTTGCTTCACTACTCTTCCGTGAAGGCTTAAAAACTACCCGAAGG
* *
539556 ATTTAATCATCATGCTCGAAAGACTTACTGAT
131 ATTTAATCATCATGCTCAAAAGACTTAATGAT
539588 AGACTTTATC
Statistics
Matches: 147, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
180 147 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (180 bp):
ATCATCATGCTCAAAAGACTTACTGATGGCCCGAAGGACTTCATCATCATGCTCGAAAGACATAC
TGATGGAACTTACTGATGGGTTTGCTTCACTACTCTTCCGTGAAGGCTTAAAAACTACCCGAAGG
ATTTAATCATCATGCTCAAAAGACTTAATGATGGCCCGAAGGACTTATTC
Found at i:539661 original size:127 final size:127
Alignment explanation
Indices: 539462--539714 Score: 400
Period size: 127 Copynumber: 2.0 Consensus size: 127
539452 TGGCCCGAAG
* * **
539462 GACTTCATCATCATGCTCGAAATACATACTGATGGAACTTGCTGATGGGTTTGTTTCACTACTCT
1 GACTTCATCATCATGCTCGAAAGACATACTGATGGAACTTACTGATGGGTTTACTTCACTACTCT
* **
539527 TCTGTGAAGGCTTACAAATTACCCGCAGGATTTAATCATCATGCTCGAAAGACTTACTGATA
66 TCCGTGAAGGCTTACAAATTACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATA
* * *
539589 GACTTTATCATCATTCTCGAAAGACTTACTGAT-GACACTTACTGATGGGTTTACTTCACTACTC
1 GACTTCATCATCATGCTCGAAAGACATACTGATGGA-ACTTACTGATGGGTTTACTTCACTACTC
539653 TTCCGTGAAGGCTTACAAATTACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGAT
65 TTCCGTGAAGGCTTACAAATTACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGAT
539715 GGCCCGAAGG
Statistics
Matches: 115, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
126 2 0.02
127 113 0.98
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (127 bp):
GACTTCATCATCATGCTCGAAAGACATACTGATGGAACTTACTGATGGGTTTACTTCACTACTCT
TCCGTGAAGGCTTACAAATTACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATA
Found at i:539880 original size:42 final size:42
Alignment explanation
Indices: 539833--540331 Score: 170
Period size: 42 Copynumber: 11.2 Consensus size: 42
539823 ACAAACTACT
*
539833 CGAAGGATTTAATCATCATGCTCGAAAGACTTAATGATGGCC
1 CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCC
*
539875 CGAAGGACTTACTCATCATCATGCTCGAAAGACTTACTGATGGCAC
1 CGAAGGA-TT--TAATCATCATGCTCGAAAGACTTACTGATGGC-C
* * * * * ** *
539921 TTACTAATGGGTTTACTTCA-CTACT-CTTCCGTGAAGGCTTACAAACT-ACC
1 ---CGAA-GGATTTA-ATCATC-A-TGC-T-CG-AAAGACTTACTGA-TGGCC
* *
539971 CGAAGGATTTAATTATCATGCTCGAAAGACTTACTGATAGCC
1 CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCC
540013 CGAAGGACTTT-ATCATCATGCTCGAAAGACTTACTGATGGCAC
1 CGAAGGA-TTTAATCATCATGCTCGAAAGACTTACTGATGGC-C
* * ** * ** **
540056 TTACTGATGGGTTTGCTTCACTATTCTTATG-T-GAAAG-CTTTCAAATTACC
1 ---C-GAAGGATTT-AAT--C-A-TC--ATGCTCGAAAGACTTACTGATGGCC
* *
540106 CAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGAC
1 CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCC
* * * * *
540148 CAAAGGACTTCATCATCATGCTCAAAAGACTTACTGATGACAC
1 CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGC-C
* * ** * * ** **
540191 TTACTAATGGGTTTGCTTCA-CTACT-CTTCTGTGAAGGCTTACAAATTACC
1 ---CGAA-GGATTT-AATCATC-A-TGC-TC-G-AAAGACTTACTGATGGCC
** * *
540241 TAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATTGAC
1 CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCC
* * * *
540283 CAAAGGACTTCATCATCATGCTCGAAAGACTTATTGATGGCC
1 CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCC
540325 CGAAGGA
1 CGAAGGA
540332 CTTACTAAGC
Statistics
Matches: 335, Mismatches: 74, Indels: 96
0.66 0.15 0.19
Matches are distributed among these distances:
39 3 0.01
40 1 0.00
41 8 0.02
42 151 0.45
43 11 0.03
44 5 0.01
45 40 0.12
46 27 0.08
47 17 0.05
48 12 0.04
49 10 0.03
50 8 0.02
51 30 0.09
52 8 0.02
53 1 0.00
54 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (42 bp):
CGAAGGATTTAATCATCATGCTCGAAAGACTTACTGATGGCC
Found at i:539909 original size:25 final size:24
Alignment explanation
Indices: 539844--539912 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 24
539834 GAAGGATTTA
539844 ATCATCATGCTCGAAAGACTTA--
1 ATCATCATGCTCGAAAGACTTACT
* * * *
539866 ATGAT--GGCCCGAAGGACTTACT
1 ATCATCATGCTCGAAAGACTTACT
539888 CATCATCATGCTCGAAAGACTTACT
1 -ATCATCATGCTCGAAAGACTTACT
539913 GATGGCACTT
Statistics
Matches: 34, Mismatches: 8, Indels: 7
0.69 0.16 0.14
Matches are distributed among these distances:
20 12 0.35
22 4 0.12
23 4 0.12
25 14 0.41
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (24 bp):
ATCATCATGCTCGAAAGACTTACT
Found at i:540043 original size:22 final size:21
Alignment explanation
Indices: 539985--540044 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
539975 GGATTTAATT
539985 ATCATGCTCGAAAGAC-TTAC
1 ATCATGCTCGAAAGACTTTAC
* * *
540005 -TGATAGCCCGAAGGACTTTATC
1 ATCAT-GCTCGAAAGACTTTA-C
540027 ATCATGCTCGAAAGACTT
1 ATCATGCTCGAAAGACTT
540045 ACTGATGGCA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
19 3 0.10
20 9 0.30
21 3 0.10
22 12 0.40
23 3 0.10
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (21 bp):
ATCATGCTCGAAAGACTTTAC
Found at i:540059 original size:13 final size:13
Alignment explanation
Indices: 540041--540065 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
540031 TGCTCGAAAG
540041 ACTTACTGATGGC
1 ACTTACTGATGGC
540054 ACTTACTGATGG
1 ACTTACTGATGG
540066 GTTTGCTTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.32
Consensus pattern (13 bp):
ACTTACTGATGGC
Found at i:540112 original size:135 final size:135
Alignment explanation
Indices: 539807--540323 Score: 773
Period size: 135 Copynumber: 3.8 Consensus size: 135
539797 CAAATTTATG
* * * * *
539807 TCTTCCGTGAAGGCTTACAAACTACTCGAAGGATTTAATCATCATGCTCGAAAGACTTAATGATG
1 TCTTCTGTGAAGGCTTACAAATTACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
* * *
539872 GCCCGAAGGACTTACTCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTAATGGGTTTAC
66 GACCAAAGGAC-T--TCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTAATGGGTTTGC
539937 TTCACTAC
128 TTCACTAC
* * * * *
539945 TCTTCCGTGAAGGCTTACAAACTACCCGAAGGATTTAATTATCATGCTCGAAAGACTTACTGATA
1 TCTTCTGTGAAGGCTTACAAATTACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
* * * *
540010 GCCCGAAGGACTTTATCATCATGCTCGAAAGACTTACTGATGGCACTTACTGATGGGTTTGCTTC
66 GACCAAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTAATGGGTTTGCTTC
*
540075 ACTAT
131 ACTAC
* * *
540080 TCTTATGTGAAAGCTTTCAAATTACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
1 TCTTCTGTGAAGGCTTACAAATTACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
* *
540145 GACCAAAGGACTTCATCATCATGCTCAAAAGACTTACTGATGACACTTACTAATGGGTTTGCTTC
66 GACCAAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTAATGGGTTTGCTTC
540210 ACTAC
131 ACTAC
* *
540215 TCTTCTGTGAAGGCTTACAAATTACCTAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATT
1 TCTTCTGTGAAGGCTTACAAATTACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
*
540280 GACCAAAGGACTTCATCATCATGCTCGAAAGACTTATTGATGGC
66 GACCAAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGC
540324 CCGAAGGACT
Statistics
Matches: 348, Mismatches: 31, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
135 275 0.79
137 1 0.00
138 72 0.21
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (135 bp):
TCTTCTGTGAAGGCTTACAAATTACCCAAAGGATTTAATCATCATGCTCGAAAGACTTACTGATG
GACCAAAGGACTTCATCATCATGCTCGAAAGACTTACTGATGGCACTTACTAATGGGTTTGCTTC
ACTAC
Found at i:540313 original size:22 final size:21
Alignment explanation
Indices: 540252--540316 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 21
540242 AAAGGATTTA
540252 ATCATCATGCTCGAAAGACTT
1 ATCATCATGCTCGAAAGACTT
*
540273 A-C-TGATTGAC-C-AAAGGACTT
1 ATCATCA-TG-CTCGAAA-GACTT
540293 CATCATCATGCTCGAAAGACTT
1 -ATCATCATGCTCGAAAGACTT
540315 AT
1 AT
540317 TGATGGCCCG
Statistics
Matches: 34, Mismatches: 2, Indels: 16
0.65 0.04 0.31
Matches are distributed among these distances:
19 5 0.15
20 9 0.26
21 6 0.18
22 9 0.26
23 5 0.15
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (21 bp):
ATCATCATGCTCGAAAGACTT
Found at i:542039 original size:125 final size:125
Alignment explanation
Indices: 541817--542053 Score: 397
Period size: 125 Copynumber: 1.9 Consensus size: 125
541807 CCTTCACTAG
*
541817 TGCCCCAACATTATCTTATATTGGTACGGGCCTTCAAAATGCCCCGATACCTCAAATTATAAGGC
1 TGCCCCAACATTATCTTATATTGGTACGGGCCTTCAAAATACCCCGATACCTCAAATTATAAGGC
*
541882 TCATTCTCAATGCCTTTTTGGTCTGAATCTTGTCATCTCAACATGATGTTGGTTCAGTCA
66 TCATTCTCAATGCCTTCTTGGTCTGAATCTTGTCATCTCAACATGATGTTGGTTCAGTCA
* * *
541942 TGCCCCAACATTATCTTATATTGGTATGGGTCTTCAAAATACCCC-A-ACACTGCAAATTGTAAG
1 TGCCCCAACATTATCTTATATTGGTACGGGCCTTCAAAATACCCCGATAC-CT-CAAATTATAAG
542005 GCTCATTCTCAATGCCTTCTTGGTCTGAATCTTGTCATCTCAACATGAT
64 GCTCATTCTCAATGCCTTCTTGGTCTGAATCTTGTCATCTCAACATGAT
542054 ATGGGTTTCT
Statistics
Matches: 105, Mismatches: 5, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
123 2 0.02
124 3 0.03
125 100 0.95
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (125 bp):
TGCCCCAACATTATCTTATATTGGTACGGGCCTTCAAAATACCCCGATACCTCAAATTATAAGGC
TCATTCTCAATGCCTTCTTGGTCTGAATCTTGTCATCTCAACATGATGTTGGTTCAGTCA
Found at i:550935 original size:22 final size:20
Alignment explanation
Indices: 550906--550953 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 20
550896 TCTATTTTTT
*
550906 CAAAAAAAAGAAGAAAAAGGC
1 CAAAAAAAAAAAGAAAAA-GC
550927 CACAAAAAAAAAAGAAAAAGC
1 CA-AAAAAAAAAAGAAAAAGC
550948 CAAAAA
1 CAAAAA
550954 GGTCAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 4 0.16
21 6 0.24
22 15 0.60
ACGTcount: A:0.75, C:0.12, G:0.12, T:0.00
Consensus pattern (20 bp):
CAAAAAAAAAAAGAAAAAGC
Found at i:561363 original size:93 final size:90
Alignment explanation
Indices: 561197--561378 Score: 267
Period size: 93 Copynumber: 2.0 Consensus size: 90
561187 ATAGGTGCAA
*
561197 TTGTAATACCATAAATAAGGTAGTATTGTAGTATTACTTTGTGTACTGAAACACTATGTATGTAA
1 TTGTAATACCATAAATAAGGTAGTATTGTAGTATTACTTTGTCTACTGAAACACTATGTATGTAA
*
561262 TTGGCATACTTGGTGTATGATGGTG
66 TTGACATACTTGGTGTATGATGGTG
* * *
561287 TTGTAATACCATAAATAAGGTGGTATTGTAGTAGTAGTACTTTGTCTACTGAAGCACTATGTATT
1 TTGTAATACCATAAATAAGGTAGTATTGTAGTA-T--TACTTTGTCTACTGAAACACTATGTATG
*
561352 TAAGTT-ACATACTTGGTGTGTGATGGT
63 TAA-TTGACATACTTGGTGTATGATGGT
561379 TATCAATCGA
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
90 32 0.39
91 1 0.01
93 47 0.57
94 2 0.02
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (90 bp):
TTGTAATACCATAAATAAGGTAGTATTGTAGTATTACTTTGTCTACTGAAACACTATGTATGTAA
TTGACATACTTGGTGTATGATGGTG
Found at i:564216 original size:112 final size:111
Alignment explanation
Indices: 563993--564219 Score: 355
Period size: 111 Copynumber: 2.0 Consensus size: 111
563983 TTATAATTGA
* * * * *
563993 ATTTTAACATACTTTGTGTTTGAAAGTTATCGATCAATTTTGTTTAATGCATAACGGTGCATTTC
1 ATTTTAACATACTTCGTGTATGAAAGTTATCGATCAATTCTGCTTAAAGCATAACGGTGCATTTC
564058 AGCATAAAAGGTACCACCCATGGTATTCATAATGAGGTAAATTACC
66 AGCATAAAAGGTACCACCCATGGTATTCATAATGAGGTAAATTACC
* *
564104 ATTTTGACATACTTCGTGTATGAAAGTTATCGATCGATTCTGCTTAAAGCATAACGGTGCATTTT
1 ATTTTAACATACTTCGTGTATGAAAGTTATCGATCAATTCTGCTTAAAGCATAACGGTGCA-TTT
* * *
564169 CGGCATAAAAGGTTCCACCCATGGTATTCATAATGAGGTGAATTACC
65 CAGCATAAAAGGTACCACCCATGGTATTCATAATGAGGTAAATTACC
564216 ATTT
1 ATTT
564220 CGCAACTTTG
Statistics
Matches: 105, Mismatches: 10, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
111 54 0.51
112 51 0.49
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (111 bp):
ATTTTAACATACTTCGTGTATGAAAGTTATCGATCAATTCTGCTTAAAGCATAACGGTGCATTTC
AGCATAAAAGGTACCACCCATGGTATTCATAATGAGGTAAATTACC
Found at i:565650 original size:205 final size:204
Alignment explanation
Indices: 565298--565710 Score: 801
Period size: 205 Copynumber: 2.0 Consensus size: 204
565288 AGCGAAGAGG
565298 ATGTAGGTCCTATGAAGGTTAACTTATGGCTAAATAATTTTATGGTAATGCTTGAAAGTATTCAC
1 ATGTAGGTCCTATGAAGGTTAACTTATGGCTAAATAATTTTATGGTAATGCTTGAAAGTATTCAC
565363 TGCTCCGATTCAGAAAATCTGGGTGGTGTTGTATCATTACTTCGGGGATTAGCTCGAGTATGGTG
66 TGCTCCGATTCAGAAAATCTGGGTGGTGTTGTATCATTACTTCGGGGATTAGCTCGAGTATGGTG
565428 GTCAATTACTACGATGTATGCACCACCGGAGCAAGTGTGACCTGG-AGTTCTTTCAGGAGGAATT
131 GTCAATTACTACGATGTATGCACCACCGGAGCAA--GTGACCTGGCAGTTCTTTCAGGAGGAATT
565492 TAAGAACAAGT
194 TAAGAACAAGT
565503 ATGTAGGTCCTATGAAGGTTAACTTATGGCTAAATAATTTTATGGTAATGCTTGAAAGTATTCAC
1 ATGTAGGTCCTATGAAGGTTAACTTATGGCTAAATAATTTTATGGTAATGCTTGAAAGTATTCAC
565568 TGCTCCGATTCAGAAAATCTGGGTGGTGTTGTATCATTACTTCGGGGATTAGCTCGAGTATGGTG
66 TGCTCCGATTCAGAAAATCTGGGTGGTGTTGTATCATTACTTCGGGGATTAGCTCGAGTATGGTG
565633 GTCAATTACTACGATGTATGCACCACCGGAGCAAGTGACCTGGCAGTTCTTTCAGGAGGAATTTA
131 GTCAATTACTACGATGTATGCACCACCGGAGCAAGTGACCTGGCAGTTCTTTCAGGAGGAATTTA
565698 AGAACAAGT
196 AGAACAAGT
565707 ATGT
1 ATGT
565711 TGGTGAGCAG
Statistics
Matches: 207, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
203 9 0.04
204 34 0.16
205 164 0.79
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (204 bp):
ATGTAGGTCCTATGAAGGTTAACTTATGGCTAAATAATTTTATGGTAATGCTTGAAAGTATTCAC
TGCTCCGATTCAGAAAATCTGGGTGGTGTTGTATCATTACTTCGGGGATTAGCTCGAGTATGGTG
GTCAATTACTACGATGTATGCACCACCGGAGCAAGTGACCTGGCAGTTCTTTCAGGAGGAATTTA
AGAACAAGT
Found at i:571207 original size:112 final size:112
Alignment explanation
Indices: 571017--571243 Score: 359
Period size: 112 Copynumber: 2.0 Consensus size: 112
571007 GTTCATTTTA
* * *
571017 ACATACTTTGTGTATGAAAGTTATCGATCGATTTTGTTTAATGCATAACTGTGCATTTTCGACAT
1 ACATACTTCGTGTATGAAAGTTATCGATCGATTTTGTTTAATGCATAACGGTGCATTTACGACAT
* *
571082 AAAAGGTGCCACCCATGGTATTCATATTGAGGTGAAGT-ACCATTTCG
66 AAAAGGTGCCACCCATGGTATTCATAATAAGGTGAA-TAACCATTTCG
* *
571129 ACATACTTCGTGTATGAAAGTTATCGATCGATTTT-TCTTAATGCATAACGGTGTATTTACGGCA
1 ACATACTTCGTGTATGAAAGTTATCGATCGATTTTGT-TTAATGCATAACGGTGCATTTACGACA
571193 TAAAAGGTGCCACCCATGGTATTCATAATAAGGTGAATAACCATTTCG
65 TAAAAGGTGCCACCCATGGTATTCATAATAAGGTGAATAACCATTTCG
571241 ACA
1 ACA
571244 CTTCAGTGCA
Statistics
Matches: 106, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
111 2 0.02
112 104 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (112 bp):
ACATACTTCGTGTATGAAAGTTATCGATCGATTTTGTTTAATGCATAACGGTGCATTTACGACAT
AAAAGGTGCCACCCATGGTATTCATAATAAGGTGAATAACCATTTCG
Found at i:573474 original size:17 final size:18
Alignment explanation
Indices: 573452--573485 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
573442 CCGAAATTTA
573452 TGTTAAAATCT-ATAAAT
1 TGTTAAAATCTGATAAAT
*
573469 TGTTAAAGTCTGATAAA
1 TGTTAAAATCTGATAAA
573486 AATTCAGTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (18 bp):
TGTTAAAATCTGATAAAT
Found at i:583125 original size:40 final size:40
Alignment explanation
Indices: 583068--583182 Score: 176
Period size: 40 Copynumber: 2.9 Consensus size: 40
583058 GATTAATAAC
*
583068 TTCGATGCATATGGTGGGCACGACCTTATGTGTAATGTAT
1 TTCGATGCATATGGTGGGCACGACCTTATGTGTAATGCAT
* * *
583108 TTCGATGCATATAGTGGGCACGACCTTTTGCGTAATGCAT
1 TTCGATGCATATGGTGGGCACGACCTTATGTGTAATGCAT
* *
583148 TTTGGTGCATATGGTGGGCACGACCTTATGTGTAA
1 TTCGATGCATATGGTGGGCACGACCTTATGTGTAA
583183 GCACTAAGGT
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 66 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.34
Consensus pattern (40 bp):
TTCGATGCATATGGTGGGCACGACCTTATGTGTAATGCAT
Found at i:585790 original size:19 final size:18
Alignment explanation
Indices: 585769--585803 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
585759 AATATATTTA
585769 AAAACA-ATAAAATAAATT
1 AAAACATAT-AAATAAATT
585787 AAAACATATAAATAAAT
1 AAAACATATAAATAAAT
585804 GACTAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAACATATAAATAAATT
Found at i:586656 original size:29 final size:28
Alignment explanation
Indices: 586614--586672 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
586604 TCGTTGGTAG
* *
586614 TTTGTTTGTTTTCTTTTCTCTGTTTTTTT
1 TTTGTTTGTTTTC-TGTCTCTGTCTTTTT
586643 TTTGTTCTG-TTTCTGTCTCTGTCTTTTT
1 TTTGTT-TGTTTTCTGTCTCTGTCTTTTT
586671 TT
1 TT
586673 CTGTCTCGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 15 0.56
29 10 0.37
30 2 0.07
ACGTcount: A:0.00, C:0.14, G:0.12, T:0.75
Consensus pattern (28 bp):
TTTGTTTGTTTTCTGTCTCTGTCTTTTT
Found at i:587050 original size:3 final size:3
Alignment explanation
Indices: 587042--587158 Score: 189
Period size: 3 Copynumber: 38.7 Consensus size: 3
587032 TTATTTATTA
*
587042 AAT AAT AAT AAT AAT AAT AAT ATAT AAT AAT AAT AAT ACT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT
** *
587088 AAT AAT AAT AAT AAT AAT AAT AAT AAT GCT AAT AAT AAT AAT ACT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
587136 AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AA
587159 AATGGATAAA
Statistics
Matches: 105, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
3 102 0.97
4 3 0.03
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:587709 original size:113 final size:113
Alignment explanation
Indices: 587455--588054 Score: 1002
Period size: 113 Copynumber: 5.3 Consensus size: 113
587445 GATATCAAAC
*
587455 AAAGGTTGAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* ** * *
587520 CATGAACTTTCTTTGGCCATGTTGATCCATCAAATGATGAATTTAAACA
66 -ATGAACTTTCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAGCA
*
587569 AAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * * * *
587634 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAGGTA
66 ATGAACTTTCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAGCA
*
587682 AAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* * * *
587747 ATGAACTTTCTCTGGAAAAGATGATCCACCAAATGATGGATTCAAGCA
66 ATGAACTTTCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAGCA
587795 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
*
587860 ATGAACTTTCTCTGGAAATGTTGATCCATCAAGTGATGAATTCAAGCA
66 ATGAACTTTCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAGCA
587908 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
* *
587973 ATGAACTTTCTCTGGAAATGTTGATCCATTAAGTGATGAATTCAAGCA
66 ATGAACTTTCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAGCA
588021 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTC
1 AAAGGTTGAACAAGTTCTTCTCATTATGAACTTC
588055 CTCTGGTAAT
Statistics
Matches: 462, Mismatches: 24, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
113 399 0.86
114 63 0.14
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.37
Consensus pattern (113 bp):
AAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATT
ATGAACTTTCTCTGGAAATGTTGATCCATCAAATGATGAATTCAAGCA
Found at i:588723 original size:52 final size:52
Alignment explanation
Indices: 588645--589466 Score: 1382
Period size: 52 Copynumber: 15.7 Consensus size: 52
588635 CACTTCTTCG
* * *
588645 GATCAAATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCCATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
588697 GATCAGATAACTCAAAGAACACTTCCAGAAGAAGATGCTATATTCTGTCCAACCA
1 GATCAGATAACTCAAAGAACACTTCC---AGAAGATGCTATGTTCTGTCCAACCA
*
588752 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
588804 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAACCA
*
588856 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAACCA
*
588908 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAACCA
*
588960 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTTCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
589012 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTTCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
589064 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
589116 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTTCAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
589168 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
589220 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTATGAT-CAACCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTG-TCCAACCA
*
589272 GATCAGATAACTCAAAGAAACACTTCCAGAAGATGCTATGTTCTGTTCAACCA
1 GATCAGATAACTCAAAG-AACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
589325 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
589377 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAATCA
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
*
589429 GATTAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
1 GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTAT
589467 TGAGCACATA
Statistics
Matches: 741, Mismatches: 21, Indels: 16
0.95 0.03 0.02
Matches are distributed among these distances:
51 1 0.00
52 640 0.86
53 51 0.07
55 49 0.07
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.24
Consensus pattern (52 bp):
GATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGTTCTGTCCAACCA
Found at i:590413 original size:1 final size:1
Alignment explanation
Indices: 590407--590523 Score: 81
Period size: 1 Copynumber: 117.0 Consensus size: 1
590397 CCTTGACCCC
* * * * ** * * * * * * *
590407 TTTTTTTTCTTTTTCTTTTTCTTCTTTTCCTTTCTTTTTTCTTTTCTTTTCTTTCTCTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
590472 CTTTCTTTTTTTTTTCTTTTTTTTTTTTTTTTTTTTTTTTCTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
590524 CTTCAAGCAT
Statistics
Matches: 84, Mismatches: 32, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 84 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (1 bp):
T
Found at i:590420 original size:9 final size:9
Alignment explanation
Indices: 590407--590520 Score: 103
Period size: 9 Copynumber: 12.7 Consensus size: 9
590397 CCTTGACCCC
590407 TTTTTT-TT
1 TTTTTTCTT
*
590415 CTTTTTCTT
1 TTTTTTCTT
*
590424 TTTCTTCTT
1 TTTTTTCTT
*
590433 TTCCTTTC--
1 TT-TTTTCTT
590441 TTTTTTCTT
1 TTTTTTCTT
590450 TTCTTTTCTT
1 TT-TTTTCTT
* *
590460 TCTCTTCTT
1 TTTTTTCTT
590469 TTTCTTTCTTTT
1 TTT-TTTC--TT
590481 TTTTTTCTT
1 TTTTTTCTT
590490 TTTTTT-TT
1 TTTTTTCTT
590498 TTTTTT-TT
1 TTTTTTCTT
590506 TTTTTTCTT
1 TTTTTTCTT
590515 TTTTTT
1 TTTTTT
590521 TTTCTTCAAG
Statistics
Matches: 87, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
7 4 0.05
8 23 0.26
9 37 0.43
10 14 0.16
11 4 0.05
12 5 0.06
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTCTT
Found at i:590421 original size:6 final size:6
Alignment explanation
Indices: 590410--590526 Score: 92
Period size: 6 Copynumber: 20.3 Consensus size: 6
590400 TGACCCCTTT
*
590410 TTTTTC TTTTTC TTTTTC TTCTTT- TCCTTTC TTTTT- TCTTTTC -TTTTC
1 TTTTTC TTTTTC TTTTTC TT-TTTC T-TTTTC TTTTTC T-TTTTC TTTTTC
*
590458 TTTCTC TTCTTT- TTCTTTC TTTTT- TTTTTC -TTTT- TTTTT- TTTTT-
1 TTTTTC TT-TTTC TT-TTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
*
590502 TTTTT- TTTTTC TTTTTT TTTTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TT
590527 CAAGCATAAT
Statistics
Matches: 94, Mismatches: 6, Indels: 22
0.77 0.05 0.18
Matches are distributed among these distances:
5 34 0.36
6 52 0.55
7 8 0.09
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:590440 original size:25 final size:23
Alignment explanation
Indices: 590407--590522 Score: 121
Period size: 25 Copynumber: 4.9 Consensus size: 23
590397 CCTTGACCCC
590407 TTTTT-TTTCTTTTTCTTTTTCTT
1 TTTTTCTTTCTTTTT-TTTTTCTT
*
590430 CTTTTCCTTTCTTTTTTCTTTTCTT
1 -TTTTTCTTTCTTTTTT-TTTTCTT
*
590455 TTCTTTCTCTTCTTTTTCTTTCTTTTT
1 TT-TTTCT-TTCTTTTT-TTT-TTCTT
590482 TTTTTCTTT-TTTTTTTTTT-TT
1 TTTTTCTTTCTTTTTTTTTTCTT
*
590503 TTTTTTTTTCTTTTTTTTTT
1 TTTTTCTTTCTTTTTTTTTT
590523 TCTTCAAGCA
Statistics
Matches: 81, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
21 10 0.12
22 12 0.15
23 3 0.04
24 12 0.15
25 22 0.27
26 15 0.19
27 7 0.09
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (23 bp):
TTTTTCTTTCTTTTTTTTTTCTT
Found at i:590466 original size:36 final size:33
Alignment explanation
Indices: 590407--590525 Score: 122
Period size: 36 Copynumber: 3.5 Consensus size: 33
590397 CCTTGACCCC
*
590407 TTTTTTTTCTTTTTCTTTTTCTTCTTTTCCTTTCTT
1 TTTTTTTTC-TTTT-TTTCTCTTCTTTT-CTTTCTT
590443 TTTTCTTTTCTTTTCTTTCTCTTCTTTTTCTTTCTT
1 TTTT-TTTTCTTTT-TTTCTCTTC-TTTTCTTTCTT
590479 TTTTTTTTCTTTTTTT-T-TT-TTTT-TTT-TT
1 TTTTTTTTCTTTTTTTCTCTTCTTTTCTTTCTT
*
590507 TTTTTCTTTTTTTTTTTCT
1 TTTTT-TTTCTTTTTTTCT
590526 TCAAGCATAA
Statistics
Matches: 77, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
28 7 0.09
29 13 0.17
30 5 0.06
32 2 0.03
33 1 0.01
34 3 0.04
35 9 0.12
36 28 0.36
37 9 0.12
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (33 bp):
TTTTTTTTCTTTTTTTCTCTTCTTTTCTTTCTT
Found at i:590521 original size:15 final size:15
Alignment explanation
Indices: 590406--590523 Score: 114
Period size: 15 Copynumber: 7.5 Consensus size: 15
590396 ACCTTGACCC
*
590406 CTTTTTTTTCTTTTT
1 CTTTTTTTTTTTTTT
590421 CTTTTTCTTCTTTTCCTTT
1 CTTTTT-TT-TTTT--TTT
590440 CTTTTTTCTTTTCTTTT
1 CTTTTTT-TTTT-TTTT
* * *
590457 CTTTCTCTTCTTTTT
1 CTTTTTTTTTTTTTT
*
590472 CTTTCTTTTTTTTTT
1 CTTTTTTTTTTTTTT
590487 CTTTTTTTTTTTTTT
1 CTTTTTTTTTTTTTT
590502 -TTTTTTTTTTCTTTT
1 CTTTTTTTTTT-TTTT
590517 -TTTTTTT
1 CTTTTTTT
590524 CTTCAAGCAT
Statistics
Matches: 89, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
14 10 0.11
15 48 0.54
16 5 0.06
17 11 0.12
18 4 0.04
19 11 0.12
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (15 bp):
CTTTTTTTTTTTTTT
Found at i:601098 original size:17 final size:17
Alignment explanation
Indices: 601059--601100 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
601049 ATACTTGCAA
601059 ATAAAACATATAAATATT
1 ATAAAA-ATATAAATATT
601077 ATAAAAATAATAAATA-T
1 ATAAAAAT-ATAAATATT
601094 ATAAAAA
1 ATAAAAA
601101 AATTGAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
ATAAAAATATAAATATT
Found at i:601879 original size:19 final size:19
Alignment explanation
Indices: 601858--601893 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
601848 AATATATTTA
601858 AAAACA-ATAAAATAAATT
1 AAAACATATAAAATAAATT
601876 AAAACATATAAAATAAAT
1 AAAACATATAAAATAAAT
601894 GACTAAATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAACATATAAAATAAATT
Found at i:602746 original size:31 final size:30
Alignment explanation
Indices: 602702--602761 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
602692 TCGTTGGTAG
* *
602702 TTTGTTTGTTTTCTTTTCTCTGTTTTTTTTT
1 TTTGTTTGTTTTC-TGTCTCTGTCTTTTTTT
602733 TTTGTTCTG-TTTCTGTCTCTGTCTTTTTT
1 TTTGTT-TGTTTTCTGTCTCTGTCTTTTTT
602762 CTGTCTCGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 14 0.54
31 10 0.38
32 2 0.08
ACGTcount: A:0.00, C:0.13, G:0.12, T:0.75
Consensus pattern (30 bp):
TTTGTTTGTTTTCTGTCTCTGTCTTTTTTT
Found at i:603139 original size:3 final size:3
Alignment explanation
Indices: 603131--603266 Score: 209
Period size: 3 Copynumber: 44.7 Consensus size: 3
603121 TTATTTATTA
*
603131 AAT AAT AAT AAT AAT AAT AAT AAT ATAT AAT ATT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT
* **
603177 AAAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GCT AAT
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
603223 AAT AAT AAT AAT ACT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
603267 AATGGATAAA
Statistics
Matches: 121, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
3 115 0.95
4 6 0.05
ACGTcount: A:0.63, C:0.02, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:605013 original size:9 final size:9
Alignment explanation
Indices: 605001--605052 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
604991 TAATATTTTG
605001 TATTTAATT
1 TATTTAATT
*
605010 TATTTAA-G
1 TATTTAATT
605018 TATTTAATT
1 TATTTAATT
605027 TATTTAA--
1 TATTTAATT
* *
605034 TATTTTACT
1 TATTTAATT
605043 TATTTAATT
1 TATTTAATT
605052 T
1 T
605053 TTTTGCAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
7 6 0.17
8 7 0.20
9 22 0.63
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (9 bp):
TATTTAATT
Found at i:605022 original size:17 final size:17
Alignment explanation
Indices: 605000--605049 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
604990 TTAATATTTT
605000 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
605017 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
* *
605034 -TATTTTACTTATTTAA
1 GTATTTAATTTATTTAA
605050 TTTTTTTGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:605045 original size:16 final size:16
Alignment explanation
Indices: 605009--605054 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
604999 TGTATTTAAT
* *
605009 TTATTTAAGTATTTAAT
1 TTATTTAA-TATTTTAC
605026 TTATTTAATATTTTAC
1 TTATTTAATATTTTAC
605042 TTATTTAAT-TTTT
1 TTATTTAATATTTT
605055 TTGCAGATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 4 0.15
16 15 0.56
17 8 0.30
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (16 bp):
TTATTTAATATTTTAC
Found at i:606657 original size:27 final size:27
Alignment explanation
Indices: 606601--606657 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
606591 ATATGATGTT
* *
606601 GCCACCGCCTTTCCATTACCAGATATC
1 GCCACCGCCATTCCATTACCAGATACC
* * *
606628 GCCACCGCCATTCCCTTACCCGATGCC
1 GCCACCGCCATTCCATTACCAGATACC
606655 GCC
1 GCC
606658 GCCACCACCA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.18, C:0.47, G:0.14, T:0.21
Consensus pattern (27 bp):
GCCACCGCCATTCCATTACCAGATACC
Found at i:606987 original size:9 final size:9
Alignment explanation
Indices: 606973--607005 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
606963 GGATGACGAC
606973 GACGACAAA
1 GACGACAAA
606982 GACGACAAA
1 GACGACAAA
*
606991 GACGACAAC
1 GACGACAAA
607000 GACGAC
1 GACGAC
607006 GATGATGATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.48, C:0.27, G:0.24, T:0.00
Consensus pattern (9 bp):
GACGACAAA
Found at i:607287 original size:35 final size:33
Alignment explanation
Indices: 607247--607331 Score: 82
Period size: 35 Copynumber: 2.5 Consensus size: 33
607237 GCATTTCAGT
*
607247 TAATTTTGTT-TATTATCATTTAATATCACTTATTG
1 TAATTTTGTTATATTACCATTT-A-AT-ACTTATTG
*
607282 TAATTTGGTTATCATTTACCATTTAATACTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATACTTATTG
* *
607317 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
607332 TAAAATTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 26 0.62
36 3 0.07
37 2 0.05
38 8 0.19
ACGTcount: A:0.27, C:0.08, G:0.09, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATACTTATTG
Found at i:616076 original size:22 final size:22
Alignment explanation
Indices: 616051--616095 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
616041 CCGAAATAAC
* *
616051 ATTCGCAATAAACATCATATAT
1 ATTCACAATAAACACCATATAT
**
616073 ATTCATGATAAACACCATATAT
1 ATTCACAATAAACACCATATAT
616095 A
1 A
616096 ATAACTAGTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (22 bp):
ATTCACAATAAACACCATATAT
Found at i:617355 original size:20 final size:20
Alignment explanation
Indices: 617318--617368 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
617308 CAAGATGGCC
*
617318 CAATTTCA-CACTCTAACAT
1 CAATTTCAGCACTCCAACAT
617337 CAATTTCAGCACTCCAACAT
1 CAATTTCAGCACTCCAACAT
*
617357 TAATTTCCAGCA
1 CAATTT-CAGCA
617369 TAGTCCATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 8 0.29
20 15 0.54
21 5 0.18
ACGTcount: A:0.35, C:0.31, G:0.04, T:0.29
Consensus pattern (20 bp):
CAATTTCAGCACTCCAACAT
Found at i:624898 original size:29 final size:29
Alignment explanation
Indices: 624865--624928 Score: 74
Period size: 30 Copynumber: 2.2 Consensus size: 29
624855 GTTCAAAACA
* * * * *
624865 CCTAACTTTTGAAAATTATAGTTTTGGTC
1 CCTAACATTTAAAAATTACACTTTTGATC
624894 CCTAAACATTTAAAAATTACACTTTTGATC
1 CCT-AACATTTAAAAATTACACTTTTGATC
624924 CCTAA
1 CCTAA
624929 AGTTTTCCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
29 5 0.17
30 24 0.83
ACGTcount: A:0.34, C:0.19, G:0.08, T:0.39
Consensus pattern (29 bp):
CCTAACATTTAAAAATTACACTTTTGATC
Found at i:625698 original size:16 final size:15
Alignment explanation
Indices: 625677--625706 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
625667 GACGGTTCGG
625677 CTTCTTTATTTTTTTT
1 CTTCTTT-TTTTTTTT
625693 CTTCTTTTTTTTTT
1 CTTCTTTTTTTTTT
625707 GCTCTGGTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.83
Consensus pattern (15 bp):
CTTCTTTTTTTTTTT
Found at i:629393 original size:68 final size:68
Alignment explanation
Indices: 629272--629426 Score: 229
Period size: 68 Copynumber: 2.2 Consensus size: 68
629262 AGCAGACTGT
*
629272 ATATCTGGTTTAGCACTGTAGTGTATACACAAGACACTTAATACAAGTGGTGGGCACGACCTTAT
1 ATATCCGGTTTAGCAC--TAGTGTATACACAAGACACTTAATACAAGTGGTGGGCACGACCTTAT
629337 GTGTC
64 GTGTC
* * * * *
629342 ATGTCCGGTTTAGCACTAGTGTATACCCAAGACACTTAGTGCAAGTTGTGGGCACGACCTTATGT
1 ATATCCGGTTTAGCACTAGTGTATACACAAGACACTTAATACAAGTGGTGGGCACGACCTTATGT
629407 GTC
66 GTC
*
629410 ATATTCGGTTTAGCACT
1 ATATCCGGTTTAGCACT
629427 TCGATGCATA
Statistics
Matches: 77, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
68 63 0.82
70 14 0.18
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (68 bp):
ATATCCGGTTTAGCACTAGTGTATACACAAGACACTTAATACAAGTGGTGGGCACGACCTTATGT
GTC
Found at i:632378 original size:24 final size:25
Alignment explanation
Indices: 632332--632383 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
632322 CACTGTTTAT
* *
632332 TATATATGATGTCTATCATGAAT-A
1 TATATATAATGTCTATCACGAATGA
* *
632356 TATATATAATGTTTATTACGAATGA
1 TATATATAATGTCTATCACGAATGA
632381 TAT
1 TAT
632384 TTCGGGTATG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.38, C:0.06, G:0.12, T:0.44
Consensus pattern (25 bp):
TATATATAATGTCTATCACGAATGA
Found at i:634542 original size:16 final size:16
Alignment explanation
Indices: 634523--634556 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
634513 ACATGCAAGT
634523 AAAAGAAAATAAAAAA
1 AAAAGAAAATAAAAAA
* *
634539 AAAAGGAAGTAAAAAA
1 AAAAGAAAATAAAAAA
634555 AA
1 AA
634557 TGTCTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (16 bp):
AAAAGAAAATAAAAAA
Found at i:635208 original size:17 final size:17
Alignment explanation
Indices: 635173--635219 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 17
635163 ATAATAATGT
*
635173 TAAT-AATACTAGT-AA
1 TAATAAATACTATTAAA
635188 TAATAAATACTATTAAA
1 TAATAAATACTATTAAA
*
635205 TAATAAATAATATTA
1 TAATAAATACTATTA
635220 TTTGTCGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 4 0.14
16 8 0.29
17 16 0.57
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.36
Consensus pattern (17 bp):
TAATAAATACTATTAAA
Found at i:636195 original size:2 final size:2
Alignment explanation
Indices: 636184--636219 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
636174 AACTATACAT
636184 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
636220 TATGTAATAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:638334 original size:18 final size:18
Alignment explanation
Indices: 638307--638354 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
638297 AGAATTTGTT
*
638307 TCGAATGACCACTATGTC
1 TCGAAGGACCACTATGTC
638325 TCGAAGGACCACTATGTC
1 TCGAAGGACCACTATGTC
*
638343 CCGAAGGACCAC
1 TCGAAGGACCAC
638355 ATAGAACACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (18 bp):
TCGAAGGACCACTATGTC
Found at i:639470 original size:59 final size:59
Alignment explanation
Indices: 639378--639506 Score: 186
Period size: 59 Copynumber: 2.2 Consensus size: 59
639368 CGTAGTGCTA
* * **
639378 TCCCGAGTATGACACATAAGGTCGTGCCCACCATCTGTACTAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
* ** *
639437 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
639496 TCCCGAATATG
1 TCCCGAATATG
639507 CAGCCTGCTG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 62 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
Found at i:643061 original size:18 final size:17
Alignment explanation
Indices: 643040--643109 Score: 70
Period size: 19 Copynumber: 3.9 Consensus size: 17
643030 CAAGTGAAAT
643040 ATTTTTTTTTCATTTCTC
1 ATTTTTTTTTC-TTTCTC
*
643058 ATTTTTTTTTCTCTTTTTC
1 A-TTTTTTTT-TCTTTCTC
*
643077 -TTTTCTTTTCTTTCTC
1 ATTTTTTTTTCTTTCTC
*
643093 ATTTTCTTTTTTTTTCT
1 ATTTT-TTTTTCTTTCT
643110 TCTTCGTTTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
16 7 0.16
17 11 0.26
18 10 0.23
19 13 0.30
20 2 0.05
ACGTcount: A:0.06, C:0.17, G:0.00, T:0.77
Consensus pattern (17 bp):
ATTTTTTTTTCTTTCTC
Found at i:643068 original size:13 final size:12
Alignment explanation
Indices: 643052--643157 Score: 58
Period size: 12 Copynumber: 8.4 Consensus size: 12
643042 TTTTTTTTCA
643052 TTTCTCATTTTTT
1 TTTCTC-TTTTTT
643065 TTTCTCTTTTTCT
1 TTTCTCTTTTT-T
643078 TTTCT-TTTCTTT
1 TTTCTCTTT-TTT
*
643090 CTCATTTTCTTTTTT
1 -T--TTCTCTTTTTT
**
643105 TTTCT-TCTTCGT
1 TTTCTCT-TTTTT
*
643117 TTTCAT-TTTCTT
1 TTTC-TCTTTTTT
*
643129 TTTCT-ATTTTT
1 TTTCTCTTTTTT
643140 TTTCTTCTTTTTT
1 TTTC-TCTTTTTT
643153 TTTCT
1 TTTCT
643158 TATAATATAT
Statistics
Matches: 75, Mismatches: 8, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
11 10 0.13
12 29 0.39
13 26 0.35
14 1 0.01
15 6 0.08
16 3 0.04
ACGTcount: A:0.04, C:0.18, G:0.01, T:0.77
Consensus pattern (12 bp):
TTTCTCTTTTTT
Found at i:643085 original size:22 final size:21
Alignment explanation
Indices: 643059--643157 Score: 85
Period size: 22 Copynumber: 4.5 Consensus size: 21
643049 TCATTTCTCA
643059 TTTTTTTTTCTCTTTTTCTTT
1 TTTTTTTTTCTCTTTTTCTTT
* *
643080 TCTTTTCTTTCTCATTTTCTTT
1 T-TTTTTTTTCTCTTTTTCTTT
* *
643102 TTTTTTCTTCTTCGTTTTCATTT
1 TTTTTTTTTC-TCTTTTTC-TTT
*
643125 TCTTTTTCTATT-T-TTTTTCTTC
1 T-TTTTT-T-TTCTCTTTTTCTTT
643147 TTTTTTTTTCT
1 TTTTTTTTTCT
643158 TATAATATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 15
0.73 0.09 0.17
Matches are distributed among these distances:
19 2 0.03
20 2 0.03
21 13 0.21
22 29 0.46
23 9 0.14
24 6 0.10
26 2 0.03
ACGTcount: A:0.03, C:0.17, G:0.01, T:0.79
Consensus pattern (21 bp):
TTTTTTTTTCTCTTTTTCTTT
Found at i:643096 original size:35 final size:35
Alignment explanation
Indices: 643041--643158 Score: 114
Period size: 38 Copynumber: 3.2 Consensus size: 35
643031 AAGTGAAATA
*
643041 TTTTTTTTTCATTTCTCATTTTTTTTTCTCTTTTTC
1 TTTTCTTTTC-TTTCTCATTTTTTTTTCTCTTTTTC
* *
643077 TTTTCTTTTCTTTCTCATTTTCTTTTTTTTTCTTCTTC
1 TTTTCTTTTCTTTCTCA--TT-TTTTTTTCTCTTTTTC
*
643115 GTTTTCATTTTCTTTTTC-TATTTTTTTTCTTCTTTTT-
1 -TTTTC-TTTTCTTTCTCAT-TTTTTTTTC-TCTTTTTC
643152 TTTTCTT
1 TTTTCTT
643159 ATAATATATA
Statistics
Matches: 69, Mismatches: 6, Indels: 15
0.77 0.07 0.17
Matches are distributed among these distances:
35 9 0.13
36 14 0.20
37 10 0.14
38 21 0.30
39 5 0.07
40 10 0.14
ACGTcount: A:0.04, C:0.17, G:0.01, T:0.78
Consensus pattern (35 bp):
TTTTCTTTTCTTTCTCATTTTTTTTTCTCTTTTTC
Found at i:643100 original size:28 final size:27
Alignment explanation
Indices: 643069--643145 Score: 102
Period size: 28 Copynumber: 2.7 Consensus size: 27
643059 TTTTTTTTTC
643069 TCTTTTTCTTTTCTTTTCTTTCTCATTT
1 TCTTTTTCTTTTCTTTTCTTT-TCATTT
643097 TCTTTTT-TTTTCTTCTTCGTTTTCATTT
1 TCTTTTTCTTTTCTT-TTC-TTTTCATTT
*
643125 TCTTTTTCTATTTTTTTTCTT
1 TCTTTTTCT-TTTCTTTTCTT
643146 CTTTTTTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
27 7 0.16
28 25 0.57
29 7 0.16
30 5 0.11
ACGTcount: A:0.04, C:0.18, G:0.01, T:0.77
Consensus pattern (27 bp):
TCTTTTTCTTTTCTTTTCTTTTCATTT
Found at i:652622 original size:24 final size:24
Alignment explanation
Indices: 652590--652638 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
652580 ATTTGTCCAC
652590 AAACAAGAGGCTACAAATCTACAA
1 AAACAAGAGGCTACAAATCTACAA
*
652614 AAACTAGAGGCTACAAATCTACAA
1 AAACAAGAGGCTACAAATCTACAA
652638 A
1 A
652639 CTTATAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.53, C:0.20, G:0.12, T:0.14
Consensus pattern (24 bp):
AAACAAGAGGCTACAAATCTACAA
Found at i:655014 original size:2 final size:2
Alignment explanation
Indices: 655007--655054 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
654997 TGAATAAATC
655007 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
655049 AT AT AT
1 AT AT AT
655055 TCAAATTTGA
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:656184 original size:23 final size:24
Alignment explanation
Indices: 656158--656203 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
656148 TCAAACATAA
*
656158 TAACATATTAGGTAGCGC-TTATG
1 TAACATAATAGGTAGCGCATTATG
*
656181 TAACGTAATAGGTAGCGCATTAT
1 TAACATAATAGGTAGCGCATTAT
656204 TAATGTTGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.33, C:0.13, G:0.22, T:0.33
Consensus pattern (24 bp):
TAACATAATAGGTAGCGCATTATG
Found at i:656253 original size:118 final size:115
Alignment explanation
Indices: 656101--656479 Score: 365
Period size: 118 Copynumber: 3.3 Consensus size: 115
656091 ATGGTAGAGT
* *
656101 CTTAGAAATTCGACGATAACATAACT-GGTTAATTACTGGAAACATTATCAAACATAATAACATA
1 CTTAGAAATTCGACGATAACA-AAATAGGTTAATTACTGGAAACATTATCAAGCATAATAACATA
656165 TTAGGTAGCGCTTATGTAACGTAATAGGTAGCGCATTATTAATGTTGATGGGGC
65 TTAGGTA-CGCTTATGTAACGTAATAGGTAGC-CATTATTAA-GTTGATGGGGC
* * *** * *
656219 CTTAGAAATCTC-ATGATAACAAAATAGGTTAATTACT-TAATTTGTTAT-AAGTATTATCAACA
1 CTTAGAAAT-TCGACGATAACAAAATAGGTTAATTACTGGAA-ACATTATCAAGCATAAT-AACA
** * * *
656281 TATTAGGTA-GC--ACCTAA---AAT--GTTGCCA-AAGTTTAAGTTGATGGAGC
63 TATTAGGTACGCTTATGTAACGTAATAGGTAGCCATTA--TTAAGTTGATGGGGC
* **
656327 CTTAGAAATTCGACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATAT
1 CTTAGAAATTCGACGATAACAAAATAGGTTAATTACTGGAAACATTATCAAGCATAATAACATAT
* *
656392 TAGGTAACGTTTTTGTAACGTAATAGGTAGCACATTATTAAAGTTGATGGGGC
66 TAGGT-ACGCTTATGTAACGTAATAGGTAGC-CATTATT-AAGTTGATGGGGC
656445 CTTAGAAA-TCTGACG-TAACAAAATAGGTTAATTAC
1 CTTAGAAATTC-GACGATAACAAAATAGGTTAATTAC
656480 ATAATTTGTT
Statistics
Matches: 205, Mismatches: 34, Indels: 45
0.72 0.12 0.16
Matches are distributed among these distances:
107 3 0.01
108 58 0.28
109 18 0.09
110 1 0.00
111 3 0.01
112 3 0.01
114 4 0.02
115 3 0.01
116 2 0.01
117 36 0.18
118 71 0.35
119 3 0.01
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (115 bp):
CTTAGAAATTCGACGATAACAAAATAGGTTAATTACTGGAAACATTATCAAGCATAATAACATAT
TAGGTACGCTTATGTAACGTAATAGGTAGCCATTATTAAGTTGATGGGGC
Found at i:656619 original size:226 final size:226
Alignment explanation
Indices: 655886--656588 Score: 1054
Period size: 226 Copynumber: 3.1 Consensus size: 226
655876 AAAAAATATT
**
655886 GACGATAACATAACCAGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
1 GACGATAACATAACTGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* * * * *
655951 TATGTAACATAATAGGTAGCATC-TTTTTAAAGCTGATGGGGCCTTAGAAATCCGACGATAAGAA
66 TATGTAACGTAATAGGTAGCA-CATTATTAAAGTTGATGGGGCCTTAGAAATCTGACGATAACAA
* * *
656015 AATATGTTAATTATTTAATTT-TTCATTAGTATTATCAACATATTAGGTAACGCCTAAAATGTTA
130 AATAGGTTAATTACTTAATTTGTT-ATAAGTATTATCAACATATTAGGTAACGCCTAAAATGTTA
* * * * *
656079 TCAAAGTTTAAGATGGTAGAGTCTTAGAAATTC
194 ACAAAGTTTAAGTTGATGGAGCCTTAGAAATTC
*
656112 GACGATAACATAACTGGTTAATTACTGGAAACATTATCAAACATAATAACATATTAGGTAGCGCT
1 GACGATAACATAACTGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
* * * *
656177 TATGTAACGTAATAGGTAGCGCATTATTAATGTTGATGGGGCCTTAGAAATCTCATGATAACAAA
66 TATGTAACGTAATAGGTAGCACATTATTAAAGTTGATGGGGCCTTAGAAATCTGACGATAACAAA
* * **
656242 ATAGGTTAATTACTTAATTTGTTATAAGTATTATCAACATATTAGGTAGCACCTAAAATGTTGCC
131 ATAGGTTAATTACTTAATTTGTTATAAGTATTATCAACATATTAGGTAACGCCTAAAATGTTAAC
656307 AAAGTTTAAGTTGATGGAGCCTTAGAAATTC
196 AAAGTTTAAGTTGATGGAGCCTTAGAAATTC
* * *
656338 GACGATAACATAACCGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAACGTT
1 GACGATAACATAACTGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
*
656403 TTTGTAACGTAATAGGTAGCACATTATTAAAGTTGATGGGGCCTTAGAAATCTGACG-TAACAAA
66 TATGTAACGTAATAGGTAGCACATTATTAAAGTTGATGGGGCCTTAGAAATCTGACGATAACAAA
* * *
656467 ATAGGTTAATTACATAATTTGTTATCAGTATTATCAACATATTAGATAACGCCTAAAATGTTAAC
131 ATAGGTTAATTACTTAATTTGTTATAAGTATTATCAACATATTAGGTAACGCCTAAAATGTTAAC
*
656532 AAAGTTTAAGTTTATGGAGCCTTAGAAATAT-
196 AAAGTTTAAGTTGATGGAGCCTTAGAAAT-TC
*
656563 GACGATAACATAATTGGTTAATTACT
1 GACGATAACATAACTGGTTAATTACT
656589 TGATTTGTTA
Statistics
Matches: 432, Mismatches: 42, Indels: 7
0.90 0.09 0.01
Matches are distributed among these distances:
225 118 0.27
226 312 0.72
227 2 0.00
ACGTcount: A:0.38, C:0.13, G:0.17, T:0.32
Consensus pattern (226 bp):
GACGATAACATAACTGGTTAATTACTGGAAACATTATCAAGCATAATAACATATTAGGTAGCGCT
TATGTAACGTAATAGGTAGCACATTATTAAAGTTGATGGGGCCTTAGAAATCTGACGATAACAAA
ATAGGTTAATTACTTAATTTGTTATAAGTATTATCAACATATTAGGTAACGCCTAAAATGTTAAC
AAAGTTTAAGTTGATGGAGCCTTAGAAATTC
Found at i:659436 original size:21 final size:21
Alignment explanation
Indices: 659411--659459 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
659401 TAGTTTGTCT
659411 TTTCGCAAGGCTTGGACACTC
1 TTTCGCAAGGCTTGGACACTC
659432 TTTCGCAAGGCTTGGACACTC
1 TTTCGCAAGGCTTGGACACTC
659453 TTTCGCA
1 TTTCGCA
659460 TATACATCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.18, C:0.29, G:0.22, T:0.31
Consensus pattern (21 bp):
TTTCGCAAGGCTTGGACACTC
Found at i:662315 original size:66 final size:63
Alignment explanation
Indices: 662207--662364 Score: 187
Period size: 66 Copynumber: 2.4 Consensus size: 63
662197 GAATAAATTG
*
662207 AACATCGAATGCATTTATGCATCGATGCACATACTATACATCGATGCACTCAGAG-T-TTTATGA
1 AACATCGAATGCATTTATGCATCGATGCACATACCATACATCGATGCACTCAG-GCTATTT-TG-
662270 AA
63 -A
* * *
662272 AACATCGAATGCATTTGATGCATCGATGCACCA-GCCATGCATCGATGCACTCTGGCTATTTTGA
1 AACATCGAATGCATTT-ATGCATCGATGCA-CATACCATACATCGATGCACTCAGGCTATTTTGA
*
662336 AACATCGAATGCATTTCATACATCGATGC
1 AACATCGAATGCATTT-ATGCATCGATGC
662365 GCTATTAGTG
Statistics
Matches: 83, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
64 28 0.34
65 17 0.20
66 33 0.40
67 5 0.06
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTATGCATCGATGCACATACCATACATCGATGCACTCAGGCTATTTTGA
Found at i:662382 original size:64 final size:63
Alignment explanation
Indices: 662207--662386 Score: 195
Period size: 64 Copynumber: 2.8 Consensus size: 63
662197 GAATAAATTG
*
662207 AACATCGAATGCATTTATGCATCGATGCACATACTATACATCGATGCACTCAGAGTTTTATGAAA
1 AACATCGAATGCATTTATGCATCGATGCAC-TACTATGCATCGATGCACTCAGAGTTTTATG-AA
* * *
662272 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCTG-GCTATTT-TG
1 AACATCGAATGCATTT-ATGCATCGATGCACTA-CTATGCATCGATGCACTCAGAG-T-TTTATG
662335 -A
62 AA
* * * *
662336 AACATCGAATGCATTTCATACATCGATGCGCTATTAGTGCAACGATGCACT
1 AACATCGAATGCATTT-ATGCATCGATGCACTACTA-TGCATCGATGCACT
662387 AAGGGTCCAA
Statistics
Matches: 99, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
63 1 0.01
64 43 0.43
65 18 0.18
66 34 0.34
67 3 0.03
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTATGCATCGATGCACTACTATGCATCGATGCACTCAGAGTTTTATGAA
Found at i:670227 original size:29 final size:27
Alignment explanation
Indices: 670195--670252 Score: 64
Period size: 28 Copynumber: 2.0 Consensus size: 27
670185 GGATGTTTAA
670195 ATTTGATGGTTGTTA-GATGTTTTGAACTT
1 ATTTG-TGGTT-TTAGGAT-TTTTGAACTT
*
670224 ATTTGTTGTTTTATGGATTTTTGAACTT
1 ATTTGTGGTTTTA-GGATTTTTGAACTT
670252 A
1 A
670253 ATATTTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
27 3 0.12
28 15 0.58
29 8 0.31
ACGTcount: A:0.21, C:0.03, G:0.21, T:0.55
Consensus pattern (27 bp):
ATTTGTGGTTTTAGGATTTTTGAACTT
Found at i:671015 original size:15 final size:16
Alignment explanation
Indices: 670995--671026 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
670985 AATGCATTTG
670995 ATGCA-TCGATGCACC
1 ATGCATTCGATGCACC
671010 ATGCATTCGATGCACC
1 ATGCATTCGATGCACC
671026 A
1 A
671027 GCCATGCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (16 bp):
ATGCATTCGATGCACC
Found at i:671039 original size:82 final size:79
Alignment explanation
Indices: 670927--671087 Score: 191
Period size: 82 Copynumber: 2.0 Consensus size: 79
670917 ATGCACCAAT
* *
670927 CCATGCATCGATGCACATACTATGCATCGATGAACTCAGAGTT-TTATGAAAAACATCGAATGCA
1 CCATGCATCGATGCACATACCATGCATCGATGAACTCAG-GTTATTATG--AAACATCAAATGCA
*
670991 TTTGATGCATCGATGCA
63 TTTCATGCATCGATGCA
* * * *
671008 CCATGCATTCGATGCACCA-GCCATGCATCGATGCACTCTGGTTATTTTGAAACATCAAATGCAT
1 CCATGCA-TCGATGCA-CATACCATGCATCGATGAACTCAGGTTATTATGAAACATCAAATGCAT
*
671072 TTCATGCATCGGTGCA
64 TTCATGCATCGATGCA
671088 TTCTTAGTGC
Statistics
Matches: 69, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
80 28 0.41
81 10 0.14
82 29 0.42
83 2 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.28
Consensus pattern (79 bp):
CCATGCATCGATGCACATACCATGCATCGATGAACTCAGGTTATTATGAAACATCAAATGCATTT
CATGCATCGATGCA
Found at i:674210 original size:129 final size:129
Alignment explanation
Indices: 673987--674234 Score: 372
Period size: 129 Copynumber: 1.9 Consensus size: 129
673977 TATCCTTTTA
* * *
673987 TACAATGAAGAACAATTCATCAAGAATTGAATACAACTATTGTATGTAACGTTCAATCATGTAGT
1 TACAATAAAGAACAATTCATCAAGAACTGAATACAACTATTGTATGTAACGTTCAATCATGCAGT
* * *
674052 CTTTACCTAGGAGGGGTTGAGTCCATAAACCATCAAAGGAAGCTTATCTTACCAAATCCTGTCT
66 CCTTACCTAGGAGGGGTTGAGTCCATAAACCACCAAAGAAAGCTTATCTTACCAAATCCTGTCT
* * *
674116 TACAATAAAGAACAATTCTTCAAGAACTGAATACAACTATTGTATGTAATGTTCAATCATGCATT
1 TACAATAAAGAACAATTCATCAAGAACTGAATACAACTATTGTATGTAACGTTCAATCATGCAGT
* * *
674181 CCTTACCT-GGTAGGGGTTGAGTCCCTAAACCCCCAAAGAAAGCTTGTCTTACCA
66 CCTTACCTAGG-AGGGGTTGAGTCCATAAACCACCAAAGAAAGCTTATCTTACCA
674235 TTTCCTGACT
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
128 2 0.02
129 104 0.98
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (129 bp):
TACAATAAAGAACAATTCATCAAGAACTGAATACAACTATTGTATGTAACGTTCAATCATGCAGT
CCTTACCTAGGAGGGGTTGAGTCCATAAACCACCAAAGAAAGCTTATCTTACCAAATCCTGTCT
Found at i:675366 original size:20 final size:20
Alignment explanation
Indices: 675306--675356 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
675296 AGAGCTTTAT
675306 CGGTTTTGTCATATTGAAAC
1 CGGTTTTGTCATATTGAAAC
675326 CGGTTTTGTCATATTGAAAC
1 CGGTTTTGTCATATTGAAAC
675346 CGGTTTTGTCA
1 CGGTTTTGTCA
675357 ATTTTCAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.22, C:0.16, G:0.22, T:0.41
Consensus pattern (20 bp):
CGGTTTTGTCATATTGAAAC
Found at i:675657 original size:462 final size:467
Alignment explanation
Indices: 674857--675798 Score: 1345
Period size: 462 Copynumber: 2.0 Consensus size: 467
674847 ATCTCTTTAT
* * *
674857 CGGTTTTGTCATATTGAAATCAATTTTTTTCAATTTTCAACTTGTTATATTGTCATGTATCGATA
1 CGGTTTTGTCATATTGAAATCAAGTTTTGTCAATTTTCAACCTGTTATATTGTCATGTATCGATA
* * ** *
674922 CATGTATCTTAGGTATCGATACTTTTTGTTTGCATCTAGTTTGGGAATCATACTGCACAAAAAGT
66 CATATATCTTAGGTATCGATACTTTCTGCGTGCATCTAGTTTGGGAAGCATACTGCACAAAAAGT
* *
674987 ATCAATACATATAAAAAAAAGTATCGATACTTTATGTAAACGTATTTTGTCATTAAACTGATATA
131 ATCAATACACATAAAAAAAAGTATCAATACTTTATGTAAACGTATTTTGTCATT--ACTGATATA
* *
675052 TTTTTACCACTTACATTGTAAATTTATCTATTACTTTAAAGTAATCGGTTTCAAAGTTTTAAGAA
194 TTTTTACCACTTACATTGTAAATTTACCTATTACTTTAAAGTAATCGATTTCAAAGTTTTAAGAA
* * * * * *
675117 TCGATACTTTTCATATGTGTATCGATACTTTATAGGCGAAATTATTGAAACCAGTTTTGTTAATT
259 TCAATACTTTTAATACGTGTATCAATAATTTATAGGCGAAATTATTGAAACCAGTTTTGTCAATT
* * * * *
675182 TTCAACTTGTTATGTTATTTATATTTAATCGATATCATTACCTTTACCGAAGTGTCAATAATTTT
324 TTCAACATGTTATGTTATTTATATTTAATCGATACCATTACCATTACCAAAGTATCAATAATTTT
* *
675247 GTGTAAGGTATCGATACTTTCGAGACATTTCATTTTTGTGTAAACCGGTAGAGCTTTATCGGTTT
389 GTGTAAGGTATCGATACTTTCGAGACATTTCATTTTTATGTAAACCGGTAGAGCTTTATCGGTAT
675312 TGTCATATTGAAAC
454 TGTCATATTGAAAC
**
675326 CGGTTTTGTCATATTGAAA-CCGGTTTTGTCAATTTTCAACCTGTTATATTGTCATGTATCGATA
1 CGGTTTTGTCATATTGAAATCAAGTTTTGTCAATTTTCAACCTGTTATATTGTCATGTATCGATA
* * * *
675390 CATATGTCTTAGGTATCGATACTTTCTGCGTGTATCTAGTTTGGGAAGCATAGTGGACAAAAAGT
66 CATATATCTTAGGTATCGATACTTTCTGCGTGCATCTAGTTTGGGAAGCATACTGCACAAAAAGT
* * * *
675455 ATC-ATACACAT-ACAAAAAGTATCAATACTTTATGTTAATGTATTTTGTCATT-C-GGTATATT
131 ATCAATACACATAAAAAAAAGTATCAATACTTTATGTAAACGTATTTTGTCATTACTGATATATT
* * *
675516 TTTACCGCTTACATTGTAAATTTACCTATTACTTTAAAGTAATCTATTTCGAAGTTTTAAGAATC
196 TTTACCACTTACATTGTAAATTTACCTATTACTTTAAAGTAATCGATTTCAAAGTTTTAAGAATC
* * * **
675581 AATATTTTTAATACGTGTATCAATAATTTATAGGTGCAATTATTGAAACTGGTTTTGTCAATTTT
261 AATACTTTTAATACGTGTATCAATAATTTATAGGCGAAATTATTGAAACCAGTTTTGTCAATTTT
* * **
675646 GAACATGTTATGTTATTTATATTTAATCGATACCATTACCATTACCAAAGTATCGATGCTTTTGT
326 CAACATGTTATGTTATTTATATTTAATCGATACCATTACCATTACCAAAGTATCAATAATTTTGT
* * * ***
675711 GTAAGGTTTCGATACTTTCGAGACGTTTCATTTTTATGTAAACCGTTATCTCTTTATCGGTATTG
391 GTAAGGTATCGATACTTTCGAGACATTTCATTTTTATGTAAACCGGTAGAGCTTTATCGGTATTG
675776 TCATATTGAAAC
456 TCATATTGAAAC
*
675788 CGGGTTTGTCA
1 CGGTTTTGTCA
675799 ATTTTCAACC
Statistics
Matches: 419, Mismatches: 54, Indels: 7
0.87 0.11 0.01
Matches are distributed among these distances:
462 256 0.61
463 1 0.00
466 37 0.09
467 7 0.02
468 99 0.24
469 19 0.05
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.42
Consensus pattern (467 bp):
CGGTTTTGTCATATTGAAATCAAGTTTTGTCAATTTTCAACCTGTTATATTGTCATGTATCGATA
CATATATCTTAGGTATCGATACTTTCTGCGTGCATCTAGTTTGGGAAGCATACTGCACAAAAAGT
ATCAATACACATAAAAAAAAGTATCAATACTTTATGTAAACGTATTTTGTCATTACTGATATATT
TTTACCACTTACATTGTAAATTTACCTATTACTTTAAAGTAATCGATTTCAAAGTTTTAAGAATC
AATACTTTTAATACGTGTATCAATAATTTATAGGCGAAATTATTGAAACCAGTTTTGTCAATTTT
CAACATGTTATGTTATTTATATTTAATCGATACCATTACCATTACCAAAGTATCAATAATTTTGT
GTAAGGTATCGATACTTTCGAGACATTTCATTTTTATGTAAACCGGTAGAGCTTTATCGGTATTG
TCATATTGAAAC
Found at i:677326 original size:12 final size:12
Alignment explanation
Indices: 677309--677362 Score: 56
Period size: 12 Copynumber: 4.5 Consensus size: 12
677299 TAGTGGAGTC
677309 GAAATTAAAATT
1 GAAATTAAAATT
* *
677321 GAAATTCAAACT
1 GAAATTAAAATT
*
677333 CAAATTAAAATT
1 GAAATTAAAATT
*
677345 GAAAATGAAAA-T
1 G-AAATTAAAATT
677357 GAAATT
1 GAAATT
677363 CAGTCTCAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 3
0.75 0.18 0.07
Matches are distributed among these distances:
11 4 0.12
12 21 0.64
13 8 0.24
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (12 bp):
GAAATTAAAATT
Found at i:677361 original size:24 final size:24
Alignment explanation
Indices: 677309--677362 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
677299 TAGTGGAGTC
* *
677309 GAAATTAAAATTGAAATTCAAACT
1 GAAATTAAAATTGAAAATCAAAAT
* *
677333 CAAATTAAAATTGAAAATGAAAAT
1 GAAATTAAAATTGAAAATCAAAAT
677357 GAAATT
1 GAAATT
677363 CAGTCTCAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.28
Consensus pattern (24 bp):
GAAATTAAAATTGAAAATCAAAAT
Found at i:677363 original size:36 final size:37
Alignment explanation
Indices: 677310--677385 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 37
677300 AGTGGAGTCG
*
677310 AAATTAAAATTGAAATTCAAACTCAAATTAAAATTGA
1 AAATGAAAATTGAAATTCAAACTCAAATTAAAATTGA
** *
677347 AAATGAAAA-TGAAATTCAGTCTCAAATTGAAATTGA
1 AAATGAAAATTGAAATTCAAACTCAAATTAAAATTGA
677383 AAA
1 AAA
677386 CTACATAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
36 27 0.77
37 8 0.23
ACGTcount: A:0.55, C:0.08, G:0.09, T:0.28
Consensus pattern (37 bp):
AAATGAAAATTGAAATTCAAACTCAAATTAAAATTGA
Found at i:677965 original size:12 final size:12
Alignment explanation
Indices: 677948--678031 Score: 93
Period size: 12 Copynumber: 7.2 Consensus size: 12
677938 CCCCCTACTA
677948 CCTTCTCTTCTT
1 CCTTCTCTTCTT
677960 CCTTCTCTTCTT
1 CCTTCTCTTCTT
*
677972 TCTTCTCTTCTT
1 CCTTCTCTTCTT
* *
677984 CATTCTCTCCTT
1 CCTTCTCTTCTT
677996 -C--CTCTTCTT
1 CCTTCTCTTCTT
*
678005 CCTTCTCTCCTT
1 CCTTCTCTTCTT
* *
678017 CCTTTTCTTCCT
1 CCTTCTCTTCTT
678029 CCT
1 CCT
678032 CTACCTCATT
Statistics
Matches: 59, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
9 7 0.12
10 1 0.02
12 51 0.86
ACGTcount: A:0.01, C:0.43, G:0.00, T:0.56
Consensus pattern (12 bp):
CCTTCTCTTCTT
Found at i:677980 original size:21 final size:21
Alignment explanation
Indices: 677956--678033 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 21
677946 TACCTTCTCT
677956 TCTTCCTTCTCTTCTTTCTTC
1 TCTTCCTTCTCTTCTTTCTTC
* *
677977 TCTT-CTTCATTCTCTCCTTCCTC
1 TCTTCCTTC--TCT-TCTTTCTTC
* * *
678000 TTCTTCCTTCTCTCCTTCCTTT
1 -TCTTCCTTCTCTTCTTTCTTC
*
678022 TCTTCCTCCTCT
1 TCTTCCTTCTCT
678034 ACCTCATTTC
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
20 4 0.09
21 15 0.34
22 7 0.16
23 10 0.23
24 4 0.09
25 4 0.09
ACGTcount: A:0.01, C:0.42, G:0.00, T:0.56
Consensus pattern (21 bp):
TCTTCCTTCTCTTCTTTCTTC
Found at i:678032 original size:33 final size:33
Alignment explanation
Indices: 677955--678033 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
677945 CTACCTTCTC
* * *
677955 TTCTTCCTTCTCTTCTTTCTTCTCTTCTTCATT
1 TTCTTCCTCCTCTTCTTCCTTCTCTCCTTCATT
* *
677988 CTC-TCCTTCCTCTTCTTCCTTCTCTCCTTCCTT
1 TTCTTCC-TCCTCTTCTTCCTTCTCTCCTTCATT
678021 TTCTTCCTCCTCT
1 TTCTTCCTCCTCT
678034 ACCTCATTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
32 3 0.08
33 32 0.84
34 3 0.08
ACGTcount: A:0.01, C:0.42, G:0.00, T:0.57
Consensus pattern (33 bp):
TTCTTCCTCCTCTTCTTCCTTCTCTCCTTCATT
Found at i:680018 original size:230 final size:230
Alignment explanation
Indices: 679612--680026 Score: 618
Period size: 230 Copynumber: 1.8 Consensus size: 230
679602 AGTAAAACGA
* * *
679612 TTTCCTTCAAAGGAATTAGAATACTCTCTACTACAAGTATCAGTATATTTATACAAACTAAAATA
1 TTTCCTTCAAACGAATGAGAATACTCTCTACTACAAGTATCAGTACATTTATACAAACTAAAATA
* * *
679677 TCATTTTCTACCTATAATAATATATACAAGTATCAATATTTATTTTCTATCTATAATATCACTTT
66 TCATTTTCTACCTATAATAATATATAAAAGTATCAATATTTATTTTCTACCTAGAATATCACTTT
* * * *
679742 CTAACTGTAATCGATCTCAAATCATTCTTTGCTTCGAAATCCCCAAACCCATAAACCCTAATCCC
131 CTAACTATAATCGATCACAAATCATTCTTTACTTCGAAAACCCCAAACCCATAAACCCTAATCCC
679807 TATTTATGAATACTGTGATACTAAAAAAACTAGGG
196 TATTTATGAATACTGTGATACTAAAAAAACTAGGG
* *
679842 TTTCCTTCAAACGAATGAGAATACTCTCTACTATAAGTATC-GATACATTTATAC-AACATACAA
1 TTTCCTTCAAACGAATGAGAATACTCTCTACTACAAGTATCAG-TACATTTATACAAAC-TAAAA
*
679905 TATCATTTTCTACCTATAATATTATATAAAAGTATCAATATTTATTTTCTACCTAGAATATCACT
64 TATCATTTTCTACCTATAATAATATATAAAAGTATCAATATTTATTTTCTACCTAGAATATCACT
** * * ** *
679970 TTCTTCCTATAATTGGTCACAAATGTTTCTTTATTTCGAAAACCCCAAACCCATAAA
129 TTCTAACTATAATCGATCACAAATCATTCTTTACTTCGAAAACCCCAAACCCATAAA
680027 ACCCCTATTT
Statistics
Matches: 163, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
229 4 0.02
230 159 0.98
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.36
Consensus pattern (230 bp):
TTTCCTTCAAACGAATGAGAATACTCTCTACTACAAGTATCAGTACATTTATACAAACTAAAATA
TCATTTTCTACCTATAATAATATATAAAAGTATCAATATTTATTTTCTACCTAGAATATCACTTT
CTAACTATAATCGATCACAAATCATTCTTTACTTCGAAAACCCCAAACCCATAAACCCTAATCCC
TATTTATGAATACTGTGATACTAAAAAAACTAGGG
Found at i:680379 original size:32 final size:32
Alignment explanation
Indices: 680329--680438 Score: 193
Period size: 32 Copynumber: 3.4 Consensus size: 32
680319 TTTTTCCTTT
*
680329 TAAAAGTATTGATAATATGATACATATACTTA
1 TAAAAGTATCGATAATATGATACATATACTTA
* *
680361 TAAAAGTGTCGATGATATGATACATATACTTA
1 TAAAAGTATCGATAATATGATACATATACTTA
680393 TAAAAGTATCGATAATATGATACATATACTTA
1 TAAAAGTATCGATAATATGATACATATACTTA
680425 TAAAAGTATCGATA
1 TAAAAGTATCGATA
680439 CCTTCAACAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 73 1.00
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.35
Consensus pattern (32 bp):
TAAAAGTATCGATAATATGATACATATACTTA
Found at i:680790 original size:174 final size:174
Alignment explanation
Indices: 680488--680807 Score: 498
Period size: 174 Copynumber: 1.8 Consensus size: 174
680478 ATTGAAATCA
* *
680488 GTTTTGTCATATTTTAACATGTTATATTGTCATGTATCGATACATGTTTGTAAAGTATCGATACT
1 GTTTTGTCATATTTTAACATGTTATATTGTCATGTATCGATACATGTTTCTAAAGTATCAATACT
* * * *
680553 TTATAGGCACTATTATTGCAATTCTTTTAAATTCCTAAATTATCAATAATATGTTACATATACTT
66 TTATAGGCAATATTATTGCAATTCCTTTAAATTCCTAAAGTATCAATAATATGGTACATATACTT
* *
680618 ATAAAAGTAACAATACCTTCAACATATCCGACAGTTCTTTACCG
131 AAAAAAATAACAATACCTTCAACATATCCGACAGTTCTTTACCG
* *
680662 GTTTTGTTATATTTTAACATGTTATATTGTCATGTATCGATACATGTTTCTAAAGTATTAATACT
1 GTTTTGTCATATTTTAACATGTTATATTGTCATGTATCGATACATGTTTCTAAAGTATCAATACT
* **
680727 TTATAGGCAATATTATTGCAATTCCTTTAAATTCCTAAAGTATCGATAAT-TGGGTGTATATACT
66 TTATAGGCAATATTATTGCAATTCCTTTAAATTCCTAAAGTATCAATAATAT-GGTACATATACT
*
680791 TAAAAAAATATCAATAC
130 TAAAAAAATAACAATAC
680808 AAATTTCAAC
Statistics
Matches: 131, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
173 1 0.01
174 130 0.99
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (174 bp):
GTTTTGTCATATTTTAACATGTTATATTGTCATGTATCGATACATGTTTCTAAAGTATCAATACT
TTATAGGCAATATTATTGCAATTCCTTTAAATTCCTAAAGTATCAATAATATGGTACATATACTT
AAAAAAATAACAATACCTTCAACATATCCGACAGTTCTTTACCG
Found at i:681116 original size:42 final size:42
Alignment explanation
Indices: 681052--681155 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
681042 AATTTGCATT
* *
681052 TATCACAAAATTAATCCCAAACTTAAAAAGATAATAATAATCC
1 TATC-CAAAAGTAATCCTAAACTTAAAAAGATAATAATAATCC
681095 TATCCAAAAGTAATCCTAAACTTAAAAAGATAATAATAATCC
1 TATCCAAAAGTAATCCTAAACTTAAAAAGATAATAATAATCC
*
681137 TACCCAAAAGTAATCCTAA
1 TATCCAAAAGTAATCCTAA
681156 TTTGCCTAAA
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
42 54 0.93
43 4 0.07
ACGTcount: A:0.52, C:0.19, G:0.04, T:0.25
Consensus pattern (42 bp):
TATCCAAAAGTAATCCTAAACTTAAAAAGATAATAATAATCC
Found at i:690645 original size:66 final size:66
Alignment explanation
Indices: 690539--690673 Score: 243
Period size: 66 Copynumber: 2.0 Consensus size: 66
690529 TCGTCTGAAA
**
690539 AGAAATATTGAATTAAATACTACACCTAGTAATAAACCCTATGAAATTATAAATTGATTGAACAT
1 AGAAATATTGAACCAAATACTACACCTAGTAATAAACCCTATGAAATTATAAATTGATTGAACAT
690604 T
66 T
*
690605 AGAAATATTGAACCAAATACTACACCTCGTAATAAACCCTATGAAATTATAAATTGATTGAACAT
1 AGAAATATTGAACCAAATACTACACCTAGTAATAAACCCTATGAAATTATAAATTGATTGAACAT
690670 T
66 T
690671 AGA
1 AGA
690674 TATACCCAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.30
Consensus pattern (66 bp):
AGAAATATTGAACCAAATACTACACCTAGTAATAAACCCTATGAAATTATAAATTGATTGAACAT
T
Found at i:691939 original size:365 final size:358
Alignment explanation
Indices: 691258--691979 Score: 909
Period size: 365 Copynumber: 2.0 Consensus size: 358
691248 GCTTAATATT
* * * * *
691258 AAAATTAGTGCCCAAATTATACCATTTTTCACGAATAGGTGTCTAAACTATTTTTTTATTCATCC
1 AAAATAAGTGCCCAAATTATACCACTTTTCACGAATAGGTGCCTAAACTATTTTTTGACTCATCC
* * * * *
691323 AGATGCCTAACATTATAAACGTTACTACTTTAGGTGTCTCTTCATAACGACCATTAAAAATATCC
66 AGATGCCTAACATTACAAACGTTACCACTTTAAGTGTCTCTCCATAACGACCATTAAAAATACCC
*
691388 ATTAAATAACACAAAAGTCACAATCTGGTAATTTATTTTAGAAAAACTTAAAATCACTTTATTTT
131 ATTAAATAACACAAAAGTCACAATATGGTAATTTATTTTAGAAAAACTTAAAATCACTTTATTTT
* *
691453 TGAAAAAGTCCTAATTTTTCTAAAATATAAAAACCCCAAACTCCTTAAATCTCTTATTCTCGCCC
196 TGAAAAAGTCATAATTTTTCTAAAATATAAAAAACCCAAACTCCTTAAATCTCTTATTCTCGCCC
691518 ATTTTACTTCAACCGTCGATCATCTCGGGCCACCTATCCATCGACAACTAGCCACTCATACGTCG
261 ATTTTACTTCAACCGTCGATCATCTCGGGCCACCTATCCATCGACAACTAGCCACTCATACGTCG
*
691583 CTGACCATCCACTGACCGGTCATAAACCTTGCC
326 CTGACCATCCACTGACCGGACATAAACCTTGCC
* *
691616 AAAATAAGTGCCCAAATTATACCGCTTTTCATG-ATAGGTGCCTAAACTATTTTTTGACTCATCC
1 AAAATAAGTGCCCAAATTATACCACTTTTCACGAATAGGTGCCTAAACTATTTTTTGACTCATCC
* * * *
691680 A-AGTGTCTAACATTACAAACGTTACCATTTTAAGTGTCTCATCCATAACTG-TCATTAAAAATG
66 AGA-TGCCTAACATTACAAACGTTACCACTTTAAGTGTCTC-TCCATAAC-GACCATTAAAAATA
* ** *
691743 CCCATTAAGTAAC-C-CGAGTCATAATATGGTGATTTCATAAATTTATTTTA-AAAAACTTAAAA
128 CCCATTAAATAACACAAAAGTCACAATAT-G-G------T-AATTTATTTTAGAAAAACTTAAAA
* * * * * *
691805 TTATTTTATTTTTGGAAAATTCATAGTTTTTCTAAAATATAAAAAAATCCAAACTTCC-TAAATC
184 TCACTTTATTTTTGAAAAAGTCATAATTTTTCTAAAATAT-AAAAAACCCAAAC-TCCTTAAATC
* * ** ** *
691869 TTTTATTCTCGCCCTTTTTACTTCAACCGTCGATCATCTCGGGCCACCTATCTGTCGATGACTGG
247 TCTTATTCTCGCCCATTTTACTTCAACCGTCGATCATCTCGGGCCACCTATCCATCGACAACTAG
* * *
691934 CCACTCATATGTCGCTGACCATCCACTGATCGGACATAAATCTTGC
312 CCACTCATACGTCGCTGACCATCCACTGACCGGACATAAACCTTGC
691980 TATCATCTCA
Statistics
Matches: 310, Mismatches: 40, Indels: 21
0.84 0.11 0.06
Matches are distributed among these distances:
356 10 0.03
357 63 0.20
358 58 0.19
359 1 0.00
364 47 0.15
365 128 0.41
366 3 0.01
ACGTcount: A:0.33, C:0.23, G:0.11, T:0.34
Consensus pattern (358 bp):
AAAATAAGTGCCCAAATTATACCACTTTTCACGAATAGGTGCCTAAACTATTTTTTGACTCATCC
AGATGCCTAACATTACAAACGTTACCACTTTAAGTGTCTCTCCATAACGACCATTAAAAATACCC
ATTAAATAACACAAAAGTCACAATATGGTAATTTATTTTAGAAAAACTTAAAATCACTTTATTTT
TGAAAAAGTCATAATTTTTCTAAAATATAAAAAACCCAAACTCCTTAAATCTCTTATTCTCGCCC
ATTTTACTTCAACCGTCGATCATCTCGGGCCACCTATCCATCGACAACTAGCCACTCATACGTCG
CTGACCATCCACTGACCGGACATAAACCTTGCC
Found at i:692198 original size:10 final size:10
Alignment explanation
Indices: 692183--692221 Score: 60
Period size: 10 Copynumber: 3.7 Consensus size: 10
692173 GCATTGCAAC
692183 GGAGGGGTGG
1 GGAGGGGTGG
692193 GGAGGGGTGG
1 GGAGGGGTGG
692203 GGAGGGGTCGG
1 GGAGGGGT-GG
692214 GAGAGGGG
1 G-GAGGGG
692222 AGAGGAGATC
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.67
11 3 0.11
12 6 0.22
ACGTcount: A:0.13, C:0.03, G:0.77, T:0.08
Consensus pattern (10 bp):
GGAGGGGTGG
Found at i:692609 original size:24 final size:20
Alignment explanation
Indices: 692559--692598 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
692549 TAATATTTTT
*
692559 TAAAAATAATTTTTAATAAA
1 TAAAAATAATTTTTAACAAA
692579 TAAAAATATATTTTTAACAA
1 TAAAAATA-ATTTTTAACAA
692599 TATATGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAAAATAATTTTTAACAAA
Found at i:692664 original size:27 final size:28
Alignment explanation
Indices: 692634--692687 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
692624 TTAAATTATA
*
692634 AAATTATTCTTTA-AAATTATAA-GTTTG
1 AAATTAAT-TTTATAAATTATAATGTTTG
692661 AAATTAATTTTATAAATTATAATGTTT
1 AAATTAATTTTATAAATTATAATGTTT
692688 AATTAAAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 4 0.17
27 16 0.67
28 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.06, T:0.50
Consensus pattern (28 bp):
AAATTAATTTTATAAATTATAATGTTTG
Found at i:692871 original size:2 final size:2
Alignment explanation
Indices: 692864--692888 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
692854 TATAACTATC
692864 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
692889 CAAATTAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:692995 original size:30 final size:29
Alignment explanation
Indices: 692956--693021 Score: 105
Period size: 30 Copynumber: 2.2 Consensus size: 29
692946 AAAAAGTTTC
*
692956 TTTTTTTTTAAAATTCTAAAACATTTTAA
1 TTTTTTTTTAAAATTCTAAAACATTTCAA
*
692985 TTTATTTTTTAAAATTCTATAACATTTCAA
1 TTT-TTTTTTAAAATTCTAAAACATTTCAA
693015 TTTTTTT
1 TTTTTTT
693022 CGGCTTTCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTTTTTTTAAAATTCTAAAACATTTCAA
Found at i:695018 original size:26 final size:25
Alignment explanation
Indices: 694975--695070 Score: 65
Period size: 26 Copynumber: 3.6 Consensus size: 25
694965 TTTAGTAGTA
694975 ATTTTAATAAT-ATAATATTATATTTT
1 ATTTT-ATAATAAT-ATATTATATTTT
*
695001 AGTTTTATAATAATATATCTA-ATTAT
1 A-TTTTATAATAATATAT-TATATTTT
*
695027 ATTATAATAATATATGATATTA-ATCTTT
1 ATT-TTATAATA-AT-ATATTATAT-TTT
695055 ATTTTCATAAT-ATATA
1 ATTTT-ATAATAATATA
695071 GTAATAATTA
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
25 5 0.09
26 24 0.41
27 15 0.26
28 14 0.24
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (25 bp):
ATTTTATAATAATATATTATATTTT
Found at i:695109 original size:24 final size:24
Alignment explanation
Indices: 695082--695171 Score: 62
Period size: 24 Copynumber: 3.7 Consensus size: 24
695072 TAATAATTAA
695082 TAAAATTAATTTTATTTATTATTT
1 TAAAATTAATTTTATTTATTATTT
* * * * *
695106 TAAAAATAATATTATTCAATA-CT
1 TAAAATTAATTTTATTTATTATTT
695129 TAAAA-T-ATATTTA-TTATTATTTT
1 TAAAATTAAT-TTTATTTATTA-TTT
695152 TAAAATATATATTTTTATTT
1 TAAAAT-TA-A-TTTTATTT
695172 TAATAGTATT
Statistics
Matches: 48, Mismatches: 9, Indels: 14
0.68 0.13 0.20
Matches are distributed among these distances:
21 6 0.12
22 4 0.08
23 12 0.25
24 17 0.35
25 1 0.02
27 5 0.10
28 3 0.06
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (24 bp):
TAAAATTAATTTTATTTATTATTT
Found at i:696155 original size:17 final size:18
Alignment explanation
Indices: 696104--696174 Score: 58
Period size: 17 Copynumber: 4.0 Consensus size: 18
696094 TTAAAATAAG
696104 AATAAT-ATA-TTATTAA
1 AATAATAATACTTATTAA
* *
696120 TTATATTAATTACTTATTAA
1 -AATAATAA-TACTTATTAA
696140 AATAATAATA-TTATTAA
1 AATAATAATACTTATTAA
* * *
696157 AATATTAAAAGTTATTAA
1 AATAATAATACTTATTAA
696175 TATTAAAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
17 19 0.43
18 10 0.23
19 8 0.18
20 7 0.16
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.45
Consensus pattern (18 bp):
AATAATAATACTTATTAA
Found at i:696192 original size:14 final size:14
Alignment explanation
Indices: 696134--696193 Score: 54
Period size: 14 Copynumber: 4.4 Consensus size: 14
696124 ATTAATTACT
696134 TATTAAAATAATAA
1 TATTAAAATAATAA
*
696148 TATT--ATTAA-AA
1 TATTAAAATAATAA
*
696159 TATTAAAAGTTATTAA
1 TATTAAAA--TAATAA
*
696175 TATTAAAATAAGAA
1 TATTAAAATAATAA
696189 TATTA
1 TATTA
696194 TATTATATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
11 6 0.17
12 4 0.11
13 1 0.03
14 13 0.36
15 2 0.06
16 10 0.28
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (14 bp):
TATTAAAATAATAA
Found at i:697322 original size:301 final size:297
Alignment explanation
Indices: 696725--697322 Score: 873
Period size: 299 Copynumber: 2.0 Consensus size: 297
696715 GGAGAAATAG
696725 TGTTGAGTTAATCGATCGACAAATCGGCCAAGAGGGGGTGAATTGGCAATAAAAATTTCGGTGAA
1 TGTTGAGTTAATCGATCGACAAATCGGCCAAGAGGGGGTGAATTGGCAATAAAAATTTCGGTGAA
* *
696790 AGCTTTTGCAAAAAATTGAAAAAGATTGAACAACGATTTAGAGTGGTTCGACTTCTCAACCAAGT
66 AGCTTTTGCAAAAAATTGAAAAAGATTGAACAACGATTTAGAGTGGTTCAACTTCTCAACAAAGT
*
696855 CTACGTCCACTACCTTAGCTATACACACTAAGGATTTTCCACAAATTCAATAATTTATCTTTCTT
131 CTACGTCCACTACCTTAGCTATACACACTAAGGATTTTCCACAAATTCAATAATTTATATTTCTT
* *
696920 TTAAGGACAAAGAGTAACCTTACAACTCCCTCAAGAATTATACCCCAAATTCTTGAGAACACTCT
196 TTAAGGACAAAGAGTAACCTTACAACACCCTCAAGAATTATACCCCAAATTCTTAAGAACACTCT
696985 CTCCCAAAGAGAAAATTACAAATTTCACAAACTTACA
261 CTCCCAAAGAGAAAATTACAAATTTCACAAACTTACA
* * * * *
697022 TGTTGAGTTAATCGATTGACGGATTTGGCCAAGAGGGGGGTGAATTGGCAATTACAAATTT-GGT
1 TGTTGAGTTAATCGATCGAC-AAATCGGCCAAGA-GGGGGTGAATTGGCAA-TAAAAATTTCGGT
* * * * *
697086 GGAAGCTTTTGCATAAAATTGAAAGTA-ATTGCACAGCGATTTAGAGTGGTTCAACTTTCTCAAT
63 GAAAGCTTTTGCAAAAAATTGAAA-AAGATTGAACAACGATTTAGAGTGGTTCAAC-TTCTCAA-
* * *
697150 CAAAGTCTACGTCCACTACCTTAGCTATCCACACTAAGGATTTTCCAACAAATTCACTAATTTGT
125 CAAAGTCTACGTCCACTACCTTAGCTATACACACTAAGGATTTTCC-ACAAATTCAATAATTT-A
* *
697215 TATTTCTTTTGAGGCCAAAGAGATAACCTTACAACACCCTCAAGAA-TATACCCC-AATTCTTAA
188 TATTTCTTTTAAGGACAAAGAG-TAACCTTACAACACCCTCAAGAATTATACCCCAAATTCTTAA
* * *
697278 GAACACTCTTTCCCAAAGAGAAGATTACAAATTT-GCAAACTTACA
252 GAACACTCTCTCCCAAAGAGAAAATTACAAATTTCACAAACTTACA
697323 AGGAAAACCT
Statistics
Matches: 269, Mismatches: 23, Indels: 14
0.88 0.08 0.05
Matches are distributed among these distances:
297 19 0.07
298 10 0.04
299 66 0.25
300 16 0.06
301 54 0.20
302 55 0.20
303 27 0.10
304 22 0.08
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (297 bp):
TGTTGAGTTAATCGATCGACAAATCGGCCAAGAGGGGGTGAATTGGCAATAAAAATTTCGGTGAA
AGCTTTTGCAAAAAATTGAAAAAGATTGAACAACGATTTAGAGTGGTTCAACTTCTCAACAAAGT
CTACGTCCACTACCTTAGCTATACACACTAAGGATTTTCCACAAATTCAATAATTTATATTTCTT
TTAAGGACAAAGAGTAACCTTACAACACCCTCAAGAATTATACCCCAAATTCTTAAGAACACTCT
CTCCCAAAGAGAAAATTACAAATTTCACAAACTTACA
Done.