Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167938.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_20, 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: 19866354
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 74000 characters in sequence are not A, C, G, or T
File 34 of 100
Found at i:9214376 original size:23 final size:23
Alignment explanation
Indices: 9214350--9214404 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
9214340 TAGAAAAAGT
* *
9214350 AAAATAAAATAAAACCAAAACAA
1 AAAATAAAATAAAACAAAAAAAA
* *
9214373 AAAATAAGATAAAAGAAAAAAAA
1 AAAATAAAATAAAACAAAAAAAA
*
9214396 AAAAGAAAA
1 AAAATAAAA
9214405 ACTTATGATC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.07
Consensus pattern (23 bp):
AAAATAAAATAAAACAAAAAAAA
Found at i:9214397 original size:28 final size:28
Alignment explanation
Indices: 9214320--9214397 Score: 66
Period size: 28 Copynumber: 2.7 Consensus size: 28
9214310 AAAAAATCTA
* * * *
9214320 AAAATAAAATGAAAATAAGATAGAAAAAGT
1 AAAATAAAA-GAAAA-AAAAAACAAAAAAT
* **
9214350 AAAATAAAATAAAACCAAAACAAAAAAT
1 AAAATAAAAGAAAAAAAAAACAAAAAAT
*
9214378 AAGATAAAAGAAAAAAAAAA
1 AAAATAAAAGAAAAAAAAAA
9214398 AAGAAAAACT
Statistics
Matches: 37, Mismatches: 11, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
28 24 0.65
29 4 0.11
30 9 0.24
ACGTcount: A:0.77, C:0.04, G:0.08, T:0.12
Consensus pattern (28 bp):
AAAATAAAAGAAAAAAAAAACAAAAAAT
Found at i:9214774 original size:11 final size:10
Alignment explanation
Indices: 9214756--9214790 Score: 54
Period size: 11 Copynumber: 3.5 Consensus size: 10
9214746 ATCCTTAGAA
9214756 TTTTTCTTTT
1 TTTTTCTTTT
9214766 TTCTTTCTTTT
1 TT-TTTCTTTT
9214777 TTTTT-TTTT
1 TTTTTCTTTT
9214786 TTTTT
1 TTTTT
9214791 GGTGTGCAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.38
10 5 0.21
11 10 0.42
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:9215013 original size:13 final size:14
Alignment explanation
Indices: 9214990--9215018 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9214980 CAAATTAATT
9214990 TTGACTTTGATTTC
1 TTGACTTTGATTTC
9215004 TTGA-TTTGATTTC
1 TTGACTTTGATTTC
9215017 TT
1 TT
9215019 TTTAACATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.14, C:0.10, G:0.14, T:0.62
Consensus pattern (14 bp):
TTGACTTTGATTTC
Found at i:9215318 original size:11 final size:11
Alignment explanation
Indices: 9215304--9215328 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
9215294 TCTGTATCAA
9215304 TTCTATTATTT
1 TTCTATTATTT
9215315 TTCTATTATTT
1 TTCTATTATTT
9215326 TTC
1 TTC
9215329 CATGTGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.12, G:0.00, T:0.72
Consensus pattern (11 bp):
TTCTATTATTT
Found at i:9223407 original size:2 final size:2
Alignment explanation
Indices: 9223400--9223426 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9223390 TCGTTAAATT
9223400 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 T
9223427 TTTATATCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9226158 original size:30 final size:29
Alignment explanation
Indices: 9226110--9226181 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 29
9226100 TTTTTAATTA
* * * *
9226110 ATTTTTTAATTTTTTATTTATATAATGAT
1 ATTTTTTAATTTTATATTTAAAAAATAAT
9226139 ATTTTTTAATATTTATATTTAAAAAATAAT
1 ATTTTTTAAT-TTTATATTTAAAAAATAAT
9226169 ATTTTATTAATTT
1 ATTTT-TTAATTT
9226182 CAGATCGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 10 0.27
30 22 0.59
31 5 0.14
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (29 bp):
ATTTTTTAATTTTATATTTAAAAAATAAT
Found at i:9234645 original size:2 final size:2
Alignment explanation
Indices: 9234638--9234667 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
9234628 TACATAATAA
9234638 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
9234668 TTGTTTTAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9235500 original size:38 final size:38
Alignment explanation
Indices: 9235425--9235501 Score: 109
Period size: 38 Copynumber: 2.0 Consensus size: 38
9235415 GCAGCTATTT
*
9235425 AGGCAGTTCAAGTGACTCATTCAAATCCACTAGCTTAC
1 AGGCAGTTCAAGTGACTCATTCAAATCCACAAGCTTAC
* * * *
9235463 AGGCGGTTCAAGTGACTCATTCCAATGCACAATCTTAC
1 AGGCAGTTCAAGTGACTCATTCAAATCCACAAGCTTAC
9235501 A
1 A
9235502 ATTCATATAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (38 bp):
AGGCAGTTCAAGTGACTCATTCAAATCCACAAGCTTAC
Found at i:9242009 original size:23 final size:23
Alignment explanation
Indices: 9241971--9242023 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
9241961 AAATTCAATC
* *
9241971 AATTTTACAAATATAATATAATA
1 AATTTTACAAATATAAAAAAATA
9241994 TAATTTTA-AAATATAAAAAAATA
1 -AATTTTACAAATATAAAAAAATA
9242017 AATTTTA
1 AATTTTA
9242024 GATGTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 7 0.26
23 13 0.48
24 7 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
AATTTTACAAATATAAAAAAATA
Found at i:9242594 original size:17 final size:18
Alignment explanation
Indices: 9242572--9242605 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9242562 TTAATAAATT
9242572 AAACAAATTTAA-ATTAA
1 AAACAAATTTAATATTAA
9242589 AAACAAATTTAATATTA
1 AAACAAATTTAATATTA
9242606 GAATTTTTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (18 bp):
AAACAAATTTAATATTAA
Found at i:9242645 original size:13 final size:14
Alignment explanation
Indices: 9242629--9242661 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
9242619 AATATTTTGA
9242629 TATTTAAAT-ATTT
1 TATTTAAATAATTT
9242642 TA-TTAAATAATTT
1 TATTTAAATAATTT
9242655 TATTTAA
1 TATTTAA
9242662 TTTATTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 6 0.33
13 8 0.44
14 4 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
TATTTAAATAATTT
Found at i:9242711 original size:17 final size:16
Alignment explanation
Indices: 9242689--9242722 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 16
9242679 AATTTTAAAA
9242689 TTTAAAATATAATTTAT
1 TTTAAAATAT-ATTTAT
9242706 TTTAAAATATATTTAT
1 TTTAAAATATATTTAT
9242722 T
1 T
9242723 ATTCGATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTTAAAATATATTTAT
Found at i:9244611 original size:8 final size:8
Alignment explanation
Indices: 9244591--9244627 Score: 56
Period size: 8 Copynumber: 4.5 Consensus size: 8
9244581 TCATAAACTG
9244591 AATATTATA
1 AATATT-TA
9244600 AATATTTA
1 AATATTTA
9244608 AATATTTA
1 AATATTTA
*
9244616 AATATCTA
1 AATATTTA
9244624 AATA
1 AATA
9244628 CATAATTTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
8 21 0.78
9 6 0.22
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (8 bp):
AATATTTA
Found at i:9248653 original size:101 final size:102
Alignment explanation
Indices: 9248470--9248653 Score: 239
Period size: 101 Copynumber: 1.8 Consensus size: 102
9248460 TCCTCTTAAA
*
9248470 TTTTTTAAAGGGAATTATTGAAGACGTTTTCTGTAAAAAAAATGCCTTCAATAATCCCCTTAAAT
1 TTTTTTAAAGGGAATTATTGAAGACGTTTTCTGTAAAAAAAATGCATTCAATAATCCCCTTAAAT
*
9248535 TTTGATAAGGAGATTATTCTTCAATAATTTCCCCTAT
66 TTTGATAAGAAGATTATTCTTCAATAATTTCCCCTAT
* * * * *
9248572 TTTTTTAGAGTGG-ATTATTGAAAGA-GTTTTCTG-CAAAAAAATGTATTCAATAATCCCTTTCA
1 TTTTTTAAAG-GGAATTATTG-AAGACGTTTTCTGTAAAAAAAATGCATTCAATAATCCCCTTAA
* * *
9248634 TTTTTTATGAGAAGATTATT
64 ATTTTGATAAGAAGATTATT
9248654 GAAGGCGTTT
Statistics
Matches: 70, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
101 40 0.57
102 24 0.34
103 6 0.09
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (102 bp):
TTTTTTAAAGGGAATTATTGAAGACGTTTTCTGTAAAAAAAATGCATTCAATAATCCCCTTAAAT
TTTGATAAGAAGATTATTCTTCAATAATTTCCCCTAT
Found at i:9252835 original size:18 final size:19
Alignment explanation
Indices: 9252799--9252836 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
9252789 TATAAAAATT
*
9252799 TAAAAACTATATAAATTAA
1 TAAAAACTATACAAATTAA
*
9252818 TAAAAA-TATACAATTTAA
1 TAAAAACTATACAAATTAA
9252836 T
1 T
9252837 TTTATTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
TAAAAACTATACAAATTAA
Found at i:9254465 original size:18 final size:19
Alignment explanation
Indices: 9254442--9254478 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9254432 TTTAATTTGT
9254442 TTCAAAAT-AAAAAAAAAA
1 TTCAAAATCAAAAAAAAAA
*
9254460 TTCAAATTCAAAAAAAAAA
1 TTCAAAATCAAAAAAAAAA
9254479 AAGCTTTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (19 bp):
TTCAAAATCAAAAAAAAAA
Found at i:9257885 original size:15 final size:12
Alignment explanation
Indices: 9257860--9257899 Score: 71
Period size: 12 Copynumber: 3.2 Consensus size: 12
9257850 TCAATGATGG
9257860 AAAGTAAAAAAA
1 AAAGTAAAAAAA
9257872 CAAAGTAAAAAAA
1 -AAAGTAAAAAAA
9257885 AAAGTAAAAAAA
1 AAAGTAAAAAAA
9257897 AAA
1 AAA
9257900 AAAGAGAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 15 0.56
13 12 0.44
ACGTcount: A:0.82, C:0.03, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAGTAAAAAAA
Found at i:9257897 original size:16 final size:17
Alignment explanation
Indices: 9257873--9257915 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
9257863 GTAAAAAAAC
*
9257873 AAAGTAAAAAAAAAAG-T
1 AAAG-AAAAAAAAAAGAG
9257890 AAA-AAAAAAAAAAGAG
1 AAAGAAAAAAAAAAGAG
9257906 AAAGAAAAAA
1 AAAGAAAAAA
9257916 TGCCATACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 11 0.48
16 3 0.13
17 9 0.39
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.05
Consensus pattern (17 bp):
AAAGAAAAAAAAAAGAG
Found at i:9257900 original size:13 final size:13
Alignment explanation
Indices: 9257860--9257900 Score: 66
Period size: 13 Copynumber: 3.2 Consensus size: 13
9257850 TCAATGATGG
*
9257860 AAAGTAAAAAAAC
1 AAAGTAAAAAAAA
9257873 AAAGT-AAAAAAA
1 AAAGTAAAAAAAA
9257885 AAAGTAAAAAAAA
1 AAAGTAAAAAAAA
9257898 AAA
1 AAA
9257901 AAGAGAAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
12 11 0.42
13 15 0.58
ACGTcount: A:0.83, C:0.02, G:0.07, T:0.07
Consensus pattern (13 bp):
AAAGTAAAAAAAA
Found at i:9258273 original size:30 final size:29
Alignment explanation
Indices: 9258237--9258318 Score: 94
Period size: 30 Copynumber: 2.8 Consensus size: 29
9258227 GATTGACATG
9258237 GATGAAAGAAAAAAGAAAAGAAAAGAAAAA
1 GATGAAA-AAAAAAGAAAAGAAAAGAAAAA
* *
9258267 GATGAAAAAAAAAAGAAAATAAAATAAAAA
1 GATG-AAAAAAAAAGAAAAGAAAAGAAAAA
* *
9258297 AAT-AAAAAAGAGAGAAAAGAAA
1 GATGAAAAAA-AAAGAAAAGAAA
9258319 GACTTAAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
28 6 0.13
29 10 0.22
30 26 0.58
31 3 0.07
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (29 bp):
GATGAAAAAAAAAGAAAAGAAAAGAAAAA
Found at i:9259506 original size:10 final size:10
Alignment explanation
Indices: 9259487--9259525 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
9259477 CCATTTTTTA
9259487 ATTTATTATT
1 ATTTATTATT
*
9259497 ATTTACTATT
1 ATTTATTATT
9259507 ATATTATTATTT
1 AT-TTATTA-TT
9259519 ATTTATT
1 ATTTATT
9259526 TTTGATTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 11 0.44
11 10 0.40
12 4 0.16
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTTATTATT
Found at i:9260499 original size:63 final size:58
Alignment explanation
Indices: 9260431--9260598 Score: 230
Period size: 58 Copynumber: 2.8 Consensus size: 58
9260421 TTTCAAATAT
*
9260431 ATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTTTTTAAACAAAA
1 ATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAA--GTTT-AA-AAAA
* *
9260494 ATATTTTTCAGGAAAAGTTGAAAGTATCAA-TTTCCCTAAAAATAAAAAGTTTAAAAAA
1 ATATTTTT-AGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAAGTTTAAAAAA
*
9260552 ATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAA
1 ATATTTTTAGG-AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA
9260599 GTTTCTAAAA
Statistics
Matches: 96, Mismatches: 7, Indels: 8
0.86 0.06 0.07
Matches are distributed among these distances:
57 3 0.03
58 30 0.31
59 15 0.16
60 3 0.03
62 16 0.17
63 29 0.30
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.36
Consensus pattern (58 bp):
ATATTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAAGTTTAAAAAA
Found at i:9260607 original size:74 final size:75
Alignment explanation
Indices: 9260532--9260673 Score: 218
Period size: 74 Copynumber: 1.9 Consensus size: 75
9260522 AATTTCCCTA
*
9260532 AAAATAAAAAGTTT-AAAAAAA-TATTTTTAGGAAAAAGTTGAAAGTATCAATTTTT-TTTAAAA
1 AAAATAAAAAGTTTCAAAAAAATTATTTTTA-GAAAAAGTTGAAAGTATCAATTTTTCCTTAAAA
9260594 ATAAAGTTTCT
65 ATAAAGTTTCT
* * *
9260605 AAAATAAAAATTTTCAAAAAAATTTTTTTTAGAGAAAGTTGAAAGTATCAATTTTTCCTTAAAAA
1 AAAATAAAAAGTTTCAAAAAAATTATTTTTAGAAAAAGTTGAAAGTATCAATTTTTCCTTAAAAA
9260670 TAAA
66 TAAA
9260674 ATTGTTAAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
73 13 0.21
74 31 0.50
75 18 0.29
ACGTcount: A:0.51, C:0.04, G:0.08, T:0.37
Consensus pattern (75 bp):
AAAATAAAAAGTTTCAAAAAAATTATTTTTAGAAAAAGTTGAAAGTATCAATTTTTCCTTAAAAA
TAAAGTTTCT
Found at i:9260625 original size:58 final size:58
Alignment explanation
Indices: 9260443--9260626 Score: 194
Period size: 59 Copynumber: 3.1 Consensus size: 58
9260433 ATTTTTGAGG
* *
9260443 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAATTTTTTAAACAAAAATATTTTTCAGG
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAA-GTTTTAAA-AAAAA-A-TTTTCAGA
* * * *
9260506 AAAAGTTGAAAGTATCAA-TTTCCCTAAAAATAAAAAG-TTTAAAAAAATATTTTTAGGA
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAAT-AAAAGTTTTAAAAAAAAATTTTCA-GA
* *
9260564 AAAAGTTGAAAGTATCAATTTTTTTTAAAAAT-AAAGTTTCTAAAATAAAAATTTTCAAA
1 AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAGTTT-TAAAA-AAAAATTTTCAGA
9260623 AAAA
1 AAAA
9260627 TTTTTTTTAG
Statistics
Matches: 104, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
57 9 0.09
58 22 0.21
59 24 0.23
60 15 0.14
62 16 0.15
63 18 0.17
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (58 bp):
AAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAAAGTTTTAAAAAAAAATTTTCAGA
Found at i:9260651 original size:132 final size:130
Alignment explanation
Indices: 9260470--9260854 Score: 391
Period size: 132 Copynumber: 2.9 Consensus size: 130
9260460 ATTTTTCTTA
* * *
9260470 AAAATAAAAATTTTTTAAACAAAAATATTTTTCAG-GAAAAGTTGAAAGTATCAATTTCCCTAAA
1 AAAATAAAAA--TTTTCAA-AAAAATTTTTTTCAGAG-AAAGTTGAAAGTATCAATTTCCTTAAA
** *
9260534 AATAAAAAGTTTAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAA
62 AAT-AAAA-TTTAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAA
*
9260599 GTTTCT
125 ATTTCT
*
9260605 AAAATAAAAATTTTCAAAAAAATTTTTTTTAGAGAAAGTTGAAAGTATCAATTTTTCCTTAAAAA
1 AAAATAAAAATTTTCAAAAAAATTTTTTTCAGAGAAAGTTGAAAGTATCAA--TTTCCTTAAAAA
* * * * *
9260670 TAAAATTGTTAAAAAGTATTTTGA-GAAAAAGTTAAAAGTATCAATTTTCCTTGAAAACAAAATT
64 TAAAATT-TAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAAATT
*
9260734 TTT
128 TCT
* * * * * ** * *
9260737 AAAAT-AAAATTTTC-TAAAAAGTATTTTGAGAAAAAGTTGAAAGTATCAATTTTTTTTAAATTA
1 AAAATAAAAATTTTCAAAAAAATTTTTTTCAGAGAAAGTTGAAAGTATCAATTTCCTTAAAAATA
* * *
9260800 AAATTTCAAAAAAATATATATTTTGAGAAAAAATTGAAAGTATTAATTTTCCTTA
66 AAATTT-AAAAAAATAT-T-TTTAG-GAAAAAGTTGAAAGTATCAATTTTCCTTA
9260855 TACAAAGCAA
Statistics
Matches: 210, Mismatches: 31, Indels: 21
0.80 0.12 0.08
Matches are distributed among these distances:
127 1 0.00
128 23 0.11
129 1 0.00
130 32 0.15
131 9 0.04
132 98 0.47
133 24 0.11
134 12 0.06
135 10 0.05
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.37
Consensus pattern (130 bp):
AAAATAAAAATTTTCAAAAAAATTTTTTTCAGAGAAAGTTGAAAGTATCAATTTCCTTAAAAATA
AAATTTAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAACAAAATTTCT
Found at i:9260699 original size:74 final size:75
Alignment explanation
Indices: 9260532--9260676 Score: 206
Period size: 75 Copynumber: 2.0 Consensus size: 75
9260522 AATTTCCCTA
* *
9260532 AAAATAAAAAGTTT--AAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTTTTAAAAA
1 AAAATAAAAATTTTCAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAA
*
9260595 TAAAGTTTCT
66 TAAAATTTCT
* * *
9260605 AAAATAAAAATTTTCAAAAAAATTTTTTTTA-GAGAAAGTTGAAAGTATCAATTTTTCCTTAAAA
1 AAAATAAAAATTTTCAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTT-CTTAAAA
9260669 ATAAAATT
65 ATAAAATT
9260677 GTTAAAAAGT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
73 13 0.21
74 24 0.38
75 26 0.41
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.37
Consensus pattern (75 bp):
AAAATAAAAATTTTCAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAA
TAAAATTTCT
Found at i:9260708 original size:58 final size:57
Alignment explanation
Indices: 9260630--9260740 Score: 159
Period size: 57 Copynumber: 1.9 Consensus size: 57
9260620 AAAAAAATTT
* * * *
9260630 TTTTTAGAGAAAGTTGAAAGTATCAATTTTTCCTTAAAAATAAAATTGTTAAAAAGTA
1 TTTTGAGAAAAAGTTAAAAGTATCAA-TTTTCCTTAAAAACAAAATTGTTAAAAAGTA
* *
9260688 TTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTGAAAACAAAATTTTTAAAA
1 TTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAACAAAATTGTTAAAA
9260741 TAAAATTTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 24 0.51
58 23 0.49
ACGTcount: A:0.46, C:0.06, G:0.11, T:0.37
Consensus pattern (57 bp):
TTTTGAGAAAAAGTTAAAAGTATCAATTTTCCTTAAAAACAAAATTGTTAAAAAGTA
Found at i:9260745 original size:14 final size:15
Alignment explanation
Indices: 9260723--9260755 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
9260713 ATTTTCCTTG
9260723 AAAACAAAATTTT-T
1 AAAACAAAATTTTCT
*
9260737 AAAATAAAATTTTCT
1 AAAACAAAATTTTCT
9260752 AAAA
1 AAAA
9260756 AGTATTTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (15 bp):
AAAACAAAATTTTCT
Found at i:9260758 original size:57 final size:58
Alignment explanation
Indices: 9260630--9260749 Score: 152
Period size: 58 Copynumber: 2.1 Consensus size: 58
9260620 AAAAAAATTT
* * * * **
9260630 TTTTTAGAGAAAGTTGAAAGTATCAATTTTTCCTTAAAAATAAAATTGTTAAAAAGTA
1 TTTTGAGAAAAAGTTAAAAGTATCAATTTTTCCTTAAAAACAAAATTGTTAAAAAAAA
* *
9260688 TTTTGAGAAAAAGTTAAAAGTATCAA-TTTTCCTTGAAAACAAAATTTTTAAAATAAAA
1 TTTTGAGAAAAAGTTAAAAGTATCAATTTTTCCTTAAAAACAAAATTGTTAAAA-AAAA
9260746 TTTT
1 TTTT
9260750 CTAAAAAGTA
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
57 24 0.45
58 29 0.55
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.38
Consensus pattern (58 bp):
TTTTGAGAAAAAGTTAAAAGTATCAATTTTTCCTTAAAAACAAAATTGTTAAAAAAAA
Found at i:9260942 original size:16 final size:16
Alignment explanation
Indices: 9260921--9260954 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
9260911 GAATTGTTAC
9260921 TCTTTTTTATTTTATT
1 TCTTTTTTATTTTATT
* *
9260937 TCTTTTTTCTTTTCTT
1 TCTTTTTTATTTTATT
9260953 TC
1 TC
9260955 CTTGAAAAAT
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:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (16 bp):
TCTTTTTTATTTTATT
Found at i:9265284 original size:13 final size:13
Alignment explanation
Indices: 9265266--9265294 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
9265256 TATCATTAAG
9265266 TTTCAACTTGAAA
1 TTTCAACTTGAAA
9265279 TTTCAACTTGAAA
1 TTTCAACTTGAAA
9265292 TTT
1 TTT
9265295 ATATTTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.07, T:0.45
Consensus pattern (13 bp):
TTTCAACTTGAAA
Found at i:9266352 original size:14 final size:14
Alignment explanation
Indices: 9266335--9266365 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9266325 TAAATATTAA
*
9266335 TATTTATAATTTTT
1 TATTCATAATTTTT
9266349 TATTCATAATTTTT
1 TATTCATAATTTTT
9266363 TAT
1 TAT
9266366 AAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
TATTCATAATTTTT
Found at i:9269221 original size:2 final size:2
Alignment explanation
Indices: 9269214--9269253 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
9269204 TTTATTTCTC
9269214 AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9269254 GAGTAGAATC
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9269236 original size:17 final size:17
Alignment explanation
Indices: 9269214--9269246 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
9269204 TTTATTTCTC
9269214 ATATATATATATATATT
1 ATATATATATATATATT
9269231 ATATATATATATATAT
1 ATATATATATATATAT
9269247 ATAATATGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATATATATATATATATT
Found at i:9269238 original size:19 final size:19
Alignment explanation
Indices: 9269214--9269253 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
9269204 TTTATTTCTC
*
9269214 ATATATATATATATATTAT
1 ATATATATATATATATAAT
9269233 ATATATATATATATATAAT
1 ATATATATATATATATAAT
9269252 AT
1 AT
9269254 GAGTAGAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
ATATATATATATATATAAT
Found at i:9269401 original size:2 final size:2
Alignment explanation
Indices: 9269394--9269418 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9269384 GTGGATCCCT
9269394 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
9269419 TTTCGCTTTA
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:9271602 original size:6 final size:6
Alignment explanation
Indices: 9271593--9271617 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
9271583 CAAAAAATAA
9271593 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
9271618 TCTATATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:9279091 original size:2 final size:2
Alignment explanation
Indices: 9279086--9279111 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9279076 AATATATTAT
9279086 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
9279112 AAATTATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:9279269 original size:24 final size:24
Alignment explanation
Indices: 9279236--9279306 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 24
9279226 AAAAATAAAT
9279236 AAAATCATAAAAAATTTGAAATATA
1 AAAATCAT-AAAAATTTGAAATATA
* * *
9279261 AAAAT-ATAAGAATTTTAGATATA
1 AAAATCATAAAAATTTGAAATATA
* * * *
9279284 AAAAACATATAATTTTGAGATAT
1 AAAATCATAAAAATTTGAAATAT
9279307 CTTAAAAAGT
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
23 17 0.46
24 15 0.41
25 5 0.14
ACGTcount: A:0.58, C:0.03, G:0.07, T:0.32
Consensus pattern (24 bp):
AAAATCATAAAAATTTGAAATATA
Found at i:9279551 original size:29 final size:30
Alignment explanation
Indices: 9279500--9279572 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 30
9279490 AAAAAATATT
*
9279500 TTTAAATTATAATAAAATATTTAATATAATA
1 TTTAAATTATAA-AAAATATTTAATACAATA
* * *
9279531 TTTAAATT-TAAAAAATTTTTAATGCATTA
1 TTTAAATTATAAAAAATATTTAATACAATA
9279560 TTTAAATTATAAA
1 TTTAAATTATAAA
9279573 TTTATTAACT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 22 0.59
30 7 0.19
31 8 0.22
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
TTTAAATTATAAAAAATATTTAATACAATA
Found at i:9279613 original size:11 final size:11
Alignment explanation
Indices: 9279584--9279625 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
9279574 TTATTAACTA
9279584 ATATATTATTT
1 ATATATTATTT
* *
9279595 AAAAATTATTT
1 ATATATTATTT
*
9279606 ATATATTATAT
1 ATATATTATTT
9279617 AT-TATTATT
1 ATATATTATT
9279626 AAAATTAATC
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATATATTATTT
Found at i:9283192 original size:120 final size:120
Alignment explanation
Indices: 9282979--9283225 Score: 404
Period size: 120 Copynumber: 2.1 Consensus size: 120
9282969 GGTGTGGCCA
* * *
9282979 TTTCATTAGGACTCTGAGCGAAGAAAGCTGGTGTTGCCTGAAATGTTGGTGCCATCGAGAAATTA
1 TTTCATCAAGACTCTGAGCGAAGAAAGCTGGTGCTGCCTGAAATGTTGGTGCCATCGAGAAATTA
* * *
9283044 TCAGGAAAAGCTGCATTGTCATTGGTAGTGGTGGCAATGGATGCTGATGTATCTG
66 TCACGAAAAGCTGCATTGTCATTGGTAGTGGTGGCAATAGATGCTGATATATCTG
* * *
9283099 TTTCATCAAGACTCTGAGCGAAGAAAGTTGGTGCTGCCTGAAATGTTGGTGCCATTGAGAACTTA
1 TTTCATCAAGACTCTGAGCGAAGAAAGCTGGTGCTGCCTGAAATGTTGGTGCCATCGAGAAATTA
*
9283164 TCACGAAAGGCTGCATTGTCATTGGTAGTGGTGGCAATAGATGCTGATATATCTG
66 TCACGAAAAGCTGCATTGTCATTGGTAGTGGTGGCAATAGATGCTGATATATCTG
9283219 TTTCATC
1 TTTCATC
9283226 TTCAAGAAAT
Statistics
Matches: 117, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
120 117 1.00
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (120 bp):
TTTCATCAAGACTCTGAGCGAAGAAAGCTGGTGCTGCCTGAAATGTTGGTGCCATCGAGAAATTA
TCACGAAAAGCTGCATTGTCATTGGTAGTGGTGGCAATAGATGCTGATATATCTG
Found at i:9286469 original size:245 final size:247
Alignment explanation
Indices: 9286035--9286529 Score: 870
Period size: 245 Copynumber: 2.0 Consensus size: 247
9286025 ATCTTTAGTC
* *
9286035 ACTGCAAAGTCAATTCTCCGATGTCTCTTTTTTTTTTTTAATTTTTTGAGTTAATTATTTTTTTA
1 ACTGCAAAGTCAATTATCCAATGTCTC--TTTTTTTTTTAATTTTTTGAGTTAATTATTTTTTTA
*
9286100 ATTGAAATTTTAGAAAATATATAAATTGATGCCTAAAAAATAAAATATATAATTTGCATATTAAA
64 ATTGAAATTTTAGAAAACATATAAATTGATGCCTAAAAAATAAAATATATAATTTGCATATTAAA
9286165 ATTTCAAATTATGTATGATGTTAATTCAAAATTTAATTTTTTTAATTATATCAATTTATATATAT
129 ATTTCAAATTATGTATGATGTTAATTCAAAATTTAATTTTTTTAATTATATCAATTTATATATAT
* *
9286230 GACGTTTAACAAATATTATCAAATATAAATAATAAAAATATATTTTAATAAGTT
194 GACATTTAACAAATATGATCAAATATAAATAATAAAAATATATTTTAATAAGTT
*
9286284 ACTGCAAAGTCAATTATCCAATGTCTC-TTTTTTTTTAATTTTTTGATTTAATTA-TTTTTTAAT
1 ACTGCAAAGTCAATTATCCAATGTCTCTTTTTTTTTTAATTTTTTGAGTTAATTATTTTTTTAAT
*
9286347 TG-AATTTTGAGAAAACATATAAATTGATGCCTAAAAAATAAAATATATAATTTTCATATTAAAA
66 TGAAATTTT-AGAAAACATATAAATTGATGCCTAAAAAATAAAATATATAATTTGCATATTAAAA
*
9286411 TTTCAAATTATGTATGATGTTAATTTAAAATTTAATTTTTTTAATTATATCAATTTATATATATG
130 TTTCAAATTATGTATGATGTTAATTCAAAATTTAATTTTTTTAATTATATCAATTTATATATATG
9286476 ACATTTAACAAATATGATCAAATATAAATAATAAAAATATATTTTAATAAGTT
195 ACATTTAACAAATATGATCAAATATAAATAATAAAAATATATTTTAATAAGTT
9286529 A
1 A
9286530 TTTTTTATCA
Statistics
Matches: 237, Mismatches: 8, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
244 6 0.03
245 180 0.76
246 26 0.11
249 25 0.11
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.45
Consensus pattern (247 bp):
ACTGCAAAGTCAATTATCCAATGTCTCTTTTTTTTTTAATTTTTTGAGTTAATTATTTTTTTAAT
TGAAATTTTAGAAAACATATAAATTGATGCCTAAAAAATAAAATATATAATTTGCATATTAAAAT
TTCAAATTATGTATGATGTTAATTCAAAATTTAATTTTTTTAATTATATCAATTTATATATATGA
CATTTAACAAATATGATCAAATATAAATAATAAAAATATATTTTAATAAGTT
Found at i:9287280 original size:23 final size:23
Alignment explanation
Indices: 9287235--9287286 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
9287225 ATATTTATTT
* *
9287235 TATTTTTTGTTTTTAATTATATG
1 TATTTTTAGTTTGTAATTATATG
* *
9287258 TATTTTTAGTTTGTGATTTTATG
1 TATTTTTAGTTTGTAATTATATG
*
9287281 AATTTT
1 TATTTT
9287287 ATCCAAAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.12, T:0.67
Consensus pattern (23 bp):
TATTTTTAGTTTGTAATTATATG
Found at i:9288649 original size:29 final size:30
Alignment explanation
Indices: 9288588--9288668 Score: 101
Period size: 29 Copynumber: 2.7 Consensus size: 30
9288578 TCATATCATG
*
9288588 TATAATATTTTAAGTTATAATAAAATATTTAA
1 TATAATA-TTTAAATTATAA-AAAATATTTAA
*
9288620 TATAATATTTAAATTTTAAAAAAT-TTTAA
1 TATAATATTTAAATTATAAAAAATATTTAA
* *
9288649 TATGATAATTAAATTATAAA
1 TATAATATTTAAATTATAAA
9288669 TTTAACAACT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 22 0.50
30 5 0.11
31 10 0.23
32 7 0.16
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (30 bp):
TATAATATTTAAATTATAAAAAATATTTAA
Found at i:9295383 original size:19 final size:19
Alignment explanation
Indices: 9295359--9295396 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
9295349 ATTTCATTTG
*
9295359 GATAAATCTAATTTTAATT
1 GATAAATCTAATTTGAATT
*
9295378 GATAAATCTGATTTGAATT
1 GATAAATCTAATTTGAATT
9295397 TTAATTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.05, G:0.11, T:0.45
Consensus pattern (19 bp):
GATAAATCTAATTTGAATT
Found at i:9299890 original size:22 final size:22
Alignment explanation
Indices: 9299860--9299908 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
9299850 TCTAACAATC
* *
9299860 AAATTGTAAAATTGCATAAAAA
1 AAATGGTAAAATTACATAAAAA
* *
9299882 AAATGGTAACATTACATGAAAA
1 AAATGGTAAAATTACATAAAAA
9299904 AAATG
1 AAATG
9299909 AAGGGATAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.57, C:0.06, G:0.12, T:0.24
Consensus pattern (22 bp):
AAATGGTAAAATTACATAAAAA
Found at i:9304256 original size:3 final size:3
Alignment explanation
Indices: 9304248--9304304 Score: 105
Period size: 3 Copynumber: 19.0 Consensus size: 3
9304238 TGTGTGGTTG
*
9304248 TAT TAT TAT TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9304296 TAT TAT TAT
1 TAT TAT TAT
9304305 GTTTTACATG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:9306083 original size:20 final size:20
Alignment explanation
Indices: 9306060--9306099 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9306050 ATATCTAAAT
*
9306060 TTAT-TTAAATATATTAAAAA
1 TTATATTAAA-ATAATAAAAA
9306080 TTATATTAAAATAATAAAAA
1 TTATATTAAAATAATAAAAA
9306100 ATTAAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TTATATTAAAATAATAAAAA
Found at i:9306091 original size:22 final size:21
Alignment explanation
Indices: 9306056--9306112 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
9306046 TTTTATATCT
* *
9306056 AAATT-TATTTAAATATATTAA
1 AAATTATATTAAAATA-ATAAA
9306077 AAATTATATTAAAATAATAAA
1 AAATTATATTAAAATAATAAA
*
9306098 AAATTAAAATTAAAA
1 AAATT-ATATTAAAA
9306113 AAGATGAATC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 14 0.45
22 17 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AAATTATATTAAAATAATAAA
Found at i:9315468 original size:29 final size:28
Alignment explanation
Indices: 9315434--9315515 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 28
9315424 GATTATATCA
**
9315434 TAAATAATTTTTAAATTATAATAAAATATT
1 TAAATAATAATTAAATT-TAA-AAAATATT
9315464 TAATATAATAATTAAATTTAAAAAATATT
1 TAA-ATAATAATTAAATTTAAAAAATATT
* *
9315493 TAATATGATAAATAAATTATAAA
1 TAA-ATAATAATTAAATT-TAAA
9315516 TATATCATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
29 24 0.52
30 10 0.22
31 12 0.26
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (28 bp):
TAAATAATAATTAAATTTAAAAAATATT
Found at i:9315472 original size:31 final size:29
Alignment explanation
Indices: 9315444--9315515 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
9315434 TAAATAATTT
9315444 TTAAATTATAATAAAATATTTAATATAATAA
1 TTAAATT-TAA-AAAATATTTAATATAATAA
*
9315475 TTAAATTTAAAAAATATTTAATATGATAA
1 TTAAATTTAAAAAATATTTAATATAATAA
*
9315504 ATAAATTATAAA
1 TTAAATT-TAAA
9315516 TATATCATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
29 24 0.63
30 7 0.18
31 7 0.18
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (29 bp):
TTAAATTTAAAAAATATTTAATATAATAA
Found at i:9315520 original size:29 final size:28
Alignment explanation
Indices: 9315454--9315529 Score: 91
Period size: 29 Copynumber: 2.7 Consensus size: 28
9315444 TTAAATTATA
*
9315454 ATAAAATATTTAATATAATAATTAAATTT
1 ATAAAATATTTAATATAATAAATAAA-TT
* *
9315483 AAAAAATATTTAATATGATAAATAAATT
1 ATAAAATATTTAATATAATAAATAAATT
* *
9315511 AT-AAATATATCATATAATA
1 ATAAAATATTTAATATAATA
9315530 TCATATATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 14 0.35
28 3 0.08
29 23 0.57
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (28 bp):
ATAAAATATTTAATATAATAAATAAATT
Found at i:9315537 original size:12 final size:12
Alignment explanation
Indices: 9315510--9315560 Score: 52
Period size: 12 Copynumber: 4.2 Consensus size: 12
9315500 ATAAATAAAT
9315510 TATA-AATAT-A
1 TATATAATATCA
9315520 TCATATAATATCA
1 T-ATATAATATCA
*
9315533 TATATAATATTA
1 TATATAATATCA
9315545 TATTATAATATACA
1 TA-TATAATAT-CA
9315559 TA
1 TA
9315561 AAAATTTGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
10 1 0.03
11 3 0.09
12 17 0.50
13 10 0.29
14 3 0.09
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATCA
Found at i:9316666 original size:29 final size:29
Alignment explanation
Indices: 9316629--9316688 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
9316619 AATTAAAAAA
* *
9316629 TTTATAATTTAAATATCATAATAAATATT
1 TTTAAAATTTAAAAATCATAATAAATATT
* *
9316658 TTTAAAATTTAAAAATTATATTAAATATT
1 TTTAAAATTTAAAAATCATAATAAATATT
9316687 TT
1 TT
9316689 ATTATACTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (29 bp):
TTTAAAATTTAAAAATCATAATAAATATT
Found at i:9327210 original size:22 final size:22
Alignment explanation
Indices: 9327182--9327226 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
9327172 AGAGTGGGAC
9327182 CCTTAAGTTATACTTGATGATT
1 CCTTAAGTTATACTTGATGATT
9327204 CCTTAAGTTATACTTGATGATT
1 CCTTAAGTTATACTTGATGATT
9327226 C
1 C
9327227 TGACATTCTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.44
Consensus pattern (22 bp):
CCTTAAGTTATACTTGATGATT
Found at i:9330713 original size:3 final size:3
Alignment explanation
Indices: 9330705--9330730 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
9330695 GGAGTTCTGT
9330705 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
9330731 TTTGTACAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9339396 original size:17 final size:17
Alignment explanation
Indices: 9339364--9339397 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9339354 GCAATTTTAT
* *
9339364 GGTTTAGAGTTGGATAA
1 GGTTTAGAATTAGATAA
9339381 GGTTTAGAATTAGATAA
1 GGTTTAGAATTAGATAA
9339398 AAGTTCATTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (17 bp):
GGTTTAGAATTAGATAA
Found at i:9352172 original size:2 final size:2
Alignment explanation
Indices: 9352165--9352190 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9352155 TTCTGTACAG
9352165 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
9352191 GTTATCCAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9356047 original size:16 final size:16
Alignment explanation
Indices: 9356026--9356057 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9356016 ACATTAATAT
9356026 ATACATATATATATAA
1 ATACATATATATATAA
*
9356042 ATACATCTATATATAA
1 ATACATATATATATAA
9356058 CATTTGTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (16 bp):
ATACATATATATATAA
Found at i:9356691 original size:2 final size:2
Alignment explanation
Indices: 9356684--9356717 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
9356674 GCGTTGACAA
*
9356684 AT AT AT AT AT AT AT AT AT AT AT -T AT GT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9356718 AAACTCCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9360486 original size:13 final size:13
Alignment explanation
Indices: 9360468--9360515 Score: 71
Period size: 13 Copynumber: 3.7 Consensus size: 13
9360458 TATTAGTTAG
9360468 AATTTTTATTAAA
1 AATTTTTATTAAA
9360481 AA-TTTTATTAAA
1 AATTTTTATTAAA
*
9360493 TAATTTTTAGTAAA
1 -AATTTTTATTAAA
9360507 AATTTTTAT
1 AATTTTTAT
9360516 GAACTTCATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 10 0.32
13 12 0.39
14 9 0.29
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (13 bp):
AATTTTTATTAAA
Found at i:9360488 original size:12 final size:12
Alignment explanation
Indices: 9360471--9360512 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
9360461 TAGTTAGAAT
9360471 TTTTATTAAAAA
1 TTTTATTAAAAA
9360483 TTTTATTAAATAA
1 TTTTATTAAA-AA
*
9360496 TTTTTAGTAAAAA
1 -TTTTATTAAAAA
9360509 TTTT
1 TTTT
9360513 TATGAACTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
12 14 0.52
13 4 0.15
14 9 0.33
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TTTTATTAAAAA
Found at i:9360830 original size:16 final size:18
Alignment explanation
Indices: 9360800--9360832 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9360790 TAATATGTCT
9360800 AAAAAATGTATAAAATAA
1 AAAAAATGTATAAAATAA
9360818 AAAAAAT-TA-AAAATA
1 AAAAAATGTATAAAATA
9360833 TAGGATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 2 0.13
18 7 0.47
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (18 bp):
AAAAAATGTATAAAATAA
Found at i:9362035 original size:22 final size:20
Alignment explanation
Indices: 9362004--9362051 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 20
9361994 TGAAGAAAAA
9362004 ATTTTTTGAACACCTTACAAT
1 ATTTTTTGAACACCTTA-AAT
*
9362025 ATTTTCTTGAACATCTTAAAT
1 ATTTT-TTGAACACCTTAAAT
9362046 -TTTTTT
1 ATTTTTT
9362052 TCTCCATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 2 0.08
20 4 0.16
21 8 0.32
22 11 0.44
ACGTcount: A:0.29, C:0.15, G:0.04, T:0.52
Consensus pattern (20 bp):
ATTTTTTGAACACCTTAAAT
Found at i:9363765 original size:18 final size:18
Alignment explanation
Indices: 9363744--9363788 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
9363734 AATTTTTTTC
9363744 TTTTTTTATGT-TTTTATG
1 TTTTTTTAT-TATTTTATG
*
9363762 TTTTATTATTATTTTATG
1 TTTTTTTATTATTTTATG
*
9363780 TTTATTTAT
1 TTTTTTTAT
9363789 CTATATGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.76
Consensus pattern (18 bp):
TTTTTTTATTATTTTATG
Found at i:9365294 original size:14 final size:14
Alignment explanation
Indices: 9365275--9365301 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9365265 CTTTTTTTTT
9365275 TGTATTTTGTATGC
1 TGTATTTTGTATGC
9365289 TGTATTTTGTATG
1 TGTATTTTGTATG
9365302 GTTTTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.04, G:0.22, T:0.59
Consensus pattern (14 bp):
TGTATTTTGTATGC
Found at i:9365701 original size:193 final size:193
Alignment explanation
Indices: 9365391--9365740 Score: 439
Period size: 193 Copynumber: 1.8 Consensus size: 193
9365381 AAATAAAACT
* * *
9365391 TTAATAAAATTTTGAAAATGAATAATAATTATTCAAAGATGAAATTCTTAGAACTTATAAATGTA
1 TTAATAAAATTTTGAAAATGAATAACAATTATCCAAAGATGAAATTCTTAGAAATTATAAATGTA
* * *
9365456 TAATTTTTTAGAAAATTTCTAGGTGAGAGATTTCTTTAAATTTGAACTAAATGGA-GAAAAAATT
66 TAATTTTTTAGAAAATTTCTAGATGAGAAATTTCTCTAAATTTGAACTAAAT-GATGAAAAAATT
9365520 TAGAT-AAAATTTCAATAACAA-TAATTAATATTTATTTTCAGAATAAAACGAAAAATACATGTC
130 TAGATAAAAATTTCAATAA-AAGTAATTAATATTTATTTTCAGAATAAAACGAAAAATACATGTC
** *
9365583 TTAATAAAATTTTGGGAATGAATTAACAATTATCCAATA-ATTAAATTCTTAGAAATT-TCAAAT
1 TTAATAAAATTTTGAAAATGAA-TAACAATTATCCAA-AGATGAAATTCTTAGAAATTAT-AAAT
* *
9365646 GGTA-AATTTTTTA-AGAAATCTT-TAGATGAGAAATTTCTCT-AATTTTAACCTAAATGATGGA
63 -GTATAATTTTTTAGA-AAAT-TTCTAGATGAGAAATTTCTCTAAATTTGAA-CTAAATGATGAA
* *
9365707 ATAATTTAGATAAAAATTTTAATAAAAGTAATTA
124 AAAATTTAGATAAAAATTTCAATAAAAGTAATTA
9365741 CATTCCCTTT
Statistics
Matches: 135, Mismatches: 13, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
192 31 0.23
193 80 0.59
194 24 0.18
ACGTcount: A:0.46, C:0.06, G:0.10, T:0.37
Consensus pattern (193 bp):
TTAATAAAATTTTGAAAATGAATAACAATTATCCAAAGATGAAATTCTTAGAAATTATAAATGTA
TAATTTTTTAGAAAATTTCTAGATGAGAAATTTCTCTAAATTTGAACTAAATGATGAAAAAATTT
AGATAAAAATTTCAATAAAAGTAATTAATATTTATTTTCAGAATAAAACGAAAAATACATGTC
Found at i:9367179 original size:2 final size:2
Alignment explanation
Indices: 9367172--9367198 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9367162 CTCATAGAGG
9367172 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
9367199 AGAAGAGATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:9367422 original size:2 final size:2
Alignment explanation
Indices: 9367417--9367454 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
9367407 TTTCTCTCTC
* *
9367417 TA TA TA TA TA TG TA TA TA TA TA TA TA TA TT TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9367455 AGAGATACAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9369805 original size:1 final size:1
Alignment explanation
Indices: 9369799--9369823 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
9369789 AATTCTTAAA
9369799 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
9369824 AACTCCAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:9370787 original size:16 final size:17
Alignment explanation
Indices: 9370753--9370787 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
9370743 GCAGAGGTGA
*
9370753 TTTCTTTTGTTTGATTT
1 TTTCTTTTGTTTAATTT
9370770 TTTCTTTT-TTTAATTT
1 TTTCTTTTGTTTAATTT
9370786 TT
1 TT
9370788 ATAGGTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.80
Consensus pattern (17 bp):
TTTCTTTTGTTTAATTT
Found at i:9374388 original size:23 final size:23
Alignment explanation
Indices: 9374356--9374399 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
9374346 GGAAATTATT
*
9374356 GCTAATGGCATTGACTCAGCAGC
1 GCTAACGGCATTGACTCAGCAGC
9374379 GCTAACGGCATTGACTCAGCA
1 GCTAACGGCATTGACTCAGCA
9374400 ACACTAATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.27, G:0.25, T:0.20
Consensus pattern (23 bp):
GCTAACGGCATTGACTCAGCAGC
Found at i:9374406 original size:23 final size:23
Alignment explanation
Indices: 9374357--9374406 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
9374347 GAAATTATTG
* * *
9374357 CTAATGGCATTGACTCAGCAGCG
1 CTAACGGCATTGACTCAGCAACA
9374380 CTAACGGCATTGACTCAGCAACA
1 CTAACGGCATTGACTCAGCAACA
9374403 CTAA
1 CTAA
9374407 TGGATTTCTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.20
Consensus pattern (23 bp):
CTAACGGCATTGACTCAGCAACA
Found at i:9377090 original size:94 final size:94
Alignment explanation
Indices: 9376892--9377076 Score: 307
Period size: 94 Copynumber: 2.0 Consensus size: 94
9376882 TCATTTACTG
** * * *
9376892 TCAATTGATTTTAAGTTAAATACTTAACAACTCTAATTAATGGAAAATGGTGATAGATGGGCTAA
1 TCAATTGATTTTACTTTGAATACTTAACAACTCTAATTAATGGAAAATGGTGACAGATAGGCTAA
*
9376957 ACTCCTAAGATATGATTTTGTTATAACTA
66 ACTCCAAAGATATGATTTTGTTATAACTA
9376986 TCAATTGATTTTACTTTGAATACTTAACAACTCTAATTAATGGAAAATGGTGACAGATAGGCTAA
1 TCAATTGATTTTACTTTGAATACTTAACAACTCTAATTAATGGAAAATGGTGACAGATAGGCTAA
*
9377051 ATTCCAAAGATATGATTTTGTTATAA
66 ACTCCAAAGATATGATTTTGTTATAA
9377077 TTGGAATGTG
Statistics
Matches: 84, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
94 84 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (94 bp):
TCAATTGATTTTACTTTGAATACTTAACAACTCTAATTAATGGAAAATGGTGACAGATAGGCTAA
ACTCCAAAGATATGATTTTGTTATAACTA
Found at i:9379631 original size:2 final size:2
Alignment explanation
Indices: 9379624--9379654 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
9379614 CTTCATAAAT
9379624 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 T
9379655 TCCTTTCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9382771 original size:2 final size:2
Alignment explanation
Indices: 9382759--9382793 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
9382749 CAATAGGGTG
9382759 AT AT A- 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
9382794 TTTTAAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:9386309 original size:60 final size:56
Alignment explanation
Indices: 9386085--9386788 Score: 746
Period size: 59 Copynumber: 11.8 Consensus size: 56
9386075 AAAATTCCAA
9386085 AAAAAAAAATATTTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTT
1 AAAAAAAAATA-TTTTT-GGGAAAAGTTGAAAGTATCAATTTTCC-T---AG--AAATAAATTT
9386149 CCAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
1 ---AAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCC-TAGAAATAAATTT
** **
9386210 -CCAAAAAATATTTTTGGGGAAGGGTTGAAAGTATCAATTTTCCTCAGAAATAAATTT
1 AAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT-AGAAATAAATTT
* *
9386267 AAAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATTAATTTTCCTTGAAAATCAAAATTT
1 --AAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTAG-AAAT--AAATTT
* *
9386329 CAAAAAAAATATTTTTGGGAAAAAGTTGGAAGTATCAATTTTCCTTAGAAATAAATTTT
1 AAAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCC-TAGAAATAAA-TTT
* *** * *
9386388 CAAAAAAAGGGTTTTTGAGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTT
1 AAAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTAG-AAAT--AAATTT
9386448 CAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTT
1 -AAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCT-AGAAATAAATTT
*
9386507 CAAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTT
1 -AAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTAG-AAAT--AAATTT
*
9386568 -CAAAAAAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT
1 AAAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTCC-TAGAAATAAATTT
** *
9386625 TCAAAAAAATGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTT
1 AAAAAAAAAT-ATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCC-TAGAAATAAA-TTT
* *** *
9386685 CAAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTT
1 AAAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTAG-AAAT--AAATTT
*
9386745 CAAAAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTTCC
9386789 CTAAAAAAAA
Statistics
Matches: 566, Mismatches: 41, Indels: 67
0.84 0.06 0.10
Matches are distributed among these distances:
56 1 0.00
57 56 0.10
58 20 0.04
59 225 0.40
60 142 0.25
61 66 0.12
62 8 0.01
63 2 0.00
66 35 0.06
67 11 0.02
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (56 bp):
AAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAATAAATTT
Found at i:9386589 original size:297 final size:295
Alignment explanation
Indices: 9386106--9386788 Score: 1013
Period size: 297 Copynumber: 2.3 Consensus size: 295
9386096 TTTTTTAGGG
* ** *
9386106 AAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAAAAAATATTTTTAGG
1 AAAAGTTGAAAGTATCAATTTTCCTT-GAA-AATCA-AAATTT-C-AAAAAAAAATATTTTTGGG
* * * **
9386171 GAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAATATTTTTGGGGAAGGGTT
61 GAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAATATTTTTAGGGAAAAGTT
9386236 GAAAGTATCAATTTTCCTCAGAAATAAATTTAAAAAAAAAAATATTTTTAGGG-AAAAGTTGAAA
126 GAAAGTATCAATTTTCCTCAGAAATAAATTT--AAAAAAAAATATTTTTAGGGAAAAAGTTGAAA
* *
9386300 GTATTAATTTTCCTT-GAAAATCAAAATTTCAAAAAAAAT-ATTTTTG-GGAAAAAGTTGGAAGT
189 GTATCAATTTTCCTTAG-AAAT-AAAATTTC-AAAAAAATGATTTTTGAGG-AAAAGTTGAAAGT
9386362 ATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAGGGTTTTTGAGA
250 ATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAGGGTTTTTGAGA
9386408 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAAAAATATTTTTGGGGAAAA
1 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAAAAATATTTTTGGGGAAAA
9386473 GTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAAATATTTTTAGGGAAAAGTTGAA
66 GTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC--AAAAAAATATTTTTAGGGAAAAGTTGAA
* *
9386538 AGTATCAATTTTCCT-TGAAAATCAAAATTT-CAAAAAAATATTTTT-GGGAAAAAGTTGAAAGT
129 AGTATCAATTTTCCTCAG-AAAT--AAATTTAAAAAAAAATATTTTTAGGGAAAAAGTTGAAAGT
* *
9386600 ATCAATTTTCCTTAGAAATAAATTTTCAAAAAAATGGTTTTTGAGGAAAAGTTGAAAGTATCAAT
191 ATCAATTTTCCTTAGAAATAAAATTTCAAAAAAATGATTTTTGAGGAAAAGTTGAAAGTATCAAT
*
9386665 TTTCCTTAGAAATAAATTTTCAAAAAAAGGGTTTTTGAGG
256 TTTCCTTAGAAATAAATTTTCAAAAAAAGGGTTTTTGAGA
*
9386705 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC-AAAAAAAATATTTTTGGAGAAAA
1 AAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAAAAATATTTTTGGGGAAAA
9386769 GTTGAAAGTATCAATTTTCC
66 GTTGAAAGTATCAATTTTCC
9386789 CTAAAAAAAA
Statistics
Matches: 355, Mismatches: 17, Indels: 24
0.90 0.04 0.06
Matches are distributed among these distances:
296 50 0.14
297 171 0.48
298 47 0.13
299 50 0.14
300 3 0.01
301 8 0.02
302 26 0.07
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.33
Consensus pattern (295 bp):
AAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCAAAAAAAAATATTTTTGGGGAAAA
GTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAG
TATCAATTTTCCTCAGAAATAAATTTAAAAAAAAATATTTTTAGGGAAAAAGTTGAAAGTATCAA
TTTTCCTTAGAAATAAAATTTCAAAAAAATGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
TTAGAAATAAATTTTCAAAAAAAGGGTTTTTGAGA
Found at i:9388059 original size:15 final size:15
Alignment explanation
Indices: 9388039--9388068 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
9388029 TAAGAAACAT
9388039 AATTTTTTTATAAAA
1 AATTTTTTTATAAAA
*
9388054 AATTTTTTTTTAAAA
1 AATTTTTTTATAAAA
9388069 GGTCCTTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
AATTTTTTTATAAAA
Found at i:9388324 original size:22 final size:22
Alignment explanation
Indices: 9388291--9388333 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
9388281 TTATTATTAT
**
9388291 TAAAACAATTAACTATTTATCC
1 TAAAACAATTAAAAATTTATCC
9388313 TAAAA-AATTTAAAAATTTATC
1 TAAAACAA-TTAAAAATTTATC
9388334 ATGCATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAAACAATTAAAAATTTATCC
Found at i:9389861 original size:3 final size:3
Alignment explanation
Indices: 9389855--9389916 Score: 60
Period size: 3 Copynumber: 22.0 Consensus size: 3
9389845 TTTTTTTCTT
* *
9389855 TTA TTA TTA TTA -TA TT- TT- TTA -AA TTA TTA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
**
9389899 TTA AAA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA
9389917 AATTGAAATA
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
2 7 0.15
3 41 0.85
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:9394224 original size:18 final size:19
Alignment explanation
Indices: 9394198--9394240 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
9394188 TAATTTTATT
*
9394198 ATAATTAAA-TTTAATATA
1 ATAAATAAATTTTAATATA
*
9394216 ATAAATAAATTTTACTATA
1 ATAAATAAATTTTAATATA
9394235 ATAAAT
1 ATAAAT
9394241 TAATAGATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAAATAAATTTTAATATA
Found at i:9394412 original size:17 final size:16
Alignment explanation
Indices: 9394338--9394405 Score: 57
Period size: 18 Copynumber: 3.9 Consensus size: 16
9394328 AAATAAAGAA
*
9394338 AAAATTATTTCATATATT
1 AAAATTATTT-AT-TAAT
9394356 AAAATTATTTTTATTAATT
1 AAAATTA--TTTATTAA-T
*
9394375 ATTAATTATTTATTAAT
1 A-AAATTATTTATTAAT
9394392 AAAATTATTT-TTAA
1 AAAATTATTTATTAA
9394406 CATAAAAATA
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
15 4 0.09
16 8 0.19
17 2 0.05
18 17 0.40
19 4 0.09
20 8 0.19
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (16 bp):
AAAATTATTTATTAAT
Found at i:9394423 original size:26 final size:27
Alignment explanation
Indices: 9394394--9394447 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
9394384 TTATTAATAA
*
9394394 AATT-ATTTTTAACATAA-AAATAATTT
1 AATTAATTTATAA-ATAATAAATAATTT
*
9394420 AATTAATTTATAAATAATAAATGATTT
1 AATTAATTTATAAATAATAAATAATTT
9394447 A
1 A
9394448 CACATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.33
27 16 0.67
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
AATTAATTTATAAATAATAAATAATTT
Found at i:9394666 original size:13 final size:13
Alignment explanation
Indices: 9394648--9394695 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
9394638 GCCTTACACG
9394648 CCACCCACCACTA
1 CCACCCACCACTA
*
9394661 CCACCCACC-CTGT
1 CCACCCACCACT-A
* *
9394674 TCACCCACCACTG
1 CCACCCACCACTA
9394687 CCACCCACC
1 CCACCCACC
9394696 CTGTCACCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 2 0.07
13 25 0.86
14 2 0.07
ACGTcount: A:0.23, C:0.62, G:0.04, T:0.10
Consensus pattern (13 bp):
CCACCCACCACTA
Found at i:9394685 original size:26 final size:25
Alignment explanation
Indices: 9394649--9394703 Score: 92
Period size: 26 Copynumber: 2.2 Consensus size: 25
9394639 CCTTACACGC
9394649 CACCCACCACTACCACCCACCCTGTT
1 CACCCACCACTACCACCCACCCTG-T
*
9394675 CACCCACCACTGCCACCCACCCTGT
1 CACCCACCACTACCACCCACCCTGT
9394700 CACC
1 CACC
9394704 ATCATCCCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 5 0.18
26 23 0.82
ACGTcount: A:0.22, C:0.60, G:0.05, T:0.13
Consensus pattern (25 bp):
CACCCACCACTACCACCCACCCTGT
Found at i:9395036 original size:17 final size:16
Alignment explanation
Indices: 9395008--9395043 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
9394998 CACACCAACC
9395008 ACAAAAAAAAAGAAAA
1 ACAAAAAAAAAGAAAA
*
9395024 ACAAAACAAAAAGACAA
1 ACAAAA-AAAAAGAAAA
9395041 ACA
1 ACA
9395044 CAGTCTTCCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.81, C:0.14, G:0.06, T:0.00
Consensus pattern (16 bp):
ACAAAAAAAAAGAAAA
Found at i:9395148 original size:17 final size:18
Alignment explanation
Indices: 9395122--9395163 Score: 54
Period size: 16 Copynumber: 2.4 Consensus size: 18
9395112 TTCGATTTAC
9395122 AAAA-AAAAAAAGA-AAG
1 AAAAGAAAAAAAGAGAAG
9395138 AAAAG-AAAAAAGAGAAG
1 AAAAGAAAAAAAGAGAAG
9395155 AAACAGAAA
1 AAA-AGAAA
9395164 TCTTTAAACC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 12 0.55
17 6 0.27
18 2 0.09
19 2 0.09
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAAAGAGAAG
Found at i:9395148 original size:18 final size:18
Alignment explanation
Indices: 9395125--9395163 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
9395115 GATTTACAAA
9395125 AAAAAAAAGAAAGAAA-AG
1 AAAAAAAAG-AAGAAACAG
*
9395143 AAAAAAGAGAAGAAACAG
1 AAAAAAAAGAAGAAACAG
9395161 AAA
1 AAA
9395164 TCTTTAAACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.79, C:0.03, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAAAAAAGAAGAAACAG
Found at i:9395738 original size:19 final size:18
Alignment explanation
Indices: 9395690--9395739 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
9395680 AATTTTTTTA
* *
9395690 ATTTTTTTATATATTATT
1 ATTTTTTTATATTTTAGT
*
9395708 ATTTTTGTTAT-TTTGAGT
1 ATTTTT-TTATATTTTAGT
9395726 ATTTTTTTATATTT
1 ATTTTTTTATATTT
9395740 ATGCATGATG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 4 0.15
18 19 0.70
19 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (18 bp):
ATTTTTTTATATTTTAGT
Found at i:9403160 original size:2 final size:2
Alignment explanation
Indices: 9403153--9403183 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9403143 GACCCTCAAT
9403153 TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9403184 AAATCTAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:9404237 original size:34 final size:34
Alignment explanation
Indices: 9404138--9404250 Score: 99
Period size: 34 Copynumber: 3.3 Consensus size: 34
9404128 TGATTATATG
* * *
9404138 TAAATTCAAAAACTTTTAAAAGA-TTTC-AAATATG
1 TAAATCCAAAAA-TTTTAAAA-ACTTTCAAAATTTA
* * *
9404172 TAAATCCAAATATTTTAAAGACTTTTAAAATTT-
1 TAAATCCAAAAATTTTAAAAACTTTCAAAATTTA
*
9404205 TCAAATCCAAAAATTCTTAAAAAC-TTCCAAATTTA
1 T-AAATCCAAAAATT-TTAAAAACTTTCAAAATTTA
9404240 TAAATCCAAAA
1 TAAATCCAAAA
9404251 CCATAAAAGT
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
32 1 0.02
33 11 0.17
34 45 0.69
35 8 0.12
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.35
Consensus pattern (34 bp):
TAAATCCAAAAATTTTAAAAACTTTCAAAATTTA
Found at i:9410763 original size:38 final size:38
Alignment explanation
Indices: 9410716--9410788 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
9410706 GTTGTGTTGG
*
9410716 ATTAAGATGCATAAATTGAGAGAGAGTTTTGCCATTAT
1 ATTAAGATGCACAAATTGAGAGAGAGTTTTGCCATTAT
* * * *
9410754 ATTAGGATGCACAAATTGGGGGGGAGTTTTGCCAT
1 ATTAAGATGCACAAATTGAGAGAGAGTTTTGCCAT
9410789 GCATTAATTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.32, C:0.10, G:0.27, T:0.32
Consensus pattern (38 bp):
ATTAAGATGCACAAATTGAGAGAGAGTTTTGCCATTAT
Found at i:9415677 original size:3 final size:3
Alignment explanation
Indices: 9415638--9415662 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9415628 GTCTTTTACC
9415638 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
9415663 TGAATTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:9416451 original size:21 final size:22
Alignment explanation
Indices: 9416427--9416467 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
9416417 TTTTAAATTT
9416427 ATTATTAGTA-TT-TTTTTTATC
1 ATTATTA-TACTTATTTTTTATC
9416448 ATTATTATACTTATTTTTTA
1 ATTATTATACTTATTTTTTA
9416468 CATATCCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 9 0.50
22 7 0.39
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (22 bp):
ATTATTATACTTATTTTTTATC
Found at i:9417356 original size:3 final size:3
Alignment explanation
Indices: 9417348--9417376 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9417338 ACCATCAAAC
9417348 TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
9417377 AATGAGTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.31, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:9417681 original size:44 final size:44
Alignment explanation
Indices: 9417567--9417712 Score: 163
Period size: 43 Copynumber: 3.4 Consensus size: 44
9417557 CAACAATTTT
* *
9417567 TTTTTGAAAATTTAAAAAGCTTCTTTAAGCAAAGGCTTAATGAC
1 TTTTTAAAAATTTAAAAAGCTTCTTTAAGCAAAGGCTCAATGAC
* * * *
9417611 -TTCTAAAAATTTAACAGGC-TCTTTTAAACAAAGGCTCAATGAC
1 TTTTTAAAAATTTAAAAAGCTTC-TTTAAGCAAAGGCTCAATGAC
* * * *
9417654 TTTTTAAAAATTTAATAAGCTTCTTTAAGTAAAGGCTCTAT-AA
1 TTTTTAAAAATTTAAAAAGCTTCTTTAAGCAAAGGCTCAATGAC
*
9417697 TTTTTGAAAATTTAAA
1 TTTTTAAAAATTTAAA
9417713 TAATTTTTCC
Statistics
Matches: 84, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
42 2 0.02
43 49 0.58
44 31 0.37
45 2 0.02
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.38
Consensus pattern (44 bp):
TTTTTAAAAATTTAAAAAGCTTCTTTAAGCAAAGGCTCAATGAC
Found at i:9423340 original size:14 final size:14
Alignment explanation
Indices: 9423321--9423347 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9423311 TTAAGATCCC
9423321 ATTTTATTAATAAA
1 ATTTTATTAATAAA
9423335 ATTTTATTAATAA
1 ATTTTATTAATAA
9423348 TTGGTTATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTTATTAATAAA
Found at i:9423579 original size:15 final size:15
Alignment explanation
Indices: 9423561--9423680 Score: 71
Period size: 16 Copynumber: 7.5 Consensus size: 15
9423551 TTGAAGATTC
9423561 GGATTTTAGGGTTTT
1 GGATTTTAGGGTTTT
*
9423576 GGATTTTAGGGGTTTC
1 GGATTTTA-GGGTTTT
** * *
9423592 AAATTTTGGGGTAGGTTC
1 GGATTTTAGGGT---TTT
* *
9423610 GAATTTTAGAGGGTTT
1 GGATTTTAG-GGTTTT
*
9423626 GGATTTAAGGGATTTT
1 GGATTTTAGGG-TTTT
9423642 GGATTTTAGAGGTTTT
1 GGATTTTAG-GGTTTT
* *
9423658 AGAATCTTAGGGTTTT
1 -GGATTTTAGGGTTTT
9423674 GG-TTTTA
1 GGATTTTA
9423681 AAAATTGAAG
Statistics
Matches: 81, Mismatches: 16, Indels: 17
0.71 0.14 0.15
Matches are distributed among these distances:
14 4 0.05
15 15 0.19
16 41 0.51
17 9 0.11
18 10 0.12
19 2 0.02
ACGTcount: A:0.20, C:0.03, G:0.32, T:0.46
Consensus pattern (15 bp):
GGATTTTAGGGTTTT
Found at i:9425049 original size:9 final size:9
Alignment explanation
Indices: 9425037--9425088 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
9425027 GCCATCTCAG
9425037 TTTTTTATTT
1 TTTTTTA-TT
9425047 TTTTTTATT
1 TTTTTTATT
* *
9425056 TTTTCTATA
1 TTTTTTATT
*
9425065 TTTTATATT
1 TTTTTTATT
*
9425074 TTATATTATT
1 TT-TTTTATT
9425084 TTTTT
1 TTTTT
9425089 AATAATTAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
9 20 0.59
10 14 0.41
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTATT
Found at i:9425068 original size:16 final size:17
Alignment explanation
Indices: 9425039--9425085 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
9425029 CATCTCAGTT
* * *
9425039 TTTTATTTTTTTTTATT
1 TTTTATATTATTTTATA
*
9425056 TTTTCTA-TATTTTATA
1 TTTTATATTATTTTATA
9425072 TTTTATATTATTTT
1 TTTTATATTATTTT
9425086 TTTAATAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
16 13 0.54
17 11 0.46
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATATTATTTTATA
Found at i:9426757 original size:8 final size:9
Alignment explanation
Indices: 9426738--9426775 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
9426728 ATTCCAAAAA
9426738 TTTTATATT
1 TTTTATATT
*
9426747 TTTTATGTT
1 TTTTATATT
9426756 TTTTATA-T
1 TTTTATATT
9426764 TTTTA-ATT
1 TTTTATATT
9426772 TTTT
1 TTTT
9426776 TGGTTTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
7 1 0.04
8 11 0.42
9 14 0.54
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (9 bp):
TTTTATATT
Found at i:9426774 original size:17 final size:18
Alignment explanation
Indices: 9426738--9426776 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
9426728 ATTCCAAAAA
*
9426738 TTTTATATTTTTTATGTT
1 TTTTATATTTTTAATGTT
9426756 TTTTATATTTTTAAT-TT
1 TTTTATATTTTTAATGTT
9426773 TTTT
1 TTTT
9426777 GGTTTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (18 bp):
TTTTATATTTTTAATGTT
Found at i:9427794 original size:6 final size:6
Alignment explanation
Indices: 9427783--9427829 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
9427773 AAGAAACAAA
* * *
9427783 AAAAAT AAAAAT AAATAAT AATAAT AAATAT AAAATT AAAAAT AAAA
1 AAAAAT AAAAAT AAA-AAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
9427830 TGGGCCCCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
6 29 0.85
7 5 0.15
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (6 bp):
AAAAAT
Found at i:9428099 original size:50 final size:49
Alignment explanation
Indices: 9428018--9428115 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 49
9428008 GAGGCAATAG
* *
9428018 AACTGTGGAAAATAAATGGCTCCTTTTAATAGAGGCAATAGAACTTTGAA
1 AACTGTGGAAAATAAATGGCTCCTTTGAATAGAGGCAACA-AACTTTGAA
*
9428068 AACTTTGGAAAATAAATGGCT-CTTCTGAATAGAGGCAACAAACTTTGA
1 AACTGTGGAAAATAAATGGCTCCTT-TGAATAGAGGCAACAAACTTTGA
9428116 CAAAATAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
49 11 0.25
50 33 0.75
ACGTcount: A:0.40, C:0.13, G:0.19, T:0.28
Consensus pattern (49 bp):
AACTGTGGAAAATAAATGGCTCCTTTGAATAGAGGCAACAAACTTTGAA
Found at i:9428582 original size:19 final size:20
Alignment explanation
Indices: 9428560--9428598 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
9428550 GGTTTTACAC
9428560 CTCAAAGATTCTT-TTTGAA
1 CTCAAAGATTCTTCTTTGAA
9428579 CTCAAAGATTCTTCTTTGAA
1 CTCAAAGATTCTTCTTTGAA
9428599 ATTCACATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (20 bp):
CTCAAAGATTCTTCTTTGAA
Found at i:9429535 original size:8 final size:8
Alignment explanation
Indices: 9429522--9429559 Score: 58
Period size: 8 Copynumber: 4.8 Consensus size: 8
9429512 GTCCTCTTTT
9429522 TTTTTTAA
1 TTTTTTAA
9429530 TTTTTTAA
1 TTTTTTAA
* *
9429538 TTTTTCAT
1 TTTTTTAA
9429546 TTTTTTAA
1 TTTTTTAA
9429554 TTTTTT
1 TTTTTT
9429560 TTTCAAGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTAA
Found at i:9429535 original size:9 final size:9
Alignment explanation
Indices: 9429521--9429560 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
9429511 AGTCCTCTTT
9429521 TTTTTTTAA
1 TTTTTTTAA
9429530 -TTTTTTAA
1 TTTTTTTAA
*
9429538 --TTTTTCA
1 TTTTTTTAA
9429545 TTTTTTTAA
1 TTTTTTTAA
9429554 TTTTTTT
1 TTTTTTT
9429561 TTCAAGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
7 6 0.22
8 8 0.30
9 13 0.48
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:9433134 original size:9 final size:9
Alignment explanation
Indices: 9433109--9433144 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
9433099 AAAATGCATC
9433109 CAATAGCAG
1 CAATAGCAG
* *
9433118 TAACAGCAG
1 CAATAGCAG
9433127 CAATAGCAG
1 CAATAGCAG
9433136 CAATAGCAG
1 CAATAGCAG
9433145 TAGCAATAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.11
Consensus pattern (9 bp):
CAATAGCAG
Found at i:9433136 original size:12 final size:12
Alignment explanation
Indices: 9433131--9433185 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
9433121 CAGCAGCAAT
9433131 AGCAGCAATAGC
1 AGCAGCAATAGC
*
9433143 AGTAGCAATAGC
1 AGCAGCAATAGC
* * *
9433155 AACAACAATAAC
1 AGCAGCAATAGC
*
9433167 AGCAACAATAGC
1 AGCAGCAATAGC
9433179 AGCAGCA
1 AGCAGCA
9433186 GTAATAGCAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.49, C:0.24, G:0.18, T:0.09
Consensus pattern (12 bp):
AGCAGCAATAGC
Found at i:9433216 original size:12 final size:12
Alignment explanation
Indices: 9433196--9433256 Score: 86
Period size: 12 Copynumber: 5.1 Consensus size: 12
9433186 GTAATAGCAA
*
9433196 TAGCAGTAGTGG
1 TAGCAGTAGTAG
*
9433208 TAACAGTAGTAG
1 TAGCAGTAGTAG
9433220 TAGCAGTAGTAG
1 TAGCAGTAGTAG
*
9433232 TAGCAGTAGCAG
1 TAGCAGTAGTAG
*
9433244 TAGTAGTAGTAG
1 TAGCAGTAGTAG
9433256 T
1 T
9433257 GTCAAATACC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 43 1.00
ACGTcount: A:0.33, C:0.08, G:0.33, T:0.26
Consensus pattern (12 bp):
TAGCAGTAGTAG
Found at i:9433220 original size:3 final size:3
Alignment explanation
Indices: 9433212--9433256 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
9433202 TAGTGGTAAC
* * *
9433212 AGT AGT AGT AGC AGT AGT AGT AGC AGT AGC AGT AGT AGT AGT AGT
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT AGT
9433257 GTCAAATACC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.27
Consensus pattern (3 bp):
AGT
Found at i:9433227 original size:6 final size:6
Alignment explanation
Indices: 9433190--9433252 Score: 63
Period size: 6 Copynumber: 10.5 Consensus size: 6
9433180 GCAGCAGTAA
* ** * * *
9433190 TAGCAA TAGCAG TAGTGG TAACAG TAGTAG TAGCAG TAGTAG TAGCAG
1 TAGCAG TAGCAG TAGCAG TAGCAG TAGCAG TAGCAG TAGCAG TAGCAG
*
9433238 TAGCAG TAGTAG TAG
1 TAGCAG TAGCAG TAG
9433253 TAGTGTCAAA
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.35, C:0.10, G:0.32, T:0.24
Consensus pattern (6 bp):
TAGCAG
Found at i:9433271 original size:7 final size:7
Alignment explanation
Indices: 9433259--9433283 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9433249 GTAGTAGTGT
9433259 CAAATAC
1 CAAATAC
9433266 CAAATAC
1 CAAATAC
9433273 CAAATAC
1 CAAATAC
9433280 CAAA
1 CAAA
9433284 ACATTTGATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (7 bp):
CAAATAC
Found at i:9436840 original size:31 final size:31
Alignment explanation
Indices: 9436799--9436874 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 31
9436789 TTATAAAACG
**
9436799 TTACAAATGAAATTCAA-GTGCATTAATATT
1 TTACAAATGAAATAAAACGTGCATTAATATT
*
9436829 TTATCAAATGAAATAAAACGTGCCTTAATATT
1 TTA-CAAATGAAATAAAACGTGCATTAATATT
9436861 TTACTAAATGAAAT
1 TTAC-AAATGAAAT
9436875 CAAATAAAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
30 3 0.08
31 13 0.32
32 24 0.60
ACGTcount: A:0.45, C:0.11, G:0.09, T:0.36
Consensus pattern (31 bp):
TTACAAATGAAATAAAACGTGCATTAATATT
Found at i:9438373 original size:22 final size:22
Alignment explanation
Indices: 9438345--9438419 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 22
9438335 TAGAATAATG
9438345 TTTATTAATATAATATTATTTA
1 TTTATTAATATAATATTATTTA
*
9438367 TTTATTAATATATTA-T-TTTA
1 TTTATTAATATAATATTATTTA
** *
9438387 AATA-TATTATAATATTATTTA
1 TTTATTAATATAATATTATTTA
*
9438408 TTAATATAATAT
1 TTTAT-TAATAT
9438420 TTATTAAAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
19 8 0.20
20 7 0.17
21 6 0.15
22 14 0.35
23 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTATTAATATAATATTATTTA
Found at i:9438381 original size:19 final size:19
Alignment explanation
Indices: 9438345--9438469 Score: 97
Period size: 17 Copynumber: 6.8 Consensus size: 19
9438335 TAGAATAATG
9438345 TTTATTAATATAATA-TTA
1 TTTATTAATATAATATTTA
*
9438363 TTTATTTAT-TAATATATTA
1 TTTATTAATATAATAT-TTA
*
9438382 TTT-TAAATATATTATAATATTA
1 TTTATTAATATA--AT-AT-TTA
9438404 TTTATTAATATAATATTTA
1 TTTATTAATATAATATTTA
9438423 -TTA--AA-ATAATATTTA
1 TTTATTAATATAATATTTA
* * *
9438438 TATAATAA-A-AATATTAA
1 TTTATTAATATAATATTTA
9438455 TTTATTAATATAATA
1 TTTATTAATATAATA
9438470 ATTGTTATGT
Statistics
Matches: 87, Mismatches: 8, Indels: 23
0.74 0.07 0.19
Matches are distributed among these distances:
15 10 0.11
16 4 0.05
17 18 0.21
18 18 0.21
19 15 0.17
20 2 0.02
21 4 0.05
22 9 0.10
23 7 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTATTAATATAATATTTA
Found at i:9438384 original size:15 final size:15
Alignment explanation
Indices: 9438364--9438444 Score: 70
Period size: 15 Copynumber: 5.9 Consensus size: 15
9438354 ATAATATTAT
9438364 TTATTTATTAATATA
1 TTATTTATTAATATA
9438379 TTA-TT-TTAA-ATA
1 TTATTTATTAATATA
9438391 -TA-TTA-T-A-ATA
1 TTATTTATTAATATA
9438401 TTATTTATTAATATA
1 TTATTTATTAATATA
* *
9438416 ATATTTATTAAAATA
1 TTATTTATTAATATA
*
9438431 ATATTTATATAATA
1 TTATTTAT-TAATA
9438445 AAAATATTAA
Statistics
Matches: 56, Mismatches: 3, Indels: 13
0.78 0.04 0.18
Matches are distributed among these distances:
10 4 0.07
11 7 0.12
12 6 0.11
13 5 0.09
14 3 0.05
15 27 0.48
16 4 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATTTATTAATATA
Done.