Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr6
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: 44797108
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 921406 characters in sequence are not A, C, G, or T
File 53 of 144
Found at i:16488546 original size:46 final size:44
Alignment explanation
Indices: 16488494--16488580 Score: 115
Period size: 44 Copynumber: 1.9 Consensus size: 44
16488484 ATAGAGTTGT
16488494 AATGGAATA-AAGCTGTAATCAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAA-CTGTAAT-AGT-ATTC-ATGTGTTTGGTTGAATGG
*
16488540 AATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAA
1 AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAA
16488581 CGGAGATGTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
43 1 0.03
44 16 0.42
45 3 0.08
46 16 0.42
47 2 0.05
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATGTGTTTGGTTGAATGG
Found at i:16488758 original size:53 final size:58
Alignment explanation
Indices: 16488688--16488808 Score: 162
Period size: 53 Copynumber: 2.2 Consensus size: 58
16488678 TTTTAATAAG
* *
16488688 ATTATTATTAAAAATAATTTAAT-AAA-AA-A-ATAATTTAACCATATT-TTAACATA
1 ATTATTATTAAAAATAATTTAATAAAATAATATATAATTTAACAAAATTCTTAACATA
* * *
16488741 ATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTCTTAATATA
1 ATTATTATTAAAAATAATTTAATAAAATAATATATAATTTAACAAAATTCTTAACATA
16488799 ATTATTATTA
1 ATTATTATTA
16488809 TATGAATTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
53 22 0.38
54 3 0.05
55 2 0.03
56 1 0.02
57 13 0.22
58 17 0.29
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (58 bp):
ATTATTATTAAAAATAATTTAATAAAATAATATATAATTTAACAAAATTCTTAACATA
Found at i:16488829 original size:58 final size:57
Alignment explanation
Indices: 16488733--16488845 Score: 140
Period size: 58 Copynumber: 1.9 Consensus size: 57
16488723 TAACCATATT
* **
16488733 TTAACATAATTATTATTAAATATAATTTAATAAAATAATATATAATTTAATAAAATTC
1 TTAACATAATTATTATT-AATATAATTTAAAAAAATAATATATAATACAATAAAATTC
*
16488791 TTAATATAATTATTATT-ATATGAA-TTAAAAAATCATAATATATAATACAATAAAA
1 TTAACATAATTATTATTAATAT-AATTTAAAAAA--ATAATATATAATACAATAAAA
16488846 ATAATTATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
56 11 0.23
57 2 0.04
58 35 0.73
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.41
Consensus pattern (57 bp):
TTAACATAATTATTATTAATATAATTTAAAAAAATAATATATAATACAATAAAATTC
Found at i:16490513 original size:17 final size:17
Alignment explanation
Indices: 16490491--16490527 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
16490481 TTTTATTTAA
16490491 ATAAAATCTAAAACTCC
1 ATAAAATCTAAAACTCC
16490508 ATAAAATCTAAAACTCC
1 ATAAAATCTAAAACTCC
16490525 ATA
1 ATA
16490528 TTCTTTGCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (17 bp):
ATAAAATCTAAAACTCC
Found at i:16490826 original size:17 final size:18
Alignment explanation
Indices: 16490804--16490839 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16490794 GTTTTAAATG
16490804 AAACATA-TCAAAAATAA
1 AAACATATTCAAAAATAA
*
16490821 AAACATATTGAAAAATAA
1 AAACATATTCAAAAATAA
16490839 A
1 A
16490840 TATAACCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.69, C:0.08, G:0.03, T:0.19
Consensus pattern (18 bp):
AAACATATTCAAAAATAA
Found at i:16491260 original size:12 final size:12
Alignment explanation
Indices: 16491243--16491267 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
16491233 TTACAACTAC
16491243 TAATATTAACAA
1 TAATATTAACAA
16491255 TAATATTAACAA
1 TAATATTAACAA
16491267 T
1 T
16491268 TAACTTCATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (12 bp):
TAATATTAACAA
Found at i:16493639 original size:51 final size:51
Alignment explanation
Indices: 16493534--16493631 Score: 169
Period size: 51 Copynumber: 1.9 Consensus size: 51
16493524 ATTTAGCATT
* *
16493534 CAATCATAATAATTCCCATACATTTAGAACTATAACATAAACATGATCAAA
1 CAATAATAATAATTCCCATACACTTAGAACTATAACATAAACATGATCAAA
*
16493585 CAATAATAATAATTCCCATACGCTTAGAACTATAACATAAACATGAT
1 CAATAATAATAATTCCCATACACTTAGAACTATAACATAAACATGAT
16493632 TAGACAATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 44 1.00
ACGTcount: A:0.48, C:0.19, G:0.05, T:0.28
Consensus pattern (51 bp):
CAATAATAATAATTCCCATACACTTAGAACTATAACATAAACATGATCAAA
Found at i:16494217 original size:12 final size:13
Alignment explanation
Indices: 16494200--16494231 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
16494190 GTAAAATTAT
16494200 TAAATATTAAA-A
1 TAAATATTAAATA
16494212 TAAATA-TAAATA
1 TAAATATTAAATA
16494224 TAAATATT
1 TAAATATT
16494232 TTTTAAATCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 4 0.22
12 13 0.72
13 1 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAATATTAAATA
Found at i:16494900 original size:117 final size:117
Alignment explanation
Indices: 16494694--16494927 Score: 423
Period size: 117 Copynumber: 2.0 Consensus size: 117
16494684 TTAGTCATTA
*
16494694 ACCATACGATATGTACTACTAAAATCATCCAAAACATCCAAGACATGTTCAAAACGTCATTAAGA
1 ACCATACGATATGTAATACTAAAATCATCCAAAACATCCAAGACATGTTCAAAACGTCATTAAGA
*
16494759 CTCCACAATACTTCTTAATGACCTAGATACATGTTGTATGTAACCTATCAAG
66 CTCCACAATACTTCTTAATGACCTAGATACATGTTGTATATAACCTATCAAG
* *
16494811 ACCATACGATATGTAATACTAAAATCATCCAAAACATCTAAGCCATGTTCAAAACGTCATTAAGA
1 ACCATACGATATGTAATACTAAAATCATCCAAAACATCCAAGACATGTTCAAAACGTCATTAAGA
*
16494876 CTCCACAATACTTCTTAATGACCTAGATACATGTTGTATATGACCTATCAAG
66 CTCCACAATACTTCTTAATGACCTAGATACATGTTGTATATAACCTATCAAG
16494928 GTAAGCACAT
Statistics
Matches: 112, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
117 112 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (117 bp):
ACCATACGATATGTAATACTAAAATCATCCAAAACATCCAAGACATGTTCAAAACGTCATTAAGA
CTCCACAATACTTCTTAATGACCTAGATACATGTTGTATATAACCTATCAAG
Found at i:16495480 original size:23 final size:23
Alignment explanation
Indices: 16495453--16495508 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
16495443 AACACTCCAT
*
16495453 AGAATGAATCCCACC-AAGATGCC
1 AGAATGAATCACACCGAAG-TGCC
* *
16495476 AGAATGGATCACACCGAAGTGTC
1 AGAATGAATCACACCGAAGTGCC
16495499 AGAATGAATC
1 AGAATGAATC
16495509 GCATTAAAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 25 0.89
24 3 0.11
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.16
Consensus pattern (23 bp):
AGAATGAATCACACCGAAGTGCC
Found at i:16496288 original size:2 final size:2
Alignment explanation
Indices: 16496281--16496335 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
16496271 ACTAATAAAG
16496281 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
16496323 TC TC TC TC TC TC T
1 TC TC TC TC TC TC T
16496336 TTATACACAC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:16502489 original size:21 final size:19
Alignment explanation
Indices: 16502418--16502507 Score: 73
Period size: 18 Copynumber: 4.8 Consensus size: 19
16502408 TTTTTAGTTT
*
16502418 TTATTATATTGTTAATATTA
1 TTATTATA-TGTTATTATTA
*
16502438 TTTATT-TACGTTATTATTA
1 -TTATTATATGTTATTATTA
* *
16502457 CT-GTAT-TGTTATTAGTTTA
1 TTATTATATGTTATTA--TTA
16502476 TTATTATATGTTA-TATTA
1 TTATTATATGTTATTATTA
16502494 TTATTATAT-TTATT
1 TTATTATATGTTATT
16502508 TATATAGGCG
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
17 11 0.20
18 15 0.27
19 13 0.23
20 7 0.12
21 10 0.18
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.62
Consensus pattern (19 bp):
TTATTATATGTTATTATTA
Found at i:16502871 original size:24 final size:25
Alignment explanation
Indices: 16502822--16502887 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 25
16502812 TATACTATGC
16502822 TTATATTTTTTTATATAAGC-TTTT
1 TTATATTTTTTTATATAAGCTTTTT
*
16502846 TTATATTTTTTTGAT-TATG-TTATTT
1 TTATATTTTTTT-ATATAAGCTT-TTT
16502871 TTATTATTTTTTGTATA
1 TTA-TATTTTTT-TATA
16502888 CATGTATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
24 16 0.46
25 8 0.23
26 10 0.29
27 1 0.03
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.70
Consensus pattern (25 bp):
TTATATTTTTTTATATAAGCTTTTT
Found at i:16504477 original size:13 final size:13
Alignment explanation
Indices: 16504447--16504471 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16504437 GGCACATGGG
16504447 TGTGTGGCCAGCC
1 TGTGTGGCCAGCC
16504460 TGTGTGGCCAGC
1 TGTGTGGCCAGC
16504472 TCGTGTAGAA
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:0.08, C:0.28, G:0.40, T:0.24
Consensus pattern (13 bp):
TGTGTGGCCAGCC
Found at i:16522679 original size:21 final size:20
Alignment explanation
Indices: 16522638--16522679 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 20
16522628 ATTTATAATT
16522638 AAATTAAAATTTTTATGATATA
1 AAATTAAAATTTTT-T-ATATA
16522660 AAATTAAATATTTTTTATAT
1 AAATTAAA-ATTTTTTATAT
16522680 TTAACATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 9 0.47
23 6 0.32
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
AAATTAAAATTTTTTATATA
Found at i:16523814 original size:11 final size:12
Alignment explanation
Indices: 16523751--16523816 Score: 79
Period size: 11 Copynumber: 5.8 Consensus size: 12
16523741 AACTAATCCT
16523751 CTCTCAAATTTC
1 CTCTCAAATTTC
16523763 CTCTC-AATTTC
1 CTCTCAAATTTC
*
16523774 CTCTC-AATTTG
1 CTCTCAAATTTC
16523785 CTCTCAAA-TTC
1 CTCTCAAATTTC
16523796 CT-TCCAAATTT-
1 CTCT-CAAATTTC
16523807 CTCTCAAATT
1 CTCTCAAATT
16523817 CATATTTAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 9
0.81 0.03 0.15
Matches are distributed among these distances:
10 1 0.02
11 37 0.77
12 10 0.21
ACGTcount: A:0.24, C:0.32, G:0.02, T:0.42
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:16523874 original size:51 final size:51
Alignment explanation
Indices: 16523775--16523874 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
16523765 CTCAATTTCC
* *
16523775 TCTCAATTTGCTCTCAAATTCCTTCCAAATTTCTCTCAAATTCATATTTAA
1 TCTCAATTTGCTCTCAAATTCCTTCCAAATTTATCTCAAATCCATATTTAA
* * * *
16523826 TCTCAATTTGCTCTCAAGTTCC-TCTTAAATTTATCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAAATTCCTTC-CAAATTTATCTCAAATCCATATTT
16523875 TTAAATAATT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 2 0.05
51 40 0.95
ACGTcount: A:0.27, C:0.25, G:0.03, T:0.45
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAAATTCCTTCCAAATTTATCTCAAATCCATATTTAA
Found at i:16525702 original size:17 final size:18
Alignment explanation
Indices: 16525676--16525709 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16525666 CAAGTGCGAT
*
16525676 TCCTAGCCTTT-TATGTA
1 TCCTAACCTTTATATGTA
16525693 TCCTAACCTTTATATGT
1 TCCTAACCTTTATATGT
16525710 TTCATTTTCC
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:0.21, C:0.24, G:0.09, T:0.47
Consensus pattern (18 bp):
TCCTAACCTTTATATGTA
Found at i:16526321 original size:22 final size:22
Alignment explanation
Indices: 16526293--16526980 Score: 697
Period size: 22 Copynumber: 31.7 Consensus size: 22
16526283 CACTAACTCT
*
16526293 AACCCTTAACTTAAAAACCTTA
1 AACCCTTAACTTAAAAACCCTA
* *
16526315 AACCCTTAAATTAAAAACCATA
1 AACCCTTAACTTAAAAACCCTA
* *
16526337 AACCCTTAACTTAAAATCCAT-
1 AACCCTTAACTTAAAAACCCTA
*
16526358 AACCATTAACTTAAAAACCCTA
1 AACCCTTAACTTAAAAACCCTA
*
16526380 AACCCTTAACTTAAAAACCATA
1 AACCCTTAACTTAAAAACCCTA
*
16526402 AACCCTTAACCTAAAAACCCT-
1 AACCCTTAACTTAAAAACCCTA
* **
16526423 AACCCTTAATTTAAAAACTATA
1 AACCCTTAACTTAAAAACCCTA
* * *
16526445 AGCCCTTAAATTAAAAACCATA
1 AACCCTTAACTTAAAAACCCTA
*
16526467 AACCCTTAACTTTAAAACCCTA
1 AACCCTTAACTTAAAAACCCTA
* *
16526489 AACCTTTAACTTTAAAACCCTA
1 AACCCTTAACTTAAAAACCCTA
*
16526511 AACCCTTAACTTAAAAACCTTA
1 AACCCTTAACTTAAAAACCCTA
* * * *
16526533 AA-CATTAAAACCCT--AAAACCCTA
1 AACCCTT--AA-CTTAAAAACCCT-A
* *
16526556 AACCCTTAAATTAAAAACCATA
1 AACCCTTAACTTAAAAACCCTA
*
16526578 AACTCTTAACTTAAAAACCCT-
1 AACCCTTAACTTAAAAACCCTA
* * *
16526599 AATCCTTAACATAAAAACCATA
1 AACCCTTAACTTAAAAACCCTA
**
16526621 AACCCTTAACTTAAAAACTGT-
1 AACCCTTAACTTAAAAACCCTA
* *
16526642 GACCCTTAAATTAAAAACCCTA
1 AACCCTTAACTTAAAAACCCTA
* *
16526664 AACACTTAACTTTAAAACCCTA
1 AACCCTTAACTTAAAAACCCTA
16526686 AACCCTTAACTTAAAAACCCTA
1 AACCCTTAACTTAAAAACCCTA
* * *
16526708 ACCCCTTATCTTAAAAACCTTA
1 AACCCTTAACTTAAAAACCCTA
*
16526730 AA-CCTTAAAACCCT-AAAACCCTA
1 AACCCTT--AA-CTTAAAAACCCTA
*
16526753 AACCCTTAAATTAAAAACCCTA
1 AACCCTTAACTTAAAAACCCTA
*
16526775 AGCCCTTAACTTAAAAACCCT-
1 AACCCTTAACTTAAAAACCCTA
*
16526796 AACCATTAACTTAAAAACCCTA
1 AACCCTTAACTTAAAAACCCTA
*
16526818 AACCCTTAACTTAAAAA-CCTT
1 AACCCTTAACTTAAAAACCCTA
*
16526839 AACCCTTAACTTTAAAACCCTA
1 AACCCTTAACTTAAAAACCCTA
**
16526861 AACCCTTAACTTAAAAA-TGT-
1 AACCCTTAACTTAAAAACCCTA
* * *
16526881 AACCCTTAAATAAAAAACACTA
1 AACCCTTAACTTAAAAACCCTA
* *
16526903 AACCCTTAACTTTAAAA-CCTT
1 AACCCTTAACTTAAAAACCCTA
* * *
16526924 AACCATTAAATAAAAAACCCT-
1 AACCCTTAACTTAAAAACCCTA
* *
16526945 AACACTTAACTTAAAAA-CCTT
1 AACCCTTAACTTAAAAACCCTA
*
16526966 AGCCCTTAACTTAAA
1 AACCCTTAACTTAAA
16526981 TATAATTTGA
Statistics
Matches: 547, Mismatches: 97, Indels: 45
0.79 0.14 0.07
Matches are distributed among these distances:
20 18 0.03
21 159 0.29
22 339 0.62
23 20 0.04
24 11 0.02
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (22 bp):
AACCCTTAACTTAAAAACCCTA
Found at i:16526384 original size:43 final size:43
Alignment explanation
Indices: 16526293--16526980 Score: 708
Period size: 43 Copynumber: 15.8 Consensus size: 43
16526283 CACTAACTCT
* * *
16526293 AACCCTTAACTTAAAAACCTTAAACCCTTAAATTAAAAACCATA
1 AACCCTTAACTTAAAAACCAT-AACCCTTAACTTAAAAACCCTA
* *
16526337 AACCCTTAACTTAAAATCCATAACCATTAACTTAAAAACCCTA
1 AACCCTTAACTTAAAAACCATAACCCTTAACTTAAAAACCCTA
*
16526380 AACCCTTAACTTAAAAACCATAAACCCTTAACCTAAAAACCCT-
1 AACCCTTAACTTAAAAACCAT-AACCCTTAACTTAAAAACCCTA
* * * *
16526423 AACCCTTAATTTAAAAACTATAAGCCCTTAAATTAAAAACCATA
1 AACCCTTAACTTAAAAACCATAA-CCCTTAACTTAAAAACCCTA
* * * *
16526467 AACCCTTAACTTTAAAACCCTAAACCTTTAACTTTAAAACCCTA
1 AACCCTTAACTTAAAAACCAT-AACCCTTAACTTAAAAACCCTA
* * * *
16526511 AACCCTTAACTTAAAAACCTTAAACATTAAAACCCT-AAAACCCTA
1 AACCCTTAACTTAAAAACCATAACCCTT--AA-CTTAAAAACCCTA
* *
16526556 AACCCTTAAATTAAAAACCATAAACTCTTAACTTAAAAACCCT-
1 AACCCTTAACTTAAAAACCAT-AACCCTTAACTTAAAAACCCTA
* * **
16526599 AATCCTTAACATAAAAACCATAAACCCTTAACTTAAAAACTGT-
1 AACCCTTAACTTAAAAACCAT-AACCCTTAACTTAAAAACCCTA
* * * * *
16526642 GACCCTTAAATTAAAAACCCTAAACACTTAACTTTAAAACCCTA
1 AACCCTTAACTTAAAAACCAT-AACCCTTAACTTAAAAACCCTA
* * *
16526686 AACCCTTAACTTAAAAACCCTAACCCCTTATCTTAAAAACCTTA
1 AACCCTTAACTTAAAAACCATAA-CCCTTAACTTAAAAACCCTA
* * *
16526730 AA-CCTTAAAACCCT-AAAACCCTAAACCCTTAAATTAAAAACCCTA
1 AACCCTT--AA-CTTAAAAACCAT-AACCCTTAACTTAAAAACCCTA
* * *
16526775 AGCCCTTAACTTAAAAACCCTAACCATTAACTTAAAAACCCTA
1 AACCCTTAACTTAAAAACCATAACCCTTAACTTAAAAACCCTA
* *
16526818 AACCCTTAACTTAAAAACCTTAACCCTTAACTTTAAAACCCTA
1 AACCCTTAACTTAAAAACCATAACCCTTAACTTAAAAACCCTA
** * * *
16526861 AACCCTTAACTTAAAAA-TGTAACCCTTAAATAAAAAACACTA
1 AACCCTTAACTTAAAAACCATAACCCTTAACTTAAAAACCCTA
* * * * *
16526903 AACCCTTAACTTTAAAACCTTAACCATTAAATAAAAAACCCT-
1 AACCCTTAACTTAAAAACCATAACCCTTAACTTAAAAACCCTA
* * *
16526945 AACACTTAACTTAAAAACCTTAGCCCTTAACTTAAA
1 AACCCTTAACTTAAAAACCATAACCCTTAACTTAAA
16526981 TATAATTTGA
Statistics
Matches: 544, Mismatches: 82, Indels: 38
0.82 0.12 0.06
Matches are distributed among these distances:
42 67 0.12
43 256 0.47
44 147 0.27
45 60 0.11
46 14 0.03
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (43 bp):
AACCCTTAACTTAAAAACCATAACCCTTAACTTAAAAACCCTA
Found at i:16526677 original size:197 final size:195
Alignment explanation
Indices: 16526293--16526980 Score: 842
Period size: 197 Copynumber: 3.5 Consensus size: 195
16526283 CACTAACTCT
* * * * * *
16526293 AACCCTTAACTTAAAAACCTTAAACCCTTAAATTAAAAACCATAAACCCTT--AA-CTTAAAATC
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCTTAAA-CATTAAAACCCTAAAACC
* * * *
16526355 C-ATAACCATTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCATAAACCCTTAACCTAAAAA
65 CTA-AACCCTTAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AA-CCTTAACATAAAAA
* *
16526419 CCCT-AACCCTTAATTTAAAAACTATAAGCCCTTAAATTAAAAACCATAAACCCTTAACTTTAAA
127 CCCTAAACCCTTAACTTAAAAACT-TAA-CCCTTAAATTAAAAACCCTAAACCCTTAACTTTAAA
16526483 ACCCTA
190 ACCCTA
* *
16526489 AACCTTTAACTTTAAAACCCTAAACCCTTAACTTAAAAACCTTAAACATTAAAACCCTAAAACCC
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCTTAAACATTAAAACCCTAAAACCC
* * *
16526554 TAAACCCTTAAATTAAAAACCATAAACTCTTAACTTAAAAACCCTAATCCTTAACATAAAAACCA
66 TAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAA-CCTTAACATAAAAACCC
* *
16526619 TAAACCCTTAACTTAAAAACTGTGACCCTTAAATTAAAAACCCTAAACACTTAACTTTAAAACCC
130 TAAACCCTTAACTTAAAAACT-TAACCCTTAAATTAAAAACCCTAAACCCTTAACTTTAAAACCC
16526684 TA
194 TA
* * *
16526686 AACCCTTAACTTAAAAACCCTAACCCCTTATCTTAAAAACCTTAAACCTTAAAACCCTAAAACCC
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCTTAAACATTAAAACCCTAAAACCC
* *
16526751 TAAACCCTTAAATTAAAAACCCTAAGCCCTTAACTTAAAAACCCTAACCATTAACTTAAAAACCC
66 TAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACC-TTAACATAAAAACCC
* * ***
16526816 TAAACCCTTAACTTAAAAACCTTAACCCTTAACTTTAAAACCCTAAACCCTTAAC-TTAAAAATG
130 TAAACCCTTAACTTAAAAA-CTTAACCCTTAAATTAAAAACCCTAAACCCTTAACTTTAAAACCC
16526880 T-
194 TA
* * * * * *
16526881 AACCCTTAAATAAAAAACACTAAACCCTTAACTTTAAAACCTTAACCATTAAATA---AAAAACC
1 AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCTTAAACATTAAA-ACCCTAAAACC
* * * *
16526943 CT-AACACTTAACTTAAAAA-CCTTAGCCCTTAACTTAAA
65 CTAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAAA
16526981 TATAATTTGA
Statistics
Matches: 434, Mismatches: 50, Indels: 21
0.86 0.10 0.04
Matches are distributed among these distances:
191 18 0.04
192 15 0.03
193 8 0.02
195 48 0.11
196 51 0.12
197 225 0.52
198 68 0.16
199 1 0.00
ACGTcount: A:0.47, C:0.27, G:0.01, T:0.25
Consensus pattern (195 bp):
AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCTTAAACATTAAAACCCTAAAACCC
TAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCTTAACATAAAAACCCT
AAACCCTTAACTTAAAAACTTAACCCTTAAATTAAAAACCCTAAACCCTTAACTTTAAAACCCTA
Found at i:16526736 original size:16 final size:16
Alignment explanation
Indices: 16526717--16526771 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
16526707 AACCCCTTAT
16526717 CTTAAAAACCTTAAAC
1 CTTAAAAACCTTAAAC
* *
16526733 CTTAAAACCCTAAAAC
1 CTTAAAAACCTTAAAC
* *
16526749 CCT-AAACCCTTAAA-
1 CTTAAAAACCTTAAAC
16526763 -TTAAAAACC
1 CTTAAAAACC
16526772 CTAAGCCCTT
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
13 1 0.03
14 5 0.16
15 10 0.31
16 16 0.50
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (16 bp):
CTTAAAAACCTTAAAC
Found at i:16530300 original size:124 final size:125
Alignment explanation
Indices: 16530134--16530445 Score: 466
Period size: 125 Copynumber: 2.5 Consensus size: 125
16530124 CCCAAACATG
* *
16530134 CTACTTTAGCAAAAGCGCGTCCAC-ATGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTCCACGA-GGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTG
16530198 CTAGAAGCGATTTTAT-ACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
65 CTAGAAGCGATTTTATAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
16530258 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * *
16530323 TTGAAGTGTTTTTTTAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
66 TAGAAGCGATTTTATAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
* * ** * * * * *
16530383 CTACTGTAGCAAAAGCGCGTACACGTGACCGCGACTTCAAAAATCCTTCTGATAAATCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCT
16530446 ACTTTGATTT
Statistics
Matches: 171, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
124 72 0.42
125 99 0.58
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TAGAAGCGATTTTATAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTCCAGGAC
Found at i:16530690 original size:40 final size:40
Alignment explanation
Indices: 16530646--16530723 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
16530636 CAAATCGCGT
* * *
16530646 CCACGTTAGCAAAGCGCGCTGACGTGGACGCGATTTGCCG
1 CCACGTCAGCAAACCGCGCTGACGTGGACACGATTTGCCG
* *
16530686 CCACGTCATCAAACCGCGCTGATGTGGACACGATTTGC
1 CCACGTCAGCAAACCGCGCTGACGTGGACACGATTTGC
16530724 TGACAAGTCC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19
Consensus pattern (40 bp):
CCACGTCAGCAAACCGCGCTGACGTGGACACGATTTGCCG
Found at i:16532640 original size:12 final size:12
Alignment explanation
Indices: 16532623--16532665 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
16532613 ATTCAGCGTT
16532623 ATCATCACCGTC
1 ATCATCACCGTC
*
16532635 ATCATCACCATC
1 ATCATCACCGTC
**
16532647 ATCATCGTCGTC
1 ATCATCACCGTC
16532659 ATCATCA
1 ATCATCA
16532666 TCACTTTCTC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.28, C:0.37, G:0.07, T:0.28
Consensus pattern (12 bp):
ATCATCACCGTC
Found at i:16534133 original size:72 final size:72
Alignment explanation
Indices: 16534027--16534199 Score: 226
Period size: 72 Copynumber: 2.4 Consensus size: 72
16534017 AAATCATATT
** ** *
16534027 TAAACAACTATTGATAAAAACTA-ATTTAGTATAAATATGTAGAACATAAAATCAATATCCAAAG
1 TAAACAACTATTGAT-AAAACTAGATTTAACATAAATAAATAGAACATAAAATCAATATCCAAAA
16534091 ACCAAACA
65 ACCAAACA
* *
16534099 TAAACAACTATTAATAAAACTAGA-TTACACATAAATAAATAGAACATAAATTCAATATCCAAAA
1 TAAACAACTATTGATAAAACTAGATTTA-ACATAAATAAATAGAACATAAAATCAATATCCAAAA
16534163 ACCAAACA
65 ACCAAACA
* *
16534171 TAAATAAATATTGATAAAACTAG-TTTAAC
1 TAAACAACTATTGATAAAACTAGATTTAAC
16534200 GTTGTTGTTT
Statistics
Matches: 88, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
71 12 0.14
72 76 0.86
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.25
Consensus pattern (72 bp):
TAAACAACTATTGATAAAACTAGATTTAACATAAATAAATAGAACATAAAATCAATATCCAAAAA
CCAAACA
Found at i:16534648 original size:18 final size:18
Alignment explanation
Indices: 16534625--16534690 Score: 87
Period size: 18 Copynumber: 3.7 Consensus size: 18
16534615 CCCATCAATT
16534625 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
16534643 TGAACATCATTTGAAATA
1 TGAACATCATTTGAAATG
** **
16534661 TTCACATCATTCAAAATG
1 TGAACATCATTTGAAATG
16534679 TGAACATCATTT
1 TGAACATCATTT
16534691 CTCATATTCT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 39 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:16535422 original size:20 final size:20
Alignment explanation
Indices: 16535397--16535439 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
16535387 TTTACATGTG
16535397 TATGAAAATACATATTCTAA
1 TATGAAAATACATATTCTAA
16535417 TATGAAAATACATATTCTAA
1 TATGAAAATACATATTCTAA
16535437 TAT
1 TAT
16535440 TAATTTTACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (20 bp):
TATGAAAATACATATTCTAA
Found at i:16536823 original size:11 final size:11
Alignment explanation
Indices: 16536807--16536831 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
16536797 CTTAATGAAA
16536807 AGCAAATCAAC
1 AGCAAATCAAC
16536818 AGCAAATCAAC
1 AGCAAATCAAC
16536829 AGC
1 AGC
16536832 TTCAAAATAT
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:0.52, C:0.28, G:0.12, T:0.08
Consensus pattern (11 bp):
AGCAAATCAAC
Found at i:16536882 original size:19 final size:19
Alignment explanation
Indices: 16536836--16536884 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
16536826 AACAGCTTCA
* *
16536836 AAATATTAAACAGGAGAAG
1 AAATATAAAACAGAAGAAG
* *
16536855 AACTAATAAAACAGAAGAAT
1 AAAT-ATAAAACAGAAGAAG
16536875 AAATATAAAA
1 AAATATAAAA
16536885 GAAACTCTCA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.65, C:0.06, G:0.12, T:0.16
Consensus pattern (19 bp):
AAATATAAAACAGAAGAAG
Found at i:16537972 original size:7 final size:7
Alignment explanation
Indices: 16537960--16537997 Score: 76
Period size: 7 Copynumber: 5.4 Consensus size: 7
16537950 TATGTAATTA
16537960 ATTTTTT
1 ATTTTTT
16537967 ATTTTTT
1 ATTTTTT
16537974 ATTTTTT
1 ATTTTTT
16537981 ATTTTTT
1 ATTTTTT
16537988 ATTTTTT
1 ATTTTTT
16537995 ATT
1 ATT
16537998 ACACCCTATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
ATTTTTT
Found at i:16541148 original size:17 final size:17
Alignment explanation
Indices: 16541126--16541161 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
16541116 CTTCAAGCTA
* *
16541126 TTTTTATGAATTTTTAT
1 TTTTTATAAATTTTAAT
16541143 TTTTTATAAATTTTAAT
1 TTTTTATAAATTTTAAT
16541160 TT
1 TT
16541162 ATTTTTTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (17 bp):
TTTTTATAAATTTTAAT
Found at i:16542438 original size:21 final size:22
Alignment explanation
Indices: 16542405--16542446 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
16542395 ACATTTTCTA
16542405 ATTTTTATAATATA-CATTTTG
1 ATTTTTATAATATACCATTTTG
16542426 ATTTCTTAT-ATATACCATTTT
1 ATTT-TTATAATATACCATTTT
16542447 TTTCACTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.31, C:0.10, G:0.02, T:0.57
Consensus pattern (22 bp):
ATTTTTATAATATACCATTTTG
Found at i:16543543 original size:20 final size:22
Alignment explanation
Indices: 16543518--16543560 Score: 72
Period size: 20 Copynumber: 2.0 Consensus size: 22
16543508 TTTTTAAATT
16543518 TATAAATA-ATATAAT-TAAAA
1 TATAAATACATATAATGTAAAA
16543538 TATAAATACATATAATGTAAAA
1 TATAAATACATATAATGTAAAA
16543560 T
1 T
16543561 CAAATTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 8 0.38
21 7 0.33
22 6 0.29
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (22 bp):
TATAAATACATATAATGTAAAA
Found at i:16543565 original size:21 final size:20
Alignment explanation
Indices: 16543521--16543565 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
16543511 TTAAATTTAT
*
16543521 AAATAATATAATTAAAATAT
1 AAATAATATAATTAAAATAC
16543541 AAATACATATAATGTAAAAT-C
1 AAATA-ATATAAT-TAAAATAC
16543562 AAAT
1 AAAT
16543566 TATTATATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 5 0.23
21 11 0.50
22 6 0.27
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.31
Consensus pattern (20 bp):
AAATAATATAATTAAAATAC
Found at i:16544264 original size:4 final size:4
Alignment explanation
Indices: 16544249--16544279 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
16544239 CTTTACTGTA
*
16544249 ATCC ACCC ATCC ATCC ATCC ATCC ATCC ATC
1 ATCC ATCC ATCC ATCC ATCC ATCC ATCC ATC
16544280 AATCTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.52, G:0.00, T:0.23
Consensus pattern (4 bp):
ATCC
Found at i:16550604 original size:6 final size:6
Alignment explanation
Indices: 16550569--16550603 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
16550559 TGCTCTTTAT
16550569 AAAATAA AAAATA AAAATA AAAATA AAAAGTA AAA
1 AAAAT-A AAAATA AAAATA AAAATA AAAA-TA AAA
16550604 GGAAAGGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 17 0.63
7 10 0.37
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:16551908 original size:26 final size:26
Alignment explanation
Indices: 16551872--16551937 Score: 125
Period size: 26 Copynumber: 2.6 Consensus size: 26
16551862 ATGAAGAGAA
16551872 TCAAAAGAAAGAAAAAACCCGAAACT
1 TCAAAAGAAAGAAAAAACCCGAAACT
16551898 TCAAAAGAAAGAAAAAACCCGAAACT
1 TCAAAAGAAAGAAAAAACCCGAAACT
16551924 TCAAAAGAAA-AAAA
1 TCAAAAGAAAGAAAA
16551938 CCTTAAAACT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
25 4 0.10
26 36 0.90
ACGTcount: A:0.65, C:0.17, G:0.11, T:0.08
Consensus pattern (26 bp):
TCAAAAGAAAGAAAAAACCCGAAACT
Found at i:16565861 original size:7 final size:7
Alignment explanation
Indices: 16565845--16565876 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
16565835 CTAAAGCTAC
*
16565845 CACTTAT
1 CACTTGT
16565852 CACTTGT
1 CACTTGT
16565859 CACTTGT
1 CACTTGT
16565866 CACTTGT
1 CACTTGT
16565873 CACT
1 CACT
16565877 GATCAGATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.09, T:0.41
Consensus pattern (7 bp):
CACTTGT
Found at i:16565868 original size:14 final size:14
Alignment explanation
Indices: 16565845--16565881 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
16565835 CTAAAGCTAC
16565845 CACTTATCACTTGT
1 CACTTATCACTTGT
*
16565859 CACTTGTCACTTGT
1 CACTTATCACTTGT
*
16565873 CACTGATCA
1 CACTTATCA
16565882 GATCAGTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.38
Consensus pattern (14 bp):
CACTTATCACTTGT
Found at i:16565897 original size:58 final size:58
Alignment explanation
Indices: 16565807--16565978 Score: 335
Period size: 58 Copynumber: 3.0 Consensus size: 58
16565797 ATCACATTTA
*
16565807 TCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTG
1 TCACTTGTCACTGATCAGATCAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTG
16565865 TCACTTGTCACTGATCAGATCAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTG
1 TCACTTGTCACTGATCAGATCAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTG
16565923 TCACTTGTCACTGATCAGATCAGTGTAGCTAAAGCTACCACTTATCACTTGTCACT
1 TCACTTGTCACTGATCAGATCAGTGTAGCTAAAGCTACCACTTATCACTTGTCACT
16565979 GATCAGAAGT
Statistics
Matches: 113, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
58 113 1.00
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (58 bp):
TCACTTGTCACTGATCAGATCAGTGTAGCTAAAGCTACCACTTATCACTTGTCACTTG
Found at i:16565919 original size:7 final size:7
Alignment explanation
Indices: 16565903--16565934 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
16565893 CTAAAGCTAC
*
16565903 CACTTAT
1 CACTTGT
16565910 CACTTGT
1 CACTTGT
16565917 CACTTGT
1 CACTTGT
16565924 CACTTGT
1 CACTTGT
16565931 CACT
1 CACT
16565935 GATCAGATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.09, T:0.41
Consensus pattern (7 bp):
CACTTGT
Found at i:16565926 original size:14 final size:14
Alignment explanation
Indices: 16565903--16565939 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
16565893 CTAAAGCTAC
16565903 CACTTATCACTTGT
1 CACTTATCACTTGT
*
16565917 CACTTGTCACTTGT
1 CACTTATCACTTGT
*
16565931 CACTGATCA
1 CACTTATCA
16565940 GATCAGTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.38
Consensus pattern (14 bp):
CACTTATCACTTGT
Found at i:16569782 original size:79 final size:82
Alignment explanation
Indices: 16569671--16569855 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
16569661 GCTACTCGTT
* * *
16569671 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
16569734 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
16569751 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
16569814 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
16569831 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
16569856 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:16569855 original size:40 final size:40
Alignment explanation
Indices: 16569652--16569855 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
16569642 CGGAATTTAA
** *
16569652 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
16569692 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
16569732 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
16569771 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
16569811 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
16569851 CCGGA
1 CCGGA
16569856 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:16572069 original size:21 final size:20
Alignment explanation
Indices: 16572019--16572070 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
16572009 TCATAAAAAG
*
16572019 AAAATTCAAATTTATAATAT
1 AAAATTTAAATTTATAATAT
** * *
16572039 ATTATGTAAATTATATTATAT
1 AAAATTTAAATT-TATAATAT
16572060 AAAATTTAAAT
1 AAAATTTAAAT
16572071 ATACTTAAAT
Statistics
Matches: 23, Mismatches: 8, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
20 8 0.35
21 15 0.65
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (20 bp):
AAAATTTAAATTTATAATAT
Found at i:16577108 original size:11 final size:11
Alignment explanation
Indices: 16577094--16577126 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
16577084 ATTTTATTGA
16577094 TTTTTTAAATT
1 TTTTTTAAATT
16577105 TTTTTTAAATT
1 TTTTTTAAATT
*
16577116 TTTTATAAATT
1 TTTTTTAAATT
16577127 ATACATGGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTTTTAAATT
Found at i:16578305 original size:33 final size:33
Alignment explanation
Indices: 16578262--16578357 Score: 174
Period size: 33 Copynumber: 2.9 Consensus size: 33
16578252 AGAGCATGAA
*
16578262 GGAGAAAGCAGAAGCAGCGAAGCAAAAGACAAT
1 GGAGACAGCAGAAGCAGCGAAGCAAAAGACAAT
16578295 GGAGACAGCAGAAGCAGCGAAGCAAAAGACAAT
1 GGAGACAGCAGAAGCAGCGAAGCAAAAGACAAT
*
16578328 GGAGACAGCAGAAGCAGCGAAGCAGAAGAC
1 GGAGACAGCAGAAGCAGCGAAGCAAAAGAC
16578358 CAGAGGGGCC
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.48, C:0.18, G:0.32, T:0.02
Consensus pattern (33 bp):
GGAGACAGCAGAAGCAGCGAAGCAAAAGACAAT
Found at i:16579022 original size:7 final size:7
Alignment explanation
Indices: 16579012--16579051 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
16579002 CCTTTTAGCT
*
16579012 TTTATGA
1 TTTATAA
16579019 TTTATAAAA
1 TTTAT--AA
16579028 TTTATAA
1 TTTATAA
16579035 TTTATAA
1 TTTATAA
16579042 TTTATAA
1 TTTATAA
16579049 TTT
1 TTT
16579052 TAAATTAGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
7 24 0.80
9 6 0.20
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (7 bp):
TTTATAA
Found at i:16579063 original size:14 final size:14
Alignment explanation
Indices: 16579013--16579063 Score: 50
Period size: 14 Copynumber: 3.5 Consensus size: 14
16579003 CTTTTAGCTT
*
16579013 TTATGATTTATAAAA
1 TTATAATTTAT-AAA
*
16579028 TTTATAATTTATAAT
1 -TTATAATTTATAAA
16579043 TTATAATTT-TAAA
1 TTATAATTTATAAA
16579056 TTAGTAAT
1 TTA-TAAT
16579064 AATAATAAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
13 6 0.19
14 13 0.42
15 2 0.06
16 10 0.32
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (14 bp):
TTATAATTTATAAA
Found at i:16584240 original size:17 final size:17
Alignment explanation
Indices: 16584218--16584251 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16584208 ATTTTATTTT
16584218 TATATAAAAAATTAAAA
1 TATATAAAAAATTAAAA
* *
16584235 TATATAATATATTAAAA
1 TATATAAAAAATTAAAA
16584252 ACATTAAAAT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TATATAAAAAATTAAAA
Found at i:16584525 original size:25 final size:25
Alignment explanation
Indices: 16584497--16584545 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
16584487 TAATGTACAA
16584497 AAACTAATTTACTCATATTTTGAAG
1 AAACTAATTTACTCATATTTTGAAG
16584522 AAACTAATTTACTCATATTTTGAA
1 AAACTAATTTACTCATATTTTGAA
16584546 TAATGAAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (25 bp):
AAACTAATTTACTCATATTTTGAAG
Found at i:16584861 original size:17 final size:16
Alignment explanation
Indices: 16584836--16584876 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
16584826 CTTTAGATTC
*
16584836 TTTTTAAAAATTTATAA
1 TTTTAAAAAATTTA-AA
16584853 TTTTAAAAAATTTAAA
1 TTTTAAAAAATTTAAA
*
16584869 ATTTAAAA
1 TTTTAAAA
16584877 TTTTTATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTTTAAAAAATTTAAA
Found at i:16584887 original size:17 final size:17
Alignment explanation
Indices: 16584841--16584887 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
16584831 GATTCTTTTT
*
16584841 AAAAATTTATAATTTTA
1 AAAAATTTATAAATTTA
16584858 AAAAATTTA-AAATTTA
1 AAAAATTTATAAATTTA
**
16584874 AAATTTTTATAAAT
1 AAAAATTTATAAAT
16584888 ATTTTGAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAAAATTTATAAATTTA
Found at i:16585683 original size:29 final size:30
Alignment explanation
Indices: 16585624--16585685 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
16585614 TGCTTAATTC
* *
16585624 ATTCATCTTTGTTTCTTTATTTAAATATGA
1 ATTCATCTCTCTTTCTTTATTTAAATATGA
* * *
16585654 ATTCATCTCTCTTT-TTTTTTTAATTTTGA
1 ATTCATCTCTCTTTCTTTATTTAAATATGA
16585683 ATT
1 ATT
16585686 TTTTTGAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.23, C:0.11, G:0.05, T:0.61
Consensus pattern (30 bp):
ATTCATCTCTCTTTCTTTATTTAAATATGA
Found at i:16585689 original size:17 final size:17
Alignment explanation
Indices: 16585667--16585701 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
16585657 CATCTCTCTT
* *
16585667 TTTTTTTTAATTTTGAA
1 TTTTTTTGAATTTCGAA
16585684 TTTTTTTGAATTTCGAA
1 TTTTTTTGAATTTCGAA
16585701 T
1 T
16585702 CAGGATATGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.23, C:0.03, G:0.09, T:0.66
Consensus pattern (17 bp):
TTTTTTTGAATTTCGAA
Found at i:16590255 original size:16 final size:16
Alignment explanation
Indices: 16590234--16590264 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
16590224 TGGTTCGCTG
16590234 TATTGGATTAGAGGTA
1 TATTGGATTAGAGGTA
16590250 TATTGGATTAGAGGT
1 TATTGGATTAGAGGT
16590265 GTAATAGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.32, T:0.39
Consensus pattern (16 bp):
TATTGGATTAGAGGTA
Found at i:16590523 original size:16 final size:16
Alignment explanation
Indices: 16590483--16590537 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
16590473 TTAATCATAT
*
16590483 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
16590499 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
16590514 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
16590532 -TAAAAT
1 TTAAAAT
16590538 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:16590530 original size:18 final size:17
Alignment explanation
Indices: 16590503--16590537 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16590493 TTTTTATTAA
*
16590503 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
16590521 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
16590538 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:16590644 original size:18 final size:17
Alignment explanation
Indices: 16590623--16590657 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16590613 TTATTATTAA
*
16590623 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
16590641 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
16590658 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:16590699 original size:120 final size:120
Alignment explanation
Indices: 16590486--16590897 Score: 697
Period size: 120 Copynumber: 3.4 Consensus size: 120
16590476 ATCATATTTA
*
16590486 AACATAATTTTTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
16590551 TATTCTTATATTAATTTACTTAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
16590606 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
16590671 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAAGT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
16590726 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
* *
16590791 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTATAAAAGA-AAATTT
66 TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAA-TT
* *
16590846 CAA-ATAATTAATATTAAATATGA-TTTAATT-AAATATATGATTTAATAAAATT
1 -AACATAATTATTATTAAATAT-ATTTTAATTAAAATATATAATTTAATAAAATT
16590898 TAAAATAATT
Statistics
Matches: 280, Mismatches: 9, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
119 24 0.09
120 253 0.90
121 3 0.01
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTCAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:16590764 original size:18 final size:17
Alignment explanation
Indices: 16590743--16590777 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
16590733 TTATTATTAA
*
16590743 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
16590761 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
16590778 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:16590878 original size:15 final size:15
Alignment explanation
Indices: 16590858--16590896 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
16590848 AATAATTAAT
16590858 ATTAAATATGATTTA
1 ATTAAATATGATTTA
16590873 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
16590890 ATAAAAT
1 ATTAAAT
16590897 TTAAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:16590883 original size:17 final size:17
Alignment explanation
Indices: 16590863--16590896 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
16590853 TTAATATTAA
*
16590863 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
16590880 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
16590897 TTAAAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:16591012 original size:92 final size:91
Alignment explanation
Indices: 16590913--16591121 Score: 244
Period size: 92 Copynumber: 2.3 Consensus size: 91
16590903 TAATTATAAC
* * * *
16590913 TAATAAATTATATTTTATGAATTTGTATAATCTAAAATAA-TAATTATTACATATAATTTAATAA
1 TAATAAATTATATTATATGAATTTATACAATCTAAAATAATTAA-TATTAAATATAATTTAAT-A
* *
16590977 TTAATAT-TAAATTTCATAAAATACTTGA
64 GTAATATAT-AATTTCATAAAATACTTAA
* * *
16591005 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATTATATTATATGAATTTATACAATCTAAAATAATTAATATTAAATATAATTTAATAGT
* *
16591070 GATATATAATTTCATAAAATTCTTAA
66 AATATATAATTTCATAAAATACTTAA
*
16591096 TAATAAAATGT-TCTTATATGAATTTA
1 TAAT-AAAT-TATATTATATGAATTTA
16591122 CTAAAATCAA
Statistics
Matches: 102, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
91 27 0.26
92 71 0.70
93 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (91 bp):
TAATAAATTATATTATATGAATTTATACAATCTAAAATAATTAATATTAAATATAATTTAATAGT
AATATATAATTTCATAAAATACTTAA
Found at i:16597076 original size:17 final size:18
Alignment explanation
Indices: 16597049--16597083 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
16597039 AAAATAACAA
*
16597049 TTTTAATAATTTAATAAC
1 TTTTAATAATTGAATAAC
16597067 TTTTAA-AATTGAATAAC
1 TTTTAATAATTGAATAAC
16597084 CAAAATGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (18 bp):
TTTTAATAATTGAATAAC
Found at i:16604089 original size:27 final size:25
Alignment explanation
Indices: 16604025--16604081 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
16604015 CACTATTGAA
* *
16604025 CAGAGAACACTAATGTGCTAATAAT
1 CAGAGAGCACTAACGTGCTAATAAT
16604050 CAGAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCTAATAAT
16604075 CAGAGAG
1 CAGAGAG
16604082 TGCGCTAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.42, C:0.18, G:0.21, T:0.19
Consensus pattern (25 bp):
CAGAGAGCACTAACGTGCTAATAAT
Found at i:16605898 original size:36 final size:37
Alignment explanation
Indices: 16605858--16605932 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 37
16605848 CTTGGACCAT
16605858 AAAACTTTTCTCACTTTTACAATTTAGTCCTTT-TTG
1 AAAACTTTTCTCACTTTTACAATTTAGTCCTTTCTTG
16605894 AAAACTTTTCTCACTTTTACAATTTAGTCCTTTCTTG
1 AAAACTTTTCTCACTTTTACAATTTAGTCCTTTCTTG
16605931 AA
1 AA
16605933 TTAATACATC
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
36 33 0.87
37 5 0.13
ACGTcount: A:0.27, C:0.20, G:0.05, T:0.48
Consensus pattern (37 bp):
AAAACTTTTCTCACTTTTACAATTTAGTCCTTTCTTG
Found at i:16614791 original size:30 final size:29
Alignment explanation
Indices: 16614757--16614851 Score: 77
Period size: 33 Copynumber: 3.1 Consensus size: 29
16614747 AATTAAACCT
16614757 AAAAAAAAGCTTAGGTACCAAATTAGGGAA
1 AAAAAAAAG-TTAGGTACCAAATTAGGGAA
* **
16614787 AAAAATGTCAAGTTCAGGTACCAAATT-GAGCCA
1 AAAAA---AAAGTT-AGGTACCAAATTAG-GGAA
*
16614820 AAAAAAAAGTTTAGGTATCAAATTA-GGAA
1 AAAAAAAAG-TTAGGTACCAAATTAGGGAA
16614849 AAA
1 AAA
16614852 GTGTCAAGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 15
0.70 0.10 0.21
Matches are distributed among these distances:
29 5 0.10
30 19 0.37
31 2 0.04
32 3 0.06
33 22 0.43
ACGTcount: A:0.52, C:0.11, G:0.18, T:0.20
Consensus pattern (29 bp):
AAAAAAAAGTTAGGTACCAAATTAGGGAA
Found at i:16614904 original size:60 final size:60
Alignment explanation
Indices: 16614739--16614933 Score: 239
Period size: 60 Copynumber: 3.2 Consensus size: 60
16614729 TAATAAATTT
* * * *
16614739 AGGTACCAAATTAAACCTAAAAAAAAGCTTAGGTACCAAATTAGGGAAAAAAATGTCAAGTTC
1 AGGTACCAAATTGAGCC-AAAAAAAAGTTTAGGTACCAAATTA-GG-AAAAAGTGTCAAGTTC
*
16614802 AGGTACCAAATTGAGCCAAAAAAAAAGTTTAGGTATCAAATTAGGAAAAAGTGTCAAGTTC
1 AGGTACCAAATTGAGCC-AAAAAAAAGTTTAGGTACCAAATTAGGAAAAAGTGTCAAGTTC
* * * * *
16614863 AAGTACCAAATTGGGCC-AAAAAAAGTTTTAAGTACCAAATTAAGAAAAAGTGTCAAATTC
1 AGGTACCAAATTGAGCCAAAAAAAAG-TTTAGGTACCAAATTAGGAAAAAGTGTCAAGTTC
*
16614923 AGGTACTAAAT
1 AGGTACCAAAT
16614934 ATTATATTAA
Statistics
Matches: 117, Mismatches: 14, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
59 8 0.07
60 39 0.33
61 30 0.26
62 2 0.02
63 38 0.32
ACGTcount: A:0.48, C:0.13, G:0.17, T:0.23
Consensus pattern (60 bp):
AGGTACCAAATTGAGCCAAAAAAAAGTTTAGGTACCAAATTAGGAAAAAGTGTCAAGTTC
Found at i:16615955 original size:30 final size:28
Alignment explanation
Indices: 16615921--16615999 Score: 70
Period size: 30 Copynumber: 2.7 Consensus size: 28
16615911 AGTTTTCGGG
*
16615921 TTAATTAAAATTTTTAAAAATTTTAGGAGT
1 TTAATTAAAATTTTTAAAAATTGT-GG-GT
* *
16615951 TTAA-TGAATTTTTTAAAAAAATTGTGGGT
1 TTAATTAAAATTTTT--AAAAATTGTGGGT
* *
16615980 CTAATTAAAGTTTTTAAAAA
1 TTAATTAAAATTTTTAAAAA
16616000 GAAAAATTAA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
28 5 0.12
29 13 0.32
30 14 0.35
31 8 0.20
ACGTcount: A:0.43, C:0.01, G:0.11, T:0.44
Consensus pattern (28 bp):
TTAATTAAAATTTTTAAAAATTGTGGGT
Found at i:16616319 original size:22 final size:22
Alignment explanation
Indices: 16616294--16616336 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
16616284 TTGGAGGGAC
16616294 CAAA-GTATAATTTTACTATATA
1 CAAATGTATAATTTTA-TATATA
* *
16616316 CAAATTTATACTTTTATATAT
1 CAAATGTATAATTTTATATAT
16616337 TTTAGAGGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 9 0.50
23 9 0.50
ACGTcount: A:0.42, C:0.09, G:0.02, T:0.47
Consensus pattern (22 bp):
CAAATGTATAATTTTATATATA
Found at i:16626359 original size:29 final size:30
Alignment explanation
Indices: 16626321--16626405 Score: 91
Period size: 31 Copynumber: 2.8 Consensus size: 30
16626311 TTCAATGTGT
16626321 AATTGTATACATG-AACTTTAATTTGGTGC
1 AATTGTATACATGAAACTTTAATTTGGTGC
* * *
16626350 AATTGTATACGTGAAACTCTAATTATGGTTC
1 AATTGTATACATGAAACTTTAATT-TGGTGC
* * * *
16626381 AAATATATACTTGAAACTTCAATTT
1 AATTGTATACATGAAACTTTAATTT
16626406 TGATTTAATC
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
29 12 0.26
30 10 0.22
31 24 0.52
ACGTcount: A:0.35, C:0.12, G:0.13, T:0.40
Consensus pattern (30 bp):
AATTGTATACATGAAACTTTAATTTGGTGC
Found at i:16627173 original size:18 final size:17
Alignment explanation
Indices: 16627150--16627205 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 17
16627140 GGGTGAGAAG
16627150 TAAAAGTTTAGGGAAAA
1 TAAAAGTTTAGGGAAAA
* *
16627167 CTAAAAGTTTTGGG-GAA
1 -TAAAAGTTTAGGGAAAA
*
16627184 TAAAAGTTTGAGGGAAAG
1 TAAAAGTTT-AGGGAAAA
16627202 TAAA
1 TAAA
16627206 TAGGGGGGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
16 9 0.29
17 5 0.16
18 17 0.55
ACGTcount: A:0.46, C:0.02, G:0.27, T:0.25
Consensus pattern (17 bp):
TAAAAGTTTAGGGAAAA
Found at i:16627198 original size:16 final size:17
Alignment explanation
Indices: 16627150--16627199 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 17
16627140 GGGTGAGAAG
16627150 TAAAAGTTT-AGGGAAAAC
1 TAAAAGTTTGAGGG--AAC
16627168 TAAAAGTTTTG-GGGAA-
1 TAAAAG-TTTGAGGGAAC
16627184 TAAAAGTTTGAGGGAA
1 TAAAAGTTTGAGGGAA
16627200 AGTAAATAGG
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
15 4 0.14
16 11 0.38
17 2 0.07
18 6 0.21
19 6 0.21
ACGTcount: A:0.44, C:0.02, G:0.28, T:0.26
Consensus pattern (17 bp):
TAAAAGTTTGAGGGAAC
Found at i:16632020 original size:20 final size:20
Alignment explanation
Indices: 16631977--16632022 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
16631967 TTCCATTCAG
**
16631977 AATTAATTTTTATATTAATT
1 AATTAATTTTTATATTAAAA
16631997 AATTAATTTTT-TATTTAAAA
1 AATTAATTTTTATA-TTAAAA
16632017 AATTAA
1 AATTAA
16632023 AAGAACCCTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 2 0.09
20 21 0.91
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
AATTAATTTTTATATTAAAA
Found at i:16638781 original size:16 final size:16
Alignment explanation
Indices: 16638757--16638797 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
16638747 AATAAGTAAG
*
16638757 TTATTATATTATATTA
1 TTATTATATTATAATA
*
16638773 TTATAATATTATAATA
1 TTATTATATTATAATA
16638789 TTATTATAT
1 TTATTATAT
16638798 ACATAAAACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATTATATTATAATA
Found at i:16639068 original size:12 final size:13
Alignment explanation
Indices: 16639039--16639070 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
16639029 TTATGTAGGT
16639039 ATTGAATTAGTGG
1 ATTGAATTAGTGG
16639052 A-TGAATTAGT-G
1 ATTGAATTAGTGG
16639063 ATTGAATT
1 ATTGAATT
16639071 GATGGAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 2 0.11
12 15 0.83
13 1 0.06
ACGTcount: A:0.34, C:0.00, G:0.25, T:0.41
Consensus pattern (13 bp):
ATTGAATTAGTGG
Found at i:16639910 original size:25 final size:25
Alignment explanation
Indices: 16639882--16639961 Score: 87
Period size: 25 Copynumber: 3.3 Consensus size: 25
16639872 ACTTTAGCGC
*
16639882 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATTATTAGCACGTTAGT
*
16639907 GCTCTCTGA-TATTTAGCACGTCAGT
1 GCTCTCTGATTA-TTAGCACGTTAGT
* *
16639932 GCTCTCT--TT-TTAGCACATTTGT
1 GCTCTCTGATTATTAGCACGTTAGT
16639954 GCTCTCTG
1 GCTCTCTG
16639962 TATTTGTTCC
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
22 17 0.36
24 3 0.06
25 27 0.57
ACGTcount: A:0.15, C:0.24, G:0.20, T:0.41
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTTAGT
Found at i:16639955 original size:22 final size:24
Alignment explanation
Indices: 16639894--16639966 Score: 78
Period size: 22 Copynumber: 3.1 Consensus size: 24
16639884 TCTCTGATTA
*
16639894 TTAGCACGTTGGTGCTCTCTGATAT
1 TTAGCACGTTAGTGCTCTCT-ATAT
*
16639919 TTAGCACGTCAGTGCTCTCT-T-T
1 TTAGCACGTTAGTGCTCTCTATAT
* * *
16639941 TTAGCACATTTGTGCTCTCTGTAT
1 TTAGCACGTTAGTGCTCTCTATAT
16639965 TT
1 TT
16639967 GTTCCGTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 18 0.44
23 2 0.05
24 3 0.07
25 18 0.44
ACGTcount: A:0.15, C:0.22, G:0.19, T:0.44
Consensus pattern (24 bp):
TTAGCACGTTAGTGCTCTCTATAT
Found at i:16649962 original size:17 final size:17
Alignment explanation
Indices: 16649940--16649987 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
16649930 AATAACTTAT
*
16649940 TTAAAAATATTTTTGTC
1 TTAAAAATATTTTTGAC
* *
16649957 TTAAAAATATTGTTGAG
1 TTAAAAATATTTTTGAC
*
16649974 ATAAAAATATTTTT
1 TTAAAAATATTTTT
16649988 TAGAAACAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.42, C:0.02, G:0.08, T:0.48
Consensus pattern (17 bp):
TTAAAAATATTTTTGAC
Found at i:16653483 original size:17 final size:17
Alignment explanation
Indices: 16653437--16653483 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
16653427 TTTATAAATC
16653437 ATATCATTTTTT-TATAA
1 ATAT-ATTTTTTATATAA
*
16653454 ATATATTTATTATATAA
1 ATATATTTTTTATATAA
* *
16653471 TTATGTTTTTTAT
1 ATATATTTTTTAT
16653484 CCACATAATG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (17 bp):
ATATATTTTTTATATAA
Found at i:16653702 original size:29 final size:29
Alignment explanation
Indices: 16653643--16653712 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
16653633 TTTGATAAAA
* * *
16653643 TGTGCAATATTATACATTGACTTTGATTT
1 TGTGCAATTTTATACATTGAATTTGAATT
*
16653672 TGTGCAATTTTATACA-TGAAATTTTAATT
1 TGTGCAATTTTATACATTG-AATTTGAATT
*
16653701 TGATTCAATTTT
1 TG-TGCAATTTT
16653713 CAGAAATCGA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
28 2 0.06
29 24 0.71
30 8 0.24
ACGTcount: A:0.30, C:0.09, G:0.11, T:0.50
Consensus pattern (29 bp):
TGTGCAATTTTATACATTGAATTTGAATT
Found at i:16660869 original size:12 final size:12
Alignment explanation
Indices: 16660834--16660891 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
16660824 ACAACTCCCA
*
16660834 AACAACAAAAAC
1 AACAACAAAAAT
* *
16660846 AACAATACAAAT
1 AACAACAAAAAT
16660858 AACAACAAAAAT
1 AACAACAAAAAT
** *
16660870 AGTAGCAAAAAT
1 AACAACAAAAAT
*
16660882 AACACCAAAA
1 AACAACAAAA
16660892 CACCAGTAAC
Statistics
Matches: 35, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
12 35 1.00
ACGTcount: A:0.69, C:0.19, G:0.03, T:0.09
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:16661387 original size:13 final size:13
Alignment explanation
Indices: 16661343--16661394 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
16661333 CATAAGTGAG
16661343 AAAAAATTATGTA
1 AAAAAATTATGTA
*
16661356 AAAGTAATTTTAT-TAA
1 AAA--AA-ATTATGT-A
16661372 AAAAAATTATGTA
1 AAAAAATTATGTA
16661385 AAAAAATTAT
1 AAAAAATTAT
16661395 CATTTAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
13 18 0.56
14 3 0.09
15 3 0.09
16 8 0.25
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.35
Consensus pattern (13 bp):
AAAAAATTATGTA
Found at i:16661922 original size:78 final size:79
Alignment explanation
Indices: 16661787--16661936 Score: 223
Period size: 78 Copynumber: 1.9 Consensus size: 79
16661777 AATAAATATG
**
16661787 TTAAATTGATAAATTTTAACAAAAATTACCAATGACAATAATGATTGGACTAGGATTTTTAAATT
1 TTAAATTGATAAATTTTAACAAAAATTACCAACAACAATAATGATTGGACTAGGATTTTTAAATT
16661852 -AAAAAGAAACATA
66 GAAAAAGAAACATA
* * * *
16661865 TTAAGTTGATAAATTTTAAC-AAAATCTACCAACAACGATAATGATTGGAGTATGATTTTTAAAT
1 TTAAATTGATAAATTTTAACAAAAAT-TACCAACAACAATAATGATTGGACTAGGATTTTTAAAT
16661929 TGAAAAAG
65 TGAAAAAG
16661937 TAGGAGAATT
Statistics
Matches: 64, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
77 5 0.08
78 53 0.83
79 6 0.09
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.33
Consensus pattern (79 bp):
TTAAATTGATAAATTTTAACAAAAATTACCAACAACAATAATGATTGGACTAGGATTTTTAAATT
GAAAAAGAAACATA
Found at i:16662963 original size:103 final size:99
Alignment explanation
Indices: 16662828--16663054 Score: 280
Period size: 103 Copynumber: 2.3 Consensus size: 99
16662818 AAAATCGTTT
* *
16662828 TTGGGAAATCTAATCTGCAATCT-TTTTTATGAACTTAGCGGTTCGATGTGCAAAGCAAGTTTGC
1 TTGGAAAATCTAATCTGCAAT-TATTTGTATGAACTTAGCGGTTCGATGTGCAAAGCAAGTTTGC
16662892 TGCTCAATTGCCT-TTTTATGTATTTGTTTATTA-TGATTG
65 TGCTCAATT--CTGTTTTATG-A-TTG-TTATTATTG-TTG
* * * * *
16662931 TTGGAAAATCTAATTTGCAATTATTTGTATGAACTTAGTGTTTTGATGTGCAAAGTAAGTTTGCT
1 TTGGAAAATCTAATCTGCAATTATTTGTATGAACTTAGCGGTTCGATGTGCAAAGCAAGTTTGCT
*
16662996 GCTCAATTTTGTTTTATGATTGTTATTATTGTTG
66 GCTCAATTCTGTTTTATGATTGTTATTATTGTTG
* *
16663030 TTGGAAAATTTAATCTGCAACTATT
1 TTGGAAAATCTAATCTGCAATTATT
16663055 CACATGAACT
Statistics
Matches: 110, Mismatches: 11, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
99 31 0.28
100 5 0.05
101 2 0.02
102 8 0.07
103 64 0.58
ACGTcount: A:0.26, C:0.11, G:0.19, T:0.45
Consensus pattern (99 bp):
TTGGAAAATCTAATCTGCAATTATTTGTATGAACTTAGCGGTTCGATGTGCAAAGCAAGTTTGCT
GCTCAATTCTGTTTTATGATTGTTATTATTGTTG
Found at i:16675529 original size:31 final size:31
Alignment explanation
Indices: 16675470--16675541 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
16675460 TTTATTTATC
* *
16675470 ATTATATTAAATTATTTAAATATAATATATT
1 ATTATATTAATTTATTTAAATATAATATAAT
* *
16675501 ATTATATTAATTTATTTAAATTTCATATAAT
1 ATTATATTAATTTATTTAAATATAATATAAT
16675532 -TTA-ATTAATT
1 ATTATATTAATT
16675542 GTGGTAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
29 7 0.19
30 3 0.08
31 27 0.73
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (31 bp):
ATTATATTAATTTATTTAAATATAATATAAT
Found at i:16679666 original size:4 final size:4
Alignment explanation
Indices: 16679657--16679719 Score: 126
Period size: 4 Copynumber: 15.8 Consensus size: 4
16679647 TGTTTCTTAT
16679657 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16679705 TGTA TGTA TGTA TGT
1 TGTA TGTA TGTA TGT
16679720 GCAATGACTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 59 1.00
ACGTcount: A:0.24, C:0.00, G:0.25, T:0.51
Consensus pattern (4 bp):
TGTA
Found at i:16681307 original size:159 final size:158
Alignment explanation
Indices: 16680828--16681309 Score: 644
Period size: 159 Copynumber: 3.0 Consensus size: 158
16680818 CTTTTACTCC
*
16680828 TCGCAGTGGCCTTCACAGAATACTTTCTTCAGAAATCTTTGAACAACGCAGCGTTGAGAGATCTG
1 TCGCAGTGGCCTTCACAGAATGCTTTCTTCAGAAATCTTTGAACAACGCAGCGTTGAGAGATCTG
** *
16680893 GATTTTCTGGAAG-AAGTGATGAAAGAGATTCAGGAAGCAGTTATGGGGAAAGAAGAAATAATGG
66 GATTTAGTGG-AGCAAGTGATGAAAGAGATTCAGGAAACAGTTATGGGGAAAGAAGAAATAATGG
* *
16680957 AAATGGTAAAGAATCTGAAAAACATGGTGG
130 AAATGGTAAAGAATCTCAAAAACAT-GTGA
* * * * *
16680987 TCACGGTGGCCTTCACAGAATGCTTTCTTCTGAAATCTTTGAACAACGCAGTGTTGAGAAATCTG
1 TCGCAGTGGCCTTCACAGAATGCTTTCTTCAGAAATCTTTGAACAACGCAGCGTTGAGAGATCTG
* ** * * *
16681052 GATTTAGTAGAAGC-AGTGATGAAAGAGATTCAGGAAATGGTTATGGTGAAAGGAGAAATATTGG
66 GATTTAGT-GGAGCAAGTGATGAAAGAGATTCAGGAAACAGTTATGGGGAAAGAAGAAATAATGG
* * *
16681116 AAATGTTAAAAAATCTCAAAAACACAGTGA
130 AAATGGTAAAGAATCTCAAAAACA-TGTGA
* * * * **
16681146 TCGCAGTGGCCTTCATAAAATGCTTTCTTCAGATATCTATGAACAACGCAGCACTGAGAGATCTG
1 TCGCAGTGGCCTTCACAGAATGCTTTCTTCAGAAATCTTTGAACAACGCAGCGTTGAGAGATCTG
* *
16681211 GATTTAGTGGAGCAAGTGATGAAAGGGATTCAGGAAACAATTATGGGGAAAGAAGAAATAATGGA
66 GATTTAGTGGAGCAAGTGATGAAAGAGATTCAGGAAACAGTTATGGGGAAAGAAGAAATAATGGA
*
16681276 AATGGTAAAGAATCTCAAAAGCATGTTGA
131 AATGGTAAAGAATCTCAAAAACATG-TGA
16681305 TCGCA
1 TCGCA
16681310 AGAGAATTTC
Statistics
Matches: 275, Mismatches: 43, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
158 5 0.02
159 269 0.98
160 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (158 bp):
TCGCAGTGGCCTTCACAGAATGCTTTCTTCAGAAATCTTTGAACAACGCAGCGTTGAGAGATCTG
GATTTAGTGGAGCAAGTGATGAAAGAGATTCAGGAAACAGTTATGGGGAAAGAAGAAATAATGGA
AATGGTAAAGAATCTCAAAAACATGTGA
Found at i:16683137 original size:72 final size:71
Alignment explanation
Indices: 16682939--16683140 Score: 269
Period size: 72 Copynumber: 2.8 Consensus size: 71
16682929 GTAGCAACCC
* * * * * *
16682939 ATTCATCAGCTCCTGCACAATCCCCGGGGTGGCAAGCACTTCATGCCCATGTCACGGGGCCTGGC
1 ATTCACCAGCTCCTGTACAATCCCCTGGGTGGCAAGCACTTCAAGCCCATGTCA-TGGGCCAGGC
16683004 TTGCAGT
65 TTGCAGT
** * * *
16683011 ATTCACTGGCGCCTGTACAATCCCCTGGGTGGCAAGCAGTTCGAGCCCATGTCATGGGCCAAGGC
1 ATTCACCAGCTCCTGTACAATCCCCTGGGTGGCAAGCACTTCAAGCCCATGTCATGGGCC-AGGC
16683076 TTGCAGT
65 TTGCAGT
* *
16683083 ATTCACCAGCTCCAGTACAATCCCCTGGGTGGCAAGTACTTCAAGCCCATGTCATGGG
1 ATTCACCAGCTCCTGTACAATCCCCTGGGTGGCAAGCACTTCAAGCCCATGTCATGGG
16683141 TTATGCAGTG
Statistics
Matches: 111, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
71 5 0.05
72 106 0.95
ACGTcount: A:0.20, C:0.31, G:0.26, T:0.22
Consensus pattern (71 bp):
ATTCACCAGCTCCTGTACAATCCCCTGGGTGGCAAGCACTTCAAGCCCATGTCATGGGCCAGGCT
TGCAGT
Found at i:16686827 original size:9 final size:9
Alignment explanation
Indices: 16686813--16686872 Score: 75
Period size: 9 Copynumber: 6.7 Consensus size: 9
16686803 ATGTAGTGAT
16686813 TTAATTCGG
1 TTAATTCGG
16686822 TTAATTCGG
1 TTAATTCGG
* * *
16686831 GTAATCCAG
1 TTAATTCGG
16686840 TTAATTCGG
1 TTAATTCGG
16686849 TTAATTCGG
1 TTAATTCGG
* *
16686858 GTAATTCAG
1 TTAATTCGG
16686867 TTAATT
1 TTAATT
16686873 TTTAACTAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.42
Consensus pattern (9 bp):
TTAATTCGG
Found at i:16686845 original size:27 final size:27
Alignment explanation
Indices: 16686813--16686872 Score: 111
Period size: 27 Copynumber: 2.2 Consensus size: 27
16686803 ATGTAGTGAT
16686813 TTAATTCGGTTAATTCGGGTAATCCAG
1 TTAATTCGGTTAATTCGGGTAATCCAG
*
16686840 TTAATTCGGTTAATTCGGGTAATTCAG
1 TTAATTCGGTTAATTCGGGTAATCCAG
16686867 TTAATT
1 TTAATT
16686873 TTTAACTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.42
Consensus pattern (27 bp):
TTAATTCGGTTAATTCGGGTAATCCAG
Found at i:16689278 original size:40 final size:41
Alignment explanation
Indices: 16689217--16689305 Score: 110
Period size: 40 Copynumber: 2.2 Consensus size: 41
16689207 ATCAGCGCTT
* **
16689217 TTAGCGGCGTTTGGACAAAAAACGCCAC-TGATAATCGAGCA
1 TTAGCGGCATTTGGACAAAAAACGCCACAAAAT-ATCGAGCA
* *
16689258 TTAGCGGCATTT-TACAAAAAACGCCGCAAAATATCGAGCA
1 TTAGCGGCATTTGGACAAAAAACGCCACAAAATATCGAGCA
16689298 TTAGCGGC
1 TTAGCGGC
16689306 GCTACATAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 29 0.69
41 13 0.31
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (41 bp):
TTAGCGGCATTTGGACAAAAAACGCCACAAAATATCGAGCA
Found at i:16689317 original size:40 final size:42
Alignment explanation
Indices: 16689233--16689330 Score: 103
Period size: 40 Copynumber: 2.4 Consensus size: 42
16689223 GCGTTTGGAC
* * * * **
16689233 AAAAAACGCCACTGATA-ATCGAGCATTAGCGGCATTTTAC-
1 AAAAAACGCCGCTAAAATATCGAGCATTAGCGGCACTACACA
* *
16689273 AAAAAACGCCGC-AAAATATCGAGCATTAGCGGCGCTACATA
1 AAAAAACGCCGCTAAAATATCGAGCATTAGCGGCACTACACA
16689314 AAAAAACGCCGCTAAAA
1 AAAAAACGCCGCTAAAA
16689331 CCAAGCATTA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
39 2 0.04
40 29 0.62
41 12 0.26
42 4 0.09
ACGTcount: A:0.43, C:0.23, G:0.17, T:0.16
Consensus pattern (42 bp):
AAAAAACGCCGCTAAAATATCGAGCATTAGCGGCACTACACA
Found at i:16689357 original size:40 final size:41
Alignment explanation
Indices: 16689254--16689366 Score: 115
Period size: 40 Copynumber: 2.8 Consensus size: 41
16689244 CTGATAATCG
* * *
16689254 AGCATTAGCGGCATTTTAC-AAAAAACGCCGCAAAATATCG
1 AGCATTAGCGGCGTTTTACAAAAAAACGCCGCAAAATACCA
* ** * *
16689294 AGCATTAGCGGCGCTACATAAAAAAACGCCGCTAAA-ACCA
1 AGCATTAGCGGCGTTTTACAAAAAAACGCCGCAAAATACCA
* *
16689334 AGCATTAGCAGCGTTTTAC-AAAAAGCGCCGCAA
1 AGCATTAGCGGCGTTTTACAAAAAAACGCCGCAA
16689367 TAGAGTCTCA
Statistics
Matches: 57, Mismatches: 15, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
39 12 0.21
40 30 0.53
41 15 0.26
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.17
Consensus pattern (41 bp):
AGCATTAGCGGCGTTTTACAAAAAAACGCCGCAAAATACCA
Found at i:16689705 original size:115 final size:114
Alignment explanation
Indices: 16689344--16689691 Score: 531
Period size: 114 Copynumber: 3.1 Consensus size: 114
16689334 AGCATTAGCA
** *
16689344 GCGTTTTACAAAAAGCGCCGCAATAGAGTCTCACAGAACAACGCCGTTTTCATATATTTGGGAAC
1 GCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
16689409 ATTAGTGGCGGTTTTT-CCCAAGCGCCGCTAA-AACTCCGTTCTTCAGCG
66 ATTAGTGGCGGTTTTTGCCCAAGCGCCGCTAATAA-TCCGTTCTTCAGCG
* * *
16689457 GCGTTTTATAAAAAGCGCCGCAATGGAGTAACACAGAACGACGTCGTATTTCATATATTTGGGAA
1 GCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGT-TTTCATATATTTGGGAA
* *
16689522 CATTAGTGGCGG-TTTTGCCCAAGCGCCGCTAATACTCCATTCTTCAGCG
65 CATTAGTGGCGGTTTTTGCCCAAGCGCCGCTAATAATCCGTTCTTCAGCG
* *
16689571 GCGTTTTACAAAAAGCGTCGCAAATAGAGTAACACAAAACGACGCCGTTTTCATATATTTGGGAA
1 GCGTTTTACAAAAAGCGCCGC-AATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAA
* * *
16689636 AACTAGTGGCGGTTTTTGCCCAAACGCCGCTAATAATCCGTTCTTCAGCG
65 CATTAGTGGCGGTTTTTGCCCAAGCGCCGCTAATAATCCGTTCTTCAGCG
16689686 GCGTTT
1 GCGTTT
16689692 GGCGTTAAGC
Statistics
Matches: 212, Mismatches: 18, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
113 45 0.21
114 103 0.49
115 64 0.30
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.27
Consensus pattern (114 bp):
GCGTTTTACAAAAAGCGCCGCAATAGAGTAACACAGAACGACGCCGTTTTCATATATTTGGGAAC
ATTAGTGGCGGTTTTTGCCCAAGCGCCGCTAATAATCCGTTCTTCAGCG
Found at i:16689829 original size:41 final size:41
Alignment explanation
Indices: 16689784--16689870 Score: 111
Period size: 41 Copynumber: 2.1 Consensus size: 41
16689774 TTTCATAAAC
* * *
16689784 CGCCGCTGATGCTCCGCTCTAAAGCGGCGTTTATGGAGAAT
1 CGCCGCTAATGCTCCGCTCTAAAGCGGCGTTCATGGAGAAG
* * * *
16689825 CGCCGCTAATGTTCCGGTCTATAGCGGCGTTCCTGGAGAAG
1 CGCCGCTAATGCTCCGCTCTAAAGCGGCGTTCATGGAGAAG
16689866 CGCCG
1 CGCCG
16689871 GTAACTCTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.17, C:0.29, G:0.31, T:0.23
Consensus pattern (41 bp):
CGCCGCTAATGCTCCGCTCTAAAGCGGCGTTCATGGAGAAG
Found at i:16691384 original size:16 final size:16
Alignment explanation
Indices: 16691359--16691390 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
16691349 CATTTTCCCT
16691359 ATTCTAAAATCCCTAA
1 ATTCTAAAATCCCTAA
*
16691375 ATTCTGAAATCCCTAA
1 ATTCTAAAATCCCTAA
16691391 CTCATAAACG
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:0.41, C:0.25, G:0.03, T:0.31
Consensus pattern (16 bp):
ATTCTAAAATCCCTAA
Found at i:16692590 original size:28 final size:28
Alignment explanation
Indices: 16692534--16692587 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
16692524 TAATAGATAA
16692534 TTTTATTTGTATTAACAATTTTTAAAAT
1 TTTTATTTGTATTAACAATTTTTAAAAT
16692562 TTTTA-TTGTATTAACAATTTTTAAAA
1 TTTTATTTGTATTAACAATTTTTAAAA
16692588 ATTACATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 21 0.81
28 5 0.19
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.56
Consensus pattern (28 bp):
TTTTATTTGTATTAACAATTTTTAAAAT
Found at i:16692602 original size:27 final size:27
Alignment explanation
Indices: 16692543--16692602 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
16692533 ATTTTATTTG
* ** *
16692543 TATTAACAATTTTTAAAATTTTTATTG
1 TATTAACAATTTTTAAAAATTACATTA
16692570 TATTAACAATTTTTAAAAATTACATTA
1 TATTAACAATTTTTAAAAATTACATTA
*
16692597 TTTTAA
1 TATTAA
16692603 TAAAAAAACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.52
Consensus pattern (27 bp):
TATTAACAATTTTTAAAAATTACATTA
Found at i:16692997 original size:14 final size:14
Alignment explanation
Indices: 16692975--16693014 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
16692965 TATGACACCA
*
16692975 AATATATTTTAAAC
1 AATAAATTTTAAAC
16692989 AATAAATTTTAAAC
1 AATAAATTTTAAAC
* *
16693003 ATTAAAGTTTAA
1 AATAAATTTTAA
16693015 TTTTAAACAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.40
Consensus pattern (14 bp):
AATAAATTTTAAAC
Found at i:16697149 original size:32 final size:31
Alignment explanation
Indices: 16697104--16697199 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
16697094 CTTAGATAAT
16697104 TTTAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
16697135 TTTAAAGAGTTTTTATTAGGATTCAATTACTC
1 TTTAAAGAG-TTTTATTAGGATTCAATTACTC
*
16697167 TTGAAAGAGTTTTATTAGGATTCAATTACTC
1 TTTAAAGAGTTTTATTAGGATTCAATTACTC
16697198 TT
1 TT
16697200 GTAATTTGCC
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.46
Consensus pattern (31 bp):
TTTAAAGAGTTTTATTAGGATTCAATTACTC
Found at i:16698912 original size:14 final size:14
Alignment explanation
Indices: 16698893--16698919 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16698883 TTATATAGAT
16698893 TTGGTTAGATTTGG
1 TTGGTTAGATTTGG
16698907 TTGGTTAGATTTG
1 TTGGTTAGATTTG
16698920 ATTTCTTCTG
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:0.00, G:0.33, T:0.52
Consensus pattern (14 bp):
TTGGTTAGATTTGG
Found at i:16699049 original size:43 final size:42
Alignment explanation
Indices: 16698988--16699338 Score: 504
Period size: 43 Copynumber: 8.2 Consensus size: 42
16698978 CAAAATTAGC
*
16698988 GGCGTTTTTTGGATAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCG-TTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
16699031 GGCGTTTTTCAGCTAAGCGCCGCGAAAGACCATGGTCTATAGT
1 GGCGTTTTT-GGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
16699074 GGCGTTTTTTGGCTAAGCCCCGCTAAAGACCATGGTCTATAGT
1 GGCG-TTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
16699117 GGCGTTTTGTGGCTAAGCGCCGCTAAAGACAATGGCCTATAGT
1 GGCGTTTT-TGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
*
16699160 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCG-TTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* *
16699203 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACAATGGTCTATAGT
1 GGCG-TTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
16699246 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
1 GGCG-TTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
* * ** *
16699289 GGCGTTTTTTGTCTAAGCACCGCTAAAGACTGTGGTCTATAGC
1 GGCG-TTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
16699332 GGCGTTT
1 GGCGTTT
16699339 CAAAGAAAAC
Statistics
Matches: 284, Mismatches: 20, Indels: 9
0.91 0.06 0.03
Matches are distributed among these distances:
42 12 0.04
43 263 0.93
44 9 0.03
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (42 bp):
GGCGTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGT
Found at i:16699133 original size:86 final size:86
Alignment explanation
Indices: 16698988--16699338 Score: 567
Period size: 86 Copynumber: 4.1 Consensus size: 86
16698978 CAAAATTAGC
* **
16698988 GGCGTTTTTTGGATAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTCAGCTAAGCGCCG
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGCGCCG
* *
16699053 CGAAAGACCATGGTCTATAGT
66 CTAAAGACAATGGTCTATAGT
* *
16699074 GGCGTTTTTTGGCTAAGCCCCGCTAAAGACCATGGTCTATAGTGGCGTTTTGTGGCTAAGCGCCG
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGCGCCG
*
16699139 CTAAAGACAATGGCCTATAGT
66 CTAAAGACAATGGTCTATAGT
* *
16699160 GGCGTTTTTTGTCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTCTAAGCGCCG
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGCGCCG
16699225 CTAAAGACAATGGTCTATAGT
66 CTAAAGACAATGGTCTATAGT
* *
16699246 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTCTAAGCACCG
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGCGCCG
** *
16699311 CTAAAGACTGTGGTCTATAGC
66 CTAAAGACAATGGTCTATAGT
16699332 GGCGTTT
1 GGCGTTT
16699339 CAAAGAAAAC
Statistics
Matches: 247, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 247 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (86 bp):
GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGCGCCG
CTAAAGACAATGGTCTATAGT
Found at i:16699219 original size:129 final size:129
Alignment explanation
Indices: 16698988--16699338 Score: 569
Period size: 129 Copynumber: 2.7 Consensus size: 129
16698978 CAAAATTAGC
* *
16698988 GGCGTTTTTTGGATAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTCAG-CTAAGCGCC
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTT-TGTCTAAGCGCC
* *
16699052 GCGAAAGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGCCCCGCTAAAGACCATGGTCTATAGT
65 GCTAAAGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGCCCCGCTAAAGACAATGGTCTATAGT
* * *
16699117 GGCGTTTTGTGGCTAAGCGCCGCTAAAGACAATGGCCTATAGTGGCGTTTTTTGTCTAAGCGCCG
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTCTAAGCGCCG
* *
16699182 CTAAAGACCATGGTCTATAGTGGCGTTTTTTGTCTAAGCGCCGCTAAAGACAATGGTCTATAGT
66 CTAAAGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGCCCCGCTAAAGACAATGGTCTATAGT
*
16699246 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTCTAAGCACCG
1 GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTCTAAGCGCCG
** *
16699311 CTAAAGACTGTGGTCTATAGCGGCGTTT
66 CTAAAGACCATGGTCTATAGTGGCGTTT
16699339 CAAAGAAAAC
Statistics
Matches: 205, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
128 1 0.00
129 204 1.00
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (129 bp):
GGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTCTAAGCGCCG
CTAAAGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGCCCCGCTAAAGACAATGGTCTATAGT
Found at i:16699393 original size:129 final size:128
Alignment explanation
Indices: 16698984--16699402 Score: 369
Period size: 129 Copynumber: 3.2 Consensus size: 128
16698974 CTTCCAAAAT
* * * * *
16698984 TAGCGGCGTTTTTTGGATAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTCAG-CTAAG
1 TAGCGGCGTTTTTTGAAAAAGCGCCGCTAAAGACAATGGCCTATAGTGGCGTTTTT-TGTCTAAG
* * * *** * * * * * *
16699048 CGCCGCGAAAGACCATGGTCTATAGTGGCGTTTTTTGGCTAAGCCCCGCTAAAGACCATGGTCTA
65 CACCGCTAAAGACCATGGTCTATAGCGGCG-TTTAAAGCAAAACGCCGCGAAAGACAATGATCTA
* * ***
16699113 TAGTGGCGTTTTGTGGCTAAGCGCCGCTAAAGACAATGGCCTATAGTGGCGTTTTTTGTCTAAGC
1 TAGCGGCGTTTTTTGAAAAAGCGCCGCTAAAGACAATGGCCTATAGTGGCGTTTTTTGTCTAAGC
* * *** * * * *
16699178 GCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTCTAAGCGCCGCTAAAGACAATGGTCTA
66 ACCGCTAAAGACCATGGTCTATAGCGGCGTTTAAAG-CAAAACGCCGCGAAAGACAATGATCTA
* *** * *
16699242 TAGTGGCGTTTTTTGGCTAAGCGCCGCTAAAGACCATGGTCTATAGTGGCGTTTTTTGTCTAAGC
1 TAGCGGCGTTTTTTGAAAAAGCGCCGCTAAAGACAATGGCCTATAGTGGCGTTTTTTGTCTAAGC
** * * *
16699307 ACCGCTAAAGACTGTGGTCTATAGCGGCGTTTCAAAG-AAAACGCCGCGAAAGGTC-TTGATCTT
66 ACCGCTAAAGACCATGGTCTATAGCGGCGTTT-AAAGCAAAACGCCGCGAAA-GACAATGATCTA
16699370 TAGCGGCGTTTATTAT-AAAAAGCGCCGCTAAAG
1 TAGCGGCGTTT-TT-TGAAAAAGCGCCGCTAAAG
16699403 TTACCGACGC
Statistics
Matches: 253, Mismatches: 31, Indels: 12
0.85 0.10 0.04
Matches are distributed among these distances:
128 33 0.13
129 218 0.86
130 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.29
Consensus pattern (128 bp):
TAGCGGCGTTTTTTGAAAAAGCGCCGCTAAAGACAATGGCCTATAGTGGCGTTTTTTGTCTAAGC
ACCGCTAAAGACCATGGTCTATAGCGGCGTTTAAAGCAAAACGCCGCGAAAGACAATGATCTA
Found at i:16699516 original size:21 final size:21
Alignment explanation
Indices: 16699472--16699513 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
16699462 ATTTGCGGCG
*
16699472 CTAAAAAACGCCGCTATAGAC
1 CTAAAAAACGCCGCTATAAAC
*
16699493 CTAAAAAGCGCCGCTA-AAAC
1 CTAAAAAACGCCGCTATAAAC
16699513 C
1 C
16699514 CTATTTTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.43, C:0.31, G:0.14, T:0.12
Consensus pattern (21 bp):
CTAAAAAACGCCGCTATAAAC
Found at i:16700018 original size:29 final size:28
Alignment explanation
Indices: 16699958--16700025 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 28
16699948 CGAACAAATT
* * * *
16699958 GCCAGAACTCCGAAATTGCAAATTTACC
1 GCCAGAACTCAGAAATTACAAATATACA
*
16699986 GCCAGAACTCTAGTAATTACAAATATACA
1 GCCAGAACTC-AGAAATTACAAATATACA
*
16700015 GCCAGAGCTCA
1 GCCAGAACTCA
16700026 ACAAATCTCC
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 11 0.33
29 22 0.67
ACGTcount: A:0.38, C:0.26, G:0.15, T:0.21
Consensus pattern (28 bp):
GCCAGAACTCAGAAATTACAAATATACA
Found at i:16702363 original size:23 final size:24
Alignment explanation
Indices: 16702335--16702385 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
16702325 AAATATATGC
* * *
16702335 ATGCATGTATAT-ATATATTAAAT
1 ATGCATATATATGACATATAAAAT
16702358 ATGCATATATATGACATATAAAAT
1 ATGCATATATATGACATATAAAAT
16702382 ATGC
1 ATGC
16702386 GAATGTACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
23 11 0.46
24 13 0.54
ACGTcount: A:0.45, C:0.08, G:0.10, T:0.37
Consensus pattern (24 bp):
ATGCATATATATGACATATAAAAT
Found at i:16703528 original size:26 final size:26
Alignment explanation
Indices: 16703490--16703576 Score: 88
Period size: 28 Copynumber: 3.2 Consensus size: 26
16703480 TTGCCTATCC
*
16703490 TTTTTCTGATTTTTTATTTGTTTTTCAT
1 TTTTTCT--TTTTTTATTTCTTTTTCAT
16703518 TTTTTCTTTTTCTTTTATTTCTTTTT-AT
1 TTTTTC--TTT-TTTTATTTCTTTTTCAT
16703546 TTTTT-TTTTCTTTATTTACTTTTTCAT
1 TTTTTCTTTT-TTTATTT-CTTTTTCAT
16703573 TTTT
1 TTTT
16703577 ATTTGTTTTT
Statistics
Matches: 52, Mismatches: 1, Indels: 13
0.79 0.02 0.20
Matches are distributed among these distances:
24 1 0.02
25 10 0.19
26 6 0.12
27 6 0.12
28 15 0.29
29 13 0.25
30 1 0.02
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.79
Consensus pattern (26 bp):
TTTTTCTTTTTTTATTTCTTTTTCAT
Found at i:16703538 original size:15 final size:15
Alignment explanation
Indices: 16703501--16703590 Score: 75
Period size: 14 Copynumber: 6.2 Consensus size: 15
16703491 TTTTCTGATT
*
16703501 TTTTATTTGTTTTTC
1 TTTTATTTCTTTTTC
*
16703516 ATTT-TTTCTTTTTC
1 TTTTATTTCTTTTTC
16703530 TTTTATTTC-TTTT-
1 TTTTATTTCTTTTTC
*
16703543 TATT-TTT-TTTTTC
1 TTTTATTTCTTTTTC
16703556 -TTTATTTACTTTTTC
1 TTTTATTT-CTTTTTC
*
16703571 ATTTTTATTTGTTTTTC
1 --TTTTATTTCTTTTTC
16703588 TTT
1 TTT
16703591 ATTATTTATT
Statistics
Matches: 60, Mismatches: 6, Indels: 18
0.71 0.07 0.21
Matches are distributed among these distances:
12 9 0.15
13 6 0.10
14 16 0.27
15 16 0.27
17 6 0.10
18 7 0.12
ACGTcount: A:0.09, C:0.09, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTATTTCTTTTTC
Found at i:16703555 original size:17 final size:17
Alignment explanation
Indices: 16703517--16703602 Score: 65
Period size: 17 Copynumber: 5.2 Consensus size: 17
16703507 TTGTTTTTCA
*
16703517 TTTTTTC-TTTT-TCTT
1 TTTTTTCTTTTTATTTT
*
16703532 TTATTTCTTTTTATTTT
1 TTTTTTCTTTTTATTTT
*
16703549 TTTTTTC--TTTATTTA
1 TTTTTTCTTTTTATTTT
*
16703564 CTTTTTCATTTTTA-TTT
1 TTTTTTC-TTTTTATTTT
*
16703581 GTTTTTCTTTATTATTTAT
1 TTTTTTCTTT-TTATTT-T
16703600 TTT
1 TTT
16703603 ATAATATTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
15 19 0.35
16 7 0.13
17 20 0.36
18 6 0.11
19 3 0.05
ACGTcount: A:0.10, C:0.08, G:0.01, T:0.80
Consensus pattern (17 bp):
TTTTTTCTTTTTATTTT
Found at i:16703645 original size:22 final size:24
Alignment explanation
Indices: 16703596--16703680 Score: 76
Period size: 22 Copynumber: 3.8 Consensus size: 24
16703586 TCTTTATTAT
16703596 TTATTTTATAATATTTTAAATGTA
1 TTATTTTATAATATTTTAAATGTA
*
16703620 -TATTTTA-AATATTTTATA-GTA
1 TTATTTTATAATATTTTAAATGTA
*
16703641 TTATTTT-TTA-ATTTTAAA--TA
1 TTATTTTATAATATTTTAAATGTA
* * *
16703661 TAATTTTTTAATATTATAAA
1 TTATTTTATAATATTTTAAA
16703681 AAATTTTAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
20 8 0.16
21 12 0.24
22 24 0.47
23 7 0.14
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TTATTTTATAATATTTTAAATGTA
Found at i:16703676 original size:33 final size:34
Alignment explanation
Indices: 16703630--16703717 Score: 90
Period size: 33 Copynumber: 2.6 Consensus size: 34
16703620 TATTTTAAAT
* * *
16703630 ATTTTATAGTATTATTTTTTAATTTTAAA-TATA
1 ATTTTTTAATATTATTTTTAAATTTTAAATTATA
*** *
16703663 ATTTTTTAATATTA-TAAAAAATTTTAAATTATT
1 ATTTTTTAATATTATTTTTAAATTTTAAATTATA
*
16703696 ATTTTTTAAAATTATTTTTAAA
1 ATTTTTTAATATTATTTTTAAA
16703718 GATATTCAAA
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
32 10 0.24
33 28 0.67
34 4 0.10
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (34 bp):
ATTTTTTAATATTATTTTTAAATTTTAAATTATA
Found at i:16703741 original size:23 final size:23
Alignment explanation
Indices: 16703715--16703760 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
16703705 AATTATTTTT
*
16703715 AAAG-ATATTCAAACGTTTTAAAA
1 AAAGTATATTCAAA-ATTTTAAAA
*
16703738 AAAGTATATTTAAAATTTTAAAA
1 AAAGTATATTCAAAATTTTAAAA
16703761 TTATTATATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.54, C:0.04, G:0.07, T:0.35
Consensus pattern (23 bp):
AAAGTATATTCAAAATTTTAAAA
Found at i:16703774 original size:15 final size:15
Alignment explanation
Indices: 16703754--16703782 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
16703744 TATTTAAAAT
16703754 TTTAAAATTATTATA
1 TTTAAAATTATTATA
16703769 TTTAAAATTATTAT
1 TTTAAAATTATTAT
16703783 TATATTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTAAAATTATTATA
Found at i:16703882 original size:15 final size:15
Alignment explanation
Indices: 16703754--16703886 Score: 56
Period size: 16 Copynumber: 8.2 Consensus size: 15
16703744 TATTTAAAAT
* *
16703754 TTTAAAATTATTATA
1 TTTAAAAATAATATA
*
16703769 TTTAAAATTATTATTATA
1 TTTAAAA--A-TAATATA
*
16703787 TTCAAATAA-AATATTA
1 TTTAAA-AATAATA-TA
16703803 TTTAAAAATAAT-T-
1 TTTAAAAATAATATA
*
16703816 TTTAAAAATTTTAAAATA
1 TTTAAAAA---TAATATA
*
16703834 TTATAAAACAAATAATAAA
1 TT-T--AA-AAATAATATA
* *
16703853 TTTAAAAAGTCATATC
1 TTTAAAAA-TAATATA
16703869 TTTAAAAATAATATA
1 TTTAAAAATAATATA
16703884 TTT
1 TTT
16703887 TAAATGTTTT
Statistics
Matches: 90, Mismatches: 12, Indels: 32
0.67 0.09 0.24
Matches are distributed among these distances:
13 8 0.09
14 1 0.01
15 23 0.26
16 27 0.30
17 2 0.02
18 15 0.17
19 9 0.10
21 2 0.02
22 3 0.03
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (15 bp):
TTTAAAAATAATATA
Found at i:16703930 original size:21 final size:20
Alignment explanation
Indices: 16703902--16703963 Score: 81
Period size: 20 Copynumber: 3.0 Consensus size: 20
16703892 GTTTTATAAT
16703902 ATTAAAAAAATTATATTTAAA
1 ATTAAAAAAA-TATATTTAAA
* *
16703923 ATTTAAAAAATCTATTTAAA
1 ATTAAAAAAATATATTTAAA
16703943 ATTAAAAAAA-ATATTATAAA
1 ATTAAAAAAATATATT-TAAA
16703963 A
1 A
16703964 CATTTATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 4 0.11
20 23 0.64
21 9 0.25
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
ATTAAAAAAATATATTTAAA
Done.