Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 50 of 190
Found at i:14226217 original size:14 final size:13
Alignment explanation
Indices: 14226194--14226227 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
14226184 ACCTCCTTGG
14226194 ATTAAATTATTAA
1 ATTAAATTATTAA
14226207 ATTAGAATTATTAA
1 ATTA-AATTATTAA
14226221 A-TAAATT
1 ATTAAATT
14226228 GAAAATCGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
12 4 0.20
13 6 0.30
14 10 0.50
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (13 bp):
ATTAAATTATTAA
Found at i:14226290 original size:23 final size:23
Alignment explanation
Indices: 14226259--14226311 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
14226249 TAAAGGGGTC
14226259 AATCAAAAAAAGGTAAGTTAATT
1 AATCAAAAAAAGGTAAGTTAATT
* *
14226282 AATCCAAAAAAGGTATGTTAATT
1 AATCAAAAAAAGGTAAGTTAATT
14226305 AATCAAA
1 AATCAAA
14226312 GGTCCAACTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.55, C:0.08, G:0.11, T:0.26
Consensus pattern (23 bp):
AATCAAAAAAAGGTAAGTTAATT
Found at i:14236399 original size:43 final size:43
Alignment explanation
Indices: 14236301--14236430 Score: 108
Period size: 43 Copynumber: 3.0 Consensus size: 43
14236291 AACTCGTACA
* ** *
14236301 ATGCCAACGTCCCAGACGTGGTCTTACATGCAATCACATATCG
1 ATGCCAACGTCCCAGAAGTGGTCTTACACACAAACACATATCG
* *
14236344 ATGCC-TCTGTCCCAGATAG-GGTCTTACACATAAACACA-AGTCG
1 ATGCCAAC-GTCCCAGA-AGTGGTCTTACACACAAACACATA-TCG
* *
14236387 ATGCCAACGTCCCCA-ACGTGGTCTTACACGA-TAACACATATCG
1 ATGCCAACGT-CCCAGAAGTGGTCTTACAC-ACAAACACATATCG
14236430 A
1 A
14236431 AAATCCTATG
Statistics
Matches: 70, Mismatches: 9, Indels: 16
0.74 0.09 0.17
Matches are distributed among these distances:
42 3 0.04
43 59 0.84
44 8 0.11
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (43 bp):
ATGCCAACGTCCCAGAAGTGGTCTTACACACAAACACATATCG
Found at i:14238483 original size:42 final size:42
Alignment explanation
Indices: 14238422--14238552 Score: 145
Period size: 43 Copynumber: 3.1 Consensus size: 42
14238412 TTGCGGCGTT
* * *
14238422 TTTTACAATAAACGTCGCTAAAGGACATGACTTTTAGTGGCGC
1 TTTTACAA-AAACGCCGCTAAAGGTCATGACCTTTAGTGGCGC
* * *
14238465 TTTTACAAAAACGCCGCTAAAGGTTATAACCTTTAGTCGCGC
1 TTTTACAAAAACGCCGCTAAAGGTCATGACCTTTAGTGGCGC
* * * * *
14238507 TTTTCCCACAAACACCGCCAAAGGTCATGACCTTTAGCGGCGC
1 TTTT-ACAAAAACGCCGCTAAAGGTCATGACCTTTAGTGGCGC
14238550 TTT
1 TTT
14238553 CCCCACAAAC
Statistics
Matches: 73, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
42 32 0.44
43 41 0.56
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.28
Consensus pattern (42 bp):
TTTTACAAAAACGCCGCTAAAGGTCATGACCTTTAGTGGCGC
Found at i:14238579 original size:43 final size:44
Alignment explanation
Indices: 14238493--14238660 Score: 173
Period size: 43 Copynumber: 3.9 Consensus size: 44
14238483 AAAGGTTATA
* * * **
14238493 ACCTTTAGTC-GCGCTTTTCCCACAAACACCGCCA-AAGGTCATG
1 ACCTTTAG-CGGCGCTTTCCCCACAAACGCCGCTATAAGACCATG
*
14238536 ACCTTTAGCGGCGCTTTCCCCACAAACGCCACTATAA-ACCATG
1 ACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTATAAGACCATG
* ** *
14238579 ACCTTTAGCGGTGCTTTCCCCACAAACGTTGCTA-AAGATCATG
1 ACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTATAAGACCATG
** * *
14238622 ACCTTTAGCAACGTTTTTCCCACAAACGCCGCTATAAGA
1 ACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTATAAGA
14238661 TTGACTTTTA
Statistics
Matches: 103, Mismatches: 18, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
42 3 0.03
43 94 0.91
44 6 0.06
ACGTcount: A:0.27, C:0.33, G:0.15, T:0.24
Consensus pattern (44 bp):
ACCTTTAGCGGCGCTTTCCCCACAAACGCCGCTATAAGACCATG
Found at i:14238682 original size:43 final size:43
Alignment explanation
Indices: 14238507--14238683 Score: 123
Period size: 43 Copynumber: 4.1 Consensus size: 43
14238497 TTAGTCGCGC
* * * **
14238507 TTTTCCCACAAACACCGCCA-AAGGTCATGACCTTTAGCGGCGC-
1 TTTTCCCACAAACGCCGCTATAAGAT--TGACCTTTAGCGATGCT
* * * *
14238550 TTTCCCCACAAACGCCACTATAA-ACCATGACCTTTAGCGGTGC-
1 TTTTCCCACAAACGCCGCTATAAGA--TTGACCTTTAGCGATGCT
* ** * *
14238593 TTTCCCCACAAACGTTGCTA-AAGATCATGACCTTTAGCAACG-T
1 TTTTCCCACAAACGCCGCTATAAGAT--TGACCTTTAGCGATGCT
*
14238636 TTTTCCCACAAACGCCGCTATAAGATTGACTTTTAGCGATGCT
1 TTTTCCCACAAACGCCGCTATAAGATTGACCTTTAGCGATGCT
14238679 TTTTC
1 TTTTC
14238684 ACGAACGTCG
Statistics
Matches: 105, Mismatches: 20, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 14 0.13
43 84 0.80
44 7 0.07
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.28
Consensus pattern (43 bp):
TTTTCCCACAAACGCCGCTATAAGATTGACCTTTAGCGATGCT
Found at i:14242383 original size:18 final size:19
Alignment explanation
Indices: 14242362--14242397 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
14242352 AAAATTATAA
14242362 AATTTAGTTTTT-TATTTC
1 AATTTAGTTTTTGTATTTC
*
14242380 AATTTTGTTTTTGTATTT
1 AATTTAGTTTTTGTATTT
14242398 TATTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.19, C:0.03, G:0.08, T:0.69
Consensus pattern (19 bp):
AATTTAGTTTTTGTATTTC
Found at i:14242796 original size:7 final size:7
Alignment explanation
Indices: 14242784--14242903 Score: 59
Period size: 7 Copynumber: 17.0 Consensus size: 7
14242774 ACCCTTGAAT
14242784 CCCTAAA
1 CCCTAAA
14242791 CCCTAAA
1 CCCTAAA
14242798 TCCCT-AA
1 -CCCTAAA
* *
14242805 CTCTTAAC
1 C-CCTAAA
14242813 CCCT-AA
1 CCCTAAA
*
14242819 CCTCTAAC
1 CC-CTAAA
*
14242827 CCCTAAC
1 CCCTAAA
*
14242834 CCCTAAC
1 CCCTAAA
*
14242841 CCCTAAC
1 CCCTAAA
14242848 CCCTAAA
1 CCCTAAA
*
14242855 CCTTAAA
1 CCCTAAA
14242862 TCCC--AA
1 -CCCTAAA
14242868 CCCTTAAA
1 CCC-TAAA
* *
14242876 CCATAAT
1 CCCTAAA
*
14242883 CCCTAAT
1 CCCTAAA
* *
14242890 CCATAAT
1 CCCTAAA
14242897 CCCTAAA
1 CCCTAAA
14242904 TCCATACTCC
Statistics
Matches: 90, Mismatches: 14, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
5 3 0.03
6 6 0.07
7 66 0.73
8 15 0.17
ACGTcount: A:0.35, C:0.43, G:0.00, T:0.22
Consensus pattern (7 bp):
CCCTAAA
Found at i:14242825 original size:21 final size:21
Alignment explanation
Indices: 14242784--14242853 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
14242774 ACCCTTGAAT
* *
14242784 CCCTAAACCCTAAATCCCTAAC
1 CCCTAACCCCT-AACCCCTAAC
* * *
14242806 TCTTAACCCCTAACCTCTAAC
1 CCCTAACCCCTAACCCCTAAC
14242827 CCCTAACCCCTAACCCCTAAC
1 CCCTAACCCCTAACCCCTAAC
14242848 CCCTAA
1 CCCTAA
14242854 ACCTTAAATC
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
21 32 0.80
22 8 0.20
ACGTcount: A:0.31, C:0.49, G:0.00, T:0.20
Consensus pattern (21 bp):
CCCTAACCCCTAACCCCTAAC
Found at i:14242849 original size:14 final size:14
Alignment explanation
Indices: 14242784--14242853 Score: 86
Period size: 14 Copynumber: 4.9 Consensus size: 14
14242774 ACCCTTGAAT
* *
14242784 CCCTAAACCCTAAAT
1 CCCTAACCCCT-AAC
* *
14242799 CCCTAACTCTTAAC
1 CCCTAACCCCTAAC
*
14242813 CCCTAACCTCTAAC
1 CCCTAACCCCTAAC
14242827 CCCTAACCCCTAAC
1 CCCTAACCCCTAAC
14242841 CCCTAACCCCTAA
1 CCCTAACCCCTAA
14242854 ACCTTAAATC
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
14 39 0.83
15 8 0.17
ACGTcount: A:0.31, C:0.49, G:0.00, T:0.20
Consensus pattern (14 bp):
CCCTAACCCCTAAC
Found at i:14242869 original size:21 final size:21
Alignment explanation
Indices: 14242845--14242923 Score: 63
Period size: 21 Copynumber: 3.7 Consensus size: 21
14242835 CCTAACCCCT
14242845 AACCCCTAAACCTTAAATCCC
1 AACCCCTAAACCTTAAATCCC
* *
14242866 AACCCTTAAACCAT-AATCCC
1 AACCCCTAAACCTTAAATCCC
* * * *
14242886 TAATCCATAATCCCTAAAT-CC
1 -AACCCCTAAACCTTAAATCCC
14242907 ATACTCCCTAAACCTTA
1 A-AC-CCCTAAACCTTA
14242924 CACTATTAAC
Statistics
Matches: 44, Mismatches: 10, Indels: 7
0.72 0.16 0.11
Matches are distributed among these distances:
20 7 0.16
21 25 0.57
22 12 0.27
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.24
Consensus pattern (21 bp):
AACCCCTAAACCTTAAATCCC
Found at i:14242893 original size:14 final size:14
Alignment explanation
Indices: 14242876--14242917 Score: 66
Period size: 14 Copynumber: 2.9 Consensus size: 14
14242866 AACCCTTAAA
14242876 CCATAATCCCTAAT
1 CCATAATCCCTAAT
14242890 CCATAATCCCTAAAT
1 CCATAATCCCT-AAT
*
14242905 CCATACTCCCTAA
1 CCATAATCCCTAA
14242918 ACCTTACACT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 13 0.50
15 13 0.50
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:14242905 original size:15 final size:15
Alignment explanation
Indices: 14242872--14242918 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
14242862 TCCCAACCCT
14242872 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
14242886 T-AATCCATAATCCC
1 TAAATCCATAATCCC
*
14242900 TAAATCCATACTCCC
1 TAAATCCATAATCCC
14242915 TAAA
1 TAAA
14242919 CCTTACACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 2 0.07
14 12 0.40
15 16 0.53
ACGTcount: A:0.40, C:0.34, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:14243359 original size:41 final size:40
Alignment explanation
Indices: 14243302--14243494 Score: 271
Period size: 41 Copynumber: 4.7 Consensus size: 40
14243292 TATTTTTACA
14243302 GCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCG
1 GCGC-TTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCG
* *
14243343 GCGCTTTTCCAAAAACGTCGCTAAATCCCCGAGCATTAGCTG
1 GCGCTTTT-CAAAAACGCCGCTAAAGCCCCGAGCATTAGC-G
*
14243385 TGC-CTTTTTAAAAACGCCGCTAAAGCCCCGAGCATTAGCG
1 -GCGCTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCG
*
14243425 GCACCTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCG
1 GC-GCTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCG
* *
14243466 GCGCCTTCTCAAAAACGCCACTAAAGCCC
1 GCG-CTTTTCAAAAACGCCGCTAAAGCCC
14243495 TGAAAGGTCA
Statistics
Matches: 137, Mismatches: 9, Indels: 12
0.87 0.06 0.08
Matches are distributed among these distances:
39 2 0.01
40 5 0.04
41 122 0.89
42 6 0.04
43 2 0.01
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.20
Consensus pattern (40 bp):
GCGCTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTAGCG
Found at i:14244160 original size:43 final size:43
Alignment explanation
Indices: 14244112--14244235 Score: 130
Period size: 43 Copynumber: 2.9 Consensus size: 43
14244102 AACTCGTACA
* *
14244112 ATGCCAACGTCCCAGACGTGGTCTTACATGCAATCACATA-TCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGCAAACACA-AGTCG
* * *
14244155 ATGCC-ACTTTCCCAGACAG-GGTCTTACACGTAAAGACAAGTCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGCAAACACAAGTCG
*
14244198 ATGCCAACGTCCCCGACGTGGTCTTACACG-ATAACACA
1 ATGCCAACGTCCCAGACGTGGTCTTACACGCA-AACACA
14244236 TATCAGAAAT
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
42 5 0.07
43 59 0.88
44 3 0.04
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGCAAACACAAGTCG
Found at i:14245125 original size:14 final size:14
Alignment explanation
Indices: 14245106--14245134 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
14245096 ATAGCTTTGT
14245106 TTATTTTACTATTA
1 TTATTTTACTATTA
14245120 TTATTTTACTATTA
1 TTATTTTACTATTA
14245134 T
1 T
14245135 AATTAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATTTTACTATTA
Found at i:14256362 original size:34 final size:31
Alignment explanation
Indices: 14256287--14256362 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
14256277 TAAATATATA
* *
14256287 TTATTTCTAAAATTAAAAACTATTTAAAACT
1 TTATTTCTAAAATAAAAAAATATTTAAAACT
* * *
14256318 CTATTCCTAAAATAAAAAAATAATTTTTTAAACT
1 TTATTTCTAAAATAAAAAAAT-A--TTTAAAACT
14256352 TTATTTCTAAA
1 TTATTTCTAAA
14256363 CTTGCCTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
31 17 0.49
32 1 0.03
34 17 0.49
ACGTcount: A:0.47, C:0.11, G:0.00, T:0.42
Consensus pattern (31 bp):
TTATTTCTAAAATAAAAAAATATTTAAAACT
Found at i:14257053 original size:39 final size:43
Alignment explanation
Indices: 14256949--14257055 Score: 125
Period size: 45 Copynumber: 2.5 Consensus size: 43
14256939 AAATAGAGGC
14256949 GTAATGGAATAGAGGTGTAATAGTAAATCAATTGTTTGGTTGAAT
1 GTAATGGAATAGAGGTGTAATAGTAAATCAATTGTTTGGTT--AT
* * *
14256994 GTAATGGAATAGAGGCGTAATAGT-ATTC-TTGTGTTTGG-T-T
1 GTAATGGAATAGAGGTGTAATAGTAAATCAAT-TGTTTGGTTAT
14257034 G-AATGGAATAGAGGTGTAATAG
1 GTAATGGAATAGAGGTGTAATAG
14257056 CATAATGGAA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
39 20 0.35
40 2 0.04
43 2 0.04
44 10 0.18
45 23 0.40
ACGTcount: A:0.33, C:0.03, G:0.30, T:0.35
Consensus pattern (43 bp):
GTAATGGAATAGAGGTGTAATAGTAAATCAATTGTTTGGTTAT
Found at i:14257283 original size:14 final size:15
Alignment explanation
Indices: 14257232--14257280 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
14257222 CTATAAAAGA
*
14257232 TAATTTAACATA-AT
1 TAATTAAACATATAT
14257246 TATTATTAAACATATAT
1 TA--ATTAAACATATAT
14257263 TAATTAAA-ATATA-
1 TAATTAAACATATAT
14257276 TAATT
1 TAATT
14257281 TAATAAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.16
14 7 0.23
15 6 0.19
16 9 0.29
17 4 0.13
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATTAAACATATAT
Found at i:14262731 original size:2 final size:2
Alignment explanation
Indices: 14262724--14262756 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
14262714 CTACTTAGAT
14262724 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14262757 ATGGTAGAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14270427 original size:73 final size:73
Alignment explanation
Indices: 14270340--14270486 Score: 294
Period size: 73 Copynumber: 2.0 Consensus size: 73
14270330 TGACAACATT
14270340 AATAATGAGAATGACCTAATTCTAACCATCAAGCTCAACTCAGCATGGTTTATTTAAGCTAGATC
1 AATAATGAGAATGACCTAATTCTAACCATCAAGCTCAACTCAGCATGGTTTATTTAAGCTAGATC
14270405 ACACATCC
66 ACACATCC
14270413 AATAATGAGAATGACCTAATTCTAACCATCAAGCTCAACTCAGCATGGTTTATTTAAGCTAGATC
1 AATAATGAGAATGACCTAATTCTAACCATCAAGCTCAACTCAGCATGGTTTATTTAAGCTAGATC
14270478 ACACATCC
66 ACACATCC
14270486 A
1 A
14270487 CACCACATAA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.27
Consensus pattern (73 bp):
AATAATGAGAATGACCTAATTCTAACCATCAAGCTCAACTCAGCATGGTTTATTTAAGCTAGATC
ACACATCC
Found at i:14285375 original size:5 final size:5
Alignment explanation
Indices: 14285365--14285395 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
14285355 TTAGCGCTCA
14285365 CTGAC CTGAC CTGAC CTGAC CTGAC CTGAC C
1 CTGAC CTGAC CTGAC CTGAC CTGAC CTGAC C
14285396 AATCCCAACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.42, G:0.19, T:0.19
Consensus pattern (5 bp):
CTGAC
Found at i:14285463 original size:5 final size:5
Alignment explanation
Indices: 14285453--14285485 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
14285443 CCCTCCTTTT
14285453 CCTTC CCTTC CCTTC CCTTC CCTTC CCTTC CCT
1 CCTTC CCTTC CCTTC CCTTC CCTTC CCTTC CCT
14285486 CGCTCGCTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (5 bp):
CCTTC
Found at i:14286540 original size:16 final size:16
Alignment explanation
Indices: 14286519--14286558 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
14286509 AAAAACTTGT
14286519 TTGTTATAGCAAAAT-A
1 TTGTTATAGC-AAATGA
*
14286535 TTGTTATAGCATATGA
1 TTGTTATAGCAAATGA
14286551 TTGTTATA
1 TTGTTATA
14286559 AAGAGGGCTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (16 bp):
TTGTTATAGCAAATGA
Found at i:14289560 original size:21 final size:21
Alignment explanation
Indices: 14289536--14289581 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
14289526 TGTGGTGCAC
14289536 TTTTAAAAGGAATCTAGGAAT
1 TTTTAAAAGGAATCTAGGAAT
** * *
14289557 TTTTGGAAGGGATCTAGGCAT
1 TTTTAAAAGGAATCTAGGAAT
14289578 TTTT
1 TTTT
14289582 TGTAACACCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.30, C:0.07, G:0.24, T:0.39
Consensus pattern (21 bp):
TTTTAAAAGGAATCTAGGAAT
Found at i:14291933 original size:42 final size:42
Alignment explanation
Indices: 14291780--14291944 Score: 154
Period size: 43 Copynumber: 3.9 Consensus size: 42
14291770 TACCGTAACA
* * ** *
14291780 ATGCC-ATATCCCAGATACGGTCTTACATGTAATCTCGTATCG
1 ATGCCAATATCCCAGACATGGTCTTACA-CAAATCTCATATCG
* * * *
14291822 ATGCCAATAGCCTAGCCATGGTCTTACACGAAATCACATATCG
1 ATGCCAATATCCCAGACATGGTCTTACAC-AAATCTCATATCG
* * *
14291865 ATGCCAATGTCCCAGACATGGTCTTACACAAATTCTCATGTTG
1 ATGCCAATATCCCAGACATGGTCTTACACAAA-TCTCATATCG
* *
14291908 ATGCC-ATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCAATATCCCAGACATGGTCTTACAC-AAATCTCA
14291945 GTAACCCGAA
Statistics
Matches: 100, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 34 0.34
43 66 0.66
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (42 bp):
ATGCCAATATCCCAGACATGGTCTTACACAAATCTCATATCG
Found at i:14294889 original size:91 final size:91
Alignment explanation
Indices: 14294685--14294869 Score: 325
Period size: 91 Copynumber: 2.0 Consensus size: 91
14294675 TTAAGTTTGA
14294685 TATTCAAAACTTGAATTCAAATACAACTTTATCATTAAGTTTGATATTCAATAGAATTCTAATAT
1 TATTCAAAACTTGAATTCAAATACAACTTTATCATTAAGTTTGATATTCAATAGAATTCTAATAT
* *
14294750 TTATTAGGAGTATAGTTTATATTATT
66 TTATTAGGAGTAGAGTGTATATTATT
* * *
14294776 TATTCAAAACTTGAATTCAAATACAATTTTATCATTAAGTTTGATATTCATTAGAATTCTACTAT
1 TATTCAAAACTTGAATTCAAATACAACTTTATCATTAAGTTTGATATTCAATAGAATTCTAATAT
14294841 TTATTAGGAGTAGAGTGTATATTATT
66 TTATTAGGAGTAGAGTGTATATTATT
14294867 TAT
1 TAT
14294870 ATTCCTTATA
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 89 1.00
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.44
Consensus pattern (91 bp):
TATTCAAAACTTGAATTCAAATACAACTTTATCATTAAGTTTGATATTCAATAGAATTCTAATAT
TTATTAGGAGTAGAGTGTATATTATT
Found at i:14295813 original size:21 final size:21
Alignment explanation
Indices: 14295789--14295834 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
14295779 TGTGGTGCAC
14295789 TTTTAAAAGGAATCTAGGAAT
1 TTTTAAAAGGAATCTAGGAAT
** *
14295810 TTTTCGAAGGGATCTAGGAAT
1 TTTTAAAAGGAATCTAGGAAT
14295831 TTTT
1 TTTT
14295835 GGGTCAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.22, T:0.39
Consensus pattern (21 bp):
TTTTAAAAGGAATCTAGGAAT
Found at i:14296054 original size:2 final size:2
Alignment explanation
Indices: 14296047--14296071 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
14296037 TAGGCTTAAT
14296047 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
14296072 GAGCTCAATA
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:14300173 original size:23 final size:22
Alignment explanation
Indices: 14300123--14300175 Score: 56
Period size: 21 Copynumber: 2.4 Consensus size: 22
14300113 ACAACTTTTG
14300123 ATTTTAAATATGATTATAGAAAA
1 ATTTTAAA-ATGATTATAGAAAA
* *
14300146 A--TTAAAATGGTTAATATAAAA
1 ATTTTAAAATGATT-ATAGAAAA
14300167 ATTTTAAAA
1 ATTTTAAAA
14300176 ATTGATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 5 0.20
21 13 0.52
23 7 0.28
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.38
Consensus pattern (22 bp):
ATTTTAAAATGATTATAGAAAA
Found at i:14302230 original size:32 final size:32
Alignment explanation
Indices: 14302189--14302279 Score: 173
Period size: 32 Copynumber: 2.8 Consensus size: 32
14302179 AGATATTGAC
*
14302189 TATGTTTTAAGCTTGTTAGATATTGAATTTAT
1 TATGTTTTAAGCTTGTTGGATATTGAATTTAT
14302221 TATGTTTTAAGCTTGTTGGATATTGAATTTAT
1 TATGTTTTAAGCTTGTTGGATATTGAATTTAT
14302253 TATGTTTTAAGCTTGTTGGATATTGAA
1 TATGTTTTAAGCTTGTTGGATATTGAA
14302280 ATGATTGACA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 58 1.00
ACGTcount: A:0.26, C:0.03, G:0.19, T:0.52
Consensus pattern (32 bp):
TATGTTTTAAGCTTGTTGGATATTGAATTTAT
Found at i:14302243 original size:59 final size:60
Alignment explanation
Indices: 14302145--14302281 Score: 143
Period size: 59 Copynumber: 2.2 Consensus size: 60
14302135 TTTTAGTTTA
* *
14302145 TTAGATTTTGAAATTATTATGTCTTGAATTTATTAGATATTG-ACTATGTTTTAAGCTTG
1 TTAGATATTGAAATTATTATGTCTTGAACTTATTAGATATTGTACTATGTTTTAAGCTTG
* * * * *
14302204 TTAGATATTGAATTTATTATGT-TTTAAGCTTGTTGGATATTGAATTTATTATGTTTTAAGCTTG
1 TTAGATATTGAAATTATTATGTCTTGAA-CTTATTAGATATTG----TACTATGTTTTAAGCTTG
*
14302268 TTGGATATTGAAAT
1 TTAGATATTGAAAT
14302282 GATTGACAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
58 4 0.06
59 31 0.49
64 28 0.44
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.51
Consensus pattern (60 bp):
TTAGATATTGAAATTATTATGTCTTGAACTTATTAGATATTGTACTATGTTTTAAGCTTG
Found at i:14303560 original size:20 final size:20
Alignment explanation
Indices: 14303535--14303572 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14303525 ACAATTTAAA
14303535 ATATAAATTTATTAATATGT
1 ATATAAATTTATTAATATGT
14303555 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
14303573 ATGTAAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (20 bp):
ATATAAATTTATTAATATGT
Found at i:14303684 original size:20 final size:19
Alignment explanation
Indices: 14303658--14303701 Score: 70
Period size: 20 Copynumber: 2.3 Consensus size: 19
14303648 CCAAACACCA
*
14303658 AAAAAGTAAATTATTTTCC
1 AAAAAGTAAATCATTTTCC
14303677 AGAAAAGTAAATCATTTTCC
1 A-AAAAGTAAATCATTTTCC
14303697 AAAAA
1 AAAAA
14303702 TTATTTTTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 18 0.78
ACGTcount: A:0.52, C:0.11, G:0.07, T:0.30
Consensus pattern (19 bp):
AAAAAGTAAATCATTTTCC
Found at i:14303879 original size:24 final size:24
Alignment explanation
Indices: 14303823--14303881 Score: 100
Period size: 24 Copynumber: 2.5 Consensus size: 24
14303813 TCTCCTAAGG
14303823 TTAAGGTTTTTAATATTTTTAGGT
1 TTAAGGTTTTTAATATTTTTAGGT
*
14303847 TTAAAGTTTTTAATATTTTTAGGT
1 TTAAGGTTTTTAATATTTTTAGGT
*
14303871 TTAGGGTTTTT
1 TTAAGGTTTTT
14303882 GGGTTTAGGA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.24, C:0.00, G:0.17, T:0.59
Consensus pattern (24 bp):
TTAAGGTTTTTAATATTTTTAGGT
Found at i:14303897 original size:15 final size:15
Alignment explanation
Indices: 14303861--14303897 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
14303851 AGTTTTTAAT
*
14303861 ATTTTTAGGTTTAGG
1 ATTTTTGGGTTTAGG
*
14303876 GTTTTTGGGTTTAGG
1 ATTTTTGGGTTTAGG
14303891 ATTTTTG
1 ATTTTTG
14303898 ACAAAAACTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.00, G:0.30, T:0.57
Consensus pattern (15 bp):
ATTTTTGGGTTTAGG
Found at i:14305601 original size:19 final size:19
Alignment explanation
Indices: 14305579--14305619 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
14305569 ATTGCATTTC
14305579 ATTCA-TTGCATTTAGGTTA
1 ATTCATTTGCATTTA-GTTA
14305598 ATTCATTTGCATTTAGTTA
1 ATTCATTTGCATTTAGTTA
14305617 ATT
1 ATT
14305620 AAATTAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.27, C:0.10, G:0.12, T:0.51
Consensus pattern (19 bp):
ATTCATTTGCATTTAGTTA
Found at i:14306729 original size:29 final size:30
Alignment explanation
Indices: 14306670--14306727 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
14306660 TCCGAGCCTT
*
14306670 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
14306700 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
14306728 AGAGTCAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:14306972 original size:50 final size:50
Alignment explanation
Indices: 14306914--14307091 Score: 257
Period size: 50 Copynumber: 3.5 Consensus size: 50
14306904 TAAGATCATA
* *
14306914 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* *
14306964 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
* * * *
14307014 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
**
14307064 AGAACATCCCATGTAAGACCATGTCTGG
1 AG-AGGTCCCATGTAAGACCATGTCTGG
14307092 TGTAATCAAT
Statistics
Matches: 113, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 92 0.81
51 21 0.19
ACGTcount: A:0.26, C:0.25, G:0.30, T:0.19
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATG
Found at i:14309823 original size:14 final size:14
Alignment explanation
Indices: 14309804--14309841 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
14309794 GTTTGCCAGT
*
14309804 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
14309818 AAAATGATTTCTGG
1 AAAATGATTTCCGG
14309832 AAAATGATTT
1 AAAATGATTT
14309842 ACATTTCTGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:14309849 original size:20 final size:20
Alignment explanation
Indices: 14309824--14309863 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
14309814 CCGGAAAATG
14309824 ATTTCTGGAAAATGATTTAC
1 ATTTCTGGAAAATGATTTAC
14309844 ATTTCTGGAAAATGATTTAC
1 ATTTCTGGAAAATGATTTAC
14309864 TGAAAATATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (20 bp):
ATTTCTGGAAAATGATTTAC
Found at i:14309859 original size:34 final size:33
Alignment explanation
Indices: 14309811--14309874 Score: 94
Period size: 34 Copynumber: 1.9 Consensus size: 33
14309801 AGTAAAATGT
14309811 TTTCCGGAAAATGATTT-CTGGAAAATGATTTACA
1 TTTCCGGAAAATGATTTACT-GAAAAT-ATTTACA
*
14309845 TTTCTGGAAAATGATTTACTGAAAATATTT
1 TTTCCGGAAAATGATTTACTGAAAATATTT
14309875 TCTGGTGTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
33 4 0.14
34 22 0.79
35 2 0.07
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.39
Consensus pattern (33 bp):
TTTCCGGAAAATGATTTACTGAAAATATTTACA
Found at i:14310061 original size:18 final size:18
Alignment explanation
Indices: 14310038--14310073 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
14310028 AATTTATTTA
14310038 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
14310056 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
14310074 GGTTTAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:14312170 original size:13 final size:13
Alignment explanation
Indices: 14312154--14312178 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14312144 TCAGAAGGGA
14312154 AAAAAGAAAAAAG
1 AAAAAGAAAAAAG
14312167 AAAAAGAAAAAA
1 AAAAAGAAAAAA
14312179 AACTACAACA
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAG
Found at i:14314668 original size:18 final size:17
Alignment explanation
Indices: 14314645--14314680 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
14314635 CATGTTAGCA
*
14314645 TGCCACGTCAACATCATT
1 TGCCACATCAACAT-ATT
14314663 TGCCACATCAACATATT
1 TGCCACATCAACATATT
14314680 T
1 T
14314681 AACAGTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.31, C:0.31, G:0.08, T:0.31
Consensus pattern (17 bp):
TGCCACATCAACATATT
Found at i:14317425 original size:12 final size:12
Alignment explanation
Indices: 14317408--14317448 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
14317398 ACTTAATCAC
14317408 TTTAATATTAAA
1 TTTAATATTAAA
14317420 TTTAATATTAAA
1 TTTAATATTAAA
*
14317432 TCT--TATTAAA
1 TTTAATATTAAA
14317442 -TTAATAT
1 TTTAATAT
14317449 AATATTTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
9 1 0.04
10 7 0.28
11 3 0.12
12 14 0.56
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (12 bp):
TTTAATATTAAA
Found at i:14323423 original size:2 final size:2
Alignment explanation
Indices: 14323416--14323444 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
14323406 TATAATTGTG
14323416 AT 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 AT A
14323445 AGATGATTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14324638 original size:23 final size:23
Alignment explanation
Indices: 14324622--14324695 Score: 87
Period size: 23 Copynumber: 3.2 Consensus size: 23
14324612 AAAATGATAT
*
14324622 CAAAATAGCACAAAAAACAACAC
1 CAAAACAGCACAAAAAACAACAC
14324645 CAAAACAGCACAAAAAACAACAC
1 CAAAACAGCACAAAAAACAACAC
* * * *
14324668 CACTAGCAACAC-CAAAACAACAC
1 CA-AAACAGCACAAAAAACAACAC
14324691 CAAAA
1 CAAAA
14324696 ACCTGCAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
22 1 0.02
23 36 0.84
24 6 0.14
ACGTcount: A:0.62, C:0.31, G:0.04, T:0.03
Consensus pattern (23 bp):
CAAAACAGCACAAAAAACAACAC
Found at i:14324649 original size:12 final size:12
Alignment explanation
Indices: 14324634--14324697 Score: 69
Period size: 12 Copynumber: 5.5 Consensus size: 12
14324624 AAATAGCACA
14324634 AAAAACAACACC
1 AAAAACAACACC
* *
14324646 -AAAACAGCACA
1 AAAAACAACACC
14324657 AAAAACAACACC
1 AAAAACAACACC
** *
14324669 ACTAGCAACACC
1 AAAAACAACACC
14324681 -AAAACAACACC
1 AAAAACAACACC
14324692 AAAAAC
1 AAAAAC
14324698 CTGCAAAATA
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
11 17 0.43
12 23 0.57
ACGTcount: A:0.62, C:0.33, G:0.03, T:0.02
Consensus pattern (12 bp):
AAAAACAACACC
Found at i:14325337 original size:70 final size:70
Alignment explanation
Indices: 14325232--14325363 Score: 246
Period size: 70 Copynumber: 1.9 Consensus size: 70
14325222 GTCCAACTGT
* *
14325232 GACTTTTCACTCTTAGTGCTAGATTCATTTAAATACCATTTATAATCATCACTCTCATCAAACCA
1 GACTTTTCAATCTTAGTGCTAGATTCATTTAAATACCATTTATAATCACCACTCTCATCAAACCA
14325297 ACTAC
66 ACTAC
14325302 GACTTTTCAATCTTAGTGCTAGATTCATTTAAATACCATTTATAATCACCACTCTCATCAAA
1 GACTTTTCAATCTTAGTGCTAGATTCATTTAAATACCATTTATAATCACCACTCTCATCAAA
14325364 ATCTCCCCCA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.36
Consensus pattern (70 bp):
GACTTTTCAATCTTAGTGCTAGATTCATTTAAATACCATTTATAATCACCACTCTCATCAAACCA
ACTAC
Found at i:14329785 original size:40 final size:40
Alignment explanation
Indices: 14329738--14329928 Score: 171
Period size: 40 Copynumber: 4.9 Consensus size: 40
14329728 ACTTTGCGGT
*
14329738 GTTTTTCTCCTAGCGCGGCTAATGCTCGACCTTTTGCT-GC
1 GTTTTTCTCCTAGCGCCGCTAATGCTCGACCTTTTG-TGGC
* * *
14329778 GTTTTTCTTCTAGCGCCGCTAATGCTTGACCTTTTGCGGC
1 GTTTTTCTCCTAGCGCCGCTAATGCTCGACCTTTTGTGGC
** *
14329818 AATTTTCTCCTA--G-C-C-ACTG-TCGACCTTTTGTGGC
1 GTTTTTCTCCTAGCGCCGCTAATGCTCGACCTTTTGTGGC
* * *
14329852 ATTTTTCTCCTAGCGCCGCTAATGTTTGACCTTTTGTGGC
1 GTTTTTCTCCTAGCGCCGCTAATGCTCGACCTTTTGTGGC
* * * * * *
14329892 GTATTTCTCATAAACGTCGCTAATGCTTGATCTTTTG
1 GTTTTTCTCCT-AGCGCCGCTAATGCTCGACCTTTTG
14329929 CGACATTTTT
Statistics
Matches: 123, Mismatches: 20, Indels: 15
0.78 0.13 0.09
Matches are distributed among these distances:
34 24 0.20
35 3 0.02
36 2 0.02
37 2 0.02
38 2 0.02
39 3 0.02
40 66 0.54
41 21 0.17
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.40
Consensus pattern (40 bp):
GTTTTTCTCCTAGCGCCGCTAATGCTCGACCTTTTGTGGC
Found at i:14329927 original size:41 final size:40
Alignment explanation
Indices: 14329842--14329995 Score: 139
Period size: 41 Copynumber: 3.8 Consensus size: 40
14329832 CACTGTCGAC
* * *
14329842 CTTTTGTGGCATTTTTCTCCT-AGCGCCGCTAATGTTTGA
1 CTTTTGTGGCATTTTTCTCATAAACGCCGCTAATGCTTGA
* * *
14329881 CCTTTTGTGGCGTATTTCTCATAAACGTCGCTAATGCTTGA
1 -CTTTTGTGGCATTTTTCTCATAAACGCCGCTAATGCTTGA
* * * *
14329922 TCTTTTGCGACATTTTTCTTATAAACACCGCTAATGCTTGA
1 -CTTTTGTGGCATTTTTCTCATAAACGCCGCTAATGCTTGA
* * * * *
14329963 CTTTTTGCGGCGTTGTTCTGATAAACACCGCTA
1 C-TTTTGTGGCATTTTTCTCATAAACGCCGCTA
14329996 TTAATTTACT
Statistics
Matches: 94, Mismatches: 18, Indels: 3
0.82 0.16 0.03
Matches are distributed among these distances:
40 19 0.20
41 75 0.80
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.40
Consensus pattern (40 bp):
CTTTTGTGGCATTTTTCTCATAAACGCCGCTAATGCTTGA
Found at i:14331235 original size:25 final size:23
Alignment explanation
Indices: 14331207--14331266 Score: 57
Period size: 25 Copynumber: 2.4 Consensus size: 23
14331197 AATTTTACAC
*
14331207 ATTTTTAAATTTTATTATGGATAAA
1 ATTTTTAAATTTTATTAT--ACAAA
* *
14331232 ATTTTGATATTTTTATTATACAAA
1 ATTTTTA-AATTTTATTATACAAA
14331256 AGTTTTTAAAT
1 A-TTTTTAAAT
14331267 GTATTTTTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
24 7 0.25
25 11 0.39
26 10 0.36
ACGTcount: A:0.38, C:0.02, G:0.07, T:0.53
Consensus pattern (23 bp):
ATTTTTAAATTTTATTATACAAA
Found at i:14332224 original size:30 final size:31
Alignment explanation
Indices: 14332188--14332246 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
14332178 TGGAGAATTC
14332188 TTGCTCAACTA-GCTTCGTGGCTAGGAATAT
1 TTGCTCAACTAGGCTTCGTGGCTAGGAATAT
* * *
14332218 TTGCTCAATTAGGCTTTGTGGCTGGGAAT
1 TTGCTCAACTAGGCTTCGTGGCTAGGAAT
14332247 GGGAGTTGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.36
Consensus pattern (31 bp):
TTGCTCAACTAGGCTTCGTGGCTAGGAATAT
Found at i:14334682 original size:26 final size:26
Alignment explanation
Indices: 14334653--14334712 Score: 111
Period size: 26 Copynumber: 2.3 Consensus size: 26
14334643 TAACTGTATA
*
14334653 TGCTCACACGAGATGTGAAATGAGCC
1 TGCTCACACGAGATGTGAAATAAGCC
14334679 TGCTCACACGAGATGTGAAATAAGCC
1 TGCTCACACGAGATGTGAAATAAGCC
14334705 TGCTCACA
1 TGCTCACA
14334713 TGAGCTATGG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (26 bp):
TGCTCACACGAGATGTGAAATAAGCC
Found at i:14338634 original size:19 final size:20
Alignment explanation
Indices: 14338612--14338654 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
14338602 TTAATTATAA
14338612 AAAATAATTT-TA-AAAAAAT
1 AAAA-AATTTATAGAAAAAAT
*
14338631 AAAAATTTTATAGAAAAAAT
1 AAAAAATTTATAGAAAAAAT
14338651 AAAA
1 AAAA
14338655 GAAAATCTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 4 0.19
19 6 0.29
20 11 0.52
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAAAATTTATAGAAAAAAT
Found at i:14346797 original size:54 final size:54
Alignment explanation
Indices: 14346722--14346829 Score: 207
Period size: 54 Copynumber: 2.0 Consensus size: 54
14346712 AAATCTAGGA
14346722 TACACTTGGACGTAAGCTCGGAGCTATCGCTCGTTGACACAAACAAGAAATCAT
1 TACACTTGGACGTAAGCTCGGAGCTATCGCTCGTTGACACAAACAAGAAATCAT
*
14346776 TACACTTGGACGTAAGCTCGGAGCTATCGCTCGTTGACACGAACAAGAAATCAT
1 TACACTTGGACGTAAGCTCGGAGCTATCGCTCGTTGACACAAACAAGAAATCAT
14346830 CACCGCTTTC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.22
Consensus pattern (54 bp):
TACACTTGGACGTAAGCTCGGAGCTATCGCTCGTTGACACAAACAAGAAATCAT
Found at i:14354573 original size:26 final size:26
Alignment explanation
Indices: 14354537--14354601 Score: 94
Period size: 26 Copynumber: 2.5 Consensus size: 26
14354527 AACACGTCAG
* *
14354537 AAAATGAAAGCCTTTGTGGCGTATTT
1 AAAATGGAAGCCTTTGTGGCGTATCT
* *
14354563 GAAATGGAAGCTTTTGTGGCGTATCT
1 AAAATGGAAGCCTTTGTGGCGTATCT
14354589 AAAATGGAAGCCT
1 AAAATGGAAGCCT
14354602 CTATGGTGGT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (26 bp):
AAAATGGAAGCCTTTGTGGCGTATCT
Found at i:14364167 original size:16 final size:18
Alignment explanation
Indices: 14364136--14364169 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
14364126 CCATGATGTT
14364136 CGCCCATGTGGGCCCACA
1 CGCCCATGTGGGCCCACA
14364154 CGCCC-TGT-GGCCCACA
1 CGCCCATGTGGGCCCACA
14364170 TGACCCAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 3 0.19
18 5 0.31
ACGTcount: A:0.15, C:0.47, G:0.26, T:0.12
Consensus pattern (18 bp):
CGCCCATGTGGGCCCACA
Found at i:14364268 original size:18 final size:18
Alignment explanation
Indices: 14364245--14364285 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
14364235 GGTTAACCCA
14364245 TGTGGG-CTCACACGCCCG
1 TGTGGGCCT-ACACGCCCG
*
14364263 TGTGGGCCTACACGCTCG
1 TGTGGGCCTACACGCCCG
14364281 TGTGG
1 TGTGG
14364286 CCCATATGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 19 0.90
19 2 0.10
ACGTcount: A:0.10, C:0.32, G:0.37, T:0.22
Consensus pattern (18 bp):
TGTGGGCCTACACGCCCG
Found at i:14366593 original size:21 final size:21
Alignment explanation
Indices: 14366567--14366608 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
14366557 ATGGGACAGG
14366567 TGACGTGGCCAGTTAACTAGC
1 TGACGTGGCCAGTTAACTAGC
*
14366588 TGACGTGGCTAGTTAACTAGC
1 TGACGTGGCCAGTTAACTAGC
14366609 CATGTTGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (21 bp):
TGACGTGGCCAGTTAACTAGC
Found at i:14380517 original size:9 final size:9
Alignment explanation
Indices: 14380503--14380651 Score: 63
Period size: 9 Copynumber: 15.9 Consensus size: 9
14380493 TTCTATTTTC
14380503 TTATAAAAA
1 TTATAAAAA
14380512 TTATAAAAA
1 TTATAAAAA
14380521 -TATTAAAAA
1 TTA-TAAAAA
*
14380530 TTATATAAAC
1 TTATA-AAAA
14380540 TTATAAAAA
1 TTATAAAAA
14380549 --ATCAAAAA
1 TTAT-AAAAA
*
14380557 TCATAAAAAA
1 TTAT-AAAAA
**
14380567 TTTATAAATT
1 -TTATAAAAA
*
14380577 TTATAAAATT
1 TTATAAAA-A
**
14380587 TTATAATATG
1 TTATAA-AAA
* *
14380597 TTCTATTAAA
1 TTATA-AAAA
14380607 TTATAAAATA
1 TTATAAAA-A
* *
14380617 TATTTAAAAT
1 T-TATAAAAA
14380627 TTATAAAAA
1 TTATAAAAA
* *
14380636 AT-TAGAAA
1 TTATAAAAA
14380644 TTATAAAA
1 TTATAAAA
14380652 GAAATCATTT
Statistics
Matches: 104, Mismatches: 23, Indels: 26
0.68 0.15 0.17
Matches are distributed among these distances:
7 2 0.02
8 13 0.12
9 40 0.38
10 39 0.38
11 10 0.10
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (9 bp):
TTATAAAAA
Found at i:14380533 original size:27 final size:26
Alignment explanation
Indices: 14380503--14380574 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 26
14380493 TTCTATTTTC
*
14380503 TTATAAAAATTATAAAAATATTAAAAA
1 TTATAAAAATTATAAAAA-ATCAAAAA
*
14380530 TTATATAAACTTATAAAAAATCAAAAA
1 TTATA-AAAATTATAAAAAATCAAAAA
*
14380557 TCATAAAAAATTTATAAA
1 TTAT-AAAAA-TTATAAA
14380575 TTTTATAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
27 18 0.47
28 20 0.53
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (26 bp):
TTATAAAAATTATAAAAAATCAAAAA
Found at i:14380543 original size:37 final size:37
Alignment explanation
Indices: 14380501--14380584 Score: 102
Period size: 37 Copynumber: 2.3 Consensus size: 37
14380491 TCTTCTATTT
*
14380501 TCTTATAAAAATTAT-AAAAAT-ATTAAAAATTATATAAA
1 TCTTATAAAAA--ATCAAAAATCATAAAAAATT-TATAAA
14380539 -CTTATAAAAAATCAAAAATCATAAAAAATTTATAAA
1 TCTTATAAAAAATCAAAAATCATAAAAAATTTATAAA
*
14380575 TTTTATAAAA
1 TCTTATAAAA
14380585 TTTTATAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
35 2 0.05
36 12 0.29
37 27 0.66
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.35
Consensus pattern (37 bp):
TCTTATAAAAAATCAAAAATCATAAAAAATTTATAAA
Found at i:14384517 original size:37 final size:38
Alignment explanation
Indices: 14384471--14384548 Score: 122
Period size: 38 Copynumber: 2.1 Consensus size: 38
14384461 GAAAAACACA
* * *
14384471 AAAG-AAAAAATTTTAACTAATAAACTGAAAGCGAAAC
1 AAAGAAAAAAAATTGAACTAATAAACTGAAAACGAAAC
14384508 AAAGAAAAAAAATTGAACTAATAAACTGAAAACGAAAC
1 AAAGAAAAAAAATTGAACTAATAAACTGAAAACGAAAC
14384546 AAA
1 AAA
14384549 ACAAATAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
37 4 0.11
38 33 0.89
ACGTcount: A:0.64, C:0.10, G:0.10, T:0.15
Consensus pattern (38 bp):
AAAGAAAAAAAATTGAACTAATAAACTGAAAACGAAAC
Found at i:14387629 original size:37 final size:38
Alignment explanation
Indices: 14387534--14387631 Score: 110
Period size: 40 Copynumber: 2.6 Consensus size: 38
14387524 ACACATCAGT
* *
14387534 TTGGCACCCAGTGCCTCATCGGGTAATTCGAAGTAATAAA
1 TTGGCACCCAGTGCCTCATCGGCTAACTCGAAG--ATAAA
* * *
14387574 TTGACACCTAGTGTCTCATCGGCTAAACT-GAAG-TAAA
1 TTGGCACCCAGTGCCTCATCGGCT-AACTCGAAGATAAA
14387611 TTGGCACCCAGTGCCTCATCG
1 TTGGCACCCAGTGCCTCATCG
14387632 AATTAATCCG
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
37 22 0.45
40 24 0.49
41 3 0.06
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (38 bp):
TTGGCACCCAGTGCCTCATCGGCTAACTCGAAGATAAA
Found at i:14388520 original size:22 final size:22
Alignment explanation
Indices: 14388494--14388564 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
14388484 TAATTTCTCC
14388494 TTTCTTTCTTTCTCTTTTTCTT
1 TTTCTTTCTTTCTCTTTTTCTT
*
14388516 TTTCTTTCTTTC-C-CTTTCTGT
1 TTTCTTTCTTTCTCTTTTTCT-T
* *
14388537 TTTCGTTTCTATCTTTTTTTCTT
1 TTTC-TTTCTTTCTCTTTTTCTT
14388560 TTTCT
1 TTTCT
14388565 ATTTCTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
20 5 0.12
21 6 0.15
22 20 0.49
23 5 0.12
24 5 0.12
ACGTcount: A:0.01, C:0.23, G:0.03, T:0.73
Consensus pattern (22 bp):
TTTCTTTCTTTCTCTTTTTCTT
Found at i:14404345 original size:30 final size:30
Alignment explanation
Indices: 14404310--14404437 Score: 175
Period size: 30 Copynumber: 4.3 Consensus size: 30
14404300 GTATATATTT
14404310 TATACATTGCCAAATTGATTTGTATAAAGA
1 TATACATTGCCAAATTGATTTGTATAAAGA
* *
14404340 TATACATTGCCGAATTGATTTATATAAAGA
1 TATACATTGCCAAATTGATTTGTATAAAGA
* *** * *
14404370 TATATATTGTTGAATTTATTTGTATATAGA
1 TATACATTGCCAAATTGATTTGTATAAAGA
*
14404400 TATACATTGCCAAATTGATTTGTATATAGA
1 TATACATTGCCAAATTGATTTGTATAAAGA
14404430 TATACATT
1 TATACATT
14404438 ACCGAATTTG
Statistics
Matches: 85, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 85 1.00
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (30 bp):
TATACATTGCCAAATTGATTTGTATAAAGA
Found at i:14404416 original size:90 final size:91
Alignment explanation
Indices: 14404310--14404482 Score: 258
Period size: 90 Copynumber: 1.9 Consensus size: 91
14404300 GTATATATTT
* * *
14404310 TATACATTGCCAAATTGATTTGTATAAAGATATACATTGCCGAA-TTGATTTATATAAAGATATA
1 TATACATTGCCAAATTGATTTGTATAAAGATATACATTACCGAATTTGATTCATATAAAGACATA
*
14404374 TATTGTTGAATTTATTTGTATATAGA
66 TATTGTTGAATTGATTTGTATATAGA
* * * **
14404400 TATACATTGCCAAATTGATTTGTATATAGATATACATTACCGAATTTGGTTCGTATATGGACATA
1 TATACATTGCCAAATTGATTTGTATAAAGATATACATTACCGAATTTGATTCATATAAAGACATA
14404465 TATTGTTGAATTGATTTG
66 TATTGTTGAATTGATTTG
14404483 AGCATTGGAT
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
90 42 0.58
91 31 0.42
ACGTcount: A:0.35, C:0.08, G:0.15, T:0.42
Consensus pattern (91 bp):
TATACATTGCCAAATTGATTTGTATAAAGATATACATTACCGAATTTGATTCATATAAAGACATA
TATTGTTGAATTGATTTGTATATAGA
Found at i:14405442 original size:36 final size:36
Alignment explanation
Indices: 14405395--14405466 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
14405385 TAAATGACTA
14405395 TGTTAGACTGTGTTGAGTTAGGTAGTGCCTCGTAAC
1 TGTTAGACTGTGTTGAGTTAGGTAGTGCCTCGTAAC
14405431 TGTTAGACTGTGTTGAGTTAGGTAGTGCCTCGTAAC
1 TGTTAGACTGTGTTGAGTTAGGTAGTGCCTCGTAAC
14405467 CCTAATCCGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.19, C:0.14, G:0.31, T:0.36
Consensus pattern (36 bp):
TGTTAGACTGTGTTGAGTTAGGTAGTGCCTCGTAAC
Found at i:14407184 original size:17 final size:17
Alignment explanation
Indices: 14407164--14407196 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
14407154 ATTTAATATA
14407164 TATATTTGATTAAAAAG
1 TATATTTGATTAAAAAG
14407181 TATATTTGATTAAAAA
1 TATATTTGATTAAAAA
14407197 TGAAAAATAT
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:0.09, T:0.42
Consensus pattern (17 bp):
TATATTTGATTAAAAAG
Found at i:14408239 original size:5 final size:5
Alignment explanation
Indices: 14408229--14408253 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
14408219 ACAGTAAGGA
14408229 ATAGT ATAGT ATAGT ATAGT ATAGT
1 ATAGT ATAGT ATAGT ATAGT ATAGT
14408254 GAGTATAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
ATAGT
Found at i:14409555 original size:21 final size:20
Alignment explanation
Indices: 14409518--14409556 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
14409508 GAAACAATAA
* *
14409518 TTCATATTTTTTTGTTTTCT
1 TTCATATTCTTTAGTTTTCT
14409538 TTCATTATTCTTTAGTTTT
1 TTCA-TATTCTTTAGTTTT
14409557 ATTGAGTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.13, C:0.10, G:0.05, T:0.72
Consensus pattern (20 bp):
TTCATATTCTTTAGTTTTCT
Found at i:14410093 original size:19 final size:19
Alignment explanation
Indices: 14410060--14410098 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
14410050 CAGATGAGGG
* *
14410060 TAATTAGCGACTTAATTGA
1 TAATTAGAGACTTAAATGA
*
14410079 TAATTAGAGATTTAAATGA
1 TAATTAGAGACTTAAATGA
14410098 T
1 T
14410099 CATAAGACAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.38
Consensus pattern (19 bp):
TAATTAGAGACTTAAATGA
Found at i:14410171 original size:29 final size:29
Alignment explanation
Indices: 14410145--14410206 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
14410135 AGGAAATTCT
14410145 ATTAGGATATCTTAGGTTAATTAAATTTC
1 ATTAGGATATCTTAGGTTAATTAAATTTC
* * * *
14410174 ATTAGGTTATTTTAGGTTCATT-AATTTA
1 ATTAGGATATCTTAGGTTAATTAAATTTC
14410202 ATTAG
1 ATTAG
14410207 TTTAATTAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 10 0.34
29 19 0.66
ACGTcount: A:0.32, C:0.05, G:0.15, T:0.48
Consensus pattern (29 bp):
ATTAGGATATCTTAGGTTAATTAAATTTC
Found at i:14412462 original size:19 final size:19
Alignment explanation
Indices: 14412427--14412465 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
14412417 ATTTCACACA
*
14412427 TTAATTGAGTTATTATTAT
1 TTAATTGAATTATTATTAT
14412446 TTAATTGATATTA-TATTAT
1 TTAATTGA-ATTATTATTAT
14412465 T
1 T
14412466 ATATTATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (19 bp):
TTAATTGAATTATTATTAT
Found at i:14412573 original size:19 final size:19
Alignment explanation
Indices: 14412551--14412606 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 19
14412541 AATTGTAATA
14412551 TATTTATTTAATTATTTTT
1 TATTTATTTAATTATTTTT
** *
14412570 TATTTAAGTAAATATATTTT
1 TATTTATTTAATTAT-TTTT
*
14412590 TATTATATTAAATTATT
1 TATT-TATTTAATTATT
14412607 AAATTAATAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
19 12 0.43
20 9 0.32
21 7 0.25
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTTATTTAATTATTTTT
Found at i:14413730 original size:21 final size:21
Alignment explanation
Indices: 14413704--14413754 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
14413694 ACTTTACCGA
*
14413704 TCAGGCACTATATGTGTCGTAT
1 TCAGGCACTACATGTGTCGT-T
* *
14413726 T-AGGCACCACGTGTGTCGTT
1 TCAGGCACTACATGTGTCGTT
14413746 TCAGGCACT
1 TCAGGCACT
14413755 TTAGGTGTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 2 0.08
21 21 0.88
22 1 0.04
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.31
Consensus pattern (21 bp):
TCAGGCACTACATGTGTCGTT
Found at i:14419686 original size:44 final size:44
Alignment explanation
Indices: 14419614--14420258 Score: 234
Period size: 44 Copynumber: 14.5 Consensus size: 44
14419604 CTACCGATAT
* * * * *
14419614 AGGAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAGTAG
1 AGGAAGACAAGATCTATTTTCTTTGATCTACTTCACACCAGTAG
* * * *
14419658 ATGAAGATAAGATCTATTTTCTTCGATCTACTCCACCACCAGTATG
1 AGGAAGACAAGATCTATTTTCTTTGATCTACTTCA-CACCAGTA-G
* * ** * *
14419704 -GGGAGACAAGATCTGTCGTCTTTGATCTACTTCACGCCAGTAC
1 AGGAAGACAAGATCTATTTTCTTTGATCTACTTCACACCAGTAG
* ** ** * *
14419747 ATGAAGACAAGATCTGCTTTCTTCAATCTACTTCGCCACCGGTATG
1 AGGAAGACAAGATCTATTTTCTTTGATCTACTTC-ACACCAGTA-G
* * * * * * * * * *
14419793 -GGAAGATAAAATCT-GTATATTCGATCCACTTCGCTACCAATAT
1 AGGAAGACAAGATCTATTTTCTTTGATCTACTTCAC-ACCAGTAG
* * * * * * *
14419836 AGGAAGACAGGACCTACTATCTTTGATCTACTCCACGCCAGTAC
1 AGGAAGACAAGATCTATTTTCTTTGATCTACTTCACACCAGTAG
* * * *
14419880 ATGAAGATAAGATCTATTTTCTTTGATCCACTCCACCACCAGTATG
1 AGGAAGACAAGATCTATTTTCTTTGATCTACTTCA-CACCAGTA-G
* * * * *
14419926 -GGGAGACAAGATCT-GTTTCTTTGATCTGCTTCGCCACCAGCATG
1 AGGAAGACAAGATCTATTTTCTTTGATCTACTTC-ACACCAGTA-G
* * * * * * * * * *
14419970 -GGAAGATAAAATCT-GTATATTCGATCCACTTCGCTACCAATAT
1 AGGAAGACAAGATCTATTTTCTTTGATCTACTTCAC-ACCAGTAG
* * * * * * * *
14420013 AGGAAGACAGGACCTACTATCTTTGATCTACTCCACGCTAGTAC
1 AGGAAGACAAGATCTATTTTCTTTGATCTACTTCACACCAGTAG
* * * *
14420057 ATGAAG-TAAGATCTATTTTCTTCGATCTACTCCACCACCAGTATG
1 AGGAAGACAAGATCTATTTTCTTTGATCTACTTCA-CACCAGTA-G
* * * * *
14420102 -GGGATACAAGATCT-GTTTCTTTGATCTGCTTCGCCACCAGTATG
1 AGGAAGACAAGATCTATTTTCTTTGATCTACTTC-ACACCAGTA-G
* ** * * * *
14420146 -GGAAGGCAAGATCTGGTATCTCTGATCTACTTCACGCCAGTAC
1 AGGAAGACAAGATCTATTTTCTTTGATCTACTTCACACCAGTAG
* * * * * *
14420189 ATGAAGACAAGATTTAGTTTCTTTCGATCTGCTTCGCCACCAATATG
1 AGGAAGACAAGATCTATTTTCTTT-GATCTACTTC-ACACCAGTA-G
* * *
14420236 -GGAAGGCAAGATCTGTTATCTTT
1 AGGAAGACAAGATCTATTTTCTTT
14420259 TCCACCTACT
Statistics
Matches: 434, Mismatches: 144, Indels: 44
0.70 0.23 0.07
Matches are distributed among these distances:
43 24 0.06
44 259 0.60
45 127 0.29
46 24 0.06
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (44 bp):
AGGAAGACAAGATCTATTTTCTTTGATCTACTTCACACCAGTAG
Found at i:14419807 original size:89 final size:89
Alignment explanation
Indices: 14419633--14419808 Score: 253
Period size: 89 Copynumber: 2.0 Consensus size: 89
14419623 GGACCTACTA
* * * *
14419633 TCTTTGATCTACTTCACGCCAGTAGATGAAGATAAGATCTATTTTCTTCGATCTACTCCACCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTCAATCTACTCCACCACC
* *
14419698 AGTATGGGGAGACAAGATCTGTCG
66 AGTATGGGAAGACAAAATCTGTCG
* * *
14419722 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCAATCTACTTCGCCACC
1 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTCAATCTACTCCACCACC
* *
14419787 GGTATGGGAAGATAAAATCTGT
66 AGTATGGGAAGACAAAATCTGT
14419809 ATATTCGATC
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
89 76 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (89 bp):
TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCTTCAATCTACTCCACCACC
AGTATGGGAAGACAAAATCTGTCG
Found at i:14419850 original size:222 final size:221
Alignment explanation
Indices: 14419544--14419957 Score: 684
Period size: 222 Copynumber: 1.9 Consensus size: 221
14419534 AGATCTGTAA
* **
14419544 TCTTCCATCTACTTCGCTGCCAATATGAGAAGATAAAATATGTATATTCAATCCACTTCGCTACC
1 TCTTCAATCTACTTCGCCACCAATATGAGAAGATAAAATATGTATATTCAATCCACTTCGCTACC
* * *
14419609 GATATAGGAAGACAGGACCTACTATCTTTGATCTACTTCACGCCAGTAGATGAAGATAAGATCTA
66 AATATAGGAAGACAGGACCTACTATCTTTGATCTACTCCACGCCAGTACATGAAGATAAGATCTA
*
14419674 TTTTCTTCGATCTACTCCACCACCAGTATGGGGAGACAAGATCTGTCGTCTTTGATCTACTTCAC
131 TTTTCTTCGATCCACTCCACCACCAGTATGGGGAGACAAGATCTGT-GTCTTTGATCTACTTCAC
14419739 GCCAGTACATGAAGACAAGATCTGCTT
195 GCCAGTACATGAAGACAAGATCTGCTT
** * * *
14419766 TCTTCAATCTACTTCGCCACCGGTATGGGAAGATAAAATCTGTATATTCGATCCACTTCGCTACC
1 TCTTCAATCTACTTCGCCACCAATATGAGAAGATAAAATATGTATATTCAATCCACTTCGCTACC
14419831 AATATAGGAAGACAGGACCTACTATCTTTGATCTACTCCACGCCAGTACATGAAGATAAGATCTA
66 AATATAGGAAGACAGGACCTACTATCTTTGATCTACTCCACGCCAGTACATGAAGATAAGATCTA
* * *
14419896 TTTTCTTTGATCCACTCCACCACCAGTATGGGGAGACAAGATCTGTTTCTTTGATCTGCTTC
131 TTTTCTTCGATCCACTCCACCACCAGTATGGGGAGACAAGATCTGTGTCTTTGATCTACTTC
14419958 GCCACCAGCA
Statistics
Matches: 177, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
221 14 0.08
222 163 0.92
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (221 bp):
TCTTCAATCTACTTCGCCACCAATATGAGAAGATAAAATATGTATATTCAATCCACTTCGCTACC
AATATAGGAAGACAGGACCTACTATCTTTGATCTACTCCACGCCAGTACATGAAGATAAGATCTA
TTTTCTTCGATCCACTCCACCACCAGTATGGGGAGACAAGATCTGTGTCTTTGATCTACTTCACG
CCAGTACATGAAGACAAGATCTGCTT
Found at i:14419958 original size:133 final size:133
Alignment explanation
Indices: 14419722--14419964 Score: 315
Period size: 133 Copynumber: 1.8 Consensus size: 133
14419712 AGATCTGTCG
* * * * *
14419722 TCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCAATCTACTTCGCCACC
1 TCTTTGATCTACTCCACGCCAGTACATGAAGACAAGATCTACTTTCTTCAATCCACTCCACCACC
* * *
14419787 GGTATGGGAAGATAAAATCTGTATATTCGATCCACTTCGCTACCAATATAGGAAGACAGGACCTA
66 AGTATGGGAAGACAAAATCTGTATATTCGATCCACTTCGCCACCAATATAGGAAGACAGGACCTA
14419852 CTA
131 CTA
* * **
14419855 TCTTTGATCTACTCCACGCCAGTACATGAAGATAAGATCTATTTTCTTTGATCCACTCCACCACC
1 TCTTTGATCTACTCCACGCCAGTACATGAAGACAAGATCTACTTTCTTCAATCCACTCCACCACC
* * * * * **
14419920 AGTATGGGGAGACAAGATCTGTTTCTTTGATCTGCTTCGCCACCA
66 AGTATGGGAAGACAAAATCTGTATATTCGATCCACTTCGCCACCA
14419965 GCATGGGAAG
Statistics
Matches: 91, Mismatches: 19, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
133 91 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (133 bp):
TCTTTGATCTACTCCACGCCAGTACATGAAGACAAGATCTACTTTCTTCAATCCACTCCACCACC
AGTATGGGAAGACAAAATCTGTATATTCGATCCACTTCGCCACCAATATAGGAAGACAGGACCTA
CTA
Found at i:14420197 original size:176 final size:177
Alignment explanation
Indices: 14419751--14420150 Score: 703
Period size: 177 Copynumber: 2.3 Consensus size: 177
14419741 CAGTACATGA
** * *
14419751 AGACAAGATCTGCTTTCTTCAATCTACTTCGCCACCGGTATGGGAAGATAAAATCTGTATATTCG
1 AGACAAGATCTG-TTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGATAAAATCTGTATATTCG
14419816 ATCCACTTCGCTACCAATATAGGAAGACAGGACCTACTATCTTTGATCTACTCCACGCCAGTACA
65 ATCCACTTCGCTACCAATATAGGAAGACAGGACCTACTATCTTTGATCTACTCCACGCCAGTACA
*
14419881 TGAAGATAAGATCTATTTTCTTTGATCCACTCCACCACCAGTATGGGG
130 TGAAGATAAGATCTATTTTCTTCGATCCACTCCACCACCAGTATGGGG
*
14419929 AGACAAGATCTGTTTCTTTGATCTGCTTCGCCACCAGCATGGGAAGATAAAATCTGTATATTCGA
1 AGACAAGATCTGTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGATAAAATCTGTATATTCGA
*
14419994 TCCACTTCGCTACCAATATAGGAAGACAGGACCTACTATCTTTGATCTACTCCACGCTAGTACAT
66 TCCACTTCGCTACCAATATAGGAAGACAGGACCTACTATCTTTGATCTACTCCACGCCAGTACAT
*
14420059 GAAG-TAAGATCTATTTTCTTCGATCTACTCCACCACCAGTATGGGG
131 GAAGATAAGATCTATTTTCTTCGATCCACTCCACCACCAGTATGGGG
*
14420105 ATACAAGATCTGTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAG
1 AGACAAGATCTGTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAG
14420151 GCAAGATCTG
Statistics
Matches: 212, Mismatches: 10, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
176 84 0.40
177 116 0.55
178 12 0.06
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (177 bp):
AGACAAGATCTGTTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGATAAAATCTGTATATTCGA
TCCACTTCGCTACCAATATAGGAAGACAGGACCTACTATCTTTGATCTACTCCACGCCAGTACAT
GAAGATAAGATCTATTTTCTTCGATCCACTCCACCACCAGTATGGGG
Found at i:14432175 original size:2 final size:2
Alignment explanation
Indices: 14432168--14432205 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
14432158 NNNNNNAATA
14432168 AT AT AT AT AT AT AT AT ACT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT A
14432206 AAATGCGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:14432503 original size:4 final size:4
Alignment explanation
Indices: 14432496--14432538 Score: 77
Period size: 4 Copynumber: 10.8 Consensus size: 4
14432486 TTTTTAACAA
*
14432496 AAAT AAAT AAAT AAAT AAAT AAAC AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
14432539 AATAGTTCAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:14434003 original size:19 final size:19
Alignment explanation
Indices: 14433975--14434018 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
14433965 AATTTTCGAG
14433975 GATATACAATCTTAGAAAT
1 GATATACAATCTTAGAAAT
* *
14433994 GATATGCAATCTTAGATAT
1 GATATACAATCTTAGAAAT
14434013 GATATA
1 GATATA
14434019 TGCAATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.43, C:0.09, G:0.14, T:0.34
Consensus pattern (19 bp):
GATATACAATCTTAGAAAT
Found at i:14434101 original size:19 final size:21
Alignment explanation
Indices: 14434077--14434115 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
14434067 TGTTTTCTTT
*
14434077 TTTTTTTCTT-TTT-CGATTA
1 TTTTTTACTTATTTACGATTA
14434096 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
14434116 TTAAAAAAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:14434346 original size:3 final size:3
Alignment explanation
Indices: 14434338--14434386 Score: 82
Period size: 3 Copynumber: 16.3 Consensus size: 3
14434328 ATTAATTTTG
14434338 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TATA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
14434383 TTA T
1 TTA T
14434387 ACCTACATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 2 0.05
3 39 0.89
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:14434375 original size:18 final size:17
Alignment explanation
Indices: 14434338--14434387 Score: 77
Period size: 16 Copynumber: 3.0 Consensus size: 17
14434328 ATTAATTTTG
14434338 TTATTATTATTATTATTA
1 TTATTATTATTATTA-TA
14434356 TTATTATTA-TATTATA
1 TTATTATTATTATTATA
14434372 -TATTATTATTATTATA
1 TTATTATTATTATTATA
14434388 CCTACATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.26
16 9 0.29
17 5 0.16
18 9 0.29
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATTATTATTATTATA
Found at i:14455231 original size:51 final size:51
Alignment explanation
Indices: 14455170--14455284 Score: 203
Period size: 51 Copynumber: 2.3 Consensus size: 51
14455160 TCCTCTCTAA
*
14455170 TCCTATCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
*
14455221 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCCATATTTAATTTCAATT
1 TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
*
14455272 TCCCCTCAATTTC
1 TCCTCTCAATTTC
14455285 ATTTTTGAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.29, C:0.30, G:0.00, T:0.42
Consensus pattern (51 bp):
TCCTCTCAATTTCCTTCCAAAATTCTCTCAAACCCATATTTAATTTCAATT
Found at i:14455316 original size:21 final size:21
Alignment explanation
Indices: 14455286--14455334 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
14455276 CTCAATTTCA
* *
14455286 TTTTTGAAAATAATTTTATAT
1 TTTTTTAAAATAATTTTAAAT
14455307 TTTTTTAAAATAATTTTAAAT
1 TTTTTTAAAATAATTTTAAAT
14455328 TTTTTTA
1 TTTTTTA
14455335 TATTTTCATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTTTAAAATAATTTTAAAT
Found at i:14457408 original size:21 final size:21
Alignment explanation
Indices: 14457384--14457433 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
14457374 CAGATGTCGA
* *
14457384 ACCGGAAGAACCACAATCACC
1 ACCGGAAGAACAACAACCACC
*
14457405 ACCGGAAGAAGAACAACCACC
1 ACCGGAAGAACAACAACCACC
*
14457426 GCCGGAAG
1 ACCGGAAG
14457434 CTAGAGGAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.42, C:0.34, G:0.22, T:0.02
Consensus pattern (21 bp):
ACCGGAAGAACAACAACCACC
Found at i:14457567 original size:25 final size:26
Alignment explanation
Indices: 14457539--14457597 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
14457529 TTATCTGATG
14457539 TAATAAAATAAAAGTT-TATTTAATA
1 TAATAAAATAAAAGTTCTATTTAATA
** * *
14457564 TAATAAAATGGAAGTTCTATTTGATG
1 TAATAAAATAAAAGTTCTATTTAATA
14457590 TAATAAAA
1 TAATAAAA
14457598 ACCCTAACTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 14 0.48
26 15 0.52
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.37
Consensus pattern (26 bp):
TAATAAAATAAAAGTTCTATTTAATA
Found at i:14457616 original size:18 final size:18
Alignment explanation
Indices: 14457593--14457776 Score: 285
Period size: 18 Copynumber: 10.7 Consensus size: 18
14457583 TTTGATGTAA
14457593 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
*
14457611 TAAAAACCCTAATTTAAT
1 TAAAAACCCTAACTTAAT
14457629 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
*
14457647 TAAAAACACTAACTTAAT
1 TAAAAACCCTAACTTAAT
*
14457665 TAAAAACCCTAATTTAAT
1 TAAAAACCCTAACTTAAT
14457683 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
14457701 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
14457719 TAAAAACCCTAA--T--T
1 TAAAAACCCTAACTTAAT
14457733 T---AA-CCTAACTTAAT
1 TAAAAACCCTAACTTAAT
14457747 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
14457765 TAAAAACCCTAA
1 TAAAAACCCTAA
14457777 TTTATTTTAC
Statistics
Matches: 152, Mismatches: 6, Indels: 16
0.87 0.03 0.09
Matches are distributed among these distances:
10 5 0.03
11 2 0.01
12 1 0.01
14 4 0.03
16 1 0.01
17 2 0.01
18 137 0.90
ACGTcount: A:0.51, C:0.21, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAAACCCTAACTTAAT
Found at i:14457740 original size:28 final size:28
Alignment explanation
Indices: 14457708--14457763 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
14457698 AATTAAAAAC
*
14457708 CCTAACTTAATTAAAAACCCTAATTTAA
1 CCTAACTTAATTAAAAACCCTAACTTAA
14457736 CCTAACTTAATTAAAAACCCTAACTTAA
1 CCTAACTTAATTAAAAACCCTAACTTAA
14457764 TTAAAAACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.30
Consensus pattern (28 bp):
CCTAACTTAATTAAAAACCCTAACTTAA
Found at i:14457749 original size:46 final size:46
Alignment explanation
Indices: 14457690--14457780 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
14457680 AATTAAAAAC
14457690 CCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCCTAATTTAA
1 CCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCCTAATTTAA
14457736 CCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCCTAATTTA
1 CCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCCTAATTTA
14457781 TTTTACATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.47, C:0.22, G:0.00, T:0.31
Consensus pattern (46 bp):
CCTAACTTAATTAAAAACCCTAACTTAATTAAAAACCCTAATTTAA
Found at i:14457837 original size:28 final size:28
Alignment explanation
Indices: 14457806--14457895 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
14457796 TAATTTTACC
14457806 TAATTTAATTAAAATTTTTTTGGCTTAA
1 TAATTTAATTAAAATTTTTTTGGCTTAA
* * * ** **** *
14457834 TAATTTTA-CATAATTTGATAATTTTACC
1 TAATTTAATTAAAATTTTTTTGGCTTA-A
14457862 TAATTTAATTAAAATTTTTTTGGCTTAA
1 TAATTTAATTAAAATTTTTTTGGCTTAA
14457890 TAATTT
1 TAATTT
14457896 TACATAACTT
Statistics
Matches: 40, Mismatches: 20, Indels: 4
0.62 0.31 0.06
Matches are distributed among these distances:
27 10 0.25
28 20 0.50
29 10 0.25
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.53
Consensus pattern (28 bp):
TAATTTAATTAAAATTTTTTTGGCTTAA
Found at i:14457847 original size:56 final size:56
Alignment explanation
Indices: 14457780--14457971 Score: 294
Period size: 56 Copynumber: 3.2 Consensus size: 56
14457770 ACCCTAATTT
14457780 ATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATA
1 ATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATA
14457836 ATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTA
1 ATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGC-T--TAA---TA
14457898 CATAACTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATA
1 -AT---TTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATA
14457958 ATTTTACATAATTT
1 ATTTTACATAATTT
14457972 TACATAATTT
Statistics
Matches: 126, Mismatches: 0, Indels: 20
0.86 0.00 0.14
Matches are distributed among these distances:
56 62 0.49
57 1 0.01
59 5 0.04
60 2 0.02
62 2 0.02
63 5 0.04
65 1 0.01
66 48 0.38
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.52
Consensus pattern (56 bp):
ATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATA
Found at i:14457856 original size:18 final size:18
Alignment explanation
Indices: 14457833--14457867 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
14457823 TTTTGGCTTA
14457833 ATAATTTTACATAATTTG
1 ATAATTTTACATAATTTG
*
14457851 ATAATTTTACCTAATTT
1 ATAATTTTACATAATTT
14457868 AATTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (18 bp):
ATAATTTTACATAATTTG
Found at i:14457908 original size:66 final size:66
Alignment explanation
Indices: 14457833--14458044 Score: 333
Period size: 66 Copynumber: 3.2 Consensus size: 66
14457823 TTTTGGCTTA
14457833 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTA
1 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTA
14457898 C
66 C
*
14457899 ATAACTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTA
1 ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTA
14457964 C
66 C
* * *
14457965 ATAATTTTACATAATTTGATAATTTTA-CTAACCATTAA-CAAAA--TTTTGGGACTTAATAATT
1 ATAATTTTACATAATTTGATAATTTTACCTAA--TTTAATTAAAATTTTTTTGG-CTTAATAATT
14458026 TTAC
63 TTAC
14458030 ATAATTTTACATAAT
1 ATAATTTTACATAAT
14458045 GTTAGATTTG
Statistics
Matches: 138, Mismatches: 5, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
64 6 0.04
65 33 0.24
66 95 0.69
67 4 0.03
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (66 bp):
ATAATTTTACATAATTTGATAATTTTACCTAATTTAATTAAAATTTTTTTGGCTTAATAATTTTA
C
Found at i:14457925 original size:18 final size:18
Alignment explanation
Indices: 14457899--14457933 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
14457889 ATAATTTTAC
14457899 ATAACTTTACATAATTTG
1 ATAACTTTACATAATTTG
* *
14457917 ATAATTTTACCTAATTT
1 ATAACTTTACATAATTT
14457934 AATTAAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.11, G:0.03, T:0.49
Consensus pattern (18 bp):
ATAACTTTACATAATTTG
Found at i:14457970 original size:10 final size:10
Alignment explanation
Indices: 14457955--14457981 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
14457945 TTTTGGCTTA
14457955 ATAATTTTAC
1 ATAATTTTAC
14457965 ATAATTTTAC
1 ATAATTTTAC
14457975 ATAATTT
1 ATAATTT
14457982 GATAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:14458035 original size:10 final size:10
Alignment explanation
Indices: 14458020--14458044 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14458010 TTGGGACTTA
14458020 ATAATTTTAC
1 ATAATTTTAC
14458030 ATAATTTTAC
1 ATAATTTTAC
14458040 ATAAT
1 ATAAT
14458045 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:14459600 original size:22 final size:22
Alignment explanation
Indices: 14459568--14459618 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
14459558 GTCTGTGATG
*
14459568 GCACCTAGGACGTATCTCTCTA
1 GCACCTGGGACGTATCTCTCTA
14459590 GCACCTGGGACGTATCTCTCTA
1 GCACCTGGGACGTATCTCTCTA
14459612 GCACCTG
1 GCACCTG
14459619 ACACCACTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.20, C:0.33, G:0.22, T:0.25
Consensus pattern (22 bp):
GCACCTGGGACGTATCTCTCTA
Found at i:14461477 original size:125 final size:125
Alignment explanation
Indices: 14461174--14461524 Score: 625
Period size: 125 Copynumber: 2.8 Consensus size: 125
14461164 CCCAAACTTG
14461174 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
14461239 TAGAAGCAATTTTATACTATTTGCTTAGAAACGTC-AAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
* *
14461298 CTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGA
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
* *
14461363 TAGAGGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
14461423 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
14461488 TAGAAGCGATTTTATACTATTTGAC-CAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTG-CTCAGAAACGTCAA
14461525 CTTGAAATAA
Statistics
Matches: 215, Mismatches: 10, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
124 94 0.44
125 120 0.56
126 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGG
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
Found at i:14461734 original size:43 final size:42
Alignment explanation
Indices: 14461673--14461778 Score: 194
Period size: 43 Copynumber: 2.5 Consensus size: 42
14461663 CGTCAGCAGG
14461673 TCGCGCTGACGTGGACGCGATGTCCTGAAACGTACCCTGACA
1 TCGCGCTGACGTGGACGCGATGTCCTGAAACGTACCCTGACA
14461715 TCGCTGCTGACGTGGACGCGATGTCCTGAAACGTACCCTGACA
1 TCGC-GCTGACGTGGACGCGATGTCCTGAAACGTACCCTGACA
*
14461758 TCACGCTGACGTGGACGCGAT
1 TCGCGCTGACGTGGACGCGAT
14461779 TTCCCGGAAA
Statistics
Matches: 62, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
42 21 0.34
43 41 0.66
ACGTcount: A:0.21, C:0.30, G:0.29, T:0.20
Consensus pattern (42 bp):
TCGCGCTGACGTGGACGCGATGTCCTGAAACGTACCCTGACA
Found at i:14462668 original size:115 final size:115
Alignment explanation
Indices: 14462509--14462781 Score: 309
Period size: 115 Copynumber: 2.3 Consensus size: 115
14462499 TTTAATTTGT
* * ** * *
14462509 TAATTATTATTTATTTGTTTGATTTATAAATCTTATTATTTGTCCTATTTTGA-GGTTTTGGAAA
1 TAATTATTATTTATTTGTTTGTTTTGT-AATCTTATTAAATGTCCCATTTT-ATGATTTTGGAAA
* * *
14462573 GGGAGGAGG-CAGCAGATTAAGGTTTAAAGGAACATTTTTAA-TGTTTTTCCG
64 GAGAGGAGGACAACAGACTAAGGTTTAAAGGAACA-TTTTAATTGTTTTTCCG
14462624 TAATTATTATTTATTTGTTTGTTTTGTAATCTTCATTAAATGTCCCATTTTATGATTTTGGAAAG
1 TAATTATTATTTATTTGTTTGTTTTGTAATCTT-ATTAAATGTCCCATTTTATGATTTTGGAAAG
** * **
14462689 AGAGGAGGCAACAACAGACTAAGGTTTAAAGGTGCATTTTAATTTTTTTTTTTTG
65 AGAGGAGG--ACAACAGACTAAGGTTTAAAGGAACATTTTAA--TTGTTTTTCCG
*
14462744 TAATTATTATTTGTTTGTTTGTTTTGTAATCCTTATTA
1 TAATTATTATTTATTTGTTTGTTTTGTAAT-CTTATTA
14462782 TTGTCCTGTG
Statistics
Matches: 134, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
114 7 0.05
115 57 0.43
117 6 0.04
118 21 0.16
120 40 0.30
121 3 0.02
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.48
Consensus pattern (115 bp):
TAATTATTATTTATTTGTTTGTTTTGTAATCTTATTAAATGTCCCATTTTATGATTTTGGAAAGA
GAGGAGGACAACAGACTAAGGTTTAAAGGAACATTTTAATTGTTTTTCCG
Found at i:14464132 original size:23 final size:22
Alignment explanation
Indices: 14464106--14464203 Score: 82
Period size: 23 Copynumber: 4.6 Consensus size: 22
14464096 TATTTTTTAA
14464106 TTTTAAAATATTTTTAAAATACTT
1 TTTTAAAAT-TTTTTAAAATAC-T
*
14464130 TTTTTAAATTTTTTAAAATACT
1 TTTTAAAATTTTTTAAAATACT
**
14464152 TTTTTTAATTTTTT---A-A--
1 TTTTAAAATTTTTTAAAATACT
14464168 TTTTAAAATATTTTTAAAATACT
1 TTTTAAAAT-TTTTTAAAATACT
**
14464191 TTTTTTAATTTTT
1 TTTTAAAATTTTT
14464204 GTTTTAATTT
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
16 7 0.11
17 5 0.08
18 1 0.02
19 1 0.02
20 1 0.02
21 1 0.02
22 18 0.30
23 19 0.31
24 8 0.13
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTAAAATTTTTTAAAATACT
Found at i:14464203 original size:38 final size:38
Alignment explanation
Indices: 14464130--14464203 Score: 130
Period size: 39 Copynumber: 1.9 Consensus size: 38
14464120 TAAAATACTT
*
14464130 TTTTTAAATTTTTTAAAATACTTTTTTTAATTTTTTAA
1 TTTTAAAATTTTTTAAAATACTTTTTTTAATTTTTTAA
14464168 TTTTAAAATATTTTTAAAATACTTTTTTTAATTTTT
1 TTTTAAAAT-TTTTTAAAATACTTTTTTTAATTTTT
14464204 GTTTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
38 8 0.24
39 26 0.76
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (38 bp):
TTTTAAAATTTTTTAAAATACTTTTTTTAATTTTTTAA
Found at i:14469920 original size:5 final size:6
Alignment explanation
Indices: 14469905--14469930 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
14469895 TGAGTTTACC
14469905 AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA
14469931 GATAGGATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:14473409 original size:14 final size:14
Alignment explanation
Indices: 14473389--14473421 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14473379 ATGAGTGAAT
14473389 GGAAGCCAT-TTTG
1 GGAAGCCATGTTTG
14473402 GTGAAGCCATGTTTG
1 G-GAAGCCATGTTTG
14473417 GGAAG
1 GGAAG
14473422 GTCTGATCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.06
14 12 0.67
15 5 0.28
ACGTcount: A:0.24, C:0.12, G:0.36, T:0.27
Consensus pattern (14 bp):
GGAAGCCATGTTTG
Found at i:14475583 original size:3 final size:3
Alignment explanation
Indices: 14475575--14475603 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
14475565 CTCCATCGAC
14475575 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
14475604 ATGAGGTACT
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:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:14476832 original size:24 final size:25
Alignment explanation
Indices: 14476805--14476881 Score: 66
Period size: 31 Copynumber: 2.9 Consensus size: 25
14476795 TCAACACTTG
14476805 AATTTGGTACCTAA-TTTTTTTCCT
1 AATTTGGTACCTAACTTTTTTTCCT
* *
14476829 AATTTAGTACTTGAACTTGACACTTTTTCCT
1 AATTTGGTACCT-AACTT-----TTTTTCCT
*
14476860 AATTTGGTACCTAAGTTTTTTT
1 AATTTGGTACCTAACTTTTTTT
14476882 TAGGTTCAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 13
0.69 0.08 0.22
Matches are distributed among these distances:
24 10 0.24
25 7 0.17
26 2 0.05
30 4 0.10
31 18 0.44
ACGTcount: A:0.23, C:0.16, G:0.10, T:0.51
Consensus pattern (25 bp):
AATTTGGTACCTAACTTTTTTTCCT
Found at i:14477353 original size:31 final size:31
Alignment explanation
Indices: 14477309--14477502 Score: 94
Period size: 31 Copynumber: 6.4 Consensus size: 31
14477299 AAAAAAAAGA
14477309 TTAGGT-CCAAAATTAGGAAAAATAGTCAAGT
1 TTAGGTACC-AAATTAGGAAAAATAGTCAAGT
* *
14477340 TTAGGTACCAAATT-GGATCCCAAA-A---AAGA
1 TTAGGTACCAAATTAGGA---AAAATAGTCAAGT
* * * *
14477369 TTAAGTATCAACTTAAGAAAAAGT-GTCAAGT
1 TTAGGTACCAAATTAGGAAAAA-TAGTCAAGT
* *
14477400 TTAGGTACTAAATCAGGAAAAAGT-GTCAAGT
1 TTAGGTACCAAATTAGGAAAAA-TAGTCAAGT
*
14477431 TTGGGTACCAAATT-GGATGAAAA-A---AAGT
1 TTAGGTACCAAATTAGGA--AAAATAGTCAAGT
*
14477459 TT-GGATACCAAATTA-GAAAAAAATGTCAAGT
1 TTAGG-TACCAAATTAGGAAAAATA-GTCAAGT
*
14477490 TCAGGTACCAAAT
1 TTAGGTACCAAAT
14477503 ATTATATTAA
Statistics
Matches: 124, Mismatches: 18, Indels: 42
0.67 0.10 0.23
Matches are distributed among these distances:
26 4 0.03
27 6 0.05
28 17 0.14
29 14 0.11
30 8 0.06
31 63 0.51
32 9 0.07
33 3 0.02
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.25
Consensus pattern (31 bp):
TTAGGTACCAAATTAGGAAAAATAGTCAAGT
Found at i:14477481 original size:28 final size:28
Alignment explanation
Indices: 14477427--14477481 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
14477417 AAAAAGTGTC
* * **
14477427 AAGTTTGGGTACCAAATTGGATGAAAAA
1 AAGTTTGGATACCAAATTAGAAAAAAAA
14477455 AAGTTTGGATACCAAATTAGAAAAAAA
1 AAGTTTGGATACCAAATTAGAAAAAAA
14477482 TGTCAAGTTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.49, C:0.07, G:0.20, T:0.24
Consensus pattern (28 bp):
AAGTTTGGATACCAAATTAGAAAAAAAA
Found at i:14477481 original size:91 final size:90
Alignment explanation
Indices: 14477309--14477502 Score: 214
Period size: 91 Copynumber: 2.1 Consensus size: 90
14477299 AAAAAAAAGA
* * *
14477309 TTAGGTCCAAAATTAGGAAAAATAGTCAAGTTTAGGTACCAAATTGGATCCCAAAAAAGATTAAG
1 TTAGGTACAAAATCAGGAAAAATAGTCAAGTTTAGGTACCAAATTGGATCCAAAAAAAGATTAAG
* * *
14477374 TATCAACTTAAGAAAAAGTGTCAAGT
66 TACCAAATTAA-AAAAAATGTCAAGT
* * * **
14477400 TTAGGTACTAAATCAGGAAAAAGT-GTCAAGTTTGGGTACCAAATTGGAT-GAAAAAAAG-TTTG
1 TTAGGTACAAAATCAGGAAAAA-TAGTCAAGTTTAGGTACCAAATTGGATCCAAAAAAAGATTAA
14477462 GATACCAAATTAGAAAAAAATGTCAAGT
65 G-TACCAAATTA-AAAAAAATGTCAAGT
* *
14477490 TCAGGTACCAAAT
1 TTAGGTACAAAAT
14477503 ATTATATTAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
89 3 0.03
90 39 0.45
91 44 0.51
92 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.19, T:0.25
Consensus pattern (90 bp):
TTAGGTACAAAATCAGGAAAAATAGTCAAGTTTAGGTACCAAATTGGATCCAAAAAAAGATTAAG
TACCAAATTAAAAAAAATGTCAAGT
Found at i:14478859 original size:49 final size:49
Alignment explanation
Indices: 14478806--14479068 Score: 404
Period size: 49 Copynumber: 5.4 Consensus size: 49
14478796 ATGTTTTATT
*
14478806 TTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAGATTTAA
1 TTTTTATGTAATTTATTTTTCATGTGTGTTTTAGGTTTATTAGATTTAA
*
14478855 TTTTTATGTAATTTATTTTTCATATGTGTTTTAGGTTTATTAGATTT-A
1 TTTTTATGTAATTTATTTTTCATGTGTGTTTTAGGTTTATTAGATTTAA
* *
14478903 TTATTTATGTAATTTATTTTTCATGTGTGTTTTAGATTAATTAGATTTAA
1 TT-TTTATGTAATTTATTTTTCATGTGTGTTTTAGGTTTATTAGATTTAA
*
14478953 TTTTTATGTAATTTATTTTTCATGTGTGTTTTAGATTTATTAGATTTAA
1 TTTTTATGTAATTTATTTTTCATGTGTGTTTTAGGTTTATTAGATTTAA
* * * * *
14479002 TTTTTTTGTAATTTA-TTATCATATGTGTTTTAAGTTTATTAGATTTATT
1 TTTTTATGTAATTTATTTTTCATGTGTGTTTTAGGTTTATTAGATTTA-A
14479051 TTTTTATGTAATTTATTT
1 TTTTTATGTAATTTATTT
14479069 GGCATGTTAT
Statistics
Matches: 197, Mismatches: 13, Indels: 7
0.91 0.06 0.03
Matches are distributed among these distances:
48 31 0.16
49 161 0.82
50 5 0.03
ACGTcount: A:0.24, C:0.02, G:0.12, T:0.62
Consensus pattern (49 bp):
TTTTTATGTAATTTATTTTTCATGTGTGTTTTAGGTTTATTAGATTTAA
Found at i:14478893 original size:147 final size:148
Alignment explanation
Indices: 14478739--14479041 Score: 318
Period size: 147 Copynumber: 2.1 Consensus size: 148
14478729 TTTTCATTCA
14478739 TAAGTTTATTTTA-ATGT-TTATTCAAGTAAAAAAACCTATTT-ATGT-T-ATGTACA-AAGAAT
1 TAAGTTTATTTTAGATGTATTATTCAAGT-AAAAAA--TATTTCATGTGTGATGTACATAA-AAT
* * *
14478798 -GTTTTATTTTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAGATTTAATTTTTAT
62 AGATTTA-ATTTTTATGTAATTTATTTGTCATGTGTGTTTTAGATTTATTAGATTTAATTTTTAT
*
14478862 GTAATTTATTTTTCATATGTGTTT
126 GTAATTTA-TTATCATATGTGTTT
* * * * *** * * * * * *
14478886 TAGGTTTA--TTAGATTTATTATTTATGTAATTTATTTTTCATGTGTGTTTTAGATTAATTAGAT
1 TAAGTTTATTTTAGATGTATTATTCAAGTAAAAAATATTTCATGTGTGATGTACATAAAATAGAT
* *
14478949 TTAATTTTTATGTAATTTATTTTTCATGTGTGTTTTAGATTTATTAGATTTAATTTTTTTGTAAT
66 TTAATTTTTATGTAATTTATTTGTCATGTGTGTTTTAGATTTATTAGATTTAATTTTTATGTAAT
14479014 TTATTATCATATGTGTTT
131 TTATTATCATATGTGTTT
14479032 TAAGTTTATT
1 TAAGTTTATT
14479042 AGATTTATTT
Statistics
Matches: 127, Mismatches: 20, Indels: 17
0.77 0.12 0.10
Matches are distributed among these distances:
144 4 0.03
145 7 0.06
146 28 0.22
147 82 0.65
148 6 0.05
ACGTcount: A:0.27, C:0.03, G:0.12, T:0.58
Consensus pattern (148 bp):
TAAGTTTATTTTAGATGTATTATTCAAGTAAAAAATATTTCATGTGTGATGTACATAAAATAGAT
TTAATTTTTATGTAATTTATTTGTCATGTGTGTTTTAGATTTATTAGATTTAATTTTTATGTAAT
TTATTATCATATGTGTTT
Found at i:14478928 original size:16 final size:15
Alignment explanation
Indices: 14478849--14478977 Score: 55
Period size: 16 Copynumber: 7.9 Consensus size: 15
14478839 GGTTTATTAG
14478849 ATTTAATTTTTATGTA
1 ATTT-ATTTTTATGTA
*
14478865 ATTTATTTTTCATATGTG
1 ATTTA-TTTT--TATGTA
* **
14478883 TTTTAGGTTTAT-TA
1 ATTTATTTTTATGTA
14478897 GATTTATTATTTATGTA
1 -ATTTATT-TTTATGTA
*
14478914 ATTTATTTTTCATGTGTG
1 ATTTATTTTT-A--TGTA
* ** *
14478932 TTTTAGATTAAT-TA
1 ATTTATTTTTATGTA
14478946 GATTTAATTTTTATGTA
1 -ATTT-ATTTTTATGTA
14478963 ATTTATTTTTCATGT
1 ATTTATTTTT-ATGT
14478978 GTGTTTTAGA
Statistics
Matches: 82, Mismatches: 18, Indels: 26
0.65 0.14 0.21
Matches are distributed among these distances:
14 2 0.02
15 21 0.26
16 34 0.41
17 7 0.09
18 18 0.22
ACGTcount: A:0.26, C:0.02, G:0.11, T:0.61
Consensus pattern (15 bp):
ATTTATTTTTATGTA
Found at i:14479083 original size:147 final size:147
Alignment explanation
Indices: 14478806--14479075 Score: 452
Period size: 147 Copynumber: 1.8 Consensus size: 147
14478796 ATGTTTTATT
*
14478806 TTTTTATGTAATTTATTTGTCATGTGTGTTTTAGGTTTATTAGATTTAATTTTTATGTAATTTAT
1 TTTTTATGTAATTTATTTGTCATGTGTGTTTTAGATTTATTAGATTTAATTTTTATGTAATTTAT
* * **
14478871 TTTTCATATGTGTTTTAGGTTTATTAGATTTATTATTTATGTAATTTATTTTTCATGTGTGTTTT
66 TTATCATATGTGTTTTAAGTTTATTAGATTTATTATTTATGTAATTTATTTGGCATGTGTGTTTT
14478936 AGATTAATTAGATTTAA
131 AGATTAATTAGATTTAA
* *
14478953 TTTTTATGTAATTTATTTTTCATGTGTGTTTTAGATTTATTAGATTTAATTTTTTTGTAATTTA-
1 TTTTTATGTAATTTATTTGTCATGTGTGTTTTAGATTTATTAGATTTAATTTTTATGTAATTTAT
*
14479017 TTATCATATGTGTTTTAAGTTTATTAGATTTATTTTTTTATGTAATTTATTTGGCATGT
66 TTATCATATGTGTTTTAAGTTTATTAGATTTA-TTATTTATGTAATTTATTTGGCATGT
14479076 TATTTTTATT
Statistics
Matches: 114, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
146 30 0.26
147 84 0.74
ACGTcount: A:0.24, C:0.02, G:0.13, T:0.61
Consensus pattern (147 bp):
TTTTTATGTAATTTATTTGTCATGTGTGTTTTAGATTTATTAGATTTAATTTTTATGTAATTTAT
TTATCATATGTGTTTTAAGTTTATTAGATTTATTATTTATGTAATTTATTTGGCATGTGTGTTTT
AGATTAATTAGATTTAA
Done.