Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 48 of 253
Found at i:12711664 original size:109 final size:108
Alignment explanation
Indices: 12711527--12711730 Score: 302
Period size: 109 Copynumber: 1.9 Consensus size: 108
12711517 AAATTGTACA
* * *
12711527 GCACTAAGTGTGTGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
12711592 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
* *
12711635 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTTATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
12711700 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
12711731 GACTCAATAT
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
108 16 0.19
109 69 0.81
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.31
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:12730756 original size:21 final size:22
Alignment explanation
Indices: 12730732--12730777 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
12730722 TTATTCAATA
* *
12730732 AAAATTATAA-AAACTAAAATT
1 AAAATAATAATAAACGAAAATT
*
12730753 AAAATAATAATAAAGGAAAATT
1 AAAATAATAATAAACGAAAATT
12730775 AAA
1 AAA
12730778 TAAAAAGTAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.24
Consensus pattern (22 bp):
AAAATAATAATAAACGAAAATT
Found at i:12742085 original size:13 final size:13
Alignment explanation
Indices: 12742067--12742091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12742057 CATGTTTGCC
12742067 CACGGCCATGTCA
1 CACGGCCATGTCA
12742080 CACGGCCATGTC
1 CACGGCCATGTC
12742092 TGTCTTCGTT
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:0.20, C:0.40, G:0.24, T:0.16
Consensus pattern (13 bp):
CACGGCCATGTCA
Found at i:12742264 original size:203 final size:203
Alignment explanation
Indices: 12741875--12742289 Score: 595
Period size: 203 Copynumber: 2.0 Consensus size: 203
12741865 CATGTTGGTG
12741875 CACACGGCCATGTCTGTCTTCGTTCGCTTCTCCCACGCCCGTGTAAATAGGTCCACGCCAGTGTT
1 CACACGGCCATGTCTGTCTTCGTTCGCTTCTCCCACGCCCGTGTAAATAGGTCCACGCCAGTGTT
* ** * *
12741940 ATTTTGGAAGGTTTGCCCACGGTTGCTTGGCACGGGCATGTCGCATGCCTATGTTAATTTGACAG
66 ATTTTGGAAGGTTCGCCCACGGTTGCTTGGCACAAGCACGTCGCATGCCTATGTTAATTTGACAA
* **
12742005 GTTCAGCCACAATTTCAAGGCACGGGCGTGATACACGTCAGTCTTGTTTCGGCATGTTTGCCCAC
131 GTTCAGCCACAATTTCAAGGCACGGGCGTGATACACGCCAGTCTTGTTTCGGCATGTTCACCCAC
12742070 GGCCATGT
196 GGCCATGT
* *
12742078 CACACGGCCATGTCTGTCTTCGTTCGCTTCTCCCACGCCCGTGTAAGTAGGTCCACGCCTGTGTT
1 CACACGGCCATGTCTGTCTTCGTTCGCTTCTCCCACGCCCGTGTAAATAGGTCCACGCCAGTGTT
* * *
12742143 GTTTTGGCAGGTTCGCCCACGGTTGCTTGGCACAAGCGCGTCGCATGCCTATGTTAATTTGACAA
66 ATTTTGGAAGGTTCGCCCACGGTTGCTTGGCACAAGCACGTCGCATGCCTATGTTAATTTGACAA
* * * * *
12742208 GTTCGGCCA-AGGTTTCAAGGCACGGGCATGTTG-TACAC-CCA-TGTTGTTTTGGCATGTTCAT
131 GTTCAGCCACA-ATTTCAAGGCACGGGC--G-TGATACACGCCAGTCTTGTTTCGGCATGTTCAC
12742269 CCACGGCCATGT
192 CCACGGCCATGT
*
12742281 CACATGGCC
1 CACACGGCC
12742290 TTGGCGATTT
Statistics
Matches: 189, Mismatches: 19, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
202 1 0.01
203 178 0.94
204 2 0.01
205 6 0.03
206 2 0.01
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.29
Consensus pattern (203 bp):
CACACGGCCATGTCTGTCTTCGTTCGCTTCTCCCACGCCCGTGTAAATAGGTCCACGCCAGTGTT
ATTTTGGAAGGTTCGCCCACGGTTGCTTGGCACAAGCACGTCGCATGCCTATGTTAATTTGACAA
GTTCAGCCACAATTTCAAGGCACGGGCGTGATACACGCCAGTCTTGTTTCGGCATGTTCACCCAC
GGCCATGT
Found at i:12747669 original size:23 final size:23
Alignment explanation
Indices: 12747643--12747691 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
12747633 TATAAAACCT
12747643 AAAAATAAG-CTTAAAGA-AAAATA
1 AAAAAT-AGTCTTAAA-ATAAAATA
*
12747666 AAAAGTAGTCTTAAAATAAAATA
1 AAAAATAGTCTTAAAATAAAATA
12747689 AAA
1 AAA
12747692 GTAAAAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 3 0.13
23 20 0.87
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.20
Consensus pattern (23 bp):
AAAAATAGTCTTAAAATAAAATA
Found at i:12753222 original size:5 final size:5
Alignment explanation
Indices: 12753208--12753262 Score: 74
Period size: 5 Copynumber: 10.6 Consensus size: 5
12753198 AAATAGAAAG
* *
12753208 ATTTT ATTTT GTTTT ATTTT ATTTT ATTTT ATTTTTT ATTTT ATTAT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT A--TTTT ATTTT ATTTT ATTTT
12753260 ATT
1 ATT
12753263 AATTTAGGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
5 39 0.89
7 5 0.11
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:12753247 original size:22 final size:22
Alignment explanation
Indices: 12753219--12753262 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
12753209 TTTTATTTTG
*
12753219 TTTTATTTTATTTTATTTTATT
1 TTTTATTTTATTATATTTTATT
12753241 TTTTATTTTATTATATTTTATT
1 TTTTATTTTATTATATTTTATT
12753263 AATTTAGGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (22 bp):
TTTTATTTTATTATATTTTATT
Found at i:12761073 original size:13 final size:13
Alignment explanation
Indices: 12761055--12761081 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12761045 GCTCGGTAAG
12761055 GACACGCCCATGT
1 GACACGCCCATGT
12761068 GACACGCCCATGT
1 GACACGCCCATGT
12761081 G
1 G
12761082 CGATTACTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.37, G:0.26, T:0.15
Consensus pattern (13 bp):
GACACGCCCATGT
Found at i:12766561 original size:22 final size:22
Alignment explanation
Indices: 12766533--12766595 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
12766523 CATGAGTACA
12766533 AAGCCTGAATAACACTGGCACT
1 AAGCCTGAATAACACTGGCACT
* *
12766555 AAGCCTG-CT---A--GGCACA
1 AAGCCTGAATAACACTGGCACT
12766571 AAGCCTGAATAACACTGGCACT
1 AAGCCTGAATAACACTGGCACT
12766593 AAG
1 AAG
12766596 TCTGCTAGGC
Statistics
Matches: 31, Mismatches: 4, Indels: 12
0.66 0.09 0.26
Matches are distributed among these distances:
16 12 0.39
17 1 0.03
18 1 0.03
20 1 0.03
21 1 0.03
22 15 0.48
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.16
Consensus pattern (22 bp):
AAGCCTGAATAACACTGGCACT
Found at i:12766572 original size:38 final size:38
Alignment explanation
Indices: 12766530--12766622 Score: 177
Period size: 38 Copynumber: 2.4 Consensus size: 38
12766520 TAGCATGAGT
12766530 ACAAAGCCTGAATAACACTGGCACTAAGCCTGCTAGGC
1 ACAAAGCCTGAATAACACTGGCACTAAGCCTGCTAGGC
*
12766568 ACAAAGCCTGAATAACACTGGCACTAAGTCTGCTAGGC
1 ACAAAGCCTGAATAACACTGGCACTAAGCCTGCTAGGC
12766606 ACAAAGCCTGAATAACA
1 ACAAAGCCTGAATAACA
12766623 ATATAATTCT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 54 1.00
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.16
Consensus pattern (38 bp):
ACAAAGCCTGAATAACACTGGCACTAAGCCTGCTAGGC
Found at i:12769982 original size:55 final size:54
Alignment explanation
Indices: 12769923--12770041 Score: 159
Period size: 55 Copynumber: 2.2 Consensus size: 54
12769913 CGTGTGTGAC
* * * *
12769923 ACTAACTTTAGGGCACGGCCATGACACACGCCCGTGTGGCCTACCCGTGGGCAAT
1 ACTAACTTTA-GACACAGCCATGACACACGCCCGTGTGGCCTAACCGTGGACAAT
* *
12769978 ACTAACTTATAGACACAGCTATGGCACACGCCCGTGTGGCCTAACCGTGGACAAT
1 ACTAACTT-TAGACACAGCCATGACACACGCCCGTGTGGCCTAACCGTGGACAAT
12770033 ACTAA-TTTA
1 ACTAACTTTA
12770042 AAAGTTTAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
53 2 0.04
54 2 0.04
55 51 0.89
56 2 0.04
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (54 bp):
ACTAACTTTAGACACAGCCATGACACACGCCCGTGTGGCCTAACCGTGGACAAT
Found at i:12771009 original size:47 final size:47
Alignment explanation
Indices: 12770808--12771117 Score: 204
Period size: 47 Copynumber: 6.6 Consensus size: 47
12770798 TTGCCGCTGC
* ** *
12770808 CATGTCCTAGACATGGTCTTACGTTGGCTATC-TCCATCGAGGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTATCAT-CATCGAGGCCGATG
* * * * * **
12770856 CCATGTCCCATACATGATCTTACACTAGCTCTCGTGTATGCG-TGCTTATG
1 -CATGTCCCAGACATG-TCTTACACTAGCTATCAT-CAT-CGAGGCCGATG
* ** **
12770906 CATGTCCTAGACATGTCTTACACTAGC-A-CAAAATTTA-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCATCATCGAGGCCGATG
* * *
12770950 CATGTCCTAGACACGTCTTACACTGGCTATCATCATCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTATCATCATCGAGGCCGATG
* * *
12770997 CATGTCCCAGACATGTCTTACATTAGC-ACTCATC-TCTACGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTA-TCATCATCGAGGCCGATG
* * ** * * *
12771043 CCATGTCCCGGACATGGTCATGTACTGGCTATCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTATCATCATCGAGGCCGATG
**
12771091 CATGTCCCAGACACATCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
12771118 CCTTGTCTCA
Statistics
Matches: 199, Mismatches: 50, Indels: 27
0.72 0.18 0.10
Matches are distributed among these distances:
44 30 0.15
45 3 0.02
46 25 0.13
47 60 0.30
48 32 0.16
49 39 0.20
50 8 0.04
51 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTATCATCATCGAGGCCGATG
Found at i:12771095 original size:94 final size:94
Alignment explanation
Indices: 12770903--12771166 Score: 295
Period size: 94 Copynumber: 2.8 Consensus size: 94
12770893 ATGCGTGCTT
* * *
12770903 ATGCATGTCCTAGACATGTCTTACACTAGCACAAAAT-T-TAGCCGATG-CATGTCCTAGACA-C
1 ATGCATGTCCCAGACATGTCTTACACTAGCAC-TAATCTCTAGCCGATGCCATGTCCTAGACATG
* *
12770964 GTCTTACACTGGCTATCATCATCGAGGCCG
65 GTCTTATACTGGCTATCATAATCGAGGCCG
* * **
12770994 ATGCATGTCCCAGACATGTCTTACATTAGCACTCATCTCTACGCCGATGCCATGTCCCGGACATG
1 ATGCATGTCCCAGACATGTCTTACACTAGCACTAATCTCTA-GCCGATGCCATGTCCTAGACATG
* * *
12771059 GTCATGTACTGGCTATCATAAT-GTGGCCG
65 GTCTTATACTGGCTATCATAATCGAGGCCG
** * ** * *
12771088 ATGCATGTCCCAGACACATCTTACACTAGCCCTTGTCTCAATGCCGATGCCACGTCCTAGACATG
1 ATGCATGTCCCAGACATGTCTTACACTAGCACTAATCTCTA-GCCGATGCCATGTCCTAGACATG
12771153 GTCTTATACTGGCT
65 GTCTTATACTGGCT
12771167 CTCACATAAC
Statistics
Matches: 143, Mismatches: 25, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
90 2 0.01
91 31 0.22
92 2 0.01
93 7 0.05
94 83 0.58
95 18 0.13
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (94 bp):
ATGCATGTCCCAGACATGTCTTACACTAGCACTAATCTCTAGCCGATGCCATGTCCTAGACATGG
TCTTATACTGGCTATCATAATCGAGGCCG
Found at i:12778543 original size:48 final size:48
Alignment explanation
Indices: 12778327--12778549 Score: 147
Period size: 49 Copynumber: 4.7 Consensus size: 48
12778317 TTGCCGCTAC
* * * *
12778327 CATGTCCTAGACAAGGTCTTACGCTGGCTATC-TCTATCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTATCATC-ATCAAGGCCGATG
* * * * * * **
12778375 CCATTTCCCAGACATGGTCTTACACTAGCTCTCGTGTAT-ACGTGCTTATG
1 -CATGTCCCAGACATGGTCTTACACTGGCTATCAT-CATCAAG-GCCGATG
* * * *** **
12778425 CATGTCCCAAACAT-GTCTTACACTAGC-A-CGA--AACTTTGTTGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTATC-ATCATCAAGGCCGATG
* *
12778469 CATGTCCCAAACA-CGTCTTACACTGGCTATCATCATCAAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGGCTATCATCATCAAGGCCGATG
12778516 CATGTCCCAGACATGGTCTTACACTGGCTATCAT
1 CATGTCCCAGACATGGTCTTACACTGGCTATCAT
12778550 AATGTGGCTG
Statistics
Matches: 133, Mismatches: 30, Indels: 23
0.72 0.16 0.12
Matches are distributed among these distances:
44 31 0.23
45 2 0.02
46 2 0.02
47 19 0.14
48 32 0.24
49 39 0.29
50 8 0.06
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTGGCTATCATCATCAAGGCCGATG
Found at i:12778567 original size:47 final size:47
Alignment explanation
Indices: 12778464--12778586 Score: 167
Period size: 47 Copynumber: 2.6 Consensus size: 47
12778454 GAAACTTTGT
*
12778464 TGATGCATGTCCCAAACACGTCTTACACTGGCTATCATCATCAAGGC
1 TGATGCATGTCCCAAACACGTCTTACACTGGCTATCATAATCAAGGC
* * * **
12778511 CGATGCATGTCCCAGACATGGTCTTACACTGGCTATCATAAT-GTGGC
1 TGATGCATGTCCCAAACA-CGTCTTACACTGGCTATCATAATCAAGGC
*
12778558 TGATACATGTCCCAAACACGTCTTACACT
1 TGATGCATGTCCCAAACACGTCTTACACT
12778587 AGCCCTTGTC
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
46 10 0.15
47 34 0.52
48 21 0.32
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (47 bp):
TGATGCATGTCCCAAACACGTCTTACACTGGCTATCATAATCAAGGC
Found at i:12788946 original size:18 final size:18
Alignment explanation
Indices: 12788911--12788969 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 18
12788901 GTTAGACGAC
*
12788911 TACTACTACTATTACTAT
1 TACTACTACTACTACTAT
* *
12788929 TACTACTACTCCTCCTAT
1 TACTACTACTACTACTAT
* * * *
12788947 TAATACTATTACCACTAG
1 TACTACTACTACTACTAT
12788965 TACTA
1 TACTA
12788970 TTAATATTTA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.32, C:0.27, G:0.02, T:0.39
Consensus pattern (18 bp):
TACTACTACTACTACTAT
Found at i:12790880 original size:51 final size:51
Alignment explanation
Indices: 12790804--12790907 Score: 199
Period size: 51 Copynumber: 2.0 Consensus size: 51
12790794 ATTGAGTGTG
12790804 CAGAAAATCATTTTAGGCTGAAGAGTCAATGGACTACCTAGAATGTCTCAA
1 CAGAAAATCATTTTAGGCTGAAGAGTCAATGGACTACCTAGAATGTCTCAA
*
12790855 CAGAAAATTATTTTAGGCTGAAGAGTCAATGGACTACCTAGAATGTCTCAA
1 CAGAAAATCATTTTAGGCTGAAGAGTCAATGGACTACCTAGAATGTCTCAA
12790906 CA
1 CA
12790908 CCCAACTTTG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (51 bp):
CAGAAAATCATTTTAGGCTGAAGAGTCAATGGACTACCTAGAATGTCTCAA
Found at i:12795884 original size:27 final size:26
Alignment explanation
Indices: 12795836--12795895 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
12795826 GCGAGGCTGC
*
12795836 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
12795863 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
*
12795889 CATATAT
1 CAGATAT
12795896 ATATGTGTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:12795990 original size:27 final size:26
Alignment explanation
Indices: 12795942--12795993 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
12795932 GCGAGGCTGC
*
12795942 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
12795968 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
12795994 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:12799992 original size:12 final size:12
Alignment explanation
Indices: 12799975--12799999 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12799965 TCGAATCTAT
12799975 ATTTTCTACTAA
1 ATTTTCTACTAA
12799987 ATTTTCTACTAA
1 ATTTTCTACTAA
12799999 A
1 A
12800000 AAGGAAAAAA
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:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (12 bp):
ATTTTCTACTAA
Found at i:12806347 original size:24 final size:24
Alignment explanation
Indices: 12806301--12806348 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
12806291 ATAAAAGGTT
*
12806301 AATAATAATAATAGTTAAGTAAGA
1 AATAATAATAATAATTAAGTAAGA
*
12806325 AATAATAATAGTACATTAA-TAAGA
1 AATAATAATAATA-ATTAAGTAAGA
12806349 CAAACAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.58, C:0.02, G:0.10, T:0.29
Consensus pattern (24 bp):
AATAATAATAATAATTAAGTAAGA
Found at i:12806422 original size:30 final size:30
Alignment explanation
Indices: 12806358--12806428 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 30
12806348 ACAAACAATT
** *
12806358 TAATAATAACGATAGTACTAAATAAAATAA
1 TAATAATAATAATAGTAATAAATAAAATAA
* * **
12806388 TAATACTAATAATAGTAATAAATATAATGG
1 TAATAATAATAATAGTAATAAATAAAATAA
12806418 TAATAATAATA
1 TAATAATAATA
12806429 GTTAATGCTA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.58, C:0.04, G:0.07, T:0.31
Consensus pattern (30 bp):
TAATAATAATAATAGTAATAAATAAAATAA
Found at i:12806547 original size:3 final size:3
Alignment explanation
Indices: 12806541--12806705 Score: 122
Period size: 3 Copynumber: 54.7 Consensus size: 3
12806531 GTGGTAGTAG
* *
12806541 TAA TAA TACA TTAA TAA GAA TAA TAG TAA TAA TAA -AA -AA TAA TAA
1 TAA TAA TA-A -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
12806586 TAA TAAA TAG TAG TAG TAAA TAA AAA TAA TAA TAG TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
12806633 TGAA -AA TAG CAA AAA TAA TAA TAG TAA T-A TAA TAG TAA TAA TAA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
12806677 CAA TAA TAA TAA TAA TTA TAA TAG TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
12806706 CAAATAAGTA
Statistics
Matches: 129, Mismatches: 25, Indels: 16
0.76 0.15 0.09
Matches are distributed among these distances:
2 8 0.06
3 110 0.85
4 9 0.07
5 2 0.02
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:12806567 original size:29 final size:29
Alignment explanation
Indices: 12806535--12806619 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
12806525 TAGAAAGTGG
* *
12806535 TAGTAGTAATAATACATTAATAAGAAT-AA
1 TAGTAGTAATAA-AAAATAATAAGAATAAA
* *
12806564 TAGTAATAATAAAAAATAATAATAATAAA
1 TAGTAGTAATAAAAAATAATAAGAATAAA
* *
12806593 TAGTAGTAGTAAATAAA-AATAATAATA
1 TAGTAGTAATAAA-AAATAATAAGAATA
12806620 GTAATAATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
28 11 0.23
29 34 0.71
30 3 0.06
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.29
Consensus pattern (29 bp):
TAGTAGTAATAAAAAATAATAAGAATAAA
Found at i:12806774 original size:3 final size:3
Alignment explanation
Indices: 12806766--12806800 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
12806756 TATGATAAAC
* *
12806766 ATA ATA ATA ATG ATA ATA GTA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
12806801 GGTAAAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:12808466 original size:12 final size:12
Alignment explanation
Indices: 12808449--12808481 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
12808439 TTTAATTAAT
12808449 TAAAATAAAAAA
1 TAAAATAAAAAA
12808461 TAAAAT-AAAAA
1 TAAAATAAAAAA
*
12808472 TACAATAAAA
1 TAAAATAAAA
12808482 TAAGAGTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.79, C:0.03, G:0.00, T:0.18
Consensus pattern (12 bp):
TAAAATAAAAAA
Found at i:12811935 original size:15 final size:13
Alignment explanation
Indices: 12811908--12811952 Score: 54
Period size: 15 Copynumber: 3.2 Consensus size: 13
12811898 TAACTAATAT
12811908 TAATATTTAATTA
1 TAATATTTAATTA
12811921 TAATAGTTATAATTAA
1 TAATA-TT-TAATT-A
12811937 TTAATATTTAATTA
1 -TAATATTTAATTA
12811951 TA
1 TA
12811953 TTAAATAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
13 7 0.25
14 3 0.11
15 10 0.36
16 3 0.11
17 5 0.18
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
TAATATTTAATTA
Found at i:12811965 original size:30 final size:30
Alignment explanation
Indices: 12811906--12811965 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
12811896 AATAACTAAT
** *
12811906 ATTAATATTTAATTATAATAGTTATAATTA
1 ATTAATATTTAATTATAATAAATAGAATTA
*
12811936 ATTAATATTTAATTATATTAAATAGAATTA
1 ATTAATATTTAATTATAATAAATAGAATTA
12811966 TAGATATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (30 bp):
ATTAATATTTAATTATAATAAATAGAATTA
Found at i:12815258 original size:42 final size:42
Alignment explanation
Indices: 12815211--12815290 Score: 133
Period size: 42 Copynumber: 1.9 Consensus size: 42
12815201 AACCATACAC
12815211 TGGTTTTACTTCACCTTCTGGCTTTGGCTTGTAATCAGGGAT
1 TGGTTTTACTTCACCTTCTGGCTTTGGCTTGTAATCAGGGAT
* * *
12815253 TGGTTTTGCTTCTCCTTGTGGCTTTGGCTTGTAATCAG
1 TGGTTTTACTTCACCTTCTGGCTTTGGCTTGTAATCAG
12815291 TGCTTGGATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.11, C:0.19, G:0.25, T:0.45
Consensus pattern (42 bp):
TGGTTTTACTTCACCTTCTGGCTTTGGCTTGTAATCAGGGAT
Found at i:12815303 original size:42 final size:42
Alignment explanation
Indices: 12815219--12815303 Score: 125
Period size: 42 Copynumber: 2.0 Consensus size: 42
12815209 ACTGGTTTTA
*
12815219 CTTCACCTTCTGGCTTTGGCTTGTAATCAGGGATTGGTTTTG
1 CTTCACCTTCTGGCTTTGGCTTGTAATCAGGGATTGGATTTG
* * * *
12815261 CTTCTCCTTGTGGCTTTGGCTTGTAATCAGTGCTTGGATTTG
1 CTTCACCTTCTGGCTTTGGCTTGTAATCAGGGATTGGATTTG
12815303 C
1 C
12815304 ATCATATTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.11, C:0.20, G:0.26, T:0.44
Consensus pattern (42 bp):
CTTCACCTTCTGGCTTTGGCTTGTAATCAGGGATTGGATTTG
Found at i:12815601 original size:41 final size:41
Alignment explanation
Indices: 12815554--12815802 Score: 169
Period size: 41 Copynumber: 6.1 Consensus size: 41
12815544 ACAAAAATTG
* *
12815554 TAAAACATAGAGCAATAGCGGCGTTTTAC-CAAAAATGTCGC
1 TAAAACATAGAGCAATAGCGGCGTTTT-CGCAAAAACGCCGC
* **
12815595 TAAAAC--AGAGTAATAGCGGCGTTTTCTGTTAAAACGCCGC
1 TAAAACATAGAGCAATAGCGGCGTTTTC-GCAAAAACGCCGC
**
12815635 TAAAA-ATAGAGCAATAGCGGCGCTTTT-GGTAAAACGCCGC
1 TAAAACATAGAGCAATAGCGGCG-TTTTCGCAAAAACGCCGC
* ** * **
12815675 TAAAA-ACCAGAGCAATAGCGGCGCTTTT-GGTAAAATGCTAC
1 TAAAACA-TAGAGCAATAGCGGCG-TTTTCGCAAAAACGCCGC
* * *
12815716 TAAAA-ACCAGAGCATTAGCGGCGTTTTTG-ATAAAACGCCGC
1 TAAAACA-TAGAGCAATAGCGGCGTTTTCGCA-AAAACGCCGC
* * *
12815757 TAAAA-ATCGAAGCATTAGCGGCGCTTTCG-ATAAAACGCCGC
1 TAAAACATAG-AGCAATAGCGGCGTTTTCGCA-AAAACGCCGC
12815798 TAAAA
1 TAAAA
12815803 GTCATATAAC
Statistics
Matches: 179, Mismatches: 20, Indels: 18
0.82 0.09 0.08
Matches are distributed among these distances:
38 1 0.01
39 18 0.10
40 36 0.20
41 120 0.67
42 4 0.02
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (41 bp):
TAAAACATAGAGCAATAGCGGCGTTTTCGCAAAAACGCCGC
Found at i:12815735 original size:82 final size:81
Alignment explanation
Indices: 12815562--12815802 Score: 242
Period size: 82 Copynumber: 3.0 Consensus size: 81
12815552 TGTAAAACAT
* * * * * *
12815562 AGAGCAATAGCGGCG-TTTT-ACCAAAAATGTCGCT-AAAACAGAGTAATAGCGGCGTTTTCTGT
1 AGAGCAATAGCGGCGCTTTTGA--TAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTCTGG
* *
12815624 TAAAACGCCGCTAAAAAT
64 TAAAACGCCACTAAAAAC
*
12815642 AGAGCAATAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCAATAGCGGCGCTTT-TGGT
1 AGAGCAATAGCGGCGCTTTTGATAAAACGCCGCTAAAAA-CAGAGCAATAGCGGCGCTTTCTGGT
* *
12815706 AAAATGCTACTAAAAACC
65 AAAACGCCACTAAAAA-C
* * * *
12815724 AGAGCATTAGCGGCGTTTTTGATAAAACGCCGCTAAAAATC-GAAGCATTAGCGGCGCTTTC-GA
1 AGAGCAATAGCGGCGCTTTTGATAAAACGCCGCTAAAAA-CAG-AGCAATAGCGGCGCTTTCTGG
*
12815787 TAAAACGCCGCTAAAA
64 TAAAACGCCACTAAAA
12815803 GTCATATAAC
Statistics
Matches: 134, Mismatches: 20, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
80 24 0.18
81 25 0.19
82 85 0.63
ACGTcount: A:0.35, C:0.21, G:0.22, T:0.22
Consensus pattern (81 bp):
AGAGCAATAGCGGCGCTTTTGATAAAACGCCGCTAAAAACAGAGCAATAGCGGCGCTTTCTGGTA
AAACGCCACTAAAAAC
Found at i:12816030 original size:19 final size:21
Alignment explanation
Indices: 12815987--12816031 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
12815977 TTTTCTTATA
*
12815987 TAATTTTAAAAGAGATAGTAT
1 TAATTTTAAAAGAGATAGAAT
*
12816008 TAATTTTAAAATAG-TA-AAT
1 TAATTTTAAAAGAGATAGAAT
12816027 TAATT
1 TAATT
12816032 ATCATTATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 2 0.09
21 13 0.59
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.42
Consensus pattern (21 bp):
TAATTTTAAAAGAGATAGAAT
Found at i:12816124 original size:15 final size:14
Alignment explanation
Indices: 12816106--12816138 Score: 57
Period size: 15 Copynumber: 2.3 Consensus size: 14
12816096 TATTTTAAGT
12816106 TTTATGGATTATGGG
1 TTTATGGATTAT-GG
12816121 TTTATGGATTATGG
1 TTTATGGATTATGG
12816135 TTTA
1 TTTA
12816139 AGGGTTAGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.21, C:0.00, G:0.27, T:0.52
Consensus pattern (14 bp):
TTTATGGATTATGG
Found at i:12821273 original size:43 final size:43
Alignment explanation
Indices: 12821171--12821302 Score: 113
Period size: 43 Copynumber: 3.1 Consensus size: 43
12821161 ATAATTTTTT
* * * * * *
12821171 TAAAGTTCATGATTTTTAGCGGCG-TTTGTGAGAAAAGCGCTGT
1 TAAAGGTCATGATCTTTAGTGGCGTTTTTTGA-AAAAGCGCCGC
* * **
12821214 TAAAAGTTATTTTCTTTAGTGGCGTTTTTTGAAAAAGCGCCGC
1 TAAAGGTCATGATCTTTAGTGGCGTTTTTTGAAAAAGCGCCGC
* * ** *
12821257 TAAAGGTCATGATCTTTAGTGCCGTTTGTAAAAAAAACGCCGC
1 TAAAGGTCATGATCTTTAGTGGCGTTTTTTGAAAAAGCGCCGC
12821300 TAA
1 TAA
12821303 TTTTTGTGGC
Statistics
Matches: 69, Mismatches: 19, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
43 63 0.91
44 6 0.09
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (43 bp):
TAAAGGTCATGATCTTTAGTGGCGTTTTTTGAAAAAGCGCCGC
Found at i:12821810 original size:6 final size:6
Alignment explanation
Indices: 12821799--12821824 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12821789 TACTTGAGAT
12821799 TTTAAA TTTAAA TTTAAA TTTAAA TT
1 TTTAAA TTTAAA TTTAAA TTTAAA TT
12821825 ATGTTTTCAT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:12823385 original size:20 final size:20
Alignment explanation
Indices: 12823360--12823413 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 20
12823350 AAAATATCGA
12823360 TTTACCAATATTTATAAGAC
1 TTTACCAATATTTATAAGAC
* *
12823380 TTTACCAAAAATTTATAAGAT
1 TTTACC-AATATTTATAAGAC
*
12823401 TTTATCAATATTT
1 TTTACCAATATTT
12823414 TCAAATTTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 12 0.41
21 17 0.59
ACGTcount: A:0.41, C:0.11, G:0.04, T:0.44
Consensus pattern (20 bp):
TTTACCAATATTTATAAGAC
Found at i:12824251 original size:20 final size:20
Alignment explanation
Indices: 12824218--12824256 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
12824208 CTTTATCAAA
*
12824218 ATATCTAATAATTTACCAAT
1 ATATCTAACAATTTACCAAT
*
12824238 ATATCTAACGATTTACCAA
1 ATATCTAACAATTTACCAA
12824257 ATTTTTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.18, G:0.03, T:0.36
Consensus pattern (20 bp):
ATATCTAACAATTTACCAAT
Found at i:12824400 original size:20 final size:20
Alignment explanation
Indices: 12824375--12824489 Score: 142
Period size: 20 Copynumber: 5.8 Consensus size: 20
12824365 ATATTAACAA
12824375 TTACCAAAATTTCTAAGGAT
1 TTACCAAAATTTCTAAGGAT
* *
12824395 TTACCAATATTTCTAA-GAA
1 TTACCAAAATTTCTAAGGAT
* * *
12824414 TTCCCTAAAATATCTAACGAT
1 TTACC-AAAATTTCTAAGGAT
*
12824435 TTACCGAAATTTCTAAGGAT
1 TTACCAAAATTTCTAAGGAT
* *
12824455 TTACCAAAATATCTAATGAT
1 TTACCAAAATTTCTAAGGAT
12824475 TTACCAAAATTTCTA
1 TTACCAAAATTTCTA
12824490 TCATTTTTGT
Statistics
Matches: 79, Mismatches: 14, Indels: 4
0.81 0.14 0.04
Matches are distributed among these distances:
19 6 0.08
20 67 0.85
21 6 0.08
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (20 bp):
TTACCAAAATTTCTAAGGAT
Found at i:12824484 original size:60 final size:59
Alignment explanation
Indices: 12824363--12824489 Score: 159
Period size: 60 Copynumber: 2.2 Consensus size: 59
12824353 ACCCTATACT
* * *
12824363 AAATAT-TAACAATTACCAAAATTTCTAAGGATTTACCAATATTTCTAAGAATTCCCTA
1 AAATATCTAACAATTACCAAAATTTCTAAGGATTTACCAAAATATCTAAGAATTACCTA
* * *
12824421 AAATATCTAACGATTTACCGAAATTTCTAAGGATTTACCAAAATATCTAATGATTTACC-A
1 AAATATCTAAC-AATTACCAAAATTTCTAAGGATTTACCAAAATATCTAA-GAATTACCTA
*
12824481 AAATTTCTA
1 AAATATCTA
12824490 TCATTTTTGT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
58 6 0.10
59 4 0.07
60 43 0.73
61 6 0.10
ACGTcount: A:0.43, C:0.17, G:0.06, T:0.35
Consensus pattern (59 bp):
AAATATCTAACAATTACCAAAATTTCTAAGGATTTACCAAAATATCTAAGAATTACCTA
Found at i:12825957 original size:46 final size:46
Alignment explanation
Indices: 12825797--12825972 Score: 169
Period size: 46 Copynumber: 3.8 Consensus size: 46
12825787 TGTAACCCGC
* * *
12825797 CCATAAGTGAACTCGGACTCAACCCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
12825843 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * * *
12825889 ACATCTCTCGAACTCGGACTCAACTTAATGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
12825936 CCATATGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
12825973 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 66 0.63
47 30 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:12825964 original size:93 final size:93
Alignment explanation
Indices: 12825805--12825976 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
12825795 GCCCATAAGT
* *
12825805 GAACTCGGACTCAACCCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACCCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
12825870 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
** * * * *
12825898 GAACTCGGACTCAACTTAATGAGTTCGGACATTCGCATCCATATGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACCCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
12825963 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
12825977 CAAATATCCC
Statistics
Matches: 70, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACCCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:12829860 original size:17 final size:16
Alignment explanation
Indices: 12829838--12829888 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
12829828 TCTAAAGGTG
*
12829838 ATTTTATCTTCTTTATT
1 ATTTTATCTTATTT-TT
12829855 ATTTTACTCTTATTTTT
1 ATTTTA-TCTTATTTTT
*
12829872 ACTTTTATTTTATTTTT
1 A-TTTTATCTTATTTTT
12829889 TTTCCCTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.18, C:0.10, G:0.00, T:0.73
Consensus pattern (16 bp):
ATTTTATCTTATTTTT
Found at i:12829954 original size:14 final size:13
Alignment explanation
Indices: 12829926--12829955 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
12829916 TATATACATC
12829926 ATAATAAAAATAT
1 ATAATAAAAATAT
12829939 ATAATAAAATATAT
1 ATAATAAAA-ATAT
12829953 ATA
1 ATA
12829956 TACAAAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.56
14 7 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAATAAAAATAT
Found at i:12830662 original size:22 final size:22
Alignment explanation
Indices: 12830620--12830664 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
12830610 TTCTAATACG
*
12830620 TATATATATACTATATGTATTT
1 TATATATATACTATATATATTT
*
12830642 TATATATATTA-TGTATATATTT
1 TATATATA-TACTATATATATTT
12830664 T
1 T
12830665 TTTAATGCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (22 bp):
TATATATATACTATATATATTT
Found at i:12830872 original size:29 final size:28
Alignment explanation
Indices: 12830840--12830895 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 28
12830830 CAACTATTAT
12830840 TATAT-TAGTATATATTTTATGTACATATG
1 TATATATA-TATATATTTT-TGTACATATG
12830869 TATATATATATATATTTTTGTACATAT
1 TATATATATATATATTTTTGTACATAT
12830896 CATTATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 9 0.35
29 15 0.58
30 2 0.08
ACGTcount: A:0.36, C:0.04, G:0.07, T:0.54
Consensus pattern (28 bp):
TATATATATATATATTTTTGTACATATG
Found at i:12832986 original size:21 final size:20
Alignment explanation
Indices: 12832942--12833004 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
12832932 TTCTAAAATA
*
12832942 TCTAACAATTTACCAA-ATTT
1 TCTAACATTTTACCAATA-TT
*
12832962 TCTATCATTTTACCAATACTT
1 TCTAACATTTTACCAATA-TT
* *
12832983 TCTAAGATTTTACTAATATT
1 TCTAACATTTTACCAATATT
12833003 TC
1 TC
12833005 CAAATTTTCT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
20 18 0.50
21 18 0.50
ACGTcount: A:0.33, C:0.19, G:0.02, T:0.46
Consensus pattern (20 bp):
TCTAACATTTTACCAATATT
Found at i:12833081 original size:20 final size:20
Alignment explanation
Indices: 12833039--12833153 Score: 83
Period size: 20 Copynumber: 5.8 Consensus size: 20
12833029 GTCTTAACAA
* *
12833039 TTACCAAAATTTCTATAAC-T
1 TTACCAATATTTCTA-AGCAT
12833059 TTACCAATATTTCTAAGCAT
1 TTACCAATATTTCTAAGCAT
** * *
12833079 TTATTAATGTATCTAATG-AT
1 TTACCAATATTTCTAA-GCAT
* *
12833099 TTACCAATATTTCTAAGAAC
1 TTACCAATATTTCTAAGCAT
*
12833119 TTACCAATATATCTAA-CTAT
1 TTACCAATATTTCTAAGC-AT
* *
12833139 TTATCAAAATTTCTA
1 TTACCAATATTTCTA
12833154 TCTTTTTATC
Statistics
Matches: 74, Mismatches: 17, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
19 3 0.04
20 70 0.95
21 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.03, T:0.42
Consensus pattern (20 bp):
TTACCAATATTTCTAAGCAT
Found at i:12833132 original size:40 final size:40
Alignment explanation
Indices: 12833058--12833153 Score: 113
Period size: 40 Copynumber: 2.4 Consensus size: 40
12833048 TTTCTATAAC
* * ** *
12833058 TTTACCAATATTTCTAAGCATTTATTAATGTATCTAA-TGA
1 TTTACCAATATTTCTAAGAACTTACCAATATATCTAACT-A
12833098 TTTACCAATATTTCTAAGAACTTACCAATATATCTAACTA
1 TTTACCAATATTTCTAAGAACTTACCAATATATCTAACTA
* *
12833138 TTTATCAAAATTTCTA
1 TTTACCAATATTTCTA
12833154 TCTTTTTATC
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
40 47 0.98
41 1 0.02
ACGTcount: A:0.38, C:0.16, G:0.04, T:0.43
Consensus pattern (40 bp):
TTTACCAATATTTCTAAGAACTTACCAATATATCTAACTA
Found at i:12833251 original size:20 final size:20
Alignment explanation
Indices: 12833226--12833519 Score: 132
Period size: 20 Copynumber: 14.8 Consensus size: 20
12833216 GTCTTAACAA
12833226 TTACCAAAATATCTAAGGAT
1 TTACCAAAATATCTAAGGAT
*
12833246 TTACCAAAATATATAAGGA-
1 TTACCAAAATATCTAAGGAT
* * * **
12833265 ATACCAATATGTCTAACAAT
1 TTACCAAAATATCTAAGGAT
* * *
12833285 TTACCAATATTTCCAAGGAT
1 TTACCAAAATATCTAAGGAT
**
12833305 TTACCAAAATATCTAACAAT
1 TTACCAAAATATCTAAGGAT
* * * **
12833325 ATATCAAAATTTCTATCGAT
1 TTACCAAAATATCTAAGGAT
* * *
12833345 TTACC--AATATTTATGAAACT
1 TTACCAAAATATCTAAG-GA-T
* * *
12833365 TTACCAATATTTCTAAGAAT
1 TTACCAAAATATCTAAGGAT
* **
12833385 TTACTAAAATAT-TTGGCGAT
1 TTACCAAAATATCTAAG-GAT
*
12833405 TTACCAATATATCTAACGG-T
1 TTACCAAAATATCTAA-GGAT
* * *
12833425 TTACCAAAATTTTTAAGGTT
1 TTACCAAAATATCTAAGGAT
** * *
12833445 TTA-CTGAACATCTAATGAT
1 TTACCAAAATATCTAAGGAT
* * * *
12833464 TTACCAAAATTTTTAATGTT
1 TTACCAAAATATCTAAGGAT
* * *
12833484 TTACTAAAATATGTAACGAT
1 TTACCAAAATATCTAAGGAT
* *
12833504 TTGCCAAAATTTCTAA
1 TTACCAAAATATCTAA
12833520 AATTTTACAA
Statistics
Matches: 197, Mismatches: 67, Indels: 20
0.69 0.24 0.07
Matches are distributed among these distances:
18 7 0.04
19 30 0.15
20 149 0.76
21 4 0.02
22 7 0.04
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (20 bp):
TTACCAAAATATCTAAGGAT
Found at i:12833270 original size:39 final size:40
Alignment explanation
Indices: 12833227--12833334 Score: 110
Period size: 39 Copynumber: 2.7 Consensus size: 40
12833217 TCTTAACAAT
** *
12833227 TACCAAAATATCTAAGGATTTACCAAAATATATAAGGA-A
1 TACCAAAATATCTAACAATTTACCAAAATATACAAGGATA
* * * * * *
12833266 TACCAATATGTCTAACAATTTACCAATATTTCCAAGGATT
1 TACCAAAATATCTAACAATTTACCAAAATATACAAGGATA
* *
12833306 TACCAAAATATCTAACAATATATCAAAAT
1 TACCAAAATATCTAACAATTTACCAAAAT
12833335 TTCTATCGAT
Statistics
Matches: 54, Mismatches: 14, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
39 30 0.56
40 24 0.44
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.30
Consensus pattern (40 bp):
TACCAAAATATCTAACAATTTACCAAAATATACAAGGATA
Found at i:12833321 original size:40 final size:40
Alignment explanation
Indices: 12833226--12833434 Score: 154
Period size: 40 Copynumber: 5.2 Consensus size: 40
12833216 GTCTTAACAA
** * * *
12833226 TTACCAAAATATCTAAGGATTTACCAAAATATATAAGGA-
1 TTACCAAAATATCTAACAATTTACCAATATTTCTAAGGAT
* * * *
12833265 ATACCAATATGTCTAACAATTTACCAATATTTCCAAGGAT
1 TTACCAAAATATCTAACAATTTACCAATATTTCTAAGGAT
* * * **
12833305 TTACCAAAATATCTAACAATATATCAAAATTTCTATCGAT
1 TTACCAAAATATCTAACAATTTACCAATATTTCTAAGGAT
* * * * *
12833345 TTACCAATATTTATGAA-ACTTTACCAATATTTCTAAGAAT
1 TTACCAAAATATCT-AACAATTTACCAATATTTCTAAGGAT
* * ** * *
12833385 TTACTAAAATATTTGGCGATTTACCAATATATCTAACGG-T
1 TTACCAAAATATCTAACAATTTACCAATATTTCTAA-GGAT
12833425 TTACCAAAAT
1 TTACCAAAAT
12833435 TTTTAAGGTT
Statistics
Matches: 127, Mismatches: 39, Indels: 7
0.73 0.23 0.04
Matches are distributed among these distances:
39 30 0.24
40 94 0.74
41 3 0.02
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.34
Consensus pattern (40 bp):
TTACCAAAATATCTAACAATTTACCAATATTTCTAAGGAT
Found at i:12833448 original size:40 final size:39
Alignment explanation
Indices: 12833404--12833532 Score: 134
Period size: 40 Copynumber: 3.3 Consensus size: 39
12833394 TATTTGGCGA
* *
12833404 TTTACCAATATATCTAACGGTTTACCAAAATTTTTAAGGT
1 TTTACTAA-ATATCTAACGATTTACCAAAATTTTTAAGGT
* * * *
12833444 TTTACTGAACATCTAATGATTTACCAAAATTTTTAATGT
1 TTTACTAAATATCTAACGATTTACCAAAATTTTTAAGGT
* * * **
12833483 TTTACTAAAATATGTAACGATTTGCCAAAATTTCTAAAAT
1 TTTACT-AAATATCTAACGATTTACCAAAATTTTTAAGGT
12833523 TTTAC-AAATA
1 TTTACTAAATA
12833533 CTTCCAAATT
Statistics
Matches: 74, Mismatches: 14, Indels: 4
0.80 0.15 0.04
Matches are distributed among these distances:
38 5 0.07
39 33 0.45
40 36 0.49
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (39 bp):
TTTACTAAATATCTAACGATTTACCAAAATTTTTAAGGT
Found at i:12833468 original size:39 final size:40
Alignment explanation
Indices: 12833415--12833515 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
12833405 TTACCAATAT
* *
12833415 ATCTAACGGTTTACCAAAATTTTTAAGGTTTTACT-GAAC
1 ATCTAACGATTTACCAAAATTTTTAAGGTTTTACTAAAAC
* * *
12833454 ATCTAATGATTTACCAAAATTTTTAATGTTTTACTAAAAT
1 ATCTAACGATTTACCAAAATTTTTAAGGTTTTACTAAAAC
* *
12833494 ATGTAACGATTTGCCAAAATTT
1 ATCTAACGATTTACCAAAATTT
12833516 CTAAAATTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 32 0.60
40 21 0.40
ACGTcount: A:0.37, C:0.13, G:0.10, T:0.41
Consensus pattern (40 bp):
ATCTAACGATTTACCAAAATTTTTAAGGTTTTACTAAAAC
Found at i:12833638 original size:20 final size:20
Alignment explanation
Indices: 12833590--12833722 Score: 83
Period size: 20 Copynumber: 6.7 Consensus size: 20
12833580 TTTCTATAAC
* * *
12833590 TTTACCAAAATATCCAATGA
1 TTTACCAATATTTCTAATGA
* * *
12833610 CTTATCAATATGTCTAATGA
1 TTTACCAATATTTCTAATGA
*
12833630 TTTCCCAATATTTCTAAAT-A
1 TTTACCAATATTTCT-AATGA
*
12833650 TTTACCAATATTTCTAAGGA
1 TTTACCAATATTTCTAATGA
* * * *
12833670 TTTATCATTACATT-TGATGA
1 TTTACCAATA-TTTCTAATGA
* *
12833690 TTTACCAAAATTT-TAAAGA
1 TTTACCAATATTTCTAATGA
*
12833709 TTTTACTAATATTT
1 -TTTACCAATATTT
12833723 TTAAAATTTC
Statistics
Matches: 85, Mismatches: 24, Indels: 8
0.73 0.21 0.07
Matches are distributed among these distances:
19 8 0.09
20 72 0.85
21 5 0.06
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (20 bp):
TTTACCAATATTTCTAATGA
Found at i:12841563 original size:51 final size:51
Alignment explanation
Indices: 12841508--12841633 Score: 128
Period size: 51 Copynumber: 2.5 Consensus size: 51
12841498 GCCGCCATGT
* *
12841508 CATCTTTCATCTATGGCCTTAGGCTACATA-CTTCATACCAGACTGCCATAG
1 CATCTTTCATCTATGGCCTTACGCCACATACCTT-ATACCAGACTGCCATAG
* * * * *
12841559 CATCTTTCATTTTTGGTCTTACGCCATATACCTTATACTAGACTGCCATAG
1 CATCTTTCATCTATGGCCTTACGCCACATACCTTATACCAGACTGCCATAG
* * * * *
12841610 CCTATTTTATTTATGGTCTTACGC
1 CATCTTTCATCTATGGCCTTACGC
12841634 TATACACCAT
Statistics
Matches: 63, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
51 60 0.95
52 3 0.05
ACGTcount: A:0.23, C:0.26, G:0.13, T:0.38
Consensus pattern (51 bp):
CATCTTTCATCTATGGCCTTACGCCACATACCTTATACCAGACTGCCATAG
Found at i:12845150 original size:46 final size:46
Alignment explanation
Indices: 12845006--12845267 Score: 208
Period size: 46 Copynumber: 5.5 Consensus size: 46
12844996 TTTGTGCGCC
* *
12845006 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-TAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGT-GCT
* *** * * *
12845052 AGTGTAAGACCATGTCTGGGACATGGCATCGGCGTTGA-GACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CACATTATGAGTGCT
*
12845100 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATTAGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGTGCT
* *
12845146 AGTGTAAGACATGTCTGGGACATGCATCAG-CACGTATATACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC--AT-TATGAGTGCT
* * * * * ** *
12845194 AGTGTAAGACCATGTTTGAGACATGGCATCGGACTCGAAGATGA-TAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATTATGAGT-GCT
12845243 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
12845268 GCGTCGGTAA
Statistics
Matches: 174, Mismatches: 30, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
45 4 0.02
46 52 0.30
47 30 0.17
48 39 0.22
49 40 0.23
50 7 0.04
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGTGCT
Found at i:12845189 original size:94 final size:94
Alignment explanation
Indices: 12845006--12845269 Score: 320
Period size: 94 Copynumber: 2.8 Consensus size: 94
12844996 TTTGTGCGCC
*
12845006 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
* *
12845071 GACATGGCATCGGCGTTGAGACGAGGGCT
66 GACATGGCATCGACGTTGAGACGAGAGCT
* *
12845100 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATTAGT-GCTAGTGTAAGA-CATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA-TAGCCAGTGTAAGACCATGTCTG
*
12845163 GGACAT-GCATCAGCACGTAT-ATACGAGAGCT
65 GGACATGGCATC-G-ACGT-TGAGACGAGAGCT
* * * * * **
12845194 AGTGTAAGACCATGTTTGAGACATGGCATCGGACTCGAAGATGATAGCCAGTGTAAGACCATGTC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGCCAC-ATTATGATAGCCAGTGTAAGACCATGTC
12845259 TGGGACATGGC
63 TGGGACATGGC
12845270 GTCGGTAACT
Statistics
Matches: 145, Mismatches: 15, Indels: 15
0.83 0.09 0.09
Matches are distributed among these distances:
92 5 0.03
93 15 0.10
94 71 0.49
95 14 0.10
96 9 0.06
97 15 0.10
98 14 0.10
99 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATAGCCAGTGTAAGACCATGTCTGG
GACATGGCATCGACGTTGAGACGAGAGCT
Found at i:12851216 original size:46 final size:46
Alignment explanation
Indices: 12851072--12851284 Score: 216
Period size: 46 Copynumber: 4.5 Consensus size: 46
12851062 TTTGTGCGCC
* *
12851072 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-TAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTACGAGT-GCT
* **** * *
12851118 AGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGA-GACGAGGGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CCACATTACGAGTGCT
**
12851166 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATTAGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTACGAGTGCT
* *
12851212 AGTGTAAGACATGTCTAGGACATGCATCAG-CACGTATATACGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC--AT-TACGAGTGCT
12851260 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
12851285 GCGTCAGCAA
Statistics
Matches: 137, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
45 4 0.03
46 50 0.36
47 30 0.22
48 38 0.28
49 15 0.11
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTACGAGTGCT
Found at i:12851255 original size:94 final size:94
Alignment explanation
Indices: 12851072--12851284 Score: 290
Period size: 94 Copynumber: 2.3 Consensus size: 94
12851062 TTTGTGCGCC
* *
12851072 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGATAGCTAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATAGCTAGTGTAAGACCATGTCTAG
** *
12851137 GACATGGCATCGGTGTTGAGACGAGGGCT
66 GACATGGCATCGACGTTGAGACGAGAGCT
*
12851166 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATTAGT-GCTAGTGTAAGA-CATGTCTA
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGA-TAGCTAGTGTAAGACCATGTCTA
*
12851229 GGACAT-GCATCAGCACGTAT-ATACGAGAGCT
65 GGACATGGCATC-G-ACGT-TGAGACGAGAGCT
12851260 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
12851285 GCGTCAGCAA
Statistics
Matches: 107, Mismatches: 7, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
92 5 0.05
93 14 0.13
94 71 0.66
95 17 0.16
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (94 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGATAGCTAGTGTAAGACCATGTCTAG
GACATGGCATCGACGTTGAGACGAGAGCT
Found at i:12851704 original size:17 final size:19
Alignment explanation
Indices: 12851682--12851724 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
12851672 ATGGAAATAT
12851682 AATCTT-CA-ATGATATGC
1 AATCTTACATATGATATGC
*
12851699 AATCTTAGATATGATATGC
1 AATCTTACATATGATATGC
12851718 AATCTTA
1 AATCTTA
12851725 GAAGATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 6 0.26
18 1 0.04
19 16 0.70
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (19 bp):
AATCTTACATATGATATGC
Found at i:12851714 original size:19 final size:19
Alignment explanation
Indices: 12851690--12851726 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
12851680 ATAATCTTCA
12851690 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
12851709 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
12851727 AGATATGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:12851752 original size:22 final size:22
Alignment explanation
Indices: 12851690--12851749 Score: 72
Period size: 19 Copynumber: 2.8 Consensus size: 22
12851680 ATAATCTTCA
12851690 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
12851709 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
12851731 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
12851750 GATTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.43
22 8 0.23
23 12 0.34
ACGTcount: A:0.37, C:0.08, G:0.17, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:12861561 original size:219 final size:220
Alignment explanation
Indices: 12861012--12861600 Score: 950
Period size: 220 Copynumber: 2.7 Consensus size: 220
12861002 CAGGCTAAAG
* * * * *
12861012 CATAGTAGATTTGACCTTCAGGTGTTTACGCTGAAGCAGATCCAAGATGATTTAACAGT-TCTGT
1 CATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGACA-TCTCTGT
*
12861076 ATTGTCAGAGAACAAATCGAAGAAACATATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
65 ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
*
12861141 GACATAGTAGATCTAACCTTCGGATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
130 GACATAGTAGATCTAACCTTCGAATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
* *
12861206 TGCGTTGACAAGGAGCAGATCGAAGA
195 TGCGTTGACAAGGAGAAAATCGAAGA
* *
12861232 CATA-TCATATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGAATTGACATCTCTGT
1 CATAGT-AGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGACATCTCTGT
* * * *
12861296 ACTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAAAGTAGATTGAA
65 ATTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAA
12861361 GACATAGTAGATCTAACCTTCGAATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
130 GACATAGTAGATCTAACCTTCGAATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCT
*
12861426 TGGGTTGACAA-GAGAAAATCGAAGA
195 TGCGTTGACAAGGAGAAAATCGAAGA
*
12861451 CATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGGCATCTCTGTA
1 CATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGACATCTCTGTA
* *
12861516 TTGTCAAAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCATATCGAAG
66 TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
* *
12861581 ACATAGCAGATCTGACCTTC
131 ACATAGTAGATCTAACCTTC
12861601 ATTGCAGCAG
Statistics
Matches: 339, Mismatches: 27, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
219 151 0.45
220 188 0.55
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.28
Consensus pattern (220 bp):
CATAGTAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAGATGATTTGACATCTCTGTA
TTGTCAGAGAACAAATCGAAGAAACAGATTTGGCATCTCCATATTCGACGGAGAGCAGATCGAAG
ACATAGTAGATCTAACCTTCGAATGTTTTCACATCGAAGTAGATCCAAGATGATTTGGCATCCTT
GCGTTGACAAGGAGAAAATCGAAGA
Found at i:12861671 original size:78 final size:78
Alignment explanation
Indices: 12861542--12861836 Score: 430
Period size: 78 Copynumber: 3.8 Consensus size: 78
12861532 CGAAGAAACA
** * * * * * *
12861542 GATTTGGCATCTCCATATTCGACGGAGAGCATATCGAAGACATAGCAGATCTGACCTTCATTGCA
1 GATTTGGCATCTCTGTATTAGATGGGGAGTAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
12861607 GCAGATCCAAGAT
66 GCAGATCCAAGAT
* * *
12861620 GATTTGGCATCTCTGTATTAGATGGGGAGTAGATTGAAGACACAGCAGATCTGACCTTAATTGAA
1 GATTTGGCATCTCTGTATTAGATGGGGAGTAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
*
12861685 GCAGATCTAAGAT
66 GCAGATCCAAGAT
* *
12861698 GATTTGGCATCTCTGTATTAGACGGGGAGTAGATCGAAGACATAACAGAT-TGGACCTTCATTGA
1 GATTTGGCATCTCTGTATTAGATGGGGAGTAGATCGAAGACATAGCAGATCT-GACCTTCATTGA
12861762 AGCAGATCCAAGAT
65 AGCAGATCCAAGAT
* *
12861776 GATTTGGCATCTCTGTATTAGATGGGGAGCAGATCGAAGACATAGCAGACCTGACCTTCAT
1 GATTTGGCATCTCTGTATTAGATGGGGAGTAGATCGAAGACATAGCAGATCTGACCTTCAT
12861837 GTGTTTACAT
Statistics
Matches: 193, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
77 1 0.01
78 191 0.99
79 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (78 bp):
GATTTGGCATCTCTGTATTAGATGGGGAGTAGATCGAAGACATAGCAGATCTGACCTTCATTGAA
GCAGATCCAAGAT
Found at i:12861977 original size:44 final size:45
Alignment explanation
Indices: 12861850--12862043 Score: 239
Period size: 45 Copynumber: 4.3 Consensus size: 45
12861840 TTTACATTGA
* * * * *
12861850 AGCAGATCCAAGATGACAGATTTGGCATCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAATAAATTTGGCGTCTCTGTATTAGACGGGG
* * * *
12861895 AGCAAATC-AGAGATAACAAATTTGGCATCTCTGTATTAGACGGAG
1 AGCAGATCGA-AGATAATAAATTTGGCGTCTCTGTATTAGACGGGG
* * * *
12861940 AGCAGATTGAAGA-AGTAGATTTGGTGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAATAAATTTGGCGTCTCTGTATTAGACGGGG
12861984 AGCAGATCGAAGATAATAAATTTGGCGTCTCTGTATTAGACGGGG
1 AGCAGATCGAAGATAATAAATTTGGCGTCTCTGTATTAGACGGGG
*
12862029 AGCAGATCAAAGATA
1 AGCAGATCGAAGATA
12862044 GCAGATATCG
Statistics
Matches: 129, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
44 38 0.29
45 90 0.70
46 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.28, T:0.25
Consensus pattern (45 bp):
AGCAGATCGAAGATAATAAATTTGGCGTCTCTGTATTAGACGGGG
Found at i:12861981 original size:89 final size:89
Alignment explanation
Indices: 12861867--12862035 Score: 268
Period size: 89 Copynumber: 1.9 Consensus size: 89
12861857 CCAAGATGAC
12861867 AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATC-AGAGATAACAAATTTGGCATCTCTGTAT
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGA-AGATAACAAATTTGGCATCTCTGTAT
12861931 TAGACGGAGAGCAGATTGAAGAAGT
65 TAGACGGAGAGCAGATTGAAGAAGT
** * * *
12861956 AGATTTGGTGTCTCTGTATTAGACGGGGAGCAGATCGAAGATAATAAATTTGGCGTCTCTGTATT
1 AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAAATTTGGCATCTCTGTATT
*
12862021 AGACGGGGAGCAGAT
66 AGACGGAGAGCAGAT
12862036 CAAAGATAGC
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
89 72 0.99
90 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (89 bp):
AGATTTGGCATCTCTGTATTAGACGGGGAGCAAATCGAAGATAACAAATTTGGCATCTCTGTATT
AGACGGAGAGCAGATTGAAGAAGT
Found at i:12862497 original size:17 final size:19
Alignment explanation
Indices: 12862400--12862490 Score: 134
Period size: 19 Copynumber: 4.9 Consensus size: 19
12862390 ATAATCTTCA
12862400 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
12862419 ATGATATACAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
12862438 ATGATA--CAATTTTAGAT
1 ATGATATGCAATCTTAGAT
*
12862455 ATGAT-TGCAATATTAGAT
1 ATGATATGCAATCTTAGAT
12862473 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
12862491 AGATATGATT
Statistics
Matches: 65, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
17 15 0.23
18 15 0.23
19 35 0.54
ACGTcount: A:0.40, C:0.09, G:0.14, T:0.37
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:12862516 original size:22 final size:22
Alignment explanation
Indices: 12862400--12862513 Score: 69
Period size: 19 Copynumber: 5.8 Consensus size: 22
12862390 ATAATCTTCA
12862400 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
12862419 ATGATATACAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
12862438 ATGATA--CAATTTTAGA---T
1 ATGATATGCAATCTTAGAAGAT
*
12862455 ATGAT-TGCAATATT---AGAT
1 ATGATATGCAATCTTAGAAGAT
12862473 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
12862495 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
12862514 GATTTAATTT
Statistics
Matches: 76, Mismatches: 6, Indels: 22
0.73 0.06 0.21
Matches are distributed among these distances:
17 12 0.16
18 12 0.16
19 32 0.42
22 8 0.11
23 12 0.16
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.39
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:12867113 original size:42 final size:43
Alignment explanation
Indices: 12867048--12867154 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
12867038 ATTGTAAATC
* * * * *
12867048 CAACAACCCAAGTTTCTCATCTCC-ATTTTTAAATTCTTTTTT
1 CAACAATCCAAGATTATCTTCTCCTATTTTTAAATACTTTTTT
*
12867090 CAACAATCCAAGATTATCTTCTCCTCTTTTTAAATACTTTTTT
1 CAACAATCCAAGATTATCTTCTCCTATTTTTAAATACTTTTTT
* *
12867133 CTACAATCTAAGATTATCTTCT
1 CAACAATCCAAGATTATCTTCT
12867155 TTTTAATTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 20 0.36
43 36 0.64
ACGTcount: A:0.28, C:0.24, G:0.03, T:0.45
Consensus pattern (43 bp):
CAACAATCCAAGATTATCTTCTCCTATTTTTAAATACTTTTTT
Found at i:12867139 original size:43 final size:43
Alignment explanation
Indices: 12867073--12867154 Score: 137
Period size: 43 Copynumber: 1.9 Consensus size: 43
12867063 CTCATCTCCA
*
12867073 TTTTTAAATTCTTTTTTCAACAATCCAAGATTATCTTCTCCTC
1 TTTTTAAATACTTTTTTCAACAATCCAAGATTATCTTCTCCTC
* *
12867116 TTTTTAAATACTTTTTTCTACAATCTAAGATTATCTTCT
1 TTTTTAAATACTTTTTTCAACAATCCAAGATTATCTTCT
12867155 TTTTAATTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.27, C:0.20, G:0.02, T:0.51
Consensus pattern (43 bp):
TTTTTAAATACTTTTTTCAACAATCCAAGATTATCTTCTCCTC
Found at i:12867156 original size:38 final size:40
Alignment explanation
Indices: 12867073--12867173 Score: 125
Period size: 43 Copynumber: 2.5 Consensus size: 40
12867063 CTCATCTCCA
*
12867073 TTTTTAAATTCTTTTTTCAACAATCCAAGATTATCTTCTCCTC
1 TTTTTAAATTCTTTTTTCTACAATCCAAGATTA--TTCT-CTC
* *
12867116 TTTTTAAATACTTTTTTCTACAATCTAAGATTA-TCT-TC
1 TTTTTAAATTCTTTTTTCTACAATCCAAGATTATTCTCTC
*
12867154 TTTTTAATTTCTTTTTTCTA
1 TTTTTAAATTCTTTTTTCTA
12867174 GGATAAAACC
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
38 20 0.38
40 3 0.06
43 30 0.57
ACGTcount: A:0.25, C:0.18, G:0.02, T:0.55
Consensus pattern (40 bp):
TTTTTAAATTCTTTTTTCTACAATCCAAGATTATTCTCTC
Found at i:12873291 original size:49 final size:49
Alignment explanation
Indices: 12873233--12873410 Score: 191
Period size: 49 Copynumber: 3.7 Consensus size: 49
12873223 TGTTGTGTGT
** *
12873233 CAGTGTAAGACCTGTCTGGGACATGGCATCGACGCTGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAAACTGATAGATGAAAGC
* * *
12873282 CAGTGTAAGACCTGTCTGGGACATTGCATC-AAACTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAAACT-GATAGATGAAAGC
* ** * **
12873331 CAGTGTAAGACCTGTCTGGGACACGGCATCGAATTTAAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAAACTGATAGATGAAAGC
* *
12873378 CAGTGTAAGACCATGTGTGGGACATGGCGTCGA
1 CAGTGTAAGACC-TGTCTGGGACATGGCATCGA
12873411 CATCTTATCC
Statistics
Matches: 108, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
47 16 0.15
48 20 0.19
49 69 0.64
50 3 0.03
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGAAACTGATAGATGAAAGC
Found at i:12881058 original size:49 final size:49
Alignment explanation
Indices: 12880860--12881121 Score: 165
Period size: 49 Copynumber: 5.5 Consensus size: 49
12880850 GTGGTATGTG
* * * * * * *
12880860 AGCCACTGTAAGACATGTCTGGGACAT-GCATTGTCCACG-T-TATGAG
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAA
** *
12880906 AGCCAGTGTAAGATATGTCTGGGACAT-GCATCGGCCTTCGGAT--AT-ACA
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACC-TC-GATAGATGA-A
* * ** * * *
12880954 AGCTAGTGTAAGACCTGTCTAGGACATGGTGTC-AGCTTG-TTG-TG--
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAA
* * *
12880998 TGTCAGTGTAAGACCTGGT-TGGGACATGGCATCGACAC-CGATAGATGAG
1 AGCCAGTGTAAGACCT-GTCTGGGACATGGCATCGAC-CTCGATAGATGAA
* *
12881047 AGCCAGTGTAAGACCTATCTGGGACATGGCATCGACCTCGATATATGAA
1 AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAA
* *
12881096 AGTCAGTGTAAAACCTGTCTGGGACA
1 AGCCAGTGTAAGACCTGTCTGGGACA
12881122 CGGTATTGAC
Statistics
Matches: 167, Mismatches: 32, Indels: 31
0.73 0.14 0.13
Matches are distributed among these distances:
44 24 0.14
45 5 0.03
46 37 0.22
47 5 0.03
48 29 0.17
49 67 0.40
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (49 bp):
AGCCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAA
Found at i:12887890 original size:40 final size:40
Alignment explanation
Indices: 12887797--12888013 Score: 262
Period size: 40 Copynumber: 5.5 Consensus size: 40
12887787 AAGCCAAGTA
* * *
12887797 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
12887835 CCTTCGGGACGTAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
12887875 CCTTCGGGACTTAGCCCGGATATGGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
12887915 CCTTCGGGACTTAGCCCGGATGTAATAAATCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * **
12887955 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGTAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
12887995 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
12888014 TTATCATCCG
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
38 12 0.08
39 17 0.11
40 126 0.81
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:12896126 original size:39 final size:40
Alignment explanation
Indices: 12896049--12896155 Score: 119
Period size: 40 Copynumber: 2.7 Consensus size: 40
12896039 TAGCTCCTCG
* * *
12896049 TTCAAGTGCCTTCGGGACATAGCCCGG-TTATATTAACTCA
1 TTCAA-TGCCTTCGGGACTTAACCCGGATTATATAAACTCA
* *
12896089 TTCAATGCCTTCGGGACTTAACCCGGATTTTA-AAACTCG
1 TTCAATGCCTTCGGGACTTAACCCGGATTATATAAACTCA
**
12896128 CACGAATGCCTTCGGGACTTAACCCGGA
1 TTC-AATGCCTTCGGGACTTAACCCGGA
12896156 ATTAGTATCT
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
39 25 0.43
40 33 0.57
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (40 bp):
TTCAATGCCTTCGGGACTTAACCCGGATTATATAAACTCA
Found at i:12896154 original size:79 final size:80
Alignment explanation
Indices: 12896055--12896275 Score: 193
Period size: 80 Copynumber: 2.8 Consensus size: 80
12896045 CTCGTTCAAG
* * * ** * *
12896055 TGCCTTCGGGACATAGCCCGG-TTATATTAACTCATTC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGGAAT-TAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGA-A
*
12896118 TTAA-AACTCGCACGAA
64 TTAATAACTCGCACAAA
* * *
12896134 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGACTTAACCCGGAATT
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
12896199 AATAACTCGCACAAA
66 AATAACTCGCACAAA
* * ** * * *
12896214 TACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 TGCCTTCGGGA-CATAACCCGGAAT-TAGTAACTCA-CACAAAGGCCTTCGGGACTTAACCCGGA
12896276 CAGCATTCAA
Statistics
Matches: 117, Mismatches: 19, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
79 36 0.31
80 75 0.64
81 6 0.05
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (80 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGACTTAACCCGGAATT
AATAACTCGCACAAA
Found at i:12896206 original size:80 final size:80
Alignment explanation
Indices: 12896095--12896275 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
12896085 CTCATTCAAT
* * *
12896095 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
12896158 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
12896174 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
12896238 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
12896255 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
12896276 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:12896235 original size:40 final size:40
Alignment explanation
Indices: 12896092--12896275 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
12896082 TAACTCATTC
* *
12896092 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
12896132 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
12896172 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
12896212 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
12896253 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
12896276 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:12903160 original size:80 final size:80
Alignment explanation
Indices: 12903049--12903229 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
12903039 CTCATTCAAT
* * *
12903049 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
12903112 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
12903128 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
12903192 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
12903209 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
12903230 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:12903189 original size:40 final size:40
Alignment explanation
Indices: 12903046--12903229 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
12903036 TAACTCATTC
* *
12903046 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
12903086 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
12903126 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
12903166 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
12903207 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
12903230 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:12906326 original size:30 final size:30
Alignment explanation
Indices: 12906268--12906326 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
12906258 ATATTCGGGA
* * **
12906268 CTAGGGGTAAAATGGTCATTTTGTCAAAGC
1 CTAGGGGCAAAATGGTAATTTTACCAAAGC
12906298 CTAGGGGCAAAATGGTAATTTTACCAAAG
1 CTAGGGGCAAAATGGTAATTTTACCAAAG
12906327 TTATAAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTAATTTTACCAAAGC
Found at i:12906798 original size:46 final size:48
Alignment explanation
Indices: 12906649--12906919 Score: 190
Period size: 46 Copynumber: 5.8 Consensus size: 48
12906639 GAGTTATTGT
* ** * *
12906649 GAGCTAGTGTAAGA-CATGTCTGGGACATGCATCGACCAC-ATTATG-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGGCTCGA-GATGTA
* * **
12906695 GAGCCAGTGTAAGACCATGTCTGGGGCATGACATC-GGCATTGAGGCG-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATG-CATCGGGC-TCGAGATGTA
* * *
12906743 GTGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGGCTCGAGACGTA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGGCTCGAGATGTA
*
12906790 -AGCCAGTGTAAGA-CATGTCTGGAACATGCATC-GGCTACGAGATGT-
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGGCT-CGAGATGTA
* * * * * *
12906835 --GTCAGTATAAGACCTTGTCTGGGATATGGCATCGGCGC-AGATATGCTA
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGG-GCTCGAGATG-TA
**
12906883 GAGCTTGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCGG
12906920 CATCTGTACC
Statistics
Matches: 179, Mismatches: 31, Indels: 26
0.76 0.13 0.11
Matches are distributed among these distances:
44 10 0.06
45 15 0.08
46 69 0.39
47 35 0.20
48 20 0.11
49 1 0.01
50 29 0.16
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.23
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGCATCGGGCTCGAGATGTA
Found at i:12908056 original size:22 final size:21
Alignment explanation
Indices: 12908031--12908071 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
12908021 TTGAATTAGT
*
12908031 CACACAGGTGTGTTGCCCCTTC
1 CACACAGGCGTG-TGCCCCTTC
*
12908053 CACACGGGCGTGTGCCCCT
1 CACACAGGCGTGTGCCCCT
12908072 GTATCTAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.12, C:0.39, G:0.27, T:0.22
Consensus pattern (21 bp):
CACACAGGCGTGTGCCCCTTC
Found at i:12908915 original size:21 final size:20
Alignment explanation
Indices: 12908886--12908926 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
12908876 ACAAAACTTG
12908886 TATAACTATCATCAAACATT
1 TATAACTATCATCAAACATT
*
12908906 TATAATCTATCATCAATCATT
1 TATAA-CTATCATCAAACATT
12908927 AAAATACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (20 bp):
TATAACTATCATCAAACATT
Found at i:12919886 original size:17 final size:17
Alignment explanation
Indices: 12919864--12919897 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12919854 CCAATAAGTA
12919864 AGGAGGAAAACCTATGT
1 AGGAGGAAAACCTATGT
12919881 AGGAGGAAAACCTATGT
1 AGGAGGAAAACCTATGT
12919898 TCTTTCTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.29, T:0.18
Consensus pattern (17 bp):
AGGAGGAAAACCTATGT
Found at i:12921456 original size:14 final size:14
Alignment explanation
Indices: 12921437--12921467 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
12921427 TATAAACATG
12921437 AATTGAATGAATTC
1 AATTGAATGAATTC
12921451 AATTGAATGAATTC
1 AATTGAATGAATTC
12921465 AAT
1 AAT
12921468 CAAAGCATTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.13, T:0.35
Consensus pattern (14 bp):
AATTGAATGAATTC
Found at i:12944522 original size:103 final size:103
Alignment explanation
Indices: 12944343--12944550 Score: 337
Period size: 103 Copynumber: 2.0 Consensus size: 103
12944333 TACCCTAAAA
*
12944343 CCCAGGCTTTGTGAGGGACTGTTTTGGTGGTAAGTCACACGGGCGTGTGTCAAGCTGCATGCTAA
1 CCCAGGCCTTGTGAGGGACTGTTTTGGTGGTAAGTCACACGGGCGTGTGTCAAGCTGCATGCTAA
* **
12944408 ACAGTGTAACTCT-TTAACTTGGGTCACACGGGCATGTG
66 ACAGTGTAACTCTCTT-ACTTGAGTCACACAAGCATGTG
* *
12944446 CCCAGGCCTTGTGAGGGATTGTTTTGGTGGTAAGTCACACGGGCGTGTGTCAAGCTGCGTGCTAA
1 CCCAGGCCTTGTGAGGGACTGTTTTGGTGGTAAGTCACACGGGCGTGTGTCAAGCTGCATGCTAA
*
12944511 ACAGTGTAACTCTCTTACTTGATTCACACAAGCATGTG
66 ACAGTGTAACTCTCTTACTTGAGTCACACAAGCATGTG
12944549 CC
1 CC
12944551 AGCCCGTCTG
Statistics
Matches: 97, Mismatches: 7, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
103 95 0.98
104 2 0.02
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (103 bp):
CCCAGGCCTTGTGAGGGACTGTTTTGGTGGTAAGTCACACGGGCGTGTGTCAAGCTGCATGCTAA
ACAGTGTAACTCTCTTACTTGAGTCACACAAGCATGTG
Found at i:12955313 original size:10 final size:10
Alignment explanation
Indices: 12955268--12955306 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
12955258 AATCAAGTTT
12955268 TTATTTTTAA
1 TTATTTTTAA
12955278 TTATTTTTAA
1 TTATTTTTAA
12955288 TTATTTTTAA
1 TTATTTTTAA
*
12955298 -GATTTTTAA
1 TTATTTTTAA
12955307 ATTTTTTGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
9 8 0.29
10 20 0.71
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.67
Consensus pattern (10 bp):
TTATTTTTAA
Found at i:12958244 original size:16 final size:15
Alignment explanation
Indices: 12958223--12958252 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
12958213 ACAATGGAAC
12958223 ATAAAATAAAAAAAAA
1 ATAAAA-AAAAAAAAA
12958239 ATAAAAAAAAAAAA
1 ATAAAAAAAAAAAA
12958253 TTTTGAGCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (15 bp):
ATAAAAAAAAAAAAA
Found at i:12958251 original size:12 final size:11
Alignment explanation
Indices: 12958225--12958250 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12958215 AATGGAACAT
12958225 AAAATAAAAAA
1 AAAATAAAAAA
12958236 AAAATAAAAAA
1 AAAATAAAAAA
12958247 AAAA
1 AAAA
12958251 AATTTTGAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAATAAAAAA
Found at i:12964657 original size:31 final size:30
Alignment explanation
Indices: 12964619--12964688 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
12964609 GTCCAGATGT
12964619 CACACGCCCATGTGG-TGTGTCTGTGTGGGCC
1 CACACGCCCATGTGGATGT-TC-GTGTGGGCC
* *
12964650 CACACGCCCGTGTGGCATGTTCGTGTGGGCT
1 CACACGCCCATGTGG-ATGTTCGTGTGGGCC
12964681 CACACGCC
1 CACACGCC
12964689 TAGTTTGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 30 0.86
32 2 0.06
33 3 0.09
ACGTcount: A:0.11, C:0.33, G:0.33, T:0.23
Consensus pattern (30 bp):
CACACGCCCATGTGGATGTTCGTGTGGGCC
Found at i:12976583 original size:35 final size:34
Alignment explanation
Indices: 12976505--12976594 Score: 92
Period size: 35 Copynumber: 2.6 Consensus size: 34
12976495 CGTCCTGCTG
* **
12976505 GACTTGTATATCATTTTCACGGTGTTGCCCTGAAA
1 GACTTGTATATCATTTACACGAAGTTGCCC-GAAA
* *
12976540 GACCTGTATATAATTTACACGAAGTTGTCCC-AAA
1 GACTTGTATATCATTTACACGAAGTTG-CCCGAAA
*
12976574 TGACTTGTATACCATTTACAC
1 -GACTTGTATATCATTTACAC
12976595 AGTGTCGTCT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
34 3 0.07
35 39 0.87
36 3 0.07
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (34 bp):
GACTTGTATATCATTTACACGAAGTTGCCCGAAA
Found at i:12978914 original size:11 final size:11
Alignment explanation
Indices: 12978898--12978922 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12978888 GTCCTTTACT
12978898 TGTAATTTTTA
1 TGTAATTTTTA
12978909 TGTAATTTTTA
1 TGTAATTTTTA
12978920 TGT
1 TGT
12978923 TTTTGAGGTC
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:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (11 bp):
TGTAATTTTTA
Found at i:12979889 original size:30 final size:30
Alignment explanation
Indices: 12979853--12980115 Score: 321
Period size: 30 Copynumber: 8.8 Consensus size: 30
12979843 TAACCCGACA
* * *
12979853 ATAATGTCAGCTTGTATGAGCAATTCGATC
1 ATAATGTCAGCTTGTGTGAGCAATCCAATC
*
12979883 ATAATGTCAACTTGTGTGAGCAATCCAATC
1 ATAATGTCAGCTTGTGTGAGCAATCCAATC
* *
12979913 ATAATGTCTGCTTGTGTGAGCAATCCTATC
1 ATAATGTCAGCTTGTGTGAGCAATCCAATC
*
12979943 ATAATGTCAGCTTGTGTGAGCAA-CCTGATC
1 ATAATGTCAGCTTGTGTGAGCAATCC-AATC
* * * *
12979973 ATAATGTCAACTTATGTGAACAATCCAATT
1 ATAATGTCAGCTTGTGTGAGCAATCCAATC
* *
12980003 ATAATGTCAGCTTGTGTGAGCAATCCGATT
1 ATAATGTCAGCTTGTGTGAGCAATCCAATC
* * *
12980033 ATAATGTCAACTTGTGTGAACAATCCAATT
1 ATAATGTCAGCTTGTGTGAGCAATCCAATC
* * *
12980063 ATAATGTCAGATTGTGTGAGCAATTCAATT
1 ATAATGTCAGCTTGTGTGAGCAATCCAATC
* *
12980093 ATAATGTTAACTTGTGTGAGCAA
1 ATAATGTCAGCTTGTGTGAGCAA
12980116 CCCTAAAATA
Statistics
Matches: 203, Mismatches: 28, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
29 2 0.01
30 199 0.98
31 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.33
Consensus pattern (30 bp):
ATAATGTCAGCTTGTGTGAGCAATCCAATC
Found at i:12983534 original size:33 final size:34
Alignment explanation
Indices: 12983486--12983553 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 34
12983476 ACAGTGCATG
*
12983486 CAGTAACAGTCTGGGCCAGAGCCCTATTCAGTAA
1 CAGTAACAGTCTGGGCCAGAGCCCTATACAGTAA
* ***
12983520 CAGT-ACAGTTTGGGCTTTAGCCCTATACAGTAA
1 CAGTAACAGTCTGGGCCAGAGCCCTATACAGTAA
12983553 C
1 C
12983554 GGTGTGGGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (34 bp):
CAGTAACAGTCTGGGCCAGAGCCCTATACAGTAA
Found at i:12985329 original size:40 final size:40
Alignment explanation
Indices: 12985274--12985431 Score: 253
Period size: 40 Copynumber: 4.0 Consensus size: 40
12985264 TGGAAAAAAA
* * *
12985274 TATAACCAGGTTAAGTCCCGAAGGCATTCGTGTGGGTTAC
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
12985314 TATAACCGGGTTAAGTCCCTAAGGCATTCGTGCGAGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
12985354 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
* *
12985394 TATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTGGTT
1 TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTT
12985432 GTTACATCTG
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 109 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (40 bp):
TATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTAT
Found at i:12985455 original size:80 final size:80
Alignment explanation
Indices: 12985289--12985457 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 80
12985279 CCAGGTTAAG
* *
12985289 TCCCGAAGGCATTCGTGTGGGTTACTATAACCGGGTTAAGTCCCTAAGGCATTCGTGCGAGTTAT
1 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAT
* * ** *
12985354 TATAACCGGGTTAAG
66 TACAACCGAGCCAAA
* * *
12985369 TCCCGAAGGCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTTGTGCTG-GTTG
1 TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTA
* *
12985433 TTACATCTGAGCCAAA
65 TTACAACCGAGCCAAA
*
12985449 TTCCGAAGG
1 TCCCGAAGG
12985458 TATTTATGTT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
80 74 0.99
81 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
TCCCGAAGGCATTCGTGCGGGTTACTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTAT
TACAACCGAGCCAAA
Found at i:12993445 original size:24 final size:25
Alignment explanation
Indices: 12993409--12993462 Score: 101
Period size: 24 Copynumber: 2.2 Consensus size: 25
12993399 GGATAATGTT
12993409 CTCATATGTGTCTCTTTAAAATAGA
1 CTCATATGTGTCTCTTTAAAATAGA
12993434 CTCATA-GTGTCTCTTTAAAATAGA
1 CTCATATGTGTCTCTTTAAAATAGA
12993458 CTCAT
1 CTCAT
12993463 TAAGGACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 23 0.79
25 6 0.21
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (25 bp):
CTCATATGTGTCTCTTTAAAATAGA
Found at i:12998836 original size:21 final size:21
Alignment explanation
Indices: 12998794--12998837 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
12998784 TGTTGCGTAA
* * *
12998794 AGTAGGATTTTTCTATTAAGG
1 AGTAGGAGTTTACTACTAAGG
*
12998815 AGTAGGAGTTTACTACTGAGG
1 AGTAGGAGTTTACTACTAAGG
12998836 AG
1 AG
12998838 CAAGATTGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.34
Consensus pattern (21 bp):
AGTAGGAGTTTACTACTAAGG
Found at i:13001023 original size:47 final size:47
Alignment explanation
Indices: 13000911--13001281 Score: 247
Period size: 46 Copynumber: 7.9 Consensus size: 47
13000901 GTCATTTGTG
*
13000911 TGAG-CTAGTGTAAGA-CATGTCCGGGACAT-GCATCGGACACATT-AG-
1 TGAGCCTAGTGTAAGACCATGTCTGGGACATGGCATCGG---CATTGAGA
*
13000956 -GAAGCC-AGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGA
1 TG-AGCCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
* * *
13001002 CGAGCGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGA
1 TGAGC-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
* * *
13001048 TGTAAGCC-AGTGTAAGA-CATGCCTGGGACAT-GCAACGGC-TACGAGA
1 TG--AGCCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-TGAGA
* * * * * * *
13001094 TG-TCTTAGAGTAAGACCATCTCTGGGACATGGCATCAGCATAGATA
1 TGAGCCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
* * * * *
13001140 TGTGAGAGCTAGTGTAAGACCATGTCTAGGACATGGCGTCAGCCTTGATTTCGA
1 --TGAG-CCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA----GA
* **
13001194 T-AGTC-AGTGTAAGACCATGTCTGGGACATGGCATCAAC-TTGATGGA
1 TGAGCCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGA--GA
*
13001240 TGAGCC-AGTGTAAGACCATGTCTAGGACATGGCATCGGCATT
1 TGAGCCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATT
13001282 ATACCCTATG
Statistics
Matches: 264, Mismatches: 36, Indels: 49
0.76 0.10 0.14
Matches are distributed among these distances:
43 1 0.00
44 12 0.05
45 26 0.10
46 79 0.30
47 58 0.22
48 20 0.08
49 30 0.11
50 34 0.13
51 2 0.01
52 1 0.00
54 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (47 bp):
TGAGCCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA
Found at i:13001212 original size:49 final size:47
Alignment explanation
Indices: 13001145--13001275 Score: 174
Period size: 47 Copynumber: 2.7 Consensus size: 47
13001135 AGATATGTGA
* * *
13001145 GAGCTAGTGTAAGACCATGTCTAGGACATGGCGTCAGCCTTGATTTCGAT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCA-ACTTGA--TCGAT
* * *
13001195 -AGTCAGTGTAAGACCATGTCTGGGACATGGCATCAACTTGATGGAT
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAACTTGATCGAT
13001241 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
1 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATC
13001276 GGCATTATAC
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 4 0.06
47 32 0.44
48 5 0.07
49 31 0.43
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (47 bp):
GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCAACTTGATCGAT
Found at i:13004109 original size:46 final size:46
Alignment explanation
Indices: 13004042--13004306 Score: 207
Period size: 46 Copynumber: 5.7 Consensus size: 46
13004032 TGGGCATCTA
* **
13004042 AACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATTTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCG
* * * * * *
13004088 AACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA-ACATCCG
* * ***
13004135 AGCTCGTTGATTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCG
* * * * *
13004181 AACTCGTTGAGTTGAGTCTGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-ACATCCG
* * *
13004228 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCG
* * *
13004274 AGCTCGTTGACTTGAGTCCGAGTTCGCTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
13004307 GCGGGTTACA
Statistics
Matches: 167, Mismatches: 40, Indels: 24
0.72 0.17 0.10
Matches are distributed among these distances:
43 4 0.02
45 3 0.02
46 92 0.55
47 61 0.37
48 3 0.02
50 4 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATCCG
Found at i:13004156 original size:47 final size:47
Alignment explanation
Indices: 13004090--13004252 Score: 183
Period size: 47 Copynumber: 3.5 Consensus size: 47
13004080 AACATTTGAA
13004090 CTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAG
* * * * * *
13004137 CTCGTTGATTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAATGCCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG-GCAT--CCGAG
* *
13004183 CTCGTTGAGTTGAGTCTGAGTTCGTGAGATGTAACTAGGCATCCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAG
13004230 CTCGTTGAGTTGAGTCCGAGTTC
1 CTCGTTGAGTTGAGTCCGAGTTC
13004253 ACTTATGGAT
Statistics
Matches: 93, Mismatches: 14, Indels: 18
0.74 0.11 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 28 0.30
47 51 0.55
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (47 bp):
CTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCGAG
Found at i:13004193 original size:93 final size:93
Alignment explanation
Indices: 13004048--13004299 Score: 414
Period size: 93 Copynumber: 2.7 Consensus size: 93
13004038 TCTAAACTCA
* *
13004048 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACATTTGAACTCGTTGAGTTGAGTCCGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAGTTGAGTCCGAGTTC
13004113 GTGAAATGTAACTAGGCATCCGAGCTCG
66 GTGAAATGTAACTAGGCATCCGAGCTCG
* * * * *
13004141 TTGATTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGTTGAGTCTGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAGTTGAGTCCGAGTTC
*
13004206 GTGAGATGTAACTAGGCATCCGAGCTCG
66 GTGAAATGTAACTAGGCATCCGAGCTCG
* *
13004234 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAGCTCGTTGACTTGAGTCCGAGTTC
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAGTTGAGTCCGAGTTC
13004299 G
66 G
13004300 CTTATGGGCG
Statistics
Matches: 144, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 144 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (93 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAACTCGTTGAGTTGAGTCCGAGTTC
GTGAAATGTAACTAGGCATCCGAGCTCG
Found at i:13011211 original size:30 final size:30
Alignment explanation
Indices: 13011154--13011211 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
13011144 TTTTCGAATA
* **
13011154 TAGGGGTAAAATGGTCATTCTGTCAAAGTC
1 TAGGGGCAAAATGGTCATTCTACCAAAGTC
* *
13011184 TAGGGGCAAAATGGTTATTTTACCAAAG
1 TAGGGGCAAAATGGTCATTCTACCAAAG
13011212 ATGTGAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (30 bp):
TAGGGGCAAAATGGTCATTCTACCAAAGTC
Found at i:13011685 original size:45 final size:44
Alignment explanation
Indices: 13011554--13011811 Score: 159
Period size: 46 Copynumber: 5.5 Consensus size: 44
13011544 TGTGTGAGCT
* *
13011554 AGTGTAAGACATGT-TCGGGACATGCATCAGC-C-ACACTAGGAGAGCC
1 AGTGTAAGACATGTCT-GGGACATGCATCGGCTCGAGA-T--GA-AGCC
* *
13011600 AGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGATG-AGCGC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTCGAGATGAAGC-C
*
13011647 TAGTGTAAGACAT-TCTGGGATATGCATCGGCCTCGAGATGTAAGCC
1 -AGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGATG-AAGCC
* ***
13011693 AGTGCAAGACATGTCTGGGACATGCATCGGCTACGAGATG-TTTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGATGAAGCC
* * * * * *
13011737 AGAGTAAGACCATGTGTTGGACATAGCATCGGCACGGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTC-GAGA--TGA-AGCC
13011787 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
13011812 GTGTCGGCCT
Statistics
Matches: 167, Mismatches: 26, Indels: 35
0.73 0.11 0.15
Matches are distributed among these distances:
44 8 0.05
45 40 0.24
46 56 0.34
47 19 0.11
48 19 0.11
49 1 0.01
50 22 0.13
51 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGATGAAGCC
Found at i:13011711 original size:46 final size:44
Alignment explanation
Indices: 13011596--13011811 Score: 168
Period size: 46 Copynumber: 4.6 Consensus size: 44
13011586 ACACTAGGAG
* *
13011596 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGTATTGAGATG-
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG-CTCGAGATGT
*
13011642 AGCGCTAGTGTAAGACAT-TCTGGGATATGCATCGGCCTCGAGATGT
1 AGC-C-AGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGATGT
*
13011688 AAGCCAGTGCAAGACATGTCTGGGACATGCATCGGCTACGAGATGT
1 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGATGT
** * * * * *
13011734 -TTCAGAGTAAGACCATGTGTTGGACATAGCATCGGCACGGATATGT
1 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTC-GAGATGT
*
13011780 GAGAGCTAGTGTAAGACCATGTCTGGGACATG
1 ---AGCCAGTGTAAGA-CATGTCTGGGACATG
13011812 GTGTCGGCCT
Statistics
Matches: 137, Mismatches: 20, Indels: 23
0.76 0.11 0.13
Matches are distributed among these distances:
44 8 0.06
45 40 0.29
46 51 0.37
47 7 0.05
48 9 0.07
49 1 0.01
50 21 0.15
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.24
Consensus pattern (44 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGATGT
Found at i:13012239 original size:56 final size:56
Alignment explanation
Indices: 13012153--13012272 Score: 213
Period size: 56 Copynumber: 2.1 Consensus size: 56
13012143 ACAAGGGATG
*
13012153 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGCCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
13012209 ATGGGCAAAACATGCCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGT
1 ATGGGCAAAACATGCCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
13012265 ATGGGCAA
1 ATGGGCAA
13012273 TAAACTAATA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGCCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:13013743 original size:47 final size:47
Alignment explanation
Indices: 13013649--13014256 Score: 857
Period size: 47 Copynumber: 12.8 Consensus size: 47
13013639 TATTCATTGG
*
13013649 AATGTGATGAATGTGAAAGTGTGTATATATATGTGATAAGGCCTAATGGCC
1 AATGTGATGAATGTGAAA--GTG--TATATATGTGATAAGGCCGAATGGCC
*
13013700 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
* *
13013747 GATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC
1 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
* *
13013794 GATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCC
1 AATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCC
* *
13013843 GATGTGATGAATGTGAAAGTATATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
*
13013890 AATGTGACGAATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCC
* *
13013939 AATGTGATGAATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCC
* * *
13013986 AATGTGATGAATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCT
1 AATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCC
* *
13014033 AATGTGATGAATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCC
* *
13014080 AATGTGATGAATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCC
* *
13014127 AATGTGATGAATGTGAACA-TGCATATATGAGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCC
13014174 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
* * *
13014221 AATGTGATGGATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGATGAATGTGAAAGTGTATATATGTGATAAG
13014257 TCCCGAAGGG
Statistics
Matches: 523, Mismatches: 28, Indels: 16
0.92 0.05 0.03
Matches are distributed among these distances:
46 1 0.00
47 410 0.78
49 93 0.18
50 1 0.00
51 18 0.03
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCC
Found at i:13014134 original size:22 final size:22
Alignment explanation
Indices: 13014107--13014228 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
13014097 CATGTGTATG
13014107 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
13014129 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
*
13014154 TGAGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
13014176 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
13014201 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
13014223 TGTGAT
1 TGTGAT
13014229 GGATGTGGAA
Statistics
Matches: 70, Mismatches: 18, Indels: 24
0.62 0.16 0.21
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 17 0.24
25 15 0.21
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:13016453 original size:11 final size:11
Alignment explanation
Indices: 13016437--13016461 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13016427 TTATGCTTAC
13016437 TCGCTTTTCTT
1 TCGCTTTTCTT
13016448 TCGCTTTTCTT
1 TCGCTTTTCTT
13016459 TCG
1 TCG
13016462 GTGTCACCTA
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:0.00, C:0.28, G:0.12, T:0.60
Consensus pattern (11 bp):
TCGCTTTTCTT
Found at i:13020458 original size:45 final size:45
Alignment explanation
Indices: 13020391--13020526 Score: 191
Period size: 45 Copynumber: 3.0 Consensus size: 45
13020381 ATATTTTATC
*
13020391 ATAAACATGATTAAAAACGAGTAAGACCATAATTGAAAGACGCTATA
1 ATAAA-ATGATT-AAAACGAGTAAGACCATAGTTGAAAGACGCTATA
* *
13020438 ATAAAATGATTAAAACGAGTAAGACCATAGTTGAAAGACGCCATG
1 ATAAAATGATTAAAACGAGTAAGACCATAGTTGAAAGACGCTATA
* * * *
13020483 ACAATATGATTAAAACGAGTAAGACCATAGTTGGAAGATGCTAT
1 ATAAAATGATTAAAACGAGTAAGACCATAGTTGAAAGACGCTAT
13020527 GGCATCATGA
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
45 70 0.86
46 6 0.07
47 5 0.06
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.22
Consensus pattern (45 bp):
ATAAAATGATTAAAACGAGTAAGACCATAGTTGAAAGACGCTATA
Found at i:13021533 original size:21 final size:21
Alignment explanation
Indices: 13021507--13021546 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
13021497 GGGAACATGA
13021507 GCGTGTGGAGA-AGCCACACGG
1 GCGTGTGGA-ATAGCCACACGG
13021528 GCGTGTGGAATAGCCACAC
1 GCGTGTGGAATAGCCACAC
13021547 AGATTGGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.25, C:0.25, G:0.38, T:0.12
Consensus pattern (21 bp):
GCGTGTGGAATAGCCACACGG
Found at i:13027001 original size:14 final size:14
Alignment explanation
Indices: 13026982--13027011 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
13026972 TGACAAACTT
13026982 ACACCATGCTTTGA
1 ACACCATGCTTTGA
13026996 ACACCATGCTTTGA
1 ACACCATGCTTTGA
13027010 AC
1 AC
13027012 TACGATCGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.13, T:0.27
Consensus pattern (14 bp):
ACACCATGCTTTGA
Found at i:13027223 original size:31 final size:31
Alignment explanation
Indices: 13027180--13027249 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
13027170 GGATAATTTC
* * *
13027180 TTAACCATCCACATCCCGCTAAGTCCTACAA
1 TTAACCACCCACATCCCACTAAGTCCCACAA
13027211 TTAACCACCCACATCCCACTAAGTCCCACAA
1 TTAACCACCCACATCCCACTAAGTCCCACAA
*
13027242 ATAACCAC
1 TTAACCAC
13027250 TCACCAGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.36, C:0.41, G:0.04, T:0.19
Consensus pattern (31 bp):
TTAACCACCCACATCCCACTAAGTCCCACAA
Found at i:13030251 original size:15 final size:15
Alignment explanation
Indices: 13030231--13030261 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13030221 ACAGTAACTG
13030231 TATCAATTAAAATAA
1 TATCAATTAAAATAA
13030246 TATCAATTAAAATAA
1 TATCAATTAAAATAA
13030261 T
1 T
13030262 TTTTCTCTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (15 bp):
TATCAATTAAAATAA
Found at i:13035057 original size:23 final size:23
Alignment explanation
Indices: 13035012--13035059 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
13035002 ATAAATAATT
* *
13035012 TATTAAAATATTAATCATAAAAA
1 TATTAAAATATTAATAAAAAAAA
13035035 TATTAAAATA-TAATAAAACAAAA
1 TATTAAAATATTAATAAAA-AAAA
13035058 TA
1 TA
13035060 GTTTTACACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 6 0.27
23 16 0.73
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (23 bp):
TATTAAAATATTAATAAAAAAAA
Found at i:13036495 original size:16 final size:16
Alignment explanation
Indices: 13036450--13036506 Score: 64
Period size: 16 Copynumber: 3.5 Consensus size: 16
13036440 TTGTTTTTGA
13036450 ATTTTTATGAATTTT-C
1 ATTTTTAT-AATTTTAC
13036466 ATATTTTA-AATTTTAC
1 AT-TTTTATAATTTTAC
*
13036482 ATTTTTATAATTTTAA
1 ATTTTTATAATTTTAC
13036498 ATTATTTAT
1 ATT-TTTAT
13036507 TGATGTGGCA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
15 11 0.31
16 15 0.42
17 10 0.28
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (16 bp):
ATTTTTATAATTTTAC
Found at i:13037823 original size:25 final size:24
Alignment explanation
Indices: 13037770--13037814 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
13037760 AAACTTCAAA
13037770 ATATTTTTTATTTAAATTAAAAAAT
1 ATATTTTTTATTT-AATTAAAAAAT
13037795 ATATTTTTTA-TT-ATTAAAAA
1 ATATTTTTTATTTAATTAAAAA
13037815 TATTTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
22 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
ATATTTTTTATTTAATTAAAAAAT
Done.