Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A05
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: 100714657
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3970000 characters in sequence are not A, C, G, or T
File 67 of 318
Found at i:23666566 original size:14 final size:14
Alignment explanation
Indices: 23666543--23666572 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23666533 TAATAACATT
*
23666543 ATAAATATCTATTA
1 ATAAAAATCTATTA
23666557 ATAAAAATCTATTA
1 ATAAAAATCTATTA
23666571 AT
1 AT
23666573 TAACCAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAAAAATCTATTA
Found at i:23676836 original size:61 final size:61
Alignment explanation
Indices: 23676727--23676844 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
23676717 AAATGATTTT
* * ** * *
23676727 AAATTTTTAGAGTTAGGACTAAATTGACAGGTTTTGTAAGTATGGAGGGCCAAATTTATTA
1 AAATTTTTAGAGTTAGAACTAAAATGACAAATTTTATAAGCATGGAGGGCCAAATTTATTA
* *
23676788 AAATTTTTAGAGTTAGAACTAAAATGACAAATTTTATAAGCATTGAGGGCTAAATTT
1 AAATTTTTAGAGTTAGAACTAAAATGACAAATTTTATAAGCATGGAGGGCCAAATTT
23676845 GTTGAATTTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 49 1.00
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (61 bp):
AAATTTTTAGAGTTAGAACTAAAATGACAAATTTTATAAGCATGGAGGGCCAAATTTATTA
Found at i:23678154 original size:42 final size:42
Alignment explanation
Indices: 23678095--23678180 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
23678085 GCCCGACCCG
23678095 TATCCAAAGAAGGATCCGCGCACTTCCCATCATTGGGATATT
1 TATCCAAAGAAGGATCCGCGCACTTCCCATCATTGGGATATT
* *
23678137 TATCCAAGGAAGGATCCGCGCACTTCCCATTATTGGGATATT
1 TATCCAAAGAAGGATCCGCGCACTTCCCATCATTGGGATATT
23678179 TA
1 TA
23678181 CGCGTTGGGT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (42 bp):
TATCCAAAGAAGGATCCGCGCACTTCCCATCATTGGGATATT
Found at i:23678564 original size:29 final size:29
Alignment explanation
Indices: 23678531--23678588 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
23678521 CGCTTGTATA
23678531 ATATTGTATTCGTATTGTATTATTCTATG
1 ATATTGTATTCGTATTGTATTATTCTATG
23678560 ATATTGTATTCGTATTGTATTATTCTATG
1 ATATTGTATTCGTATTGTATTATTCTATG
23678589 CTCTATGTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (29 bp):
ATATTGTATTCGTATTGTATTATTCTATG
Found at i:23682720 original size:38 final size:39
Alignment explanation
Indices: 23682636--23682770 Score: 116
Period size: 39 Copynumber: 3.4 Consensus size: 39
23682626 ACCAATATGG
*
23682636 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
* * *
23682675 CACCCAGTGTCTCATCGGCCTAG-CCGAAGTAA-AGTTGG
1 CACCCAGTGCCTCATCGG-ATAGTCCGAAGTAATAGTTGA
* * * *
23682713 TACCCAGTACCTCATCGAATCTA-TCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCGGA--TAGTCCGAAGTAATAGT--TGA
*
23682754 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
23682771 ACTCGAGGTC
Statistics
Matches: 75, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
38 19 0.25
39 36 0.48
40 4 0.05
41 16 0.21
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (39 bp):
CACCCAGTGCCTCATCGGATAGTCCGAAGTAATAGTTGA
Found at i:23684352 original size:5 final size:5
Alignment explanation
Indices: 23684334--23684364 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
23684324 TTTCTTTTAT
23684334 ATATA ATAATA ATATA ATATA ATATA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA
23684365 CTTAATTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:23692762 original size:89 final size:89
Alignment explanation
Indices: 23692597--23692797 Score: 242
Period size: 89 Copynumber: 2.3 Consensus size: 89
23692587 CTACGAATTT
* *
23692597 TGGCAAATCTTATCTTCCTGAAGTAGCAGTGAAGCGGATCAAAGCCACTAACCTTATCTCCTTGA
1 TGGCAAATCTTATCTTCCTGAAGTAGCAGTGAAGCAGATCAAAGCCACTAACCTTATCTCCTCGA
* *
23692662 AGTTGCAATGGAATAGACTGAAGA
66 AGATACAATGGAATAGACTGAAGA
* * * * *
23692686 TGGCGAATCTTGTCTTCCTGAAGTTGCAGTGAAGTAGATCGAAGCCACTAACCTTATCTCCTCGA
1 TGGCAAATCTTATCTTCCTGAAGTAGCAGTGAAGCAGATCAAAGCCACTAACCTTATCTCCTCGA
* * **
23692751 AGATACGATGGAGTAGGTTGAAG-
66 AGATACAATGGAATAGACTGAAGA
** * *
23692774 TTACAAATCTTATCTCCCTAAAGT
1 TGGCAAATCTTATCTTCCTGAAGT
23692798 TGTAGCGGGG
Statistics
Matches: 93, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
88 18 0.19
89 75 0.81
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.28
Consensus pattern (89 bp):
TGGCAAATCTTATCTTCCTGAAGTAGCAGTGAAGCAGATCAAAGCCACTAACCTTATCTCCTCGA
AGATACAATGGAATAGACTGAAGA
Found at i:23692936 original size:41 final size:41
Alignment explanation
Indices: 23692879--23693030 Score: 259
Period size: 41 Copynumber: 3.7 Consensus size: 41
23692869 ATTACAAATA
*
23692879 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAACAAGTC
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAATAAGTC
23692920 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAATAAGTC
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAATAAGTC
* *
23692961 TTATCTTTCTGAAGTTGCAGTAGAGCAAATCAAAATAAGTC
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAATAAGTC
* *
23693002 TTATCTCCCTGAAGTTGCAGTAGAACAGA
1 TTATCTCTCTGAAGTTGCAGTAGAGCAGA
23693031 CTGGAGATGG
Statistics
Matches: 104, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 104 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (41 bp):
TTATCTCTCTGAAGTTGCAGTAGAGCAGATCAAAATAAGTC
Found at i:23693894 original size:10 final size:9
Alignment explanation
Indices: 23693853--23693894 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
23693843 AGTTTCATTC
23693853 TCTTTTTTT
1 TCTTTTTTT
23693862 CTCTTTTTTT
1 -TCTTTTTTT
*
23693872 TCTTTATTT
1 TCTTTTTTT
*
23693881 T-TTTATTT
1 TCTTTTTTT
23693889 TCTTTT
1 TCTTTT
23693895 CTTCTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
8 8 0.28
9 12 0.41
10 9 0.31
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.83
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:23693894 original size:22 final size:23
Alignment explanation
Indices: 23693855--23693897 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
23693845 TTTCATTCTC
* *
23693855 TTTTTTTCTCTTTTTTTTCTTTA
1 TTTTTTTATCTTTCTTTTCTTTA
23693878 TTTTTTTAT-TTTCTTTTCTT
1 TTTTTTTATCTTTCTTTTCTT
23693898 CTAAAATCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.05, C:0.12, G:0.00, T:0.84
Consensus pattern (23 bp):
TTTTTTTATCTTTCTTTTCTTTA
Found at i:23694817 original size:3 final size:3
Alignment explanation
Indices: 23694802--23694901 Score: 87
Period size: 3 Copynumber: 31.7 Consensus size: 3
23694792 ATCATTACTG
*
23694802 TTA TTA GTA TTA TTA TTA TT- TTA TTCA TTA GTCTA TTTA GTTA TCTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA -T-TA -TTA -TTA T-TA
** *
23694849 TTCA TT- TGC TTA ATA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
23694894 TTA TTA TT
1 TTA TTA TT
23694902 GTCTTACGAA
Statistics
Matches: 81, Mismatches: 9, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
2 3 0.04
3 60 0.74
4 15 0.19
5 3 0.04
ACGTcount: A:0.29, C:0.05, G:0.04, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:23695228 original size:21 final size:22
Alignment explanation
Indices: 23695192--23695237 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
23695182 TTTAACCCCT
* *
23695192 TTTATATATCATTTTTGAATTA
1 TTTATATATCATTTTTAAACTA
*
23695214 TTTATAT-TTATTTTTAAACTA
1 TTTATATATCATTTTTAAACTA
23695235 TTT
1 TTT
23695238 TTCATAGACT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTATATATCATTTTTAAACTA
Found at i:23701263 original size:21 final size:22
Alignment explanation
Indices: 23701234--23701276 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
23701224 TTAATTGAAA
*
23701234 ATTTGTAAT-ATGTTTTTAACAT
1 ATTTGTAATCAT-TTTTAAACAT
23701256 ATTT-TAATCATTTTTAAACAT
1 ATTTGTAATCATTTTTAAACAT
23701277 TTAACTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (22 bp):
ATTTGTAATCATTTTTAAACAT
Found at i:23702530 original size:8 final size:8
Alignment explanation
Indices: 23702517--23702555 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
23702507 AAATAATACT
23702517 ATATATAA
1 ATATATAA
23702525 ATATATAA
1 ATATATAA
*
23702533 ATATATAT
1 ATATATAA
*
23702541 ATACATAA
1 ATATATAA
*
23702549 AAATATA
1 ATATATA
23702556 CACTAATATA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (8 bp):
ATATATAA
Found at i:23702543 original size:24 final size:22
Alignment explanation
Indices: 23702475--23702576 Score: 79
Period size: 24 Copynumber: 4.6 Consensus size: 22
23702465 CAAAAAGCAA
23702475 ATATAATAAAAATATTAAATTAA-
1 ATATAATAAAAATA-TAAA-TAAT
* *
23702498 A-GTAATAAAAA-AT-AATACT
1 ATATAATAAAAATATAAATAAT
*
23702517 ATAT-ATAAATATATAAATATAT
1 ATATAATAAAAATATAAATA-AT
*
23702539 ATATACATAAAAATATACACTAAT
1 ATATA-ATAAAAATATA-AATAAT
*
23702563 ATATAATAATAATA
1 ATATAATAAAAATA
23702577 GTAATAGCAA
Statistics
Matches: 63, Mismatches: 8, Indels: 16
0.72 0.09 0.18
Matches are distributed among these distances:
18 2 0.03
19 9 0.14
20 4 0.06
21 5 0.08
22 14 0.22
23 9 0.14
24 17 0.27
25 3 0.05
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (22 bp):
ATATAATAAAAATATAAATAAT
Found at i:23702613 original size:121 final size:123
Alignment explanation
Indices: 23702354--23702576 Score: 283
Period size: 121 Copynumber: 1.8 Consensus size: 123
23702344 GGATATAATG
* * * *
23702354 ATAATAATAGTAATATTAAAGTAAAGTAAATAATAATACTATATATAAAAAACATATATATATGT
1 ATAATAATATTAATATTAAAGTAAAGTAAAAAATAATACTATATAT--AAAACATATAAATATAT
* * * *
23702419 ATATAATAGAAATACACACTACTATATAATAATAAATATAGAAATACAAAAAGCAAATATA
64 ATATAATAAAAATACACACTAATATATAATAAT-AATATAGAAATACAAAAAGAAAAGATA
* *
23702480 ATAAAAATATTAA-ATTAAAGT-AA-TAAAAAATAATACTATATAT-AAATATATAAATATATAT
1 ATAATAATATTAATATTAAAGTAAAGTAAAAAATAATACTATATATAAAACATATAAATATATAT
*
23702541 ATACATAAAAATATACACTAATATATAATAATAATA
66 ATA-ATAAAAATACACACTAATATATAATAATAATA
23702577 GTAATAGCAA
Statistics
Matches: 87, Mismatches: 9, Indels: 8
0.84 0.09 0.08
Matches are distributed among these distances:
120 22 0.25
121 25 0.29
123 19 0.22
124 2 0.02
125 8 0.09
126 11 0.13
ACGTcount: A:0.60, C:0.05, G:0.04, T:0.31
Consensus pattern (123 bp):
ATAATAATATTAATATTAAAGTAAAGTAAAAAATAATACTATATATAAAACATATAAATATATAT
ATAATAAAAATACACACTAATATATAATAATAATATAGAAATACAAAAAGAAAAGATA
Found at i:23702789 original size:3 final size:3
Alignment explanation
Indices: 23702776--23702858 Score: 59
Period size: 3 Copynumber: 27.3 Consensus size: 3
23702766 GTAGGTATAT
23702776 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
23702820 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
23702859 AAAAATAAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
2 9 0.14
3 45 0.69
4 9 0.14
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:23702800 original size:12 final size:12
Alignment explanation
Indices: 23702776--23702859 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 12
23702766 GTAGGTATAT
23702776 ATAATAT-AATA
1 ATAATATAAATA
23702787 ATAATATAAATA
1 ATAATATAAATA
23702799 ATAATATATACATGA
1 ATAATATA-A-AT-A
23702814 GA-AATA-ATAATA
1 -ATAATATA-AATA
23702826 ATAATATAAATA
1 ATAATATAAATA
* *
23702838 ATAGTAAAAATA
1 ATAATATAAATA
*
23702850 ATAAAATAAA
1 ATAATATAAA
23702860 AAAATAAAAC
Statistics
Matches: 61, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
11 8 0.13
12 38 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:23704067 original size:86 final size:86
Alignment explanation
Indices: 23703937--23704812 Score: 883
Period size: 86 Copynumber: 10.3 Consensus size: 86
23703927 TTCAGCTTGG
* * *
23703937 TACCCTACTGCTTAGGGGTTTAAGGCACATCGTCTTCGATCTGTTTCTCTACTGCTTAGGGTGTT
1 TACCCTACTGCTTAGGGGTTTAAGGC-CTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
23704002 AAGATCTGTAAATTTAGCCTGT
65 AAGATCTGTAAATTTAGCCTGT
* * **
23704024 TACCCTACTGTTTAGGGG-TTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCT-TCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGG-T
23704088 TAAGATCTGTAAATCTTCAGCCTGT
64 TAAGATCTGTAAAT-TT-AGCCTGT
* ** *
23704113 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGTTTCCCTACTGTTTA---GG--
1 TACCCTACTGCTTAGGGGTTTAAGGCCT-TCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
*
23704173 --G-TCTGTAAATTTAACCTGT
65 AAGATCTGTAAATTTAGCCTGT
* * * *
23704192 TACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGTTTTCCTACTGTTTA---GG--
1 TACCCTACTGCTTAGGGGTTTAAGGCCT-TCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* *
23704252 --G-TCTGTAAATTTAACATGT
65 AAGATCTGTAAATTTAGCCTGT
* * * * *
23704271 TACCCCACTGCTTAAGGGTTTAAGGCTTATCGTCTTTGACCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAGGCCT-TCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
*
23704336 AAGATCTGTAAATTCAGCCTGT
65 AAGATCTGTAAATTTAGCCTGT
* * *
23704358 TACCCTACTGCTTAGGGGTTTAAGGCCCATCAG-CTTCGATCTG-CTCCACTACTGCTTAGGGAG
1 TACCCTACTGCTTAGGGGTTTAAGG-CCTTC-GTCTTCGATCTGTTTCC-CTACTGCTTAGGGGG
* * *
23704421 ATAAAATC--TACAATTTGGCCTGT
63 TTAAGATCTGTA-AATTTAGCCTGT
*
23704444 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTG-TATAGGGGGT
1 TACCCTACTGCTTAGGGGTTTAAG-GCCTTCGTCTTCGATCTGTTTCCCTACTGCT-TAGGGGGT
* * *
23704508 TAAGATCTG-GAATTTGGTCTGT
64 TAAGATCTGTAAATTTAGCCTGT
* * *
23704530 TACCCTACTGCTTAGGGGTTTAAGGCCCTTCGTCTTCGATCTG-CTCCACTACTGCTTAGGGAGA
1 TACCCTACTGCTTAGGGGTTTAAGG-CCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGGGGT
* * ** *
23704594 TAAGATTTG-CAATTCGGTCTGT
64 TAAGATCTGTAAATTTAGCCTGT
* * * *
23704616 TACCCTACTGCTTAGGGGTTTAAGACCCTTCGTCTTCGATCTG-CTCCACTACTGCTTAGGGAGA
1 TACCCTACTGCTTAGGGGTTTAAG-GCCTTCGTCTTCGATCTGTTTCC-CTACTGCTTAGGGGGT
* * *
23704680 TAAGATCTG-CAA-TTCGATCTGT
64 TAAGATCTGTAAATTTAG-CCTGT
* *
23704702 TACCCTACTACTTAGGGGTTTAAGACCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
1 TACCCTACTGCTTAGGGGTTTAAG-GCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTT
* *
23704767 AAGATCTAG-AAATTCAGCCTAT
65 AAGATCT-GTAAATTTAGCCTGT
23704789 TACCCTACTGCTTAGGGGTTTAAG
1 TACCCTACTGCTTAGGGGTTTAAG
23704813 ATCTGTAAAT
Statistics
Matches: 693, Mismatches: 65, Indels: 62
0.85 0.08 0.08
Matches are distributed among these distances:
79 132 0.19
80 2 0.00
81 9 0.01
82 3 0.00
85 9 0.01
86 332 0.48
87 138 0.20
88 6 0.01
89 24 0.03
90 38 0.05
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.36
Consensus pattern (86 bp):
TACCCTACTGCTTAGGGGTTTAAGGCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAGGGGGTTA
AGATCTGTAAATTTAGCCTGT
Found at i:23704172 original size:44 final size:44
Alignment explanation
Indices: 23703937--23704861 Score: 241
Period size: 44 Copynumber: 21.7 Consensus size: 44
23703927 TTCAGCTTGG
*** **
23703937 TACCCTACTGCTTAGGGGTTTAAGGCACATCGTCTTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
* * * * ** * *
23703981 TTCTCTACTGCTTA-GGGTGTTAA-GATCTGTAAATTTAG-CCTGT
1 TACCCTACTGCTTAGGGGT-TTAAGGCT-TGTCACCTTCGATCTGT
*
23704024 TACCCTACTGTTTAGGGG-TTAAGGCTTGTCACCTTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
* * * * *
23704067 TTCCCTACTGCTTAGGGGGTTTAA-GATCTGTAAATCTTC-AGCCTGT
1 TACCCTACTGCTTA-GGGGTTTAAGGCT-TGT-CACCTTCGA-TCTGT
23704113 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
* * ** ** *
23704157 TTCCCTACTGTTTA-GGG--T----C-TGT-AAATTTAACCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
* ** *
23704192 TACCCTACTGCTTAGGGGTTTAAGGCTTATCGTCTTTGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
** * * *
23704236 TTTCCTACTGTTTA-GGGTCTGTAA--ATT-T-A---AC-A--TGT
1 TACCCTACTGCTTAGGGGT-T-TAAGGCTTGTCACCTTCGATCTGT
* * * ** * *
23704271 TACCCCACTGCTTAAGGGTTTAAGGCTTATCGTCTTTGACCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
* * * ** *
23704315 TTCCCTACTGCTTAGGGGGTTAA-GATCTGT-AAATTC-AGCCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCT-TGTCACCTTCGA-TCTGT
*** * *
23704358 TACCCTACTGCTTAGGGGTTTAAGGCCCATCAGCTTCGATCTGC
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
* * ** * * * **
23704402 T-CCACTACTGCTTAGGGAGATAAAATC-T-ACA-ATTTGGCCTGT
1 TACC-CTACTGCTTAGGG-GTTTAAGGCTTGTCACCTTCGATCTGT
* * **
23704444 TACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAG-GCTTGTCACCTTCGATCTGT
* * * * * * *
23704488 TTCCCTACTG-TATAGGGGGTTAA-GATCTG-GA-ATTTGGTCTGT
1 TACCCTACTGCT-TAGGGGTTTAAGGCT-TGTCACCTTCGATCTGT
* ** *
23704530 TACCCTACTGCTTAGGGGTTTAAGGCCCT-TCGTCTTCGATCTGC
1 TACCCTACTGCTTAGGGGTTTAAGG-CTTGTCACCTTCGATCTGT
* ** * *
23704574 T-CCACTACTGCTTAGGGAG-ATAAGATTTG-CA-ATTCGGTCTGT
1 TACC-CTACTGCTTAGGG-GTTTAAGGCTTGTCACCTTCGATCTGT
* * ** *
23704616 TACCCTACTGCTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGC
1 TACCCTACTGCTTAGGGGTTTAAG-GCTTGTCACCTTCGATCTGT
* * *
23704660 T-CCACTACTGCTTAGGGAG-ATAA-GATCTG-CA-ATTCGATCTGT
1 TACC-CTACTGCTTAGGG-GTTTAAGGCT-TGTCACCTTCGATCTGT
* * * **
23704702 TACCCTACTACTTAGGGGTTTAAGACCCT-TCGTCTTCGATCTGT
1 TACCCTACTGCTTAGGGGTTTAAG-GCTTGTCACCTTCGATCTGT
* * * * ** * *
23704746 TTCCCTACTGCTTAGGGGGTTAAGATCTAG--AAATTC-AGCCTAT
1 TACCCTACTGCTTAGGGGTTTAAG-GCTTGTCACCTTCGA-TCTGT
* * ** * *
23704789 TACCCTACTGCTTAGGGGTTTAA-GATCTGTAAATTTAG-CCTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCT-TGTCACCTTCGATCTGT
*
23704832 TACCCTACTGCTTAGGGGGTTAAGGCTTGT
1 TACCCTACTGCTTAGGGGTTTAAGGCTTGT
23704862 GGATTCACCG
Statistics
Matches: 629, Mismatches: 174, Indels: 157
0.66 0.18 0.16
Matches are distributed among these distances:
34 3 0.00
35 34 0.05
36 12 0.02
37 3 0.00
38 1 0.00
41 8 0.01
42 116 0.18
43 165 0.26
44 231 0.37
45 32 0.05
46 24 0.04
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (44 bp):
TACCCTACTGCTTAGGGGTTTAAGGCTTGTCACCTTCGATCTGT
Found at i:23705825 original size:52 final size:53
Alignment explanation
Indices: 23705723--23705836 Score: 185
Period size: 52 Copynumber: 2.2 Consensus size: 53
23705713 GCATAGCTCG
* *
23705723 AAATGAATAAATTAATCAAAGATTGCAAATGCCATAAGAAAGAAATTAACTCA
1 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAAGAAATTAACTCA
* *
23705776 AAATGAATAAGTTAATCAAAGATAGC-AATGCAATAAGAAGGAAATTAACTCA
1 AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAAGAAATTAACTCA
23705828 AAATGAATA
1 AAATGAATA
23705837 TAGCAAATTC
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
52 33 0.58
53 24 0.42
ACGTcount: A:0.55, C:0.10, G:0.13, T:0.22
Consensus pattern (53 bp):
AAATGAATAAATTAATCAAAGATAGCAAATGCAATAAGAAAGAAATTAACTCA
Found at i:23707858 original size:23 final size:27
Alignment explanation
Indices: 23707832--23707886 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 27
23707822 GTATCTATTT
23707832 TTATTGATT-TATGG-AAAT-TATA-A
1 TTATTGATTATATGGAAAATATATATA
*
23707855 TTATT-ATTATTTGGAAAATATATATA
1 TTATTGATTATATGGAAAATATATATA
23707881 TTATTG
1 TTATTG
23707887 TAGTTGAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 3 0.12
23 9 0.35
24 4 0.15
25 4 0.15
26 6 0.23
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (27 bp):
TTATTGATTATATGGAAAATATATATA
Found at i:23710266 original size:60 final size:59
Alignment explanation
Indices: 23710199--23710337 Score: 174
Period size: 60 Copynumber: 2.3 Consensus size: 59
23710189 CCAACTGTGT
23710199 TGATATGGGCAAGGCCCAATATA-TCTCG-ACTTGTAATAGGGCTACGGCCCAGATTAATAC
1 TGATATGGGCAAGGCCCAATATACTCT-GTAC-TGTAA-AGGGCTACGGCCCAGATTAATAC
* * * * *
23710259 TGATATGGGCTAGGCCCAGTATACTCTGTTACTGTAAGGGGCTATGGCCCAGATTAATAT
1 TGATATGGGCAAGGCCCAATATACTCTG-TACTGTAAAGGGCTACGGCCCAGATTAATAC
23710319 TGATATGGGCTAAGGCCCA
1 TGATATGGGC-AAGGCCCA
23710338 GTTAACATTA
Statistics
Matches: 69, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
60 52 0.75
61 15 0.22
62 2 0.03
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (59 bp):
TGATATGGGCAAGGCCCAATATACTCTGTACTGTAAAGGGCTACGGCCCAGATTAATAC
Found at i:23711296 original size:510 final size:510
Alignment explanation
Indices: 23710337--23711357 Score: 1988
Period size: 510 Copynumber: 2.0 Consensus size: 510
23710327 GCTAAGGCCC
*
23710337 AGTTAACATTAAATTCTGAATAGGGCTTAGGCCCAGTAAAGCTTGAACTGATTTGGACTTTGGTT
1 AGTTAACATTAAATTCTGAATAGGGCTTAGACCCAGTAAAGCTTGAACTGATTTGGACTTTGGTT
23710402 GGGATACTTTACACACTGAGTTTTCCAAACTCACCCCCCCTTTTTCCCATCTTTGCAGGTGAGCC
66 GGGATACTTTACACACTGAGTTTTCCAAACTCACCCCCCCTTTTTCCCATCTTTGCAGGTGAGCC
*
23710467 TTATATCGATGGACTTGGAGCTGGGCGGGATTCAGAGTGGCCACGAAGATTAAGTTTTGTTTTCT
131 TTAGATCGATGGACTTGGAGCTGGGCGGGATTCAGAGTGGCCACGAAGATTAAGTTTTGTTTTCT
*
23710532 TTAAAATAAGTTTCGCATTTATTATTTTAATTATTTTTATTCTGGTTAAAGTTGTAATAAGGCCG
196 TTAAAATAAGTTTCACATTTATTATTTTAATTATTTTTATTCTGGTTAAAGTTGTAATAAGGCCG
*
23710597 CTCTTTTTATTATTTTTAATATTTTGGGTTATTAAATTGGTTAGCTCTAGGGCGCGTTTTATAAA
261 CTCTTTTTATTATTTTTAATATTTTGGGTTATTAAATTGGTTAGCTCTAGGGCGCATTTTATAAA
23710662 AGTTACTTATTTTTAAAATATCACGATAACCGAGCAAAGCTTCCGCAACGTAAATGCTTTCAAAG
326 AGTTACTTATTTTTAAAATATCACGATAACCGAGCAAAGCTTCCGCAACGTAAATGCTTTCAAAG
23710727 GAAATAAATATTTTAAATAGACTTAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAAG
391 GAAATAAATATTTTAAATAGACTTAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAAG
23710792 TGTGGCAATGGATGTATGCATGTCTAGGATTGGATCATGGAAGAGCTAGGTACTT
456 TGTGGCAATGGATGTATGCATGTCTAGGATTGGATCATGGAAGAGCTAGGTACTT
*
23710847 AGTTAACATTAAATTCTGAATAGGGCTTAGACCCAGTAAAGCTTGAACTGATTTGGGCTTTGGTT
1 AGTTAACATTAAATTCTGAATAGGGCTTAGACCCAGTAAAGCTTGAACTGATTTGGACTTTGGTT
23710912 GGGATACTTTACACACTGAGTTTTCCAAACTCACCCCCCCTTTTTCCCATCTTTGCAGGTGAGCC
66 GGGATACTTTACACACTGAGTTTTCCAAACTCACCCCCCCTTTTTCCCATCTTTGCAGGTGAGCC
23710977 TTAGATCGATGGACTTGGAGCTGGGCGGGATTCAGAGTGGCCACGAAGATTAAGTTTTGTTTTCT
131 TTAGATCGATGGACTTGGAGCTGGGCGGGATTCAGAGTGGCCACGAAGATTAAGTTTTGTTTTCT
23711042 TTAAAATAAGTTTCACATTTATTATTTTAATTATTTTTATTCTGGTTAAAGTTGTAATAAGGCCG
196 TTAAAATAAGTTTCACATTTATTATTTTAATTATTTTTATTCTGGTTAAAGTTGTAATAAGGCCG
23711107 CTCTTTTTATTATTTTTAATATTTTGGGTTATTAAATTGGTTAGCTCTAGGGCGCATTTTATAAA
261 CTCTTTTTATTATTTTTAATATTTTGGGTTATTAAATTGGTTAGCTCTAGGGCGCATTTTATAAA
*
23711172 AGTTACTTATTTTTAAAATATCACGATAACCGAGCAAAGCTTCCGCAACGTAAATGTTTTCAAAG
326 AGTTACTTATTTTTAAAATATCACGATAACCGAGCAAAGCTTCCGCAACGTAAATGCTTTCAAAG
23711237 GAAATAAATATTTTAAATAGACTTAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAAG
391 GAAATAAATATTTTAAATAGACTTAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAAG
23711302 TGTGGCAATGGATGTATGCATGTCTAGGATTGGATCATGGAAGAGCTAGGTACTT
456 TGTGGCAATGGATGTATGCATGTCTAGGATTGGATCATGGAAGAGCTAGGTACTT
23711357 A
1 A
23711358 AGCAGTCTAA
Statistics
Matches: 505, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
510 505 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (510 bp):
AGTTAACATTAAATTCTGAATAGGGCTTAGACCCAGTAAAGCTTGAACTGATTTGGACTTTGGTT
GGGATACTTTACACACTGAGTTTTCCAAACTCACCCCCCCTTTTTCCCATCTTTGCAGGTGAGCC
TTAGATCGATGGACTTGGAGCTGGGCGGGATTCAGAGTGGCCACGAAGATTAAGTTTTGTTTTCT
TTAAAATAAGTTTCACATTTATTATTTTAATTATTTTTATTCTGGTTAAAGTTGTAATAAGGCCG
CTCTTTTTATTATTTTTAATATTTTGGGTTATTAAATTGGTTAGCTCTAGGGCGCATTTTATAAA
AGTTACTTATTTTTAAAATATCACGATAACCGAGCAAAGCTTCCGCAACGTAAATGCTTTCAAAG
GAAATAAATATTTTAAATAGACTTAAACTTAATTTGTTGTTCGTGGACAAGTAATAAGCTTAAAG
TGTGGCAATGGATGTATGCATGTCTAGGATTGGATCATGGAAGAGCTAGGTACTT
Found at i:23715027 original size:16 final size:16
Alignment explanation
Indices: 23715001--23715039 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
23714991 AATAAAAAAC
*
23715001 AATACTATATATATAAA
1 AATA-TATATACATAAA
*
23715018 TATATATATACATAAA
1 AATATATATACATAAA
23715034 AATATA
1 AATATA
23715040 CACTAATATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.36
Consensus pattern (16 bp):
AATATATATACATAAA
Found at i:23715094 original size:115 final size:120
Alignment explanation
Indices: 23714845--23715099 Score: 267
Period size: 118 Copynumber: 2.1 Consensus size: 120
23714835 GTTGGATATA
* * * *
23714845 ATGATAATAATAATATTAAAGTAAAGTAAATAATAATACTATATATAAAATATATATATGTATAT
1 ATGATAATATTAATATTAAAGTAAAGTAAAAAACAATACTATATATAAAATATATATA-GTACAT
* *
23714910 AATAGAAATACACACTACTATATAATAATAATAAATATAGAAATACAAAGAGCAAAT
65 AATAGAAATACACACTAATATATAATAATAATAAATATAGAAAAACAAAGA-CAAAT
*
23714967 ATAATAAAAATATTAA-ATTAAAGT-AA-TAAAAAACAATACTATATATATAAATATATATA-TA
1 ATGAT---AATATTAATATTAAAGTAAAGTAAAAAACAATACTATATATA-AAATATATATAGTA
* * * *
23715028 CAT-A-A-AAATATACACTAATATATAATAATAAT-AGTAATAGCAAAAATAATGA-AAAT
62 CATAATAGAAATACACACTAATATATAATAATAATAAAT-ATAG-AAAAACAAAGACAAAT
23715084 ATGAGTAATATTAATA
1 ATGA-TAATATTAATA
23715100 ATATATTAGA
Statistics
Matches: 113, Mismatches: 12, Indels: 22
0.77 0.08 0.15
Matches are distributed among these distances:
115 8 0.07
116 1 0.01
117 9 0.08
118 30 0.27
119 9 0.08
120 1 0.01
121 4 0.04
122 23 0.20
123 13 0.12
124 8 0.07
125 7 0.06
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (120 bp):
ATGATAATATTAATATTAAAGTAAAGTAAAAAACAATACTATATATAAAATATATATAGTACATA
ATAGAAATACACACTAATATATAATAATAATAAATATAGAAAAACAAAGACAAAT
Found at i:23715147 original size:3 final size:3
Alignment explanation
Indices: 23715141--23715191 Score: 50
Period size: 3 Copynumber: 16.0 Consensus size: 3
23715131 AATAGGGGTG
*
23715141 ATA ATA ATA ATA ATA ATA ATA CA-A ACA ATA ATA CATA TATA TATA ATA
1 ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA -ATA -ATA ATA
23715189 ATA
1 ATA
23715192 GTAGTCAGAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 1 0.02
3 31 0.72
4 11 0.26
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:23715279 original size:3 final size:3
Alignment explanation
Indices: 23715266--23715351 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
23715256 GTGGGTATAT
23715266 ATA AT- ATA ATA ATA ATA CA-A ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA -ATA -AT-A -ATA ATA
* *
23715310 ATA ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA A
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
23715352 AAAAAAATAA
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 8 0.12
3 50 0.74
4 8 0.12
5 2 0.03
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:23715296 original size:30 final size:29
Alignment explanation
Indices: 23715261--23715351 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 29
23715251 ATGGAGTGGG
23715261 TATATATAATA-TAATAATAATACAAATAA
1 TATATATAATAGTAATAATAATA-AAATAA
*
23715290 TAATATATACATGAGAAATAATAATAATAATAA
1 T-ATATATA-AT-AGTAATAATAATAA-AATAA
* *
23715323 TATAAATAATAGTAAAAATAATAAAATAA
1 TATATATAATAGTAATAATAATAAAATAA
23715352 AAAAAAATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
29 6 0.11
30 19 0.36
31 4 0.08
32 8 0.15
33 16 0.30
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (29 bp):
TATATATAATAGTAATAATAATAAAATAA
Found at i:23715895 original size:30 final size:30
Alignment explanation
Indices: 23715861--23715943 Score: 139
Period size: 30 Copynumber: 2.8 Consensus size: 30
23715851 TTTGATGGTA
23715861 TAGGTGCAAGTGGGAGACAAGGTGGTAGAG
1 TAGGTGCAAGTGGGAGACAAGGTGGTAGAG
* *
23715891 TAGGTGCAAGTGGGAGGCAAGGTGGTGGAG
1 TAGGTGCAAGTGGGAGACAAGGTGGTAGAG
*
23715921 TAGGTGCAAGTGGGAGCCAAGGT
1 TAGGTGCAAGTGGGAGACAAGGT
23715944 AGCTAGGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.27, C:0.08, G:0.48, T:0.17
Consensus pattern (30 bp):
TAGGTGCAAGTGGGAGACAAGGTGGTAGAG
Found at i:23721962 original size:28 final size:27
Alignment explanation
Indices: 23721930--23722000 Score: 106
Period size: 28 Copynumber: 2.6 Consensus size: 27
23721920 GGTTTAGTCC
23721930 TATTTTTTAGATTTTACAATTTTACCCT
1 TATTTTTTAGATTTTACAATTTTA-CCT
* * *
23721958 TATTTTTTAGATTCTACAGTTTTACTT
1 TATTTTTTAGATTTTACAATTTTACCT
23721985 TATTTTTTAGATTTTA
1 TATTTTTTAGATTTTA
23722001 TAGTTTTGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
27 17 0.44
28 22 0.56
ACGTcount: A:0.24, C:0.10, G:0.06, T:0.61
Consensus pattern (27 bp):
TATTTTTTAGATTTTACAATTTTACCT
Found at i:23721987 original size:27 final size:28
Alignment explanation
Indices: 23721930--23722007 Score: 113
Period size: 27 Copynumber: 2.8 Consensus size: 28
23721920 GGTTTAGTCC
*
23721930 TATTTTTTAGATTTTACAATTTTACCCT
1 TATTTTTTAGATTTTACAGTTTTACCCT
* *
23721958 TATTTTTTAGATTCTACAGTTTTA-CTT
1 TATTTTTTAGATTTTACAGTTTTACCCT
*
23721985 TATTTTTTAGATTTTATAGTTTT
1 TATTTTTTAGATTTTACAGTTTT
23722008 GTCTCCCACT
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 23 0.51
28 22 0.49
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.62
Consensus pattern (28 bp):
TATTTTTTAGATTTTACAGTTTTACCCT
Found at i:23723539 original size:30 final size:30
Alignment explanation
Indices: 23723476--23723577 Score: 116
Period size: 30 Copynumber: 3.4 Consensus size: 30
23723466 TTAAAAATAA
* *
23723476 AAATTGCATTTTGACCCCTAAACTTT-TCCT
1 AAATTTCATTTTGACCCCTAAACTTTCT-TT
*
23723506 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
* * * *
23723536 AAATTTCACTTAGACCCCCAAACTTTCATT
1 AAATTTCATTTTGACCCCTAAACTTTCTTT
*
23723566 AAATTTTATTTT
1 AAATTTCATTTT
23723578 AATCCTAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
30 59 0.98
31 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.04, T:0.44
Consensus pattern (30 bp):
AAATTTCATTTTGACCCCTAAACTTTCTTT
Found at i:23723999 original size:17 final size:17
Alignment explanation
Indices: 23723977--23724025 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
23723967 GAAGAAGAAG
**
23723977 GAAGAAGAAAAGAGGAA
1 GAAGAAGAAAAGAAAAA
23723994 GAAGAA-AGAAAGAAAAA
1 GAAGAAGA-AAAGAAAAA
*
23724011 GAAAAAGAAAAGAAA
1 GAAGAAGAAAAGAAA
23724026 TAATAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 25 0.93
18 1 0.04
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (17 bp):
GAAGAAGAAAAGAAAAA
Found at i:23724294 original size:11 final size:11
Alignment explanation
Indices: 23724272--23724338 Score: 54
Period size: 12 Copynumber: 6.3 Consensus size: 11
23724262 GGCCCAGCAG
23724272 AGAAAA-AAAA
1 AGAAAAGAAAA
23724282 AGAAAAGAAAA
1 AGAAAAGAAAA
23724293 AG--AAGAAAA
1 AGAAAAGAAAA
*
23724302 AGAGAAGGAAAA
1 AGA-AAAGAAAA
*
23724314 A-AGAAGGAAAAA
1 AGA-AAAG-AAAA
23724326 AGAAAA-AAAA
1 AGAAAAGAAAA
23724336 AGA
1 AGA
23724339 GGTTCAATTC
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
9 9 0.18
10 13 0.27
11 12 0.24
12 14 0.29
13 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (11 bp):
AGAAAAGAAAA
Found at i:23724307 original size:22 final size:21
Alignment explanation
Indices: 23724272--23724338 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 21
23724262 GGCCCAGCAG
*
23724272 AGAAAAAAAAAGAAAAGAAAA
1 AGAAGAAAAAAGAAAAGAAAA
*
23724293 AGAAG-AAAAAGAGAAGGAAAAA
1 AGAAGAAAAAAGA-AAAG-AAAA
23724315 AGAAGGAAAAAAGAAAA-AAAA
1 AGAA-GAAAAAAGAAAAGAAAA
23724336 AGA
1 AGA
23724339 GGTTCAATTC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
20 7 0.18
21 14 0.36
22 8 0.21
23 3 0.08
24 7 0.18
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (21 bp):
AGAAGAAAAAAGAAAAGAAAA
Found at i:23724734 original size:16 final size:16
Alignment explanation
Indices: 23724683--23724736 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
23724673 CGTGCTTTTA
23724683 AAAATTCTCA-TGTTTC
1 AAAATTCT-AGTGTTTC
* *
23724699 AAAAATCTTCGTGTTTTC
1 AAAATTC-TAGTG-TTTC
23724717 AAAATTCTAGTGTTTC
1 AAAATTCTAGTGTTTC
23724733 AAAA
1 AAAA
23724737 ATTTTCTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 14 0.45
17 7 0.23
18 10 0.32
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (16 bp):
AAAATTCTAGTGTTTC
Found at i:23724832 original size:73 final size:75
Alignment explanation
Indices: 23724729--23724903 Score: 192
Period size: 73 Copynumber: 2.3 Consensus size: 75
23724719 AATTCTAGTG
* * * *** * * ***
23724729 TTTCAAAAATTTTCTTGTTTTCAGAAAAAATTTTCGTGTTTTATAAATTTCCGTATTTTCAAAAA
1 TTTCAAAAATTTTCGTGTTTTAAAAAAAAATGACCGTGTTTCAAAAATTTCCGTATTAAAAAAAA
23724794 ATCAT-GT-C
66 ATCATCGTAC
*
23724802 TTTCAAAAATTTTCGTGTTTTAAAAAAAAATGACCGTGTTTCAAAAATTTCCGTGTTAAAAAAAA
1 TTTCAAAAATTTTCGTGTTTTAAAAAAAAATGACCGTGTTTCAAAAATTTCCGTATTAAAAAAAA
* *
23724867 ATCTTCGTAT
66 ATCATCGTAC
*
23724877 TTTCAAAAAATTTTCGTGTTTCAAAAA
1 TTTC-AAAAATTTTCGTGTTTTAAAAA
23724904 TCTTCGTGTT
Statistics
Matches: 84, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
73 57 0.68
74 2 0.02
75 4 0.05
76 21 0.25
ACGTcount: A:0.37, C:0.12, G:0.09, T:0.42
Consensus pattern (75 bp):
TTTCAAAAATTTTCGTGTTTTAAAAAAAAATGACCGTGTTTCAAAAATTTCCGTATTAAAAAAAA
ATCATCGTAC
Found at i:23725045 original size:35 final size:35
Alignment explanation
Indices: 23724672--23725060 Score: 202
Period size: 35 Copynumber: 10.9 Consensus size: 35
23724662 TCAATAATCC
* * * *
23724672 TCGTGCTTTT-AAAAATTCTCATGTTTCAAAAATCT
1 TCGTG-TTTTAAAAAATTTTCGTGTTTTAAAAATTT
* * * *
23724707 TCGTGTTTT-CAAAATTCTAGTGTTTCAAAAATTT
1 TCGTGTTTTAAAAAATTTTCGTGTTTTAAAAATTT
* *
23724741 TCTTGTTTTCAGAAAAAATTTTCGTGTTTTATAAATTT
1 TCGTGTTTT---AAAAAATTTTCGTGTTTTAAAAATTT
* * ** * *
23724779 CCGTATTTTCAAAAAATCAT-GTCTTTCAAAAATTT
1 TCGTGTTTT-AAAAAATTTTCGTGTTTTAAAAATTT
*** *
23724814 TCGTGTTTTAAAAAAAAATGACCGTGTTTCAAAAATTT
1 TCGTGTTTT---AAAAAATTTTCGTGTTTTAAAAATTT
* ** * *
23724852 CCGTGTTAAAAAAAAATCTTCGTATTTTCAAAAAATTT
1 TCGTGTT-TTAAAAAATTTTCGTGTTTT--AAAAATTT
* *
23724890 TCGTG-TTTCAAAAATCTTCGTGTTTTCAAAAA-TT
1 TCGTGTTTTAAAAAATTTTCGTGTTTT-AAAAATTT
* * *
23724924 TCG-GTGTTTCAAAGATTTTCGTGTTTTCAAAAA-CT
1 TCGTGT-TTTAAAAAATTTTCGTGTTTT-AAAAATTT
* ***
23724959 CCGGTGATTTTAAAAAAAAATCGT-TTTCTAAAAAATTT
1 TC-GTG-TTTTAAAAAATTTTCGTGTTT-T-AAAAATTT
* *
23724997 CCGTG-TTTCAAAAATTTTCGTGTTTTAAAAATTT
1 TCGTGTTTTAAAAAATTTTCGTGTTTTAAAAATTT
* * *
23725031 TCGTGTTTTTAAAAATTCTCGTATTTTAAA
1 TCGTGTTTTAAAAAATTTTCGTGTTTTAAA
23725061 TTTTTTTAAG
Statistics
Matches: 277, Mismatches: 58, Indels: 38
0.74 0.16 0.10
Matches are distributed among these distances:
33 1 0.00
34 50 0.18
35 90 0.32
36 44 0.16
37 30 0.11
38 62 0.22
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (35 bp):
TCGTGTTTTAAAAAATTTTCGTGTTTTAAAAATTT
Found at i:23725047 original size:18 final size:18
Alignment explanation
Indices: 23724672--23725161 Score: 249
Period size: 17 Copynumber: 27.8 Consensus size: 18
23724662 TCAATAATCC
*
23724672 TCGTGCTTTT-AAAAATTC
1 TCGTG-TTTTCAAAAATTT
* *
23724690 TCATG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
*
23724707 TCGTGTTTTC-AAAATTC
1 TCGTGTTTTCAAAAATTT
*
23724724 TAGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
*
23724741 TCTTGTTTTCAGAAAAAATTT
1 TCGTGTTTTC---AAAAATTT
*
23724762 TCGTGTTTT-ATAAATTT
1 TCGTGTTTTCAAAAATTT
* * *
23724779 CCGTATTTTCAAAAA--A
1 TCGTGTTTTCAAAAATTT
*
23724795 TCATGTCTTTCAAAAATTT
1 TCGTGT-TTTCAAAAATTT
* **
23724814 TCGTGTTTTAAAAAAAAATGA
1 TCGTGTTTT---CAAAAATTT
*
23724835 CCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
* *** *
23724852 CCGTGTTAAAAAAAAATCT
1 TCGTGTT-TTCAAAAATTT
*
23724871 TCGTATTTTCAAAAAATTT
1 TCGTGTTTTC-AAAAATTT
*
23724890 TCGTG-TTTCAAAAATCT
1 TCGTGTTTTCAAAAATTT
23724907 TCGTGTTTTCAAAAA-TT
1 TCGTGTTTTCAAAAATTT
*
23724924 TCG-GTGTTTCAAAGATTT
1 TCGTGT-TTTCAAAAATTT
*
23724942 TCGTGTTTTCAAAAA-CT
1 TCGTGTTTTCAAAAATTT
* * ***
23724959 CCGGTGATTTTAAAAAAAAA
1 TC-GTG-TTTTCAAAAATTT
*
23724979 TCGT-TTTCTAAAAAATTT
1 TCGTGTTT-TCAAAAATTT
*
23724997 CCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
23725014 TCGTGTTTT-AAAAATTT
1 TCGTGTTTTCAAAAATTT
* *
23725031 TCGTGTTTTTAAAAATTC
1 TCGTGTTTTCAAAAATTT
*
23725049 TCGTATTTT---AAATTT
1 TCGTGTTTTCAAAAATTT
*** **
23725064 T--T-TTAAGAAAAAAAT
1 TCGTGTTTTCAAAAATTT
* *
23725079 T-GTG-TTTCAAAAAAATG
1 TCGTGTTTTC-AAAAATTT
* *
23725096 TCTTGTTTT-AAAAATTC
1 TCGTGTTTTCAAAAATTT
* *
23725113 TCGT-TTTTCAAAAAATG
1 TCGTGTTTTCAAAAATTT
*
23725130 TCGTGTTTT-GAAAATTT
1 TCGTGTTTTCAAAAATTT
23725147 TCGTGTTTTCAAAAA
1 TCGTGTTTTCAAAAA
23725162 AAAAATCTCG
Statistics
Matches: 356, Mismatches: 77, Indels: 78
0.70 0.15 0.15
Matches are distributed among these distances:
12 2 0.01
13 1 0.00
15 11 0.03
16 18 0.05
17 161 0.45
18 89 0.25
19 44 0.12
20 4 0.01
21 26 0.07
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.43
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTT
Found at i:23725173 original size:39 final size:38
Alignment explanation
Indices: 23725122--23725250 Score: 124
Period size: 39 Copynumber: 3.4 Consensus size: 38
23725112 CTCGTTTTTC
*
23725122 AAAAAATGTCGTGTTTTGAAAATTTTCGTGTTTTCAAAA
1 AAAAAATCTCGTGTTTT-AAAATTTTCGTGTTTTCAAAA
*
23725161 AAAAAATCTCGTGTTTCATAAATTTT-G-GTTTT-AAAA
1 AAAAAATCTCGTGTTTTA-AAATTTTCGTGTTTTCAAAA
* * * *
23725197 AAAATAT-T-ATGTCTTAAAATTCTCGTGTTTTCAAAA
1 AAAAAATCTCGTGTTTTAAAATTTTCGTGTTTTCAAAA
*
23725233 CAAGAAATTCTCGTGTTT
1 -AA-AAAATCTCGTGTTT
23725251 CAATCGGATC
Statistics
Matches: 71, Mismatches: 11, Indels: 15
0.73 0.11 0.15
Matches are distributed among these distances:
33 6 0.08
34 6 0.08
35 6 0.08
36 14 0.20
37 7 0.10
38 5 0.07
39 23 0.32
40 4 0.06
ACGTcount: A:0.36, C:0.10, G:0.12, T:0.41
Consensus pattern (38 bp):
AAAAAATCTCGTGTTTTAAAATTTTCGTGTTTTCAAAA
Found at i:23725192 original size:73 final size:72
Alignment explanation
Indices: 23725087--23725253 Score: 181
Period size: 73 Copynumber: 2.3 Consensus size: 72
23725077 ATTGTGTTTC
* * * ** * * * *
23725087 AAAAAAATGTCTTGTTTTAAAAATTCTCGTTTTTCAAAAAATGTCGTGTTTTGAAAATTTTCGTG
1 AAAAAAATCTCGTGTTTCAAAAATTCTCGTTTTAAAAAAAATATCATGTCTT-AAAATTCTCGTG
23725152 TTTTCAAA
65 TTTTCAAA
* * * *
23725160 AAAAAAATCTCGTGTTTCATAAATTTTGGTTTTAAAAAAAATATTATGTCTTAAAATTCTCGTGT
1 AAAAAAATCTCGTGTTTCAAAAATTCTCGTTTTAAAAAAAATATCATGTCTTAAAATTCTCGTGT
23725225 TTTCAAA
66 TTTCAAA
*
23725232 ACAAGAAATTCTCGTGTTTCAA
1 A-AA-AAAATCTCGTGTTTCAA
23725254 TCGGATCACG
Statistics
Matches: 77, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
72 20 0.26
73 42 0.55
74 15 0.19
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (72 bp):
AAAAAAATCTCGTGTTTCAAAAATTCTCGTTTTAAAAAAAATATCATGTCTTAAAATTCTCGTGT
TTTCAAA
Found at i:23726820 original size:48 final size:44
Alignment explanation
Indices: 23726742--23726881 Score: 176
Period size: 48 Copynumber: 3.1 Consensus size: 44
23726732 GGTTTTGGGG
*
23726742 GGGGGGGGAGAGAGAGCATTGAAAAAAGATACTGGAGGATTAAAT
1 GGGGGGGG-GAGAGAGCATTGAAAAAAGATAATGGAGGATTAAAT
23726787 GAGGGTAGGAGGGAGAGAGCATTGAAAAAAGATAATGTG-GGATTAAATT
1 G-GGG--GG-GGGAGAGAGCATTGAAAAAAGATAATG-GAGGATTAAA-T
* *
23726836 GGGGGGGGG-GAGAGCATTGGAAAAAGATATTGGAGGATTAAAT
1 GGGGGGGGGAGAGAGCATTGAAAAAAGATAATGGAGGATTAAAT
23726879 GGG
1 GGG
23726882 AGATCATAAG
Statistics
Matches: 85, Mismatches: 3, Indels: 16
0.82 0.03 0.15
Matches are distributed among these distances:
43 5 0.06
44 29 0.34
45 4 0.05
46 5 0.06
48 37 0.44
49 5 0.06
ACGTcount: A:0.38, C:0.03, G:0.41, T:0.18
Consensus pattern (44 bp):
GGGGGGGGGAGAGAGCATTGAAAAAAGATAATGGAGGATTAAAT
Found at i:23727002 original size:34 final size:36
Alignment explanation
Indices: 23726933--23727024 Score: 116
Period size: 34 Copynumber: 2.5 Consensus size: 36
23726923 TTGAATTGTT
*
23726933 AATATTTTAATATATTAAATCTTTAAACATAATATTTTA
1 AATATTTTAATATA--AAA-ATTTAAACATAATATTTTA
23726972 AATATTTTAATATAAAAATTTAAA-A-AATATTTTA
1 AATATTTTAATATAAAAATTTAAACATAATATTTTA
* *
23727006 ATTATATTAATATAAAAAT
1 AATATTTTAATATAAAAAT
23727025 AATTACATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
34 26 0.52
35 1 0.02
36 6 0.12
37 3 0.06
39 14 0.28
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (36 bp):
AATATTTTAATATAAAAATTTAAACATAATATTTTA
Found at i:23727025 original size:25 final size:25
Alignment explanation
Indices: 23726971--23727023 Score: 70
Period size: 26 Copynumber: 2.1 Consensus size: 25
23726961 ATAATATTTT
*
23726971 AAATATTTTAATATAAAAATTTAAA
1 AAATATTTTAATATAAAAATATAAA
**
23726996 AAATATTTTAATTATATTAATATAAA
1 AAATATTTTAA-TATAAAAATATAAA
23727022 AA
1 AA
23727024 TAATTACATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 11 0.46
26 13 0.54
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AAATATTTTAATATAAAAATATAAA
Found at i:23730239 original size:16 final size:18
Alignment explanation
Indices: 23730214--23730246 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23730204 TTTTATAATC
23730214 TTTTAGAAAAA-TATTTT
1 TTTTAGAAAAATTATTTT
23730231 TTTTA-AAAAATTATTT
1 TTTTAGAAAAATTATTT
23730247 GAAAATGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
TTTTAGAAAAATTATTTT
Found at i:23730278 original size:21 final size:22
Alignment explanation
Indices: 23730229--23730279 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 22
23730219 GAAAAATATT
23730229 TTTTTTAAAAAATTATTTGAAAA
1 TTTTTT-AAAAATTATTTGAAAA
*
23730252 TGTTTTAAAAATT-TTTG-AAA
1 TTTTTTAAAAATTATTTGAAAA
23730272 TCTTTTTA
1 T-TTTTTA
23730280 CTAAGTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 4 0.16
21 9 0.36
22 7 0.28
23 5 0.20
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (22 bp):
TTTTTTAAAAATTATTTGAAAA
Found at i:23730615 original size:15 final size:15
Alignment explanation
Indices: 23730595--23730629 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
23730585 TTTAAATACC
23730595 AACAATC-CTCTTTAT
1 AACAATCAC-CTTTAT
23730610 AACAATCACCTTTAT
1 AACAATCACCTTTAT
23730625 AACAA
1 AACAA
23730630 CCAAATATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 18 0.95
16 1 0.05
ACGTcount: A:0.43, C:0.26, G:0.00, T:0.31
Consensus pattern (15 bp):
AACAATCACCTTTAT
Found at i:23731325 original size:12 final size:12
Alignment explanation
Indices: 23731308--23731339 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
23731298 TTAGATAGAA
23731308 AAGAAATTATTG
1 AAGAAATTATTG
23731320 AAGAAATTATTG
1 AAGAAATTATTG
23731332 AAGAAATT
1 AAGAAATT
23731340 GGGTAAAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.31
Consensus pattern (12 bp):
AAGAAATTATTG
Found at i:23736949 original size:21 final size:21
Alignment explanation
Indices: 23736911--23736950 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
23736901 CCTCCTTTTA
*
23736911 ATATTATGTATATATTTTGAT
1 ATATTACGTATATATTTTGAT
* *
23736932 ATATTACGTGTATGTTTTG
1 ATATTACGTATATATTTTG
23736951 TTTCGTATAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.03, G:0.15, T:0.55
Consensus pattern (21 bp):
ATATTACGTATATATTTTGAT
Found at i:23741631 original size:22 final size:22
Alignment explanation
Indices: 23741603--23741646 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
23741593 TACAATAATG
23741603 ACATGGAATTCATACTTGCTAA
1 ACATGGAATTCATACTTGCTAA
23741625 ACATGGAATTCATACTTGCTAA
1 ACATGGAATTCATACTTGCTAA
23741647 TTAGTACATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (22 bp):
ACATGGAATTCATACTTGCTAA
Found at i:23744379 original size:49 final size:49
Alignment explanation
Indices: 23744321--23744443 Score: 138
Period size: 54 Copynumber: 2.4 Consensus size: 49
23744311 ATGTAAATAT
* **
23744321 TCATTTATTAGTTTACGTATAATGTAATGAAAAAGACTAATCCCATTAA
1 TCATTTATTAATTTACGTATAATGTAATGAAAAAGACTAATCCCAACAA
* * * *
23744370 TCTTTTATTAATTTACGTATTTCTTAATGTAATGAGAGAGACTAATCCCAACAT
1 TCATTTATTAATTTACGTA-----TAATGTAATGAAAAAGACTAATCCCAACAA
23744424 TCATTTATTAATTTACGTAT
1 TCATTTATTAATTTACGTAT
23744444 TTAAAATATA
Statistics
Matches: 61, Mismatches: 8, Indels: 10
0.77 0.10 0.13
Matches are distributed among these distances:
49 18 0.30
54 43 0.70
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (49 bp):
TCATTTATTAATTTACGTATAATGTAATGAAAAAGACTAATCCCAACAA
Found at i:23744417 original size:54 final size:54
Alignment explanation
Indices: 23744340--23744445 Score: 158
Period size: 54 Copynumber: 2.0 Consensus size: 54
23744330 AGTTTACGTA
** *
23744340 TAATGTAATGAAAAAGACTAATCCCATTAATCTTTTATTAATTTACGTATTTCT
1 TAATGTAATGAAAAAGACTAATCCCAACAATCATTTATTAATTTACGTATTTCT
* * *
23744394 TAATGTAATGAGAGAGACTAATCCCAACATTCATTTATTAATTTACGTATTT
1 TAATGTAATGAAAAAGACTAATCCCAACAATCATTTATTAATTTACGTATTT
23744446 AAAATATATG
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (54 bp):
TAATGTAATGAAAAAGACTAATCCCAACAATCATTTATTAATTTACGTATTTCT
Found at i:23745513 original size:23 final size:23
Alignment explanation
Indices: 23745486--23745569 Score: 125
Period size: 23 Copynumber: 3.7 Consensus size: 23
23745476 CAACTCTTTG
23745486 AAGGCATCACAGAATGTGCCACA
1 AAGGCATCACAGAATGTGCCACA
23745509 AAGGCATCACAGAATGTGCCACA
1 AAGGCATCACAGAATGTGCCACA
* * *
23745532 AATGCACCACA-AAAGATGCCACA
1 AAGGCATCACAGAATG-TGCCACA
23745555 AAGGCATCACAGAAT
1 AAGGCATCACAGAAT
23745570 ACGCCACGAA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
22 3 0.06
23 48 0.91
24 2 0.04
ACGTcount: A:0.43, C:0.26, G:0.19, T:0.12
Consensus pattern (23 bp):
AAGGCATCACAGAATGTGCCACA
Found at i:23745575 original size:23 final size:23
Alignment explanation
Indices: 23745486--23745582 Score: 122
Period size: 23 Copynumber: 4.2 Consensus size: 23
23745476 CAACTCTTTG
*
23745486 AAGGCATCACAGAATGTGCCACA
1 AAGGCATCACAGAATATGCCACA
*
23745509 AAGGCATCACAGAATGTGCCACA
1 AAGGCATCACAGAATATGCCACA
* * * *
23745532 AATGCACCACAAAAGATGCCACA
1 AAGGCATCACAGAATATGCCACA
* *
23745555 AAGGCATCACAGAATACGCCACG
1 AAGGCATCACAGAATATGCCACA
23745578 AAGGC
1 AAGGC
23745583 TTTCCAGAGG
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.41, C:0.28, G:0.21, T:0.10
Consensus pattern (23 bp):
AAGGCATCACAGAATATGCCACA
Found at i:23748518 original size:46 final size:46
Alignment explanation
Indices: 23748466--23748569 Score: 199
Period size: 46 Copynumber: 2.3 Consensus size: 46
23748456 AGTGTGCTCT
23748466 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
23748512 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
23748558 CTGATATGAAAT
1 CTGATATGAAAT
23748570 ACCATGGCAA
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 57 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:23748572 original size:23 final size:23
Alignment explanation
Indices: 23748545--23748592 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
23748535 TGGTTGAAAG
*
23748545 ATACCATGGCAGCCTGATATGAA
1 ATACCATGGCAACCTGATATGAA
23748568 ATACCATGGCAACCTGATATGAA
1 ATACCATGGCAACCTGATATGAA
23748591 AT
1 AT
23748593 GTGTAAGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (23 bp):
ATACCATGGCAACCTGATATGAA
Found at i:23748581 original size:69 final size:69
Alignment explanation
Indices: 23748499--23748638 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
23748489 TGGTTGAAAG
*
23748499 ATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGATA
1 ATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATA
23748564 TGAA
66 TGAA
23748568 ATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATA
1 ATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATA
23748633 TGAA
66 TGAA
23748637 AT
1 AT
23748639 GTGTAAGACC
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (69 bp):
ATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATA
TGAA
Found at i:23748618 original size:46 final size:46
Alignment explanation
Indices: 23748568--23748662 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
23748558 CTGATATGAA
23748568 ATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAG
1 ATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAG
23748614 ATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAG
1 ATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAG
23748660 ATA
1 ATA
23748663 AAGACACTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.24
Consensus pattern (46 bp):
ATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTGAAAG
Found at i:23782955 original size:20 final size:20
Alignment explanation
Indices: 23782907--23782956 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
23782897 TAGTAGTTTA
* *
23782907 ATTAATAAATAATTAAAAGT
1 ATTAATAAAAAAGTAAAAGT
**
23782927 A-GCATAAAAAAGTAAAAGT
1 ATTAATAAAAAAGTAAAAGT
23782946 ATTAATAAAAA
1 ATTAATAAAAA
23782957 TATGGTTAAG
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.26
Consensus pattern (20 bp):
ATTAATAAAAAAGTAAAAGT
Found at i:23783914 original size:24 final size:24
Alignment explanation
Indices: 23783860--23783914 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
23783850 TATTTTTTGA
*
23783860 ATATTAATTTTATTATAAAATTTT
1 ATATTTATTTTATTATAAAATTTT
* *
23783884 GTCATTTATTTT-TTATAAACTATTT
1 AT-ATTTATTTTATTATAAAAT-TTT
23783909 ATATTT
1 ATATTT
23783915 TATTAATAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (24 bp):
ATATTTATTTTATTATAAAATTTT
Found at i:23799860 original size:2 final size:2
Alignment explanation
Indices: 23799855--23799902 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
23799845 AATATATACA
23799855 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
23799897 TG TG TG
1 TG TG TG
23799903 CGCGTTTAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:23804882 original size:30 final size:32
Alignment explanation
Indices: 23804845--23804916 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 32
23804835 CTTTTGATTT
* *
23804845 TTATAATTATTTATATATTTTTAATTAA-A-A
1 TTATAATTATTTATACATATTTAATTAATAGA
* * *
23804875 TTTTAATTTTTTATACATATTTGATTAATAGA
1 TTATAATTATTTATACATATTTAATTAATAGA
23804907 TTATAATTAT
1 TTATAATTAT
23804917 ATAGTAATTT
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
30 23 0.70
31 1 0.03
32 9 0.27
ACGTcount: A:0.39, C:0.01, G:0.03, T:0.57
Consensus pattern (32 bp):
TTATAATTATTTATACATATTTAATTAATAGA
Found at i:23806046 original size:18 final size:19
Alignment explanation
Indices: 23805981--23806048 Score: 84
Period size: 19 Copynumber: 3.5 Consensus size: 19
23805971 AGATTATAAA
*
23805981 TAATAATAAATAATAAATTT
1 TAATAA-AAATATTAAATTT
23806001 TAGA-AAAAATATTAAATTT
1 TA-ATAAAAATATTAAATTT
*
23806020 TAATAAAAATTTTAAATTT
1 TAATAAAAATATTAAATTT
*
23806039 TATTAAAAAT
1 TAATAAAAAT
23806049 TAGAATTTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
18 1 0.02
19 37 0.86
20 4 0.09
21 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (19 bp):
TAATAAAAATATTAAATTT
Found at i:23806055 original size:18 final size:17
Alignment explanation
Indices: 23805984--23806057 Score: 69
Period size: 19 Copynumber: 4.1 Consensus size: 17
23805974 TTATAAATAA
23805984 TAATAAATAA-TAAATTT
1 TAATAAA-AATTAAATTT
*
23806001 TAGAAAAAATATTAAATTT
1 TA-ATAAAA-ATTAAATTT
23806020 TAATAAAAATTTTAAATTT
1 TAATAAAAA--TTAAATTT
*
23806039 TATTAAAAATTAGAATTT
1 TAATAAAAATTA-AATTT
23806057 T
1 T
23806058 TTTACAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
17 7 0.15
18 16 0.33
19 25 0.52
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
TAATAAAAATTAAATTT
Found at i:23806902 original size:22 final size:22
Alignment explanation
Indices: 23806859--23806902 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
23806849 TGATTATGAA
* *
23806859 GATTTATTTCATGTTTCTATTT
1 GATTTATTTCATGTATCAATTT
23806881 GATTTATTT-ATGTAATCAATTT
1 GATTTATTTCATGT-ATCAATTT
23806903 TCCATCTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.25, C:0.07, G:0.09, T:0.59
Consensus pattern (22 bp):
GATTTATTTCATGTATCAATTT
Found at i:23808732 original size:19 final size:17
Alignment explanation
Indices: 23808700--23808734 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
23808690 TTAAGATTGA
23808700 ATTTAAATACTTTTAAT
1 ATTTAAATACTTTTAAT
23808717 ATTTAGAATCACTTTTAA
1 ATTTA-AAT-ACTTTTAA
23808735 ATTGAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 3 0.19
19 8 0.50
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.49
Consensus pattern (17 bp):
ATTTAAATACTTTTAAT
Found at i:23817756 original size:34 final size:33
Alignment explanation
Indices: 23817705--23817772 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 33
23817695 ATAATTAATA
23817705 ATAAATATTATGTAATTTAG-TTA-TATTTAGT
1 ATAAATATTATGTAATTTAGTTTATTATTTAGT
23817736 ATAAATAATTTATAGTAATTTAGTTTATTATTTAGT
1 ATAAAT-A-TTAT-GTAATTTAGTTTATTATTTAGT
23817772 A
1 A
23817773 GTTCAAAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
31 6 0.19
32 1 0.03
33 4 0.12
34 9 0.28
35 3 0.09
36 9 0.28
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (33 bp):
ATAAATATTATGTAATTTAGTTTATTATTTAGT
Found at i:23828667 original size:15 final size:15
Alignment explanation
Indices: 23828647--23828682 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
23828637 GAGCAAGGGA
*
23828647 AAGAAAGAAGGAAGG
1 AAGAAAGAAAGAAGG
23828662 AAGAAAGAAAGAAGG
1 AAGAAAGAAAGAAGG
23828677 AA-AAAG
1 AAGAAAG
23828683 GGAAAATTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (15 bp):
AAGAAAGAAAGAAGG
Found at i:23836462 original size:23 final size:22
Alignment explanation
Indices: 23836424--23836475 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 22
23836414 TATAAAACCT
23836424 AATAAAAATAAGCTTAAAGA-AA
1 AATAAAAATAAGCTTAAA-ATAA
23836446 AATAAAAAGT-AGTCTTAAAATAA
1 AATAAAAA-TAAG-CTTAAAATAA
23836469 AATAAAA
1 AATAAAA
23836476 GGAATAACAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.21
Consensus pattern (22 bp):
AATAAAAATAAGCTTAAAATAA
Found at i:23846188 original size:39 final size:38
Alignment explanation
Indices: 23846145--23846234 Score: 101
Period size: 39 Copynumber: 2.3 Consensus size: 38
23846135 ATATGGAACT
*
23846145 CAGTGCCTCATCGG-ATAGTTCGAAGTAATAGTTGACACC
1 CAGTGCCTCATCGGCATAG-CCGAAGTAA-AGTTGACACC
* * **
23846184 CAGTGTCTCATCGGCCTAGCCGAAGTAAAGTTGGTACC
1 CAGTGCCTCATCGGCATAGCCGAAGTAAAGTTGACACC
*
23846222 CAGTACCTCATCG
1 CAGTGCCTCATCG
23846235 AATCTATCCG
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
38 19 0.44
39 21 0.49
40 3 0.07
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (38 bp):
CAGTGCCTCATCGGCATAGCCGAAGTAAAGTTGACACC
Found at i:23847159 original size:21 final size:20
Alignment explanation
Indices: 23847133--23847192 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 20
23847123 TTAAGTAATC
23847133 ATAATAATTTAATATAAAACT
1 ATAATAATTTAATATAAAA-T
* * *
23847154 ATAATAATAATCATTATAATAT
1 ATAATAAT--TTAATATAAAAT
23847176 ATATATAATTTAATATA
1 ATA-ATAATTTAATATA
23847193 TAAAACCTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 14 0.45
22 4 0.13
23 13 0.42
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAATAATTTAATATAAAAT
Found at i:23849904 original size:53 final size:53
Alignment explanation
Indices: 23849823--23849973 Score: 205
Period size: 53 Copynumber: 2.8 Consensus size: 53
23849813 CTTACATGGT
* *
23849823 TCACATATCATACCGAAGCCATATCCCAGAC-ATGGTCTTATACGGAATCACATTA
1 TCACAT-T-ATACCGATGCCATAGCCCAG-CTATGGTCTTATACGGAATCACATTA
* *
23849878 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACAGAGTCACATTA
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
** *
23849931 TCACATTGCACCGATGCCATAGCCCAGCTATGGTCTTAAACGG
1 TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGG
23849974 GCGCACTTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
52 1 0.01
53 79 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (53 bp):
TCACATTATACCGATGCCATAGCCCAGCTATGGTCTTATACGGAATCACATTA
Found at i:23851940 original size:14 final size:14
Alignment explanation
Indices: 23851921--23851948 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23851911 AATCAACTCC
23851921 TTGAAAGAATATAT
1 TTGAAAGAATATAT
23851935 TTGAAAGAATATAT
1 TTGAAAGAATATAT
23851949 AAAGAATGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (14 bp):
TTGAAAGAATATAT
Found at i:23858105 original size:158 final size:158
Alignment explanation
Indices: 23857849--23858203 Score: 514
Period size: 158 Copynumber: 2.2 Consensus size: 158
23857839 ATTTGGCCTG
** * * *
23857849 CTAACACTAATTTCGGATCAAGATTGCTAACACTAGCTTGGTTTGATGTTGCTAACACTAGCTTT
1 CTAACACTAGCTTCAGATCAAGGTTGCTAACACTAGCTTGGTTCGATGTTGCTAACACTAGCTTT
* * * * *
23857914 AGAGAATCTGCAACATATGTTGGATCTCAAGCCATCAAGTTAATTCCTGATCACAACTCCCATTT
66 AAAGAATCTACAACATATGTTGGATCTCAAGCCATCAAATTAATTCCTAATCACAACACCCATTT
*
23857979 ATTCATACAGACTGATATACTTGAGCCG
131 ATTCATACAGACTGATATACTTGAGCCA
**
23858007 CTAACTTTAGCTTCAGATCAAGGTTGCTAACACTAGCTTGGTTCGATGTTGCTAACACTAGCTTT
1 CTAACACTAGCTTCAGATCAAGGTTGCTAACACTAGCTTGGTTCGATGTTGCTAACACTAGCTTT
* * *
23858072 AAAGAAT-TCACAACATATGTTGGATCTGAAGCCATCAAATTAATTCCTAATTACAGCACCCATT
66 AAAGAATCT-ACAACATATGTTGGATCTCAAGCCATCAAATTAATTCCTAATCACAACACCCATT
* *
23858136 TATTCATACAGACTGATATACTTGGGCTA
130 TATTCATACAGACTGATATACTTGAGCCA
* *
23858165 CTAACACTAGCTTCATATCAATGTTGCTAACACTAGCTT
1 CTAACACTAGCTTCAGATCAAGGTTGCTAACACTAGCTT
23858204 TAAAGAATCC
Statistics
Matches: 174, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
157 1 0.01
158 173 0.99
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (158 bp):
CTAACACTAGCTTCAGATCAAGGTTGCTAACACTAGCTTGGTTCGATGTTGCTAACACTAGCTTT
AAAGAATCTACAACATATGTTGGATCTCAAGCCATCAAATTAATTCCTAATCACAACACCCATTT
ATTCATACAGACTGATATACTTGAGCCA
Found at i:23858479 original size:35 final size:33
Alignment explanation
Indices: 23858418--23858497 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 33
23858408 ATGCCCATCC
23858418 ATATTATTT-TTTAAATATTTAAAAAATTATT-T
1 ATATTATTTATTTAAATATTTAAAAAATT-TTAT
*
23858450 ATATTATATTATTTTAATATTTAATAAAATTTTAT
1 ATATTAT-TTATTTAAATATTTAA-AAAATTTTAT
23858485 ATATT-TTTATTTA
1 ATATTATTTATTTA
23858498 TTGAAAGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
32 7 0.17
33 8 0.19
34 15 0.36
35 12 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (33 bp):
ATATTATTTATTTAAATATTTAAAAAATTTTAT
Found at i:23868475 original size:21 final size:21
Alignment explanation
Indices: 23868449--23868489 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
23868439 AAACGAGCAA
* *
23868449 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
23868470 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
23868490 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:23881907 original size:40 final size:40
Alignment explanation
Indices: 23881857--23881939 Score: 148
Period size: 40 Copynumber: 2.1 Consensus size: 40
23881847 TAAATATGAT
*
23881857 AAATCTTATAAAAAAATATTTAAAATGAAAAAAATTGTAC
1 AAATATTATAAAAAAATATTTAAAATGAAAAAAATTGTAC
*
23881897 AAATATTATAAAAAAATATTTAAAATGAAAAACATTGTAC
1 AAATATTATAAAAAAATATTTAAAATGAAAAAAATTGTAC
23881937 AAA
1 AAA
23881940 GGCTATATAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.61, C:0.05, G:0.05, T:0.29
Consensus pattern (40 bp):
AAATATTATAAAAAAATATTTAAAATGAAAAAAATTGTAC
Found at i:23885873 original size:13 final size:13
Alignment explanation
Indices: 23885855--23885881 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
23885845 ATTACGAATT
23885855 AATGTTAAAATCA
1 AATGTTAAAATCA
23885868 AATGTTAAAATCA
1 AATGTTAAAATCA
23885881 A
1 A
23885882 GGGACTTAAA
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:0.56, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
AATGTTAAAATCA
Found at i:23891560 original size:39 final size:39
Alignment explanation
Indices: 23891502--23891814 Score: 473
Period size: 39 Copynumber: 8.0 Consensus size: 39
23891492 AATTATATTA
* * *
23891502 CCAGCACAAAGCCTACGGGACTTTAGCTCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
23891541 CCAGCACGAAGCCTGCGGGACTTTAGCCCAGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
23891580 CCAGCACGAAGCCTGTGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
23891619 CCAACATGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
23891658 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
23891697 CCAGCACGAAGCTTGCGGGACTTTAGCCCGGATTCATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* * ** * *
23891736 TCAACGTGAAGCCTGCAGGACTTTAGCCCGAATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
23891775 CCAGCACGAAGCCTGTGGGACTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
23891814 C
1 C
23891815 TAGTGTCTTG
Statistics
Matches: 245, Mismatches: 29, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 245 1.00
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:23893747 original size:31 final size:30
Alignment explanation
Indices: 23893658--23893760 Score: 91
Period size: 31 Copynumber: 3.3 Consensus size: 30
23893648 ATATTTTTAT
23893658 TTTGGTACTTGAACTTGACACTTTTTAGTCCAA
1 TTTGGTACTTGAACTTGACA-TTTTT--TCCAA
** * *
23893691 TTTAATACTTGAACTTAACACTTTTTCCTAA
1 TTTGGTACTTGAACTTGACATTTTTTCC-AA
* * **
23893722 TTTGGTACCTGAACTTGATATTTTTT-TTA
1 TTTGGTACTTGAACTTGACATTTTTTCCAA
23893751 TTTGGTACTT
1 TTTGGTACTT
23893761 CATCTTTTTT
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
29 10 0.18
30 3 0.05
31 22 0.39
32 4 0.07
33 17 0.30
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.49
Consensus pattern (30 bp):
TTTGGTACTTGAACTTGACATTTTTTCCAA
Found at i:23901698 original size:38 final size:38
Alignment explanation
Indices: 23901609--23901697 Score: 124
Period size: 38 Copynumber: 2.3 Consensus size: 38
23901599 AAAATTTATA
* * *
23901609 TTTAATACAATAAAATATTTATTATATTTATTTGTGTT
1 TTTAATATAATAAAACATTTATTATATTTATTAGTGTT
23901647 TTTAATATAATAAAACATTTATTATATTTATGGTAGTGTT
1 TTTAATATAATAAAACATTTATTATATTTAT--TAGTGTT
23901687 GTTTAATATAA
1 -TTTAATATAA
23901698 ATATTTTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 29 0.64
40 6 0.13
41 10 0.22
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (38 bp):
TTTAATATAATAAAACATTTATTATATTTATTAGTGTT
Found at i:23904770 original size:12 final size:11
Alignment explanation
Indices: 23904751--23904794 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
23904741 CCATTGAATT
23904751 TTAATTTTTTA
1 TTAATTTTTTA
23904762 TTGAATTTTATTA
1 TT-AATTTT-TTA
*
23904775 TTAATTTTTAA
1 TTAATTTTTTA
*
23904786 TTAAATTTT
1 TTAATTTTT
23904795 AGAAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 12 0.41
12 12 0.41
13 5 0.17
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (11 bp):
TTAATTTTTTA
Found at i:23907811 original size:20 final size:20
Alignment explanation
Indices: 23907788--23907835 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
23907778 CCGGAGCTCC
*
23907788 CCCCCTCCCCTCTCTTCTTT
1 CCCCCTCCCCTCTCTTCTCT
* * *
23907808 CCCCGTTCCCTCTTTTCTCT
1 CCCCCTCCCCTCTCTTCTCT
23907828 CCCTCCTC
1 CCC-CCTC
23907836 TTCTGTTTTT
Statistics
Matches: 21, Mismatches: 6, Indels: 1
0.75 0.21 0.04
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.00, C:0.58, G:0.02, T:0.40
Consensus pattern (20 bp):
CCCCCTCCCCTCTCTTCTCT
Found at i:23908336 original size:16 final size:15
Alignment explanation
Indices: 23908315--23908354 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 15
23908305 GTTACTATTA
23908315 TATTATTTATTTTCAC
1 TATTA-TTATTTTCAC
23908331 TATTATTATTTTCA-
1 TATTATTATTTTCAC
23908345 TCATTATTAT
1 T-ATTATTAT
23908355 ACATATATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.04
15 17 0.74
16 5 0.22
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (15 bp):
TATTATTATTTTCAC
Found at i:23909876 original size:50 final size:50
Alignment explanation
Indices: 23909752--23910000 Score: 275
Period size: 50 Copynumber: 4.8 Consensus size: 50
23909742 GATAATAACA
* * ** * *
23909752 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
23909803 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
23909853 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
23909903 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* * *
23909958 ATGCCAATGCCATGCCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
23910001 TTACCCAAAT
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.20
53 2 0.01
54 1 0.01
55 2 0.01
56 38 0.22
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:23909930 original size:100 final size:104
Alignment explanation
Indices: 23909751--23910000 Score: 348
Period size: 100 Copynumber: 2.4 Consensus size: 104
23909741 TGATAATAAC
**
23909751 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
23909816 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
23909853 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
23909916 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* * *
23909958 ATGCCAATGCCATGCCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
23910001 TTACCCAAAT
Statistics
Matches: 132, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 39 0.30
ACGTcount: A:0.21, C:0.30, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:23910116 original size:13 final size:13
Alignment explanation
Indices: 23910095--23910126 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
23910085 GCTTGGATCA
*
23910095 TCATCAAATAAAT
1 TCATAAAATAAAT
23910108 TCATAAAATAAAT
1 TCATAAAATAAAT
23910121 TCATAA
1 TCATAA
23910127 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:23910373 original size:30 final size:30
Alignment explanation
Indices: 23910338--23910395 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
23910328 CCTCGACTCT
*
23910338 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
23910368 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
23910396 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:23917516 original size:24 final size:24
Alignment explanation
Indices: 23917456--23917526 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 24
23917446 TTCGAGTTTG
23917456 TTTAAAATTTATATATATT-TTTAAAA
1 TTTAAAATTTAT-T-T-TTATTTAAAA
* * *
23917482 ATTACATTTTATTTTTATTTAAAA
1 TTTAAAATTTATTTTTATTTAAAA
23917506 TTTAAAATTTATTTTTTATTT
1 TTTAAAATTTA-TTTTTATTT
23917527 TGATCAAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 5
0.77 0.12 0.10
Matches are distributed among these distances:
23 2 0.05
24 16 0.43
25 10 0.27
26 9 0.24
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (24 bp):
TTTAAAATTTATTTTTATTTAAAA
Found at i:23917542 original size:22 final size:22
Alignment explanation
Indices: 23917510--23917551 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
23917500 TTAAAATTTA
23917510 AAATTTATTTTT-TATTTTGATC
1 AAATTTATTTTTGT-TTTTGATC
*
23917532 AAATTTCTTTTTGTTTTTGA
1 AAATTTATTTTTGTTTTTGA
23917552 AAATTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.64
Consensus pattern (22 bp):
AAATTTATTTTTGTTTTTGATC
Found at i:23917636 original size:27 final size:29
Alignment explanation
Indices: 23917588--23917641 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
23917578 ATAAACAAAT
*
23917588 TAAAAAAATTATATTTACTAAATATTAAA
1 TAAAAAAATTATATCTACTAAATATTAAA
*
23917617 TAAAAATATTATA-CTA-TAAATATTA
1 TAAAAAAATTATATCTACTAAATATTA
23917642 TGAAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 9 0.39
28 2 0.09
29 12 0.52
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (29 bp):
TAAAAAAATTATATCTACTAAATATTAAA
Found at i:23920910 original size:5 final size:5
Alignment explanation
Indices: 23920900--23920927 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
23920890 CACAAACTAG
23920900 CTAAC CTAAC CTAAC CTAAC CTAAC CTA
1 CTAAC CTAAC CTAAC CTAAC CTAAC CTA
23920928 GCCTTGGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.21
Consensus pattern (5 bp):
CTAAC
Found at i:23921262 original size:6 final size:6
Alignment explanation
Indices: 23921253--23921277 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
23921243 GTTCCTGGGC
23921253 GTGCAT GTGCAT GTGCAT GTGCAT G
1 GTGCAT GTGCAT GTGCAT GTGCAT G
23921278 CATGGAGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.16, G:0.36, T:0.32
Consensus pattern (6 bp):
GTGCAT
Found at i:23926650 original size:22 final size:21
Alignment explanation
Indices: 23926625--23926672 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
23926615 ACATGTTTTT
23926625 TTTAATATATATTTTTTAATAA
1 TTTAA-ATATATTTTTTAATAA
*
23926647 TTT-ACTATATTTTTTAATAA
1 TTTAAATATATTTTTTAATAA
23926667 TTTAAA
1 TTTAAA
23926673 CTACCATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 18 0.78
21 2 0.09
22 3 0.13
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTAAATATATTTTTTAATAA
Found at i:23926657 original size:20 final size:20
Alignment explanation
Indices: 23926632--23926670 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
23926622 TTTTTTAATA
23926632 TATATTTTTTAATAATTTAC
1 TATATTTTTTAATAATTTAC
23926652 TATATTTTTTAATAATTTA
1 TATATTTTTTAATAATTTA
23926671 AACTACCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (20 bp):
TATATTTTTTAATAATTTAC
Found at i:23931302 original size:23 final size:23
Alignment explanation
Indices: 23931270--23931313 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
23931260 CCTTTGGGCA
*
23931270 TACCGTTTTCCCA-TTGCCCATCG
1 TACCGGTTT-CCATTTGCCCATCG
23931293 TACCGGTTTCCATTTGCCCAT
1 TACCGGTTTCCATTTGCCCAT
23931314 ATCAGGGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 3 0.16
23 16 0.84
ACGTcount: A:0.14, C:0.36, G:0.14, T:0.36
Consensus pattern (23 bp):
TACCGGTTTCCATTTGCCCATCG
Found at i:23933814 original size:20 final size:21
Alignment explanation
Indices: 23933789--23933828 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
23933779 TAATTTATTT
23933789 ATAATT-T-TTAATGATAATGC
1 ATAATTATATTAATGA-AATGC
23933809 ATAATTATATTAATGAAATG
1 ATAATTATATTAATGAAATG
23933829 TTTAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 5 0.28
22 7 0.39
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (21 bp):
ATAATTATATTAATGAAATGC
Found at i:23933838 original size:21 final size:22
Alignment explanation
Indices: 23933796--23933839 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
23933786 TTTATAATTT
*
23933796 TTAATGATAATGCATAATTATA
1 TTAATGATAATGCATAAATATA
**
23933818 TTAATGA-AATGTTTAAATATA
1 TTAATGATAATGCATAAATATA
23933839 T
1 T
23933840 CAAGCTTAGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.43
Consensus pattern (22 bp):
TTAATGATAATGCATAAATATA
Found at i:23938553 original size:41 final size:42
Alignment explanation
Indices: 23938394--23938579 Score: 155
Period size: 42 Copynumber: 4.5 Consensus size: 42
23938384 GTCGAATACT
* * *
23938394 TGATACTCGCACACTAAGTGCCAAGACATAACCTAAGTTTTTA
1 TGAT-CTCGCACACTAAGTGCCAATACATAACCGAAGTTATTA
* * * * *
23938437 TAATCTCACACACTAAATGCCAAAACATAACCAAAGTTATTA
1 TGATCTCGCACACTAAGTGCCAATACATAACCGAAGTTATTA
* * * * * * *
23938479 TAATCTCGCACACTGAGTGCC-TTTCACAGCCGAAGCTATCT-
1 TGATCTCGCACACTAAGTGCCAATACATAACCGAAGTTAT-TA
* * *
23938520 TGATCTCGCACACTAAGTGCC-ATATATAACCGAAATTATTC
1 TGATCTCGCACACTAAGTGCCAATACATAACCGAAGTTATTA
*
23938561 TGAT-ACGCACACTAAGTGC
1 TGATCTCGCACACTAAGTGC
23938580 TGTATACAGC
Statistics
Matches: 115, Mismatches: 26, Indels: 7
0.78 0.18 0.05
Matches are distributed among these distances:
40 15 0.13
41 45 0.39
42 52 0.45
43 3 0.03
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (42 bp):
TGATCTCGCACACTAAGTGCCAATACATAACCGAAGTTATTA
Found at i:23942602 original size:56 final size:56
Alignment explanation
Indices: 23942512--23942622 Score: 195
Period size: 56 Copynumber: 2.0 Consensus size: 56
23942502 ACCATGGCAT
* * *
23942512 CGATATATGTGTGCGAGTAAGACCATGTTTAATACGTTGGCATCGATATGTGATTC
1 CGATATATGTGTGCGAGTAAGACCACGTTCAATACGTTGGCATCAATATGTGATTC
23942568 CGATATATGTGTGCGAGTAAGACCACGTTCAATACGTTGGCATCAATATGTGATT
1 CGATATATGTGTGCGAGTAAGACCACGTTCAATACGTTGGCATCAATATGTGATT
23942623 ACATGTAAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 52 1.00
ACGTcount: A:0.28, C:0.15, G:0.24, T:0.32
Consensus pattern (56 bp):
CGATATATGTGTGCGAGTAAGACCACGTTCAATACGTTGGCATCAATATGTGATTC
Found at i:23948223 original size:18 final size:18
Alignment explanation
Indices: 23948200--23948237 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
23948190 CTAATGAGAC
23948200 ACGACGAAATTTTACTCA
1 ACGACGAAATTTTACTCA
23948218 ACGACGAAATTTTACTCA
1 ACGACGAAATTTTACTCA
23948236 AC
1 AC
23948238 AAAGAGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.26
Consensus pattern (18 bp):
ACGACGAAATTTTACTCA
Found at i:23955645 original size:12 final size:12
Alignment explanation
Indices: 23955624--23955653 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
23955614 GGGCAACTTG
*
23955624 CAGTCAGTCAGT
1 CAGTCGGTCAGT
23955636 CAGTCGGTCAGT
1 CAGTCGGTCAGT
23955648 CAGTCG
1 CAGTCG
23955654 AGAGGAGCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.20, C:0.27, G:0.30, T:0.23
Consensus pattern (12 bp):
CAGTCGGTCAGT
Found at i:23969041 original size:7 final size:8
Alignment explanation
Indices: 23969031--23969059 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
23969021 TTTTTTTTGT
23969031 TTTTTTA-
1 TTTTTTAC
23969038 TTTTTTAC
1 TTTTTTAC
23969046 TTTTTTAC
1 TTTTTTAC
23969054 TTTTTT
1 TTTTTT
23969060 TCTTATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTAC
Found at i:23969117 original size:38 final size:36
Alignment explanation
Indices: 23969075--23969150 Score: 91
Period size: 38 Copynumber: 2.1 Consensus size: 36
23969065 TATTTTGTCT
* *
23969075 TTTTCTTAGATTTTTTTTCTTT-TTTATGTTTTATATTA
1 TTTTCTTA-ATTTATTTTCTTTATTTA--ATTTATATTA
*
23969113 TTTTCTTAATTTATTTTGTTTATTTAATTTATATTA
1 TTTTCTTAATTTATTTTCTTTATTTAATTTATATTA
23969149 TT
1 TT
23969151 AATTTTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 11 0.32
37 11 0.32
38 12 0.35
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (36 bp):
TTTTCTTAATTTATTTTCTTTATTTAATTTATATTA
Found at i:23969125 original size:18 final size:18
Alignment explanation
Indices: 23969104--23969155 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
23969094 TTTTTTATGT
23969104 TTTATATTATTT-TCTTAA
1 TTTATATTATTTAT-TTAA
* *
23969122 TTTATTTTGTTTATTTAA
1 TTTATATTATTTATTTAA
*
23969140 TTTATATTATTAATTT
1 TTTATATTATTTATTT
23969156 TAAAAAATTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (18 bp):
TTTATATTATTTATTTAA
Found at i:23970487 original size:49 final size:50
Alignment explanation
Indices: 23970432--23970635 Score: 241
Period size: 49 Copynumber: 4.0 Consensus size: 50
23970422 TTCGTTTTCT
*
23970432 CGATGCCATAGTCCAACTATGGTCTTACACGTAATCACA-AATCACATAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* * *
23970481 CGATGCCATAGCCCAACTATGGTCTTACACGAAATCACA-TATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
* *
23970530 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATATCACACATATCACTTAC
1 CGATGCCATAGCCCAACTATGGTCTTACAC-G--T---A-ATCACACA-ATCACATAC
* * *
23970588 CGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCACAT
1 CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACAT
23970636 GTTCACATGT
Statistics
Matches: 136, Mismatches: 10, Indels: 17
0.83 0.06 0.10
Matches are distributed among these distances:
49 74 0.54
50 7 0.05
51 7 0.05
52 1 0.01
55 1 0.01
56 6 0.04
57 1 0.01
58 39 0.29
ACGTcount: A:0.32, C:0.30, G:0.14, T:0.24
Consensus pattern (50 bp):
CGATGCCATAGCCCAACTATGGTCTTACACGTAATCACACAATCACATAC
Found at i:23970602 original size:58 final size:59
Alignment explanation
Indices: 23970516--23970634 Score: 231
Period size: 58 Copynumber: 2.0 Consensus size: 59
23970506 TACACGAAAT
23970516 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACAT-ATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
23970574 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
1 CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
23970633 CA
1 CA
23970635 TGTTCACATG
Statistics
Matches: 60, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
58 54 0.90
59 6 0.10
ACGTcount: A:0.32, C:0.31, G:0.13, T:0.24
Consensus pattern (59 bp):
CACATATCACTTACCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATAATCA
Found at i:23970615 original size:28 final size:28
Alignment explanation
Indices: 23970525--23970615 Score: 80
Period size: 28 Copynumber: 3.2 Consensus size: 28
23970515 TCACATATCA
23970525 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
* * **
23970553 CTTACACGGAAT-CACATATCACA-CATAT-CA
1 CTTAC-C-G-ATGC-CATAGCCCAGC-TATGGT
23970583 CTTACCGATGCCATAGCCCAGCTATGGT
1 CTTACCGATGCCATAGCCCAGCTATGGT
23970611 CTTAC
1 CTTAC
23970616 ACGGAATCAC
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
27 12 0.26
28 13 0.28
29 2 0.04
30 8 0.17
31 12 0.26
ACGTcount: A:0.27, C:0.32, G:0.15, T:0.25
Consensus pattern (28 bp):
CTTACCGATGCCATAGCCCAGCTATGGT
Found at i:23971730 original size:18 final size:18
Alignment explanation
Indices: 23971707--23971751 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 18
23971697 GTGACTATTA
23971707 ATAAATTTAAATATAAAT
1 ATAAATTTAAATATAAAT
*
23971725 ATAAATTTTTAAATATATAT
1 ATAAA--TTTAAATATAAAT
23971745 ATTAAAT
1 A-TAAAT
23971752 ATTATTTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 5 0.22
19 1 0.04
20 13 0.57
21 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATAAATTTAAATATAAAT
Found at i:23971737 original size:20 final size:21
Alignment explanation
Indices: 23971712--23971772 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 21
23971702 TATTAATAAA
23971712 TTTAAATATAAATA-TAAATT
1 TTTAAATATAAATATTAAATT
*
23971732 TTTAAATATATATATTAAATAT
1 TTTAAATATAAATATTAAAT-T
*
23971754 TATT--TTATAAATATTAAAT
1 T-TTAAATATAAATATTAAAT
23971773 ATATTTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
20 13 0.37
21 18 0.51
22 2 0.06
23 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTAAATATAAATATTAAATT
Found at i:23971764 original size:27 final size:27
Alignment explanation
Indices: 23971707--23971775 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 27
23971697 GTGACTATTA
*
23971707 ATAAATTTAAATATAAATATAAATTTT
1 ATAAATATAAATATAAATATAAATTTT
* *
23971734 -TAAATATATATATTAAATAT-TATTTT
1 ATAAATATAAATA-TAAATATAAATTTT
23971760 ATAAATATTAAATATA
1 ATAAATA-TAAATATA
23971776 TTTTTTTACT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
26 15 0.43
27 15 0.43
28 5 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
ATAAATATAAATATAAATATAAATTTT
Found at i:23971783 original size:23 final size:21
Alignment explanation
Indices: 23971738--23971779 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
23971728 AATTTTTAAA
*
23971738 TATATATATTAAATATTATTT
1 TATAAATATTAAATATTATTT
23971759 TATAAATATTAAATA-TATTT
1 TATAAATATTAAATATTATTT
23971779 T
1 T
23971780 TTTACTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TATAAATATTAAATATTATTT
Found at i:23971965 original size:26 final size:27
Alignment explanation
Indices: 23971916--23971978 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
23971906 TTTTAAATAC
* * *
23971916 AATTTTTAAATACATTTAAAAAATTAT
1 AATTTTTTAATACATATAAAAAATCAT
*
23971943 AATTTTTTAATA-ATATAATAAATCAT
1 AATTTTTTAATACATATAAAAAATCAT
*
23971969 AATATTTTAA
1 AATTTTTTAA
23971979 ATATTTTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 20 0.65
27 11 0.35
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (27 bp):
AATTTTTTAATACATATAAAAAATCAT
Found at i:23972027 original size:34 final size:33
Alignment explanation
Indices: 23971982--23972056 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 33
23971972 ATTTTAAATA
* *
23971982 TTTTTTAAAATTTTGTCTTTTTCCTTTTTTTTAT
1 TTTTTTAAAATTTTATCTTTTTCC-TTATTTTAT
* * *
23972016 TTTTTTGAAATTTTATGTTTTTTCTTATTTTAT
1 TTTTTTAAAATTTTATCTTTTTCCTTATTTTAT
23972049 TTTGTTTA
1 TTT-TTTA
23972057 TTTATTTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
33 11 0.32
34 23 0.68
ACGTcount: A:0.16, C:0.05, G:0.05, T:0.73
Consensus pattern (33 bp):
TTTTTTAAAATTTTATCTTTTTCCTTATTTTAT
Found at i:23972598 original size:18 final size:18
Alignment explanation
Indices: 23972548--23972599 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
23972538 TCATCGATTA
*
23972548 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
* *
23972566 AAATAAGTAAAATAAATT
1 AAATAAATAATATAAATT
23972584 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
23972600 ACTTAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
18 27 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:23972636 original size:12 final size:12
Alignment explanation
Indices: 23972621--23972669 Score: 59
Period size: 12 Copynumber: 4.3 Consensus size: 12
23972611 TCTAAAAAAG
23972621 AGAAAAAATATA
1 AGAAAAAATATA
*
23972633 AGAAAAAATGTA
1 AGAAAAAATATA
*
23972645 A-AAAAAGTA-A
1 AGAAAAAATATA
23972655 A-AAAAAATATA
1 AGAAAAAATATA
23972666 AGAA
1 AGAA
23972670 CCTGACAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
10 9 0.29
11 8 0.26
12 14 0.45
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (12 bp):
AGAAAAAATATA
Found at i:23982471 original size:30 final size:30
Alignment explanation
Indices: 23982437--23982499 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
23982427 ATTCCTAAAA
23982437 ACTTAATAGATTTGTGCTGATGTAAAATTT
1 ACTTAATAGATTTGTGCTGATGTAAAATTT
23982467 ACTTAATAGATTTGTGCTGATGTAAAATTT
1 ACTTAATAGATTTGTGCTGATGTAAAATTT
23982497 ACT
1 ACT
23982500 ACGTAGCGCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.33, C:0.08, G:0.16, T:0.43
Consensus pattern (30 bp):
ACTTAATAGATTTGTGCTGATGTAAAATTT
Found at i:23994588 original size:15 final size:17
Alignment explanation
Indices: 23994542--23994592 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
23994532 TATTTATAGG
23994542 ATTTATATATGATATATA
1 ATTTATATATG-TATATA
23994560 ATTTA-ATAATGTATA-A
1 ATTTATAT-ATGTATATA
23994576 ATTTATATA-GTAT-TA
1 ATTTATATATGTATATA
23994591 AT
1 AT
23994593 AAAATATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
15 7 0.23
16 7 0.23
17 8 0.27
18 8 0.27
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.49
Consensus pattern (17 bp):
ATTTATATATGTATATA
Found at i:23994600 original size:26 final size:25
Alignment explanation
Indices: 23994554--23994602 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
23994544 TTATATATGA
**
23994554 TATATAATTTAATAATGTATAAATT
1 TATATAATTTAATAAAATATAAATT
*
23994579 TATATAGTATTAATAAAATATAAA
1 TATATAAT-TTAATAAAATATAAA
23994603 GTATCGCCTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 7 0.35
26 13 0.65
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (25 bp):
TATATAATTTAATAAAATATAAATT
Done.