Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 181 of 185
Found at i:55068774 original size:96 final size:92
Alignment explanation
Indices: 55068605--55068787 Score: 228
Period size: 96 Copynumber: 1.9 Consensus size: 92
55068595 GGCCACCACC
*
55068605 AAATTTTTTTTTACTTTTTTCGTATACTGATACCTGATTCTGACAGGAAAAAAAGTAAAAAAATT
1 AAATTTTTTTTTACTTTTTTCGTATACTGATACCTGATTCTGACACGAAAAAAAGT---AAAA-T
55068670 TTTGTTTTACTGTACTGGGTGCTGGCTTGTT
62 TTTGTTTTACTGTACTGGGTGCTGGCTTGTT
55068701 AAATTTTTTTTTACTTTTTTCGTATACTGATACCTGATACCTGATACTGACACGAAAAAAAGT-A
1 AAATTTTTTTTTACTTTTTTCGTATACTGATACCTG--A--T--T-CTGACACGAAAAAAAGTAA
*
55068765 AA-TTT-TTTTATTGTACTGGGTGC
59 AATTTTGTTTTACTGTACTGGGTGC
55068788 CGGCCATTGA
Statistics
Matches: 78, Mismatches: 2, Indels: 14
0.83 0.02 0.15
Matches are distributed among these distances:
96 53 0.68
97 3 0.04
98 1 0.01
99 3 0.04
100 1 0.01
102 1 0.01
103 16 0.21
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (92 bp):
AAATTTTTTTTTACTTTTTTCGTATACTGATACCTGATTCTGACACGAAAAAAAGTAAAATTTTG
TTTTACTGTACTGGGTGCTGGCTTGTT
Found at i:55078989 original size:23 final size:22
Alignment explanation
Indices: 55078946--55079003 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
55078936 AAAGGGTATC
* *
55078946 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
55078967 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
55078990 TACATATCATATCT
1 TACAAATCATATCT
55079004 ACAATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:55079014 original size:19 final size:19
Alignment explanation
Indices: 55078982--55079037 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 19
55078972 AATCATATCT
*
55078982 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
55079001 TCTACA-ATTGCATATATCATA
1 TCTA-AGATTGC--ATATCATA
55079022 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
55079038 TTCGAAGATT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
19 13 0.41
20 2 0.06
21 17 0.53
ACGTcount: A:0.38, C:0.18, G:0.07, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:55079019 original size:21 final size:21
Alignment explanation
Indices: 55078993--55079036 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
55078983 CTAAGATTAC
55078993 ATATCATATCTACA-ATTGCAT
1 ATATCATATCTA-AGATTGCAT
55079014 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
55079035 AT
1 AT
55079037 CTTCGAAGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:55087607 original size:4 final size:4
Alignment explanation
Indices: 55087598--55087628 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
55087588 TTTCATACTT
55087598 GATA GATA GATA GATA GATA GATA GATA GAT
1 GATA GATA GATA GATA GATA GATA GATA GAT
55087629 GCTATTACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (4 bp):
GATA
Found at i:55089535 original size:11 final size:11
Alignment explanation
Indices: 55089519--55089547 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
55089509 AAACAAAGTC
55089519 ACATAAGAACA
1 ACATAAGAACA
55089530 ACATAAGAACA
1 ACATAAGAACA
55089541 ACATAAG
1 ACATAAG
55089548 CTGCAATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.62, C:0.17, G:0.10, T:0.10
Consensus pattern (11 bp):
ACATAAGAACA
Found at i:55092549 original size:21 final size:21
Alignment explanation
Indices: 55092525--55092587 Score: 58
Period size: 24 Copynumber: 2.9 Consensus size: 21
55092515 GAATTGAGTA
55092525 ATTTTTAATATTAATTTTT-AT
1 ATTTTT-ATATTAATTTTTAAT
*
55092546 ATTTTT-TATATATTTTTCTAAT
1 ATTTTTATAT-TAATTTT-TAAT
55092568 ATTCTATTATATTAATTTTT
1 ATT-T-TTATATTAATTTTT
55092588 TTCGTAATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
19 3 0.09
20 6 0.18
21 7 0.21
22 5 0.15
23 2 0.06
24 8 0.24
25 3 0.09
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (21 bp):
ATTTTTATATTAATTTTTAAT
Found at i:55094472 original size:46 final size:45
Alignment explanation
Indices: 55094394--55094532 Score: 206
Period size: 46 Copynumber: 3.0 Consensus size: 45
55094384 ACATTGCTAT
* *
55094394 AACTCAGTATGGTTTTCTTCCCGGAAATACCATACCTACAGTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTAC-GTTCAC
* *
55094440 AACTCAGTATGGTTTTCTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTAC-GTTCAC
*
55094486 AACTCAGTATGGTTTTCTTCACTAAAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACG-TTCAC
55094532 A
1 A
55094533 CTTTGCCATG
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
46 84 1.00
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.33
Consensus pattern (45 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTCAC
Found at i:55095396 original size:30 final size:30
Alignment explanation
Indices: 55095355--55095415 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
55095345 TCATATGGCG
*
55095355 TTTTTTTCTGATAAATTATGAAGAGATCTC
1 TTTTTTGCTGATAAATTATGAAGAGATCTC
55095385 TTTTTTGCTGATAAATTATGAAGAGATCTC
1 TTTTTTGCTGATAAATTATGAAGAGATCTC
55095415 T
1 T
55095416 AGATTTTTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.46
Consensus pattern (30 bp):
TTTTTTGCTGATAAATTATGAAGAGATCTC
Found at i:55097947 original size:4 final size:4
Alignment explanation
Indices: 55097940--55097993 Score: 63
Period size: 4 Copynumber: 13.5 Consensus size: 4
55097930 TGTTTATCAC
* * * * *
55097940 GTAT GTAT GTAT GAAT GTAT GTAT GTGT ATAT ATAT GTAT GCAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
55097988 GTAT GT
1 GTAT GT
55097994 GCTATAAGTG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.28, C:0.02, G:0.24, T:0.46
Consensus pattern (4 bp):
GTAT
Found at i:55097978 original size:28 final size:29
Alignment explanation
Indices: 55097945--55097999 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
55097935 ATCACGTATG
55097945 TATGTATGAATGTATGTATGTG-TATATA
1 TATGTATGAATGTATGTATGTGCTATATA
*
55097973 TATGTATGCATGTATGTATGTGCTATA
1 TATGTATGAATGTATGTATGTGCTATA
55098000 AGTGTAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 21 0.84
29 4 0.16
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.45
Consensus pattern (29 bp):
TATGTATGAATGTATGTATGTGCTATATA
Found at i:55098859 original size:924 final size:921
Alignment explanation
Indices: 55097075--55098919 Score: 3618
Period size: 924 Copynumber: 2.0 Consensus size: 921
55097065 ATTATATTTT
55097075 TATAAGTGTAATTTATTTTTTAAAAATATGTTAATAAAAAAATTTATGAGATTTAAATTTAAAAC
1 TATAAGTGTAATTTATTTTTTAAAAATATGTTAATAAAAAAATTTATGAGATTTAAATTTAAAAC
55097140 TTTAAACATTCAAACTACTATTTTTTATTTTTATCAATCTCGATGCGCCATAATGTAATAAATAT
66 TTTAAACATTCAAACTACTATTTTTTATTTTTATCAATCTCGATGCGCCATAATGTAATAAATAT
55097205 AATACGAACCGCTAGAAGGAGATCGTGACTCAGTAGTCCATAAGCCAACCAAAGAACACTAGCCA
131 AATACGAACCGCTAGAAGGAGATCGTGACTCAGTAGTCCATAAGCCAACCAAAGAACACTAGCCA
55097270 AGAACGAGAAAAAAGATAAATAAAACGGCATAAATTCCACACTCTTTGTCATTATCACTTGTTTC
196 AGAACGAGAAAAAAGATAAATAAAACGGCATAAATTCCACACTCTTTGTCATTATCACTTGTTTC
* * *
55097335 TGCAAATTTAAAATAAAGAAAAATAATCAATTTCCACACGAGGATGACACGAATCAAGCTGAAAA
261 TGCAAATTTAAAATAAAGAAAAATAATCAACTCCCACACGAAGATGACACGAATCAAGCTGAAAA
55097400 AAATAGAATTTTCTTTTCTTTTTTAAAGGGCTTACCACGACGACAAGTGGAGCAGCATACATTGC
326 AAATAGAATTTTCTTTTCTTTTTTAAAGGGCTTACCACGACGACAAGTGGAGCAGCATACATTGC
55097465 CACTGAAGCCACCAGCCCAATAGTCCCAACAAAAACTTTCCGATGATGATGATCATGAAATACAA
391 CACTGAAGCCACCAGCCCAATAGTCCCAACAAAAACTTTCCGATGATGATGATCATGAAATACAA
55097530 AAGCCGATATAATTGCAGTTACGGTAAATATTACCATAACCATCGTCGTTGTGGTACCAGCTTTA
456 AAGCCGATATAATTGCAGTTACGGTAAATATTACCATAACCATCGTCGTTGTGGTACCAGCTTTA
55097595 ATCTGCAAATTTTTTCACCAAGCTACCATCAATGGAGATCACATGATAATGAAAGAAGAAAAAGA
521 ATCTGCAAATTTTTTCACCAAGCTACCATCAATGGAGATCACATGATAATGAAAGAAGAAAAAGA
55097660 AAAACAGGGTTTTATTAAGAAACTCGCCTTTCCTCTTGTTGGAGCAAACCAAAGATAGATGAAGA
586 AAAACAGGGTTTTATTAAGAAACTCGCCTTTCCTCTTGTTGGAGCAAACCAAAGATAGATGAAGA
55097725 TGAAAGATAACTCTAAGATGATCCCTAAACCATTAATGGTGATGACAGGGAAATTTTCCCACTTG
651 TGAAAGATAACTCTAAGATGATCCCTAAACCATTAATGGTGATGACAGGGAAATTTTCCCACTTG
55097790 TAGCTCACAACAGGCAATCCATACCATGTGTAAAGGAGACAATTCGATAGTGCAACGATGTATGG
716 TAGCTCACAACAGGCAATCCATACCATGTGTAAAGGAGACAATTCGATAGTGCAACGATGTATGG
55097855 GATGCATGAGAATTCTTCAGTGCTTCTTTTCCTTATTACCCTTGTAAAAGTCAAGCTGTACAACA
781 GATGCATGAGAATTCTTCAGTGCTTCTTTTCCTTATTACCCTTGTAAAAGTCAAGCTGTACAACA
55097920 CATATATATTTGTTTATCACGTATGTATGTATGAATGTATGTATGTGTATATATATGTATGCATG
846 CATATATATTTGTTTATCACGTATGTATGTATGAATGTATGTATGTGTATATATATGTATGCATG
55097985 TATGTATGTGC
911 TATGTATGTGC
55097996 TATAAGTGTAATTTATTTTTTAAAAATATGTTAATAAAAAAATTTATGAGATTTAAATTTAAAAC
1 TATAAGTGTAATTTATTTTTTAAAAATATGTTAATAAAAAAATTTATGAGATTTAAATTTAAAAC
55098061 TTTAAACATTCAAACTACTATTTTTTATTTTTATCAATCTCGATGCGCCATAATGTAATAAATAT
66 TTTAAACATTCAAACTACTATTTTTTATTTTTATCAATCTCGATGCGCCATAATGTAATAAATAT
55098126 AATACGAACCGCTAGAAGGAGATCGTGACTCAGTAGTCCATAAGCCAACCAAAGAACACTAGCCA
131 AATACGAACCGCTAGAAGGAGATCGTGACTCAGTAGTCCATAAGCCAACCAAAGAACACTAGCCA
55098191 AGAACGAGAAAAAAGATAAATAAAACGGCATAAATTCCACACTCTTTGTCATTATCACTTGTTTC
196 AGAACGAGAAAAAAGATAAATAAAACGGCATAAATTCCACACTCTTTGTCATTATCACTTGTTTC
55098256 TGCAAATTTAAAATAAAGAAAAATAATCAACTCCCACACGAAGATGACACGAATCAAGCTGAAAA
261 TGCAAATTTAAAATAAAGAAAAATAATCAACTCCCACACGAAGATGACACGAATCAAGCTG---A
55098321 AAAAAATAGAATTTTCTTTTCTTTTTTAAAGGGCTTACCACGACGACAAGTGGAGCAGCATACAT
323 AAAAAATAGAATTTTCTTTTCTTTTTTAAAGGGCTTACCACGACGACAAGTGGAGCAGCATACAT
55098386 TGCCACTGAAGCCACCAGCCCAATAGTCCCAACAAAAACTTTCCGATGATGATGATCATGAAATA
388 TGCCACTGAAGCCACCAGCCCAATAGTCCCAACAAAAACTTTCCGATGATGATGATCATGAAATA
55098451 CAAAAGCCGATATAATTGCAGTTACGGTAAATATTACCATAACCATCGTCGTTGTGGTACCAGCT
453 CAAAAGCCGATATAATTGCAGTTACGGTAAATATTACCATAACCATCGTCGTTGTGGTACCAGCT
*
55098516 TTAATCTGCAAATTTTTTCACCAAGCTACCATCAATGGTGATCACATGATAATGAAAGAAGAAAA
518 TTAATCTGCAAATTTTTTCACCAAGCTACCATCAATGGAGATCACATGATAATGAAAGAAGAAAA
55098581 AGAAAAACAGGGTTTTATTAAGAAACTCGCCTTTCCTCTTGTTGGAGCAAACCAAAGATAGATGA
583 AGAAAAACAGGGTTTTATTAAGAAACTCGCCTTTCCTCTTGTTGGAGCAAACCAAAGATAGATGA
55098646 AGATGAAAGATAACTCTAAGATGATCCCTAAACCATTAATGGTGATGACAGGGAAATTTTCCCAC
648 AGATGAAAGATAACTCTAAGATGATCCCTAAACCATTAATGGTGATGACAGGGAAATTTTCCCAC
55098711 TTGTAGCTCACAACAGGCAATCCATACCATGTGTAAAGGAGACAATTCGATAGTGCAACGATGTA
713 TTGTAGCTCACAACAGGCAATCCATACCATGTGTAAAGGAGACAATTCGATAGTGCAACGATGTA
55098776 TGGGATGCATGAGAATTCTTCAGTGCTTCTTTTCCTTATTACCCTTGTAAAAGTCAAGCTGTACA
778 TGGGATGCATGAGAATTCTTCAGTGCTTCTTTTCCTTATTACCCTTGTAAAAGTCAAGCTGTACA
*
55098841 ACACATATATTTTTGTTTATCACGTATGTATGTATGAATGTATGTATGTGTATATATATGTATGC
843 ACACATATATATTTGTTTATCACGTATGTATGTATGAATGTATGTATGTGTATATATATGTATGC
55098906 ATGTATGTATGTGC
908 ATGTATGTATGTGC
55098920 AGGGATATAT
Statistics
Matches: 916, Mismatches: 5, Indels: 3
0.99 0.01 0.00
Matches are distributed among these distances:
921 318 0.35
924 598 0.65
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.29
Consensus pattern (921 bp):
TATAAGTGTAATTTATTTTTTAAAAATATGTTAATAAAAAAATTTATGAGATTTAAATTTAAAAC
TTTAAACATTCAAACTACTATTTTTTATTTTTATCAATCTCGATGCGCCATAATGTAATAAATAT
AATACGAACCGCTAGAAGGAGATCGTGACTCAGTAGTCCATAAGCCAACCAAAGAACACTAGCCA
AGAACGAGAAAAAAGATAAATAAAACGGCATAAATTCCACACTCTTTGTCATTATCACTTGTTTC
TGCAAATTTAAAATAAAGAAAAATAATCAACTCCCACACGAAGATGACACGAATCAAGCTGAAAA
AAATAGAATTTTCTTTTCTTTTTTAAAGGGCTTACCACGACGACAAGTGGAGCAGCATACATTGC
CACTGAAGCCACCAGCCCAATAGTCCCAACAAAAACTTTCCGATGATGATGATCATGAAATACAA
AAGCCGATATAATTGCAGTTACGGTAAATATTACCATAACCATCGTCGTTGTGGTACCAGCTTTA
ATCTGCAAATTTTTTCACCAAGCTACCATCAATGGAGATCACATGATAATGAAAGAAGAAAAAGA
AAAACAGGGTTTTATTAAGAAACTCGCCTTTCCTCTTGTTGGAGCAAACCAAAGATAGATGAAGA
TGAAAGATAACTCTAAGATGATCCCTAAACCATTAATGGTGATGACAGGGAAATTTTCCCACTTG
TAGCTCACAACAGGCAATCCATACCATGTGTAAAGGAGACAATTCGATAGTGCAACGATGTATGG
GATGCATGAGAATTCTTCAGTGCTTCTTTTCCTTATTACCCTTGTAAAAGTCAAGCTGTACAACA
CATATATATTTGTTTATCACGTATGTATGTATGAATGTATGTATGTGTATATATATGTATGCATG
TATGTATGTGC
Found at i:55098873 original size:4 final size:4
Alignment explanation
Indices: 55098864--55098917 Score: 63
Period size: 4 Copynumber: 13.5 Consensus size: 4
55098854 TGTTTATCAC
* * * * *
55098864 GTAT GTAT GTAT GAAT GTAT GTAT GTGT ATAT ATAT GTAT GCAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
55098912 GTAT GT
1 GTAT GT
55098918 GCAGGGATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.28, C:0.02, G:0.24, T:0.46
Consensus pattern (4 bp):
GTAT
Found at i:55098927 original size:28 final size:28
Alignment explanation
Indices: 55098869--55098927 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
55098859 ATCACGTATG
* * *
55098869 TATGTATGAATGTATGTATGTGTATATA
1 TATGTATGAATGTATGTATGTGCAGAGA
* *
55098897 TATGTATGCATGTATGTATGTGCAGGGA
1 TATGTATGAATGTATGTATGTGCAGAGA
55098925 TAT
1 TAT
55098928 ATTGACATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.03, G:0.25, T:0.42
Consensus pattern (28 bp):
TATGTATGAATGTATGTATGTGCAGAGA
Found at i:55099524 original size:813 final size:814
Alignment explanation
Indices: 55098231--55099860 Score: 3217
Period size: 813 Copynumber: 2.0 Consensus size: 814
55098221 TAAATTCCAC
55098231 ACTCTTTGTCATTATCACTTGTTTCTGCAAATTTAAAATAAAGAAAAATAATCAACTCCCACACG
1 ACTCTTTGTCATTATCACTTGTTTCTGCAAATTTAAAATAAAGAAAAATAATCAACTCCCACACG
55098296 AAGATGACACGAATCAAGCTGAAAAAAAAAATAGAATTTTCTTTTCTTTTTTAAAGGGCTTACCA
66 AAGATGACACGAATCAAGCTG--AAAAAAAATAGAATTTTCTTTTCTTTTTTAAAGGGCTTACCA
55098361 CGACGACAAGTGGAGCAGCATACATTGCCACTGAAGCCACCAGCCCAATAGTCCCAACAAAAACT
129 CGACGACAAGTGGAGCAGCATACATTGCCACTGAAGCCACCAGCCCAATAGTCCCAACAAAAACT
55098426 TTCCGATGATGATGATCATGAAATACAAAAGCCGATATAATTGCAGTTACGGTAAATATTACCAT
194 TTCCGATGATGATGATCATGAAATACAAAAGCCGATATAATTGCAGTTACGGTAAATATTACCAT
*
55098491 AACCATCGTCGTTGTGGTACCAGCTTTAATCTGCAAATTTTTTCACCAAGCTACCATCAATGGTG
259 AACCATCGTCGTTGTGGTACCAGCTTTAATCTGCAAATTTTTTCACCAAGCTACCATCAATGGAG
55098556 ATCACATGATAATGAAAGAAGAAAAAGAAAAACAGGGTTTTATTAAGAAACTCGCCTTTCCTCTT
324 ATCACATGATAATGAAAGAAGAAAAAGAAAAACAGGGTTTTATTAAGAAACTCGCCTTTCCTCTT
55098621 GTTGGAGCAAACCAAAGATAGATGAAGATGAAAGATAACTCTAAGATGATCCCTAAACCATTAAT
389 GTTGGAGCAAACCAAAGATAGATGAAGATGAAAGATAACTCTAAGATGATCCCTAAACCATTAAT
55098686 GGTGATGACAGGGAAATTTTCCCACTTGTAGCTCACAACAGGCAATCCATACCATGTGTAAAGGA
454 GGTGATGACAGGGAAATTTTCCCACTTGTAGCTCACAACAGGCAATCCATACCATGTGTAAAGGA
55098751 GACAATTCGATAGTGCAACGATGTATGGGATGCATGAGAATTCTTCAGTGCTTCTTTTCCTTATT
519 GACAATTCGATAGTGCAACGATGTATGGGATGCATGAGAATTCTTCAGTGCTTCTTTTCCTTATT
*
55098816 ACCCTTGTAAAAGTCAAGCTGTACAACACATATATTTTTGTTTATCACGTATGTATGTATGAATG
584 ACCCTTGTAAAAGTCAAGCTGTACAACACATATATATTTGTTTATCACGTATGTATGTATGAATG
55098881 TATGTATGTGTATATATATGTATGCATGTATGTATGTGCAGGGATATATTGACATTACATTGGTG
649 TATGTATGTGTATATATATGTATGCATGTATGTATGTGCAGGGATATATTGACATTACATTGGTG
55098946 CAGCATAAAGCAACAAAGAAGAAGCATTGCCTGCAAGAGAAAGATCGTGTAGGTATTATGCTTTT
714 CAGCATAAAGCAACAAAGAAGAAGCATTGCCTGCAAGAGAAAGATCGTGTAGGTATTATGCTTTT
55099011 TTGTATCAGCAAAAAACTAAATAAATATAAGTATAG
779 TTGTATCAGCAAAAAACTAAATAAATATAAGTATAG
55099047 ACTCTTTGTCATTATCACTTGTTTCTGCAAATTTAAAATAAAGAAAAATAATCAACTCCCACACG
1 ACTCTTTGTCATTATCACTTGTTTCTGCAAATTTAAAATAAAGAAAAATAATCAACTCCCACACG
55099112 AAGATGACACGAATCAAGCTG-AAAAAAATAGAATTTTCTTTTCTTTTTTAAAGGGCTTACCACG
66 AAGATGACACGAATCAAGCTGAAAAAAAATAGAATTTTCTTTTCTTTTTTAAAGGGCTTACCACG
55099176 ACGACAAGTGGAGCAGCATACATTGCCACTGAAGCCACCAGCCCAATAGTCCCAACAAAAACTTT
131 ACGACAAGTGGAGCAGCATACATTGCCACTGAAGCCACCAGCCCAATAGTCCCAACAAAAACTTT
55099241 CCGATGATGATGATCATGAAATACAAAAGCCGATATAATTGCAGTTACGGTAAATATTACCATAA
196 CCGATGATGATGATCATGAAATACAAAAGCCGATATAATTGCAGTTACGGTAAATATTACCATAA
55099306 CCATCGTCGTTGTGGTACCAGCTTTAATCTGCAAATTTTTTCACCAAGCTACCATCAATGGAGAT
261 CCATCGTCGTTGTGGTACCAGCTTTAATCTGCAAATTTTTTCACCAAGCTACCATCAATGGAGAT
55099371 CACATGATAATGAAAGAAGAAAAAGAAAAACAGGGTTTTATTAAGAAACTCGCCTTTCCTCTTGT
326 CACATGATAATGAAAGAAGAAAAAGAAAAACAGGGTTTTATTAAGAAACTCGCCTTTCCTCTTGT
55099436 TGGAGCAAACCAAAGATAGATGAAGATGAAAGATAACTCTAAGATGATCCCTAAACCATTAATGG
391 TGGAGCAAACCAAAGATAGATGAAGATGAAAGATAACTCTAAGATGATCCCTAAACCATTAATGG
55099501 TGATGACAGGGAAATTTTCCCACTTGTAGCTCACAACAGGCAATCCATACCATGTGTAAAGGAGA
456 TGATGACAGGGAAATTTTCCCACTTGTAGCTCACAACAGGCAATCCATACCATGTGTAAAGGAGA
55099566 CAATTCGATAGTGCAACGATGTATGGGATGCATGAGAATTCTTCAGTGCTTCTTTTCCTTATTAC
521 CAATTCGATAGTGCAACGATGTATGGGATGCATGAGAATTCTTCAGTGCTTCTTTTCCTTATTAC
55099631 CCTTGTAAAAGTCAAGCTGTACAACACATATATATTTGTTTATCACGTATGTATGTATGAATGTA
586 CCTTGTAAAAGTCAAGCTGTACAACACATATATATTTGTTTATCACGTATGTATGTATGAATGTA
55099696 TGTATGTGTATATATATGTATGCATGTATGTATGTGCAGGGATATATTGACATTACATTGGTGCA
651 TGTATGTGTATATATATGTATGCATGTATGTATGTGCAGGGATATATTGACATTACATTGGTGCA
55099761 GCATAAAGCAACAAAGAAGAAGCATTGCCTGCAAGAGAAAGATCGTGTAGGTATTATGCTTTTTT
716 GCATAAAGCAACAAAGAAGAAGCATTGCCTGCAAGAGAAAGATCGTGTAGGTATTATGCTTTTTT
55099826 GTATCAGCAAAAAACTAAATAAATATAAGTATAG
781 GTATCAGCAAAAAACTAAATAAATATAAGTATAG
55099860 A
1 A
55099861 GGAGATGAGA
Statistics
Matches: 812, Mismatches: 2, Indels: 3
0.99 0.00 0.00
Matches are distributed among these distances:
813 726 0.89
816 86 0.11
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (814 bp):
ACTCTTTGTCATTATCACTTGTTTCTGCAAATTTAAAATAAAGAAAAATAATCAACTCCCACACG
AAGATGACACGAATCAAGCTGAAAAAAAATAGAATTTTCTTTTCTTTTTTAAAGGGCTTACCACG
ACGACAAGTGGAGCAGCATACATTGCCACTGAAGCCACCAGCCCAATAGTCCCAACAAAAACTTT
CCGATGATGATGATCATGAAATACAAAAGCCGATATAATTGCAGTTACGGTAAATATTACCATAA
CCATCGTCGTTGTGGTACCAGCTTTAATCTGCAAATTTTTTCACCAAGCTACCATCAATGGAGAT
CACATGATAATGAAAGAAGAAAAAGAAAAACAGGGTTTTATTAAGAAACTCGCCTTTCCTCTTGT
TGGAGCAAACCAAAGATAGATGAAGATGAAAGATAACTCTAAGATGATCCCTAAACCATTAATGG
TGATGACAGGGAAATTTTCCCACTTGTAGCTCACAACAGGCAATCCATACCATGTGTAAAGGAGA
CAATTCGATAGTGCAACGATGTATGGGATGCATGAGAATTCTTCAGTGCTTCTTTTCCTTATTAC
CCTTGTAAAAGTCAAGCTGTACAACACATATATATTTGTTTATCACGTATGTATGTATGAATGTA
TGTATGTGTATATATATGTATGCATGTATGTATGTGCAGGGATATATTGACATTACATTGGTGCA
GCATAAAGCAACAAAGAAGAAGCATTGCCTGCAAGAGAAAGATCGTGTAGGTATTATGCTTTTTT
GTATCAGCAAAAAACTAAATAAATATAAGTATAG
Found at i:55099684 original size:4 final size:4
Alignment explanation
Indices: 55099677--55099730 Score: 63
Period size: 4 Copynumber: 13.5 Consensus size: 4
55099667 TGTTTATCAC
* * * * *
55099677 GTAT GTAT GTAT GAAT GTAT GTAT GTGT ATAT ATAT GTAT GCAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
55099725 GTAT GT
1 GTAT GT
55099731 GCAGGGATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.28, C:0.02, G:0.24, T:0.46
Consensus pattern (4 bp):
GTAT
Found at i:55099740 original size:28 final size:28
Alignment explanation
Indices: 55099682--55099740 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
55099672 ATCACGTATG
* * *
55099682 TATGTATGAATGTATGTATGTGTATATA
1 TATGTATGAATGTATGTATGTGCAGAGA
* *
55099710 TATGTATGCATGTATGTATGTGCAGGGA
1 TATGTATGAATGTATGTATGTGCAGAGA
55099738 TAT
1 TAT
55099741 ATTGACATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.03, G:0.25, T:0.42
Consensus pattern (28 bp):
TATGTATGAATGTATGTATGTGCAGAGA
Found at i:55100416 original size:4 final size:4
Alignment explanation
Indices: 55100409--55100462 Score: 63
Period size: 4 Copynumber: 13.5 Consensus size: 4
55100399 TGTTTATCAC
* * * * *
55100409 GTAT GTAT GTAT GAAT GTAT GTAT GTGT ATAT ATAT GTAT GCAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
55100457 GTAT GT
1 GTAT GT
55100463 GCAGGGATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.28, C:0.02, G:0.24, T:0.46
Consensus pattern (4 bp):
GTAT
Found at i:55100472 original size:28 final size:28
Alignment explanation
Indices: 55100414--55100472 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
55100404 ATCACGTATG
* * *
55100414 TATGTATGAATGTATGTATGTGTATATA
1 TATGTATGAATGTATGTATGTGCAGAGA
* *
55100442 TATGTATGCATGTATGTATGTGCAGGGA
1 TATGTATGAATGTATGTATGTGCAGAGA
55100470 TAT
1 TAT
55100473 ATTGACATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.03, G:0.25, T:0.42
Consensus pattern (28 bp):
TATGTATGAATGTATGTATGTGCAGAGA
Found at i:55100662 original size:732 final size:732
Alignment explanation
Indices: 55099259--55100725 Score: 2934
Period size: 732 Copynumber: 2.0 Consensus size: 732
55099249 GATGATCATG
55099259 AAATACAAAAGCCGATATAATTGCAGTTACGGTAAATATTACCATAACCATCGTCGTTGTGGTAC
1 AAATACAAAAGCCGATATAATTGCAGTTACGGTAAATATTACCATAACCATCGTCGTTGTGGTAC
55099324 CAGCTTTAATCTGCAAATTTTTTCACCAAGCTACCATCAATGGAGATCACATGATAATGAAAGAA
66 CAGCTTTAATCTGCAAATTTTTTCACCAAGCTACCATCAATGGAGATCACATGATAATGAAAGAA
55099389 GAAAAAGAAAAACAGGGTTTTATTAAGAAACTCGCCTTTCCTCTTGTTGGAGCAAACCAAAGATA
131 GAAAAAGAAAAACAGGGTTTTATTAAGAAACTCGCCTTTCCTCTTGTTGGAGCAAACCAAAGATA
55099454 GATGAAGATGAAAGATAACTCTAAGATGATCCCTAAACCATTAATGGTGATGACAGGGAAATTTT
196 GATGAAGATGAAAGATAACTCTAAGATGATCCCTAAACCATTAATGGTGATGACAGGGAAATTTT
55099519 CCCACTTGTAGCTCACAACAGGCAATCCATACCATGTGTAAAGGAGACAATTCGATAGTGCAACG
261 CCCACTTGTAGCTCACAACAGGCAATCCATACCATGTGTAAAGGAGACAATTCGATAGTGCAACG
55099584 ATGTATGGGATGCATGAGAATTCTTCAGTGCTTCTTTTCCTTATTACCCTTGTAAAAGTCAAGCT
326 ATGTATGGGATGCATGAGAATTCTTCAGTGCTTCTTTTCCTTATTACCCTTGTAAAAGTCAAGCT
55099649 GTACAACACATATATATTTGTTTATCACGTATGTATGTATGAATGTATGTATGTGTATATATATG
391 GTACAACACATATATATTTGTTTATCACGTATGTATGTATGAATGTATGTATGTGTATATATATG
55099714 TATGCATGTATGTATGTGCAGGGATATATTGACATTACATTGGTGCAGCATAAAGCAACAAAGAA
456 TATGCATGTATGTATGTGCAGGGATATATTGACATTACATTGGTGCAGCATAAAGCAACAAAGAA
55099779 GAAGCATTGCCTGCAAGAGAAAGATCGTGTAGGTATTATGCTTTTTTGTATCAGCAAAAAACTAA
521 GAAGCATTGCCTGCAAGAGAAAGATCGTGTAGGTATTATGCTTTTTTGTATCAGCAAAAAACTAA
55099844 ATAAATATAAGTATAGAGGAGATGAGAGAATTAATACCCATGATACCAACTGCTAGGCGTAGCCT
586 ATAAATATAAGTATAGAGGAGATGAGAGAATTAATACCCATGATACCAACTGCTAGGCGTAGCCT
55099909 ATCACCCATGATTTTGGACCTAAAAAGAAACAAAAAATGGTCCCTAAGATATGGAGAAATAAAAT
651 ATCACCCATGATTTTGGACCTAAAAAGAAACAAAAAATGGTCCCTAAGATATGGAGAAATAAAAT
55099974 GGTCCAAAAGGTGTGAA
716 GGTCCAAAAGGTGTGAA
55099991 AAATACAAAAGCCGATATAATTGCAGTTACGGTAAATATTACCATAACCATCGTCGTTGTGGTAC
1 AAATACAAAAGCCGATATAATTGCAGTTACGGTAAATATTACCATAACCATCGTCGTTGTGGTAC
55100056 CAGCTTTAATCTGCAAATTTTTTCACCAAGCTACCATCAATGGAGATCACATGATAATGAAAGAA
66 CAGCTTTAATCTGCAAATTTTTTCACCAAGCTACCATCAATGGAGATCACATGATAATGAAAGAA
55100121 GAAAAAGAAAAACAGGGTTTTATTAAGAAACTCGCCTTTCCTCTTGTTGGAGCAAACCAAAGATA
131 GAAAAAGAAAAACAGGGTTTTATTAAGAAACTCGCCTTTCCTCTTGTTGGAGCAAACCAAAGATA
55100186 GATGAAGATGAAAGATAACTCTAAGATGATCCCTAAACCATTAATGGTGATGACAGGGAAATTTT
196 GATGAAGATGAAAGATAACTCTAAGATGATCCCTAAACCATTAATGGTGATGACAGGGAAATTTT
55100251 CCCACTTGTAGCTCACAACAGGCAATCCATACCATGTGTAAAGGAGACAATTCGATAGTGCAACG
261 CCCACTTGTAGCTCACAACAGGCAATCCATACCATGTGTAAAGGAGACAATTCGATAGTGCAACG
55100316 ATGTATGGGATGCATGAGAATTCTTCAGTGCTTCTTTTCCTTATTACCCTTGTAAAAGTCAAGCT
326 ATGTATGGGATGCATGAGAATTCTTCAGTGCTTCTTTTCCTTATTACCCTTGTAAAAGTCAAGCT
55100381 GTACAACACATATATATTTGTTTATCACGTATGTATGTATGAATGTATGTATGTGTATATATATG
391 GTACAACACATATATATTTGTTTATCACGTATGTATGTATGAATGTATGTATGTGTATATATATG
55100446 TATGCATGTATGTATGTGCAGGGATATATTGACATTACATTGGTGCAGCATAAAGCAACAAAGAA
456 TATGCATGTATGTATGTGCAGGGATATATTGACATTACATTGGTGCAGCATAAAGCAACAAAGAA
55100511 GAAGCATTGCCTGCAAGAGAAAGATCGTGTAGGTATTATGCTTTTTTGTATCAGCAAAAAACTAA
521 GAAGCATTGCCTGCAAGAGAAAGATCGTGTAGGTATTATGCTTTTTTGTATCAGCAAAAAACTAA
55100576 ATAAATATAAGTATAGAGGAGATGAGAGAATTAATACCCATGATACCAACTGCTAGGCGTAGCCT
586 ATAAATATAAGTATAGAGGAGATGAGAGAATTAATACCCATGATACCAACTGCTAGGCGTAGCCT
55100641 ATCACCCATGATTTTGGACCTAAAAAGAAACAAAAAATGGTCCCTAAGATATGGAGAAATAAAAT
651 ATCACCCATGATTTTGGACCTAAAAAGAAACAAAAAATGGTCCCTAAGATATGGAGAAATAAAAT
55100706 GGTCCAAAAGGTGTGAA
716 GGTCCAAAAGGTGTGAA
55100723 AAA
1 AAA
55100726 CTTCATAAAA
Statistics
Matches: 735, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
732 735 1.00
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (732 bp):
AAATACAAAAGCCGATATAATTGCAGTTACGGTAAATATTACCATAACCATCGTCGTTGTGGTAC
CAGCTTTAATCTGCAAATTTTTTCACCAAGCTACCATCAATGGAGATCACATGATAATGAAAGAA
GAAAAAGAAAAACAGGGTTTTATTAAGAAACTCGCCTTTCCTCTTGTTGGAGCAAACCAAAGATA
GATGAAGATGAAAGATAACTCTAAGATGATCCCTAAACCATTAATGGTGATGACAGGGAAATTTT
CCCACTTGTAGCTCACAACAGGCAATCCATACCATGTGTAAAGGAGACAATTCGATAGTGCAACG
ATGTATGGGATGCATGAGAATTCTTCAGTGCTTCTTTTCCTTATTACCCTTGTAAAAGTCAAGCT
GTACAACACATATATATTTGTTTATCACGTATGTATGTATGAATGTATGTATGTGTATATATATG
TATGCATGTATGTATGTGCAGGGATATATTGACATTACATTGGTGCAGCATAAAGCAACAAAGAA
GAAGCATTGCCTGCAAGAGAAAGATCGTGTAGGTATTATGCTTTTTTGTATCAGCAAAAAACTAA
ATAAATATAAGTATAGAGGAGATGAGAGAATTAATACCCATGATACCAACTGCTAGGCGTAGCCT
ATCACCCATGATTTTGGACCTAAAAAGAAACAAAAAATGGTCCCTAAGATATGGAGAAATAAAAT
GGTCCAAAAGGTGTGAA
Found at i:55110659 original size:31 final size:32
Alignment explanation
Indices: 55110609--55110669 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
55110599 TTTTTAAATT
*
55110609 TAGAAAATATTAGTTTACTTTTTGATCTAATG
1 TAGAAAATATTAATTTACTTTTTGATCTAATG
*
55110641 TAGAAAA-ATTAATTTACTTTTTGGTCTAA
1 TAGAAAATATTAATTTACTTTTTGATCTAA
55110670 CATAGGATTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 20 0.74
32 7 0.26
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.46
Consensus pattern (32 bp):
TAGAAAATATTAATTTACTTTTTGATCTAATG
Found at i:55113440 original size:13 final size:13
Alignment explanation
Indices: 55113422--55113448 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
55113412 TTTCGGTTTA
55113422 ATTTAAACAATAT
1 ATTTAAACAATAT
55113435 ATTTAAACAATAT
1 ATTTAAACAATAT
55113448 A
1 A
55113449 GTTGTTTTTA
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:0.00, T:0.37
Consensus pattern (13 bp):
ATTTAAACAATAT
Found at i:55113699 original size:97 final size:97
Alignment explanation
Indices: 55113533--55113768 Score: 472
Period size: 97 Copynumber: 2.4 Consensus size: 97
55113523 TTAAATTATG
55113533 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATGTCCAAATTTAAGATTAAATCTG
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATGTCCAAATTTAAGATTAAATCTG
55113598 CATATTTTAATTAAAATATAATTCGGTACTTA
66 CATATTTTAATTAAAATATAATTCGGTACTTA
55113630 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATGTCCAAATTTAAGATTAAATCTG
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATGTCCAAATTTAAGATTAAATCTG
55113695 CATATTTTAATTAAAATATAATTCGGTACTTA
66 CATATTTTAATTAAAATATAATTCGGTACTTA
55113727 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAAT
1 TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAAT
55113769 TGTTATTAAA
Statistics
Matches: 139, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
97 139 1.00
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (97 bp):
TATAAACAATCAATCAAGTTCCAATTTCGATGCTTATATAATGTCCAAATTTAAGATTAAATCTG
CATATTTTAATTAAAATATAATTCGGTACTTA
Found at i:55113841 original size:23 final size:23
Alignment explanation
Indices: 55113806--55113850 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
55113796 CCTTATTTAA
**
55113806 TTCAAATTGATTAT-AATATTATT
1 TTCAAATAAATTATCAA-ATTATT
55113829 TTCAAATAAATTATCAAATTAT
1 TTCAAATAAATTATCAAATTAT
55113851 AAAATGACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (23 bp):
TTCAAATAAATTATCAAATTATT
Found at i:55115875 original size:23 final size:23
Alignment explanation
Indices: 55115840--55115884 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
55115830 TCTTATTTAA
**
55115840 TTCAAATTGATTAT-AATATTATT
1 TTCAAATAAATTATCAA-ATTATT
55115863 TTCAAATAAATTATCAAATTAT
1 TTCAAATAAATTATCAAATTAT
55115885 AAAATGACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (23 bp):
TTCAAATAAATTATCAAATTATT
Found at i:55119578 original size:17 final size:17
Alignment explanation
Indices: 55119553--55119586 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
55119543 ATTATTTTAA
*
55119553 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
55119570 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
55119587 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:55119588 original size:15 final size:16
Alignment explanation
Indices: 55119553--55119591 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
55119543 ATTATTTTAA
*
55119553 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
55119570 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
55119585 ATTTAAT
1 ATTTAAT
55119592 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:55119595 original size:17 final size:18
Alignment explanation
Indices: 55119557--55119596 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
55119547 TTTTAAATTT
*
55119557 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
55119575 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
55119591 TATTAA
1 TATTAA
55119597 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:55119722 original size:120 final size:120
Alignment explanation
Indices: 55119552--55119840 Score: 465
Period size: 120 Copynumber: 2.4 Consensus size: 120
55119542 AATTATTTTA
* * * * *
55119552 AATTTTATTAAATCATATA-TTTAATTAAATCATATTTAATATTAATTATTTGAAATTTTCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAATTATATTTAATAATAATTATTTGAAATTATATTTT
* *
55119616 ATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAG
* *
55119671 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATTTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAATTATATTTAATAATAATTATTTGAAATTATATTTT
*
55119736 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAG
55119791 AATTTTATTAAATTATATATTTTAATTATAA-TATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTA-AATTATATTTAATAATAATTAT
55119841 GTTTAAATAT
Statistics
Matches: 157, Mismatches: 11, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
119 18 0.11
120 137 0.87
121 2 0.01
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAATTATATTTAATAATAATTATTTGAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATAGAAGAATATTAATTATTAAG
Found at i:55119808 original size:59 final size:59
Alignment explanation
Indices: 55119625--55119808 Score: 166
Period size: 59 Copynumber: 3.1 Consensus size: 59
55119615 TATAGTATCA
* * *
55119625 TATATTATGATTTGAGTAAATTCATAGAAGAATTTTATTTATTAAGAATTTTATTAAAT
1 TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
* * * * *
55119684 TATA-TAT--TTTTATTAAATT-ATATTTAATAATAATT-ATT-TTAAATTATATTTTA-TAGTA
1 TATATTATGATTTGAGTAAATTCATA--TAAGAAT-ATTAATTATT-AA-GA-ATTTTATTA-AA
55119742 T
59 T
55119743 CATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
55119804 TATAT
1 TATAT
55119809 ATTTTAATTA
Statistics
Matches: 96, Mismatches: 13, Indels: 32
0.68 0.09 0.23
Matches are distributed among these distances:
55 3 0.03
56 12 0.12
57 9 0.09
58 8 0.08
59 17 0.18
61 12 0.12
62 9 0.09
63 11 0.11
64 12 0.12
65 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.07, T:0.50
Consensus pattern (59 bp):
TATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:55119826 original size:16 final size:16
Alignment explanation
Indices: 55119805--55119846 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
55119795 TTATTAAATT
*
55119805 ATATATTTTAATTATA
1 ATATATTTTAATAATA
55119821 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
55119836 AT-TATGTTTAA
1 ATATAT-TTTAA
55119847 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:55119831 original size:15 final size:15
Alignment explanation
Indices: 55119796--55119837 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
55119786 TTAAGAATTT
*
55119796 TATTAAATTAT-ATA
1 TATTTAATTATAATA
55119810 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
55119824 TATTTAATAATAAT
1 TATTTAATTATAAT
55119838 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:55119977 original size:18 final size:17
Alignment explanation
Indices: 55119949--55119983 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
55119939 ATTATTAAGA
*
55119949 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
55119966 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
55119984 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:55120087 original size:157 final size:157
Alignment explanation
Indices: 55119780--55120096 Score: 589
Period size: 157 Copynumber: 2.0 Consensus size: 157
55119770 ATAAGAATAT
*
55119780 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
55119845 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
55119910 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
55119937 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
55120002 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
55120067 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
55120094 TAA
1 TAA
55120097 GGGTATTCTA
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:55120240 original size:16 final size:16
Alignment explanation
Indices: 55120219--55120254 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
55120209 GATTTACTAT
55120219 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
55120235 TACACCTCTTATCCAA
1 TACACCTCTAATCCAA
55120251 TACA
1 TACA
55120255 GCGAACCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:55122740 original size:25 final size:25
Alignment explanation
Indices: 55122712--55122788 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
55122702 ACCTTAGCGC
55122712 GCTCTCTGATTATTAGCACATCAGT
1 GCTCTCTGATTATTAGCACATCAGT
* * * *
55122737 GCTCTTTGATTATTAGTACGTTAGT
1 GCTCTCTGATTATTAGCACATCAGT
* *
55122762 GCTCTCCG---ATTAGCACATCTGT
1 GCTCTCTGATTATTAGCACATCAGT
55122784 GCTCT
1 GCTCT
55122789 TTGTATAGCA
Statistics
Matches: 42, Mismatches: 10, Indels: 3
0.76 0.18 0.05
Matches are distributed among these distances:
22 15 0.36
25 27 0.64
ACGTcount: A:0.19, C:0.23, G:0.18, T:0.39
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACATCAGT
Found at i:55122821 original size:47 final size:49
Alignment explanation
Indices: 55122712--55122821 Score: 108
Period size: 47 Copynumber: 2.3 Consensus size: 49
55122702 ACCTTAGCGC
*
55122712 GCTCTCTGATT-ATTAGCACATCAGTGCTCTTTGATTATTAGTACGTTAGT
1 GCTCTCT-ATTCATTAGCACATCAGTGCTCTTTGA-TATTAGCACGTTAGT
* * *
55122762 GCTCTC----CGATTAGCACATCTGTGCTCTTTG-TA-TAGCACTTTGGT
1 GCTCTCTATTC-ATTAGCACATCAGTGCTCTTTGATATTAGCACGTTAGT
55122806 GCTCTCTATTCATTAG
1 GCTCTCTATTCATTAG
55122822 TGCATAATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
44 15 0.30
45 2 0.04
47 26 0.52
48 1 0.02
50 6 0.12
ACGTcount: A:0.19, C:0.22, G:0.18, T:0.41
Consensus pattern (49 bp):
GCTCTCTATTCATTAGCACATCAGTGCTCTTTGATATTAGCACGTTAGT
Found at i:55129934 original size:6 final size:6
Alignment explanation
Indices: 55129923--55129970 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
55129913 ACAATTTTAA
55129923 ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC
1 ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC ACTCAC
55129971 TATACACTGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.33, C:0.50, G:0.00, T:0.17
Consensus pattern (6 bp):
ACTCAC
Found at i:55133988 original size:23 final size:22
Alignment explanation
Indices: 55133921--55133994 Score: 100
Period size: 21 Copynumber: 3.5 Consensus size: 22
55133911 CCTGATCAGT
* *
55133921 ATACGACACA-TAAGTGCCTGA
1 ATACGACACACGAGGTGCCTGA
55133942 A-ACGACACACGAGGTGCCTG-
1 ATACGACACACGAGGTGCCTGA
55133962 ATACGACACACGAGGTGCCTGA
1 ATACGACACACGAGGTGCCTGA
55133984 TATACGACACA
1 -ATACGACACA
55133995 TAAAGTGCCT
Statistics
Matches: 47, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
20 9 0.19
21 28 0.60
23 10 0.21
ACGTcount: A:0.35, C:0.27, G:0.23, T:0.15
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTGA
Found at i:55134002 original size:23 final size:23
Alignment explanation
Indices: 55133920--55134007 Score: 96
Period size: 21 Copynumber: 4.0 Consensus size: 23
55133910 ACCTGATCAG
*
55133920 TATACGACACA-TAAGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
*
55133942 -A-ACGACACACGAGGTGCCTG-
1 TATACGACACACGAAGTGCCTGA
*
55133962 -ATACGACACACGAGGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
**
55133984 TATACGACACATAAAGTGCCTGA
1 TATACGACACACGAAGTGCCTGA
55134007 T
1 T
55134008 CGGCAAAGCC
Statistics
Matches: 57, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.16
21 28 0.49
23 20 0.35
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.18
Consensus pattern (23 bp):
TATACGACACACGAAGTGCCTGA
Found at i:55134003 original size:44 final size:41
Alignment explanation
Indices: 55133921--55134007 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 41
55133911 CCTGATCAGT
* * *
55133921 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACAGAAGTGCCTGAAACGACACACAAAGTGCCTG
* *
55133962 ATACGACACACGAGGTGCCTGATATACGACACATAAAGTGCCTG
1 ATACGACACA-GAAGTGCCTGA-A-ACGACACACAAAGTGCCTG
55134006 AT
1 AT
55134008 CGGCAAAGCC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 10 0.26
42 9 0.24
43 1 0.03
44 18 0.47
ACGTcount: A:0.34, C:0.25, G:0.23, T:0.17
Consensus pattern (41 bp):
ATACGACACAGAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:55135178 original size:3 final size:3
Alignment explanation
Indices: 55135170--55135195 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
55135160 TATTCCTAGT
55135170 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
55135196 TATTTTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:55135344 original size:17 final size:17
Alignment explanation
Indices: 55135322--55135373 Score: 74
Period size: 17 Copynumber: 3.2 Consensus size: 17
55135312 TATTTAAAAT
55135322 ATAATAATAATAA-TT-
1 ATAATAATAATAATTTA
*
55135337 -TAATAATACTAATTTA
1 ATAATAATAATAATTTA
55135353 ATAATAATAATAATTTA
1 ATAATAATAATAATTTA
55135370 ATAA
1 ATAA
55135374 CATTTTTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 11 0.34
15 2 0.06
17 19 0.59
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
ATAATAATAATAATTTA
Found at i:55135373 original size:14 final size:14
Alignment explanation
Indices: 55135323--55135363 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
55135313 ATTTAAAATA
55135323 TAATAATAATAATT
1 TAATAATAATAATT
*
55135337 TAATAATACTAATT
1 TAATAATAATAATT
55135351 TAATAATAATAAT
1 TAATAATAATAAT
55135364 AATTTAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATAATAATAATT
Found at i:55137593 original size:51 final size:51
Alignment explanation
Indices: 55137515--55137696 Score: 310
Period size: 51 Copynumber: 3.6 Consensus size: 51
55137505 CGGATCACAT
* *
55137515 TTATCACTTGTCACTTGTCCCTAATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
55137566 TTATCACTTGTTACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
55137617 TTATCACTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACTAC
1 TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
55137668 TTATCACTTGTCACTTGTCACTGATCAGA
1 TTATCACTTGTCACTTGTCACTGATCAGA
55137697 AATACTCAAA
Statistics
Matches: 122, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 122 1.00
ACGTcount: A:0.29, C:0.23, G:0.14, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:55138598 original size:399 final size:398
Alignment explanation
Indices: 55137860--55138657 Score: 1544
Period size: 399 Copynumber: 2.0 Consensus size: 398
55137850 CTATTTCATT
55137860 ACCTTTGCACACTCGTTTCCTATGCACATCACACAAGATATAAATATATCATTCAACCATAGTCG
1 ACCTTTGCACACTCGTTTCCTATGCACATCACACAAGATATAAATATATCATTCAACCATAGTCG
55137925 CAACCTAGTGTATTTAAACATAACTCTTTTTTTGAACTAACTACATGATAAATCATTTCACTAGA
66 CAACCTAGTGTATTTAAACATAACTCTTTTTTTGAACTAACTACATGATAAATCATTTCACTAGA
55137990 GATTACATAATTTAAACCTTACCACCCTTTTCATGATCACAAGCATAATTTCAATTAGGCACTTA
131 GATTACATAATTTAAACCTTACCACCCTTTTCATGATCACAAGCATAATTTCAATTAGGCACTTA
*
55138055 CCATTTCAATGGATAACTTATAAATTTAACGTGGCATAATCTAGCCACTACTTGGCCAAAGCCTA
196 CCATTTCAATGCATAACTTATAAATTTAACGTGGCATAATCTAGCCACTACTTGGCCAAAGCCTA
*
55138120 AGCATGTACACCAAATATGTTAGCCAAATACACATATAGCATAAGCATTATAAGCCTAATTGAGC
261 AGCATGTACACCAAATATGTTAGCCAAATACACATATAGCATAAGCATTATAAGCATAATTGAGC
55138185 ACAACATTTATTCATGTATCACGCTTACCAACATGTGTTAATTCATAAACCATTCATGACATCAT
326 ACAACATTTATTCATGTATCACGCTTACCAACATGTGTTAATTCATAAACCATTCATGACATCAT
55138250 TTCATGCG
391 TTCATGCG
55138258 NACCTTTGCACACTCGTTTCCTATGCACATCACACAAGATATAAATATATCATTCAACCATAGTC
1 -ACCTTTGCACACTCGTTTCCTATGCACATCACACAAGATATAAATATATCATTCAACCATAGTC
*
55138323 GCAAGCTAGTGTATTTAAACATAACTCTTTTTTTGAACTAACTACATGATAAATCATTTCACTAG
65 GCAACCTAGTGTATTTAAACATAACTCTTTTTTTGAACTAACTACATGATAAATCATTTCACTAG
55138388 AGATTACATAATTTAAACCTTACCACCCTTTTCATGATCACAAGCATAATTTCAATTAGGCACTT
130 AGATTACATAATTTAAACCTTACCACCCTTTTCATGATCACAAGCATAATTTCAATTAGGCACTT
55138453 ACCATTTCAATGCATAACTTATAAATTTAACGTGGCATAATCTAGCCACTACTTGGCCAAAGCCT
195 ACCATTTCAATGCATAACTTATAAATTTAACGTGGCATAATCTAGCCACTACTTGGCCAAAGCCT
55138518 AAGCATGTACACCAAATATGTTAGCCAAATACACATATAGCATAAGCATTATAAGCATAGA-TGA
260 AAGCATGTACACCAAATATGTTAGCCAAATACACATATAGCATAAGCATTATAAGCATA-ATTGA
55138582 GCACAACATTTATTCATGTATCACGCTTACCAACATGTGTTAATTCATAAACCATTCATGACATC
324 GCACAACATTTATTCATGTATCACGCTTACCAACATGTGTTAATTCATAAACCATTCATGACATC
55138647 ATTTCATGCG
389 ATTTCATGCG
55138657 A
1 A
55138658 AATCATATAC
Statistics
Matches: 395, Mismatches: 3, Indels: 3
0.99 0.01 0.01
Matches are distributed among these distances:
398 1 0.00
399 393 0.99
400 1 0.00
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.31
Consensus pattern (398 bp):
ACCTTTGCACACTCGTTTCCTATGCACATCACACAAGATATAAATATATCATTCAACCATAGTCG
CAACCTAGTGTATTTAAACATAACTCTTTTTTTGAACTAACTACATGATAAATCATTTCACTAGA
GATTACATAATTTAAACCTTACCACCCTTTTCATGATCACAAGCATAATTTCAATTAGGCACTTA
CCATTTCAATGCATAACTTATAAATTTAACGTGGCATAATCTAGCCACTACTTGGCCAAAGCCTA
AGCATGTACACCAAATATGTTAGCCAAATACACATATAGCATAAGCATTATAAGCATAATTGAGC
ACAACATTTATTCATGTATCACGCTTACCAACATGTGTTAATTCATAAACCATTCATGACATCAT
TTCATGCG
Found at i:55139135 original size:145 final size:145
Alignment explanation
Indices: 55138966--55139256 Score: 582
Period size: 145 Copynumber: 2.0 Consensus size: 145
55138956 TATTTTTATC
55138966 CGGAGCTACAGAGCTCCAAATTAAGATCCGTTAATTTTCCCTGAAACTACACTCAAATATCTTCT
1 CGGAGCTACAGAGCTCCAAATTAAGATCCGTTAATTTTCCCTGAAACTACACTCAAATATCTTCT
55139031 TATCATAAAATTTTCAGAATTTTTAGTTCATCCAAATAGTACAGTTTATTCTTTAAAGTTTCCCC
66 TATCATAAAATTTTCAGAATTTTTAGTTCATCCAAATAGTACAGTTTATTCTTTAAAGTTTCCCC
55139096 TATTTCGCTGTCTGG
131 TATTTCGCTGTCTGG
55139111 CGGAGCTACAGAGCTCCAAATTAAGATCCGTTAATTTTCCCTGAAACTACACTCAAATATCTTCT
1 CGGAGCTACAGAGCTCCAAATTAAGATCCGTTAATTTTCCCTGAAACTACACTCAAATATCTTCT
55139176 TATCATAAAATTTTCAGAATTTTTAGTTCATCCAAATAGTACAGTTTATTCTTTAAAGTTTCCCC
66 TATCATAAAATTTTCAGAATTTTTAGTTCATCCAAATAGTACAGTTTATTCTTTAAAGTTTCCCC
55139241 TATTTCGCTGTCTGG
131 TATTTCGCTGTCTGG
55139256 C
1 C
55139257 AGTTCTGACC
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 146 1.00
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.37
Consensus pattern (145 bp):
CGGAGCTACAGAGCTCCAAATTAAGATCCGTTAATTTTCCCTGAAACTACACTCAAATATCTTCT
TATCATAAAATTTTCAGAATTTTTAGTTCATCCAAATAGTACAGTTTATTCTTTAAAGTTTCCCC
TATTTCGCTGTCTGG
Found at i:55149089 original size:18 final size:18
Alignment explanation
Indices: 55149068--55149102 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
55149058 ATTATTTTAT
55149068 TTTTCTTTTTAAAAATTA
1 TTTTCTTTTTAAAAATTA
*
55149086 TTTTCTTTTTTAAAATT
1 TTTTCTTTTTAAAAATT
55149103 TAATGAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTCTTTTTAAAAATTA
Found at i:55149096 original size:25 final size:25
Alignment explanation
Indices: 55149049--55149095 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
55149039 TTTCAATAAA
55149049 TTTTAAAATATTATTTTATTTTTCT
1 TTTTAAAATATTATTTTATTTTTCT
*
55149074 TTTTAAAA-ATTATTTTCTTTTT
1 TTTTAAAATATTATTTTATTTTT
55149096 TAAAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (25 bp):
TTTTAAAATATTATTTTATTTTTCT
Found at i:55153009 original size:24 final size:23
Alignment explanation
Indices: 55152960--55153014 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
55152950 GTTAAGTCTG
**
55152960 AAAAAAATGCCAAACTAACAAAC
1 AAAAAAAAACCAAACTAACAAAC
*
55152983 AAACAAAAAACCAAACT-ACAATGC
1 AAA-AAAAAACCAAACTAACAA-AC
55153007 AAAAAAAA
1 AAAAAAAA
55153015 GTGACGGCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 12 0.44
24 15 0.56
ACGTcount: A:0.69, C:0.20, G:0.04, T:0.07
Consensus pattern (23 bp):
AAAAAAAAACCAAACTAACAAAC
Found at i:55164817 original size:320 final size:320
Alignment explanation
Indices: 55164235--55164877 Score: 1277
Period size: 320 Copynumber: 2.0 Consensus size: 320
55164225 TAGCCTGCAA
55164235 TTACCATATCCATTAAGCTTAAACCTTATACATCAGTTTCTCAATTTGCTATAAACTTTCACATC
1 TTACCATATCCATTAAGCTTAAACCTTATACATCAGTTTCTCAATTTGCTATAAACTTTCACATC
55164300 TGGAACTGCTGAAGAGTTGCAGAAATACAAGTTAAAGGCACAAGGCACACTCTAATTTTATATTG
66 TGGAACTGCTGAAGAGTTGCAGAAATACAAGTTAAAGGCACAAGGCACACTCTAATTTTATATTG
*
55164365 CTTGAGGTGTAAGGCGCAAACAGAAAACCCGCGTGGGTGAAGGTACAATATGCATGTGCAGTAAA
131 CTTGAGGTGTAAGGCACAAACAGAAAACCCGCGTGGGTGAAGGTACAATATGCATGTGCAGTAAA
55164430 GCTTAAGGTATAAATTATGATAATGAACTTTAAAGAGTAGTCTAGTTTATTAACAAAATATCCAA
196 GCTTAAGGTATAAATTATGATAATGAACTTTAAAGAGTAGTCTAGTTTATTAACAAAATATCCAA
55164495 AATTTTAATTTTCTTTTGTTAACAATGTGCACGACTTCCTTACTGACACATGTCTATTGT
261 AATTTTAATTTTCTTTTGTTAACAATGTGCACGACTTCCTTACTGACACATGTCTATTGT
55164555 TTACCATATCCATTAAGCTTAAACCTTATACATCAGTTTCTCAATTTGCTATAAACTTTCACATC
1 TTACCATATCCATTAAGCTTAAACCTTATACATCAGTTTCTCAATTTGCTATAAACTTTCACATC
55164620 TGGAACTGCTGAAGAGTTGCAGAAATACAAGTTAAAGGCACAAGGCACACTCTAATTTTATATTG
66 TGGAACTGCTGAAGAGTTGCAGAAATACAAGTTAAAGGCACAAGGCACACTCTAATTTTATATTG
55164685 CTTGAGGTGTAAGGCACAAACAGAAAACCCGCGTGGGTGAAGGTACAATATGCATGTGCAGTAAA
131 CTTGAGGTGTAAGGCACAAACAGAAAACCCGCGTGGGTGAAGGTACAATATGCATGTGCAGTAAA
55164750 GCTTAAGGTATAAATTATGATAATGAACTTTAAAGAGTAGTCTAGTTTATTAACAAAATATCCAA
196 GCTTAAGGTATAAATTATGATAATGAACTTTAAAGAGTAGTCTAGTTTATTAACAAAATATCCAA
55164815 AATTTTAATTTTCTTTTGTTAACAATGTGCACGACTTCCTTACTGACACATGTCTATTGT
261 AATTTTAATTTTCTTTTGTTAACAATGTGCACGACTTCCTTACTGACACATGTCTATTGT
55164875 TTA
1 TTA
55164878 ATACTCAAAT
Statistics
Matches: 322, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
320 322 1.00
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (320 bp):
TTACCATATCCATTAAGCTTAAACCTTATACATCAGTTTCTCAATTTGCTATAAACTTTCACATC
TGGAACTGCTGAAGAGTTGCAGAAATACAAGTTAAAGGCACAAGGCACACTCTAATTTTATATTG
CTTGAGGTGTAAGGCACAAACAGAAAACCCGCGTGGGTGAAGGTACAATATGCATGTGCAGTAAA
GCTTAAGGTATAAATTATGATAATGAACTTTAAAGAGTAGTCTAGTTTATTAACAAAATATCCAA
AATTTTAATTTTCTTTTGTTAACAATGTGCACGACTTCCTTACTGACACATGTCTATTGT
Found at i:55174736 original size:13 final size:13
Alignment explanation
Indices: 55174718--55174745 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
55174708 ATAATAAATA
55174718 TATTTTTTATTTT
1 TATTTTTTATTTT
55174731 TATTTTTTATTTT
1 TATTTTTTATTTT
55174744 TA
1 TA
55174746 AAATATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:55177429 original size:56 final size:56
Alignment explanation
Indices: 55177335--55177446 Score: 179
Period size: 56 Copynumber: 2.0 Consensus size: 56
55177325 AAATAATGTT
*
55177335 GTAATTATTGACTTCATTGATAATTATCCTTTGAGCCACAAGGTCTTACTCTTTCC
1 GTAATTATTGACTTCATTGATAATTATCCCTTGAGCCACAAGGTCTTACTCTTTCC
* * * *
55177391 GTAATTATTGACTTCATTGATAGTTATCCCTTGGGCCACAGGGTCTTAGTCTTTCC
1 GTAATTATTGACTTCATTGATAATTATCCCTTGAGCCACAAGGTCTTACTCTTTCC
55177447 CACACAAAAC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.40
Consensus pattern (56 bp):
GTAATTATTGACTTCATTGATAATTATCCCTTGAGCCACAAGGTCTTACTCTTTCC
Found at i:55191573 original size:6 final size:6
Alignment explanation
Indices: 55191562--55191586 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
55191552 TTATTTGAAA
55191562 TATATT TATATT TATATT TATATT T
1 TATATT TATATT TATATT TATATT T
55191587 TATAATACAT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATATT
Found at i:55199012 original size:7 final size:7
Alignment explanation
Indices: 55199000--55199024 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
55198990 AATTTGGTAG
55199000 TTATTTA
1 TTATTTA
55199007 TTATTTA
1 TTATTTA
55199014 TTATTTA
1 TTATTTA
55199021 TTAT
1 TTAT
55199025 ATTGTAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATTTA
Found at i:55201459 original size:30 final size:30
Alignment explanation
Indices: 55201404--55201461 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
55201394 TAAATTATTA
*
55201404 ATTTTTAAAGAATTAAATTAAAATTTTATC
1 ATTTTTAAAGAATTAAATGAAAATTTTATC
*
55201434 ATTTTTAAAGAGTTAAA-GAATAATTTTA
1 ATTTTTAAAGAATTAAATGAA-AATTTTA
55201462 CCTTTACTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.45
Consensus pattern (30 bp):
ATTTTTAAAGAATTAAATGAAAATTTTATC
Found at i:55214928 original size:21 final size:20
Alignment explanation
Indices: 55214902--55214946 Score: 63
Period size: 21 Copynumber: 2.2 Consensus size: 20
55214892 AAATTGCTTT
*
55214902 TTTTTTGCTATTTTCTTGGTA
1 TTTTTTACTATTTT-TTGGTA
*
55214923 TTTTTTACTATTTTTTGTTA
1 TTTTTTACTATTTTTTGGTA
55214943 TTTT
1 TTTT
55214947 CTTTTTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.11, C:0.07, G:0.09, T:0.73
Consensus pattern (20 bp):
TTTTTTACTATTTTTTGGTA
Found at i:55214934 original size:10 final size:10
Alignment explanation
Indices: 55214902--55214946 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
55214892 AAATTGCTTT
55214902 TTTTTTGCTA
1 TTTTTTGCTA
*
55214912 TTTTCTTGGTA
1 TTTT-TTGCTA
*
55214923 TTTTTTACTA
1 TTTTTTGCTA
*
55214933 TTTTTTGTTA
1 TTTTTTGCTA
55214943 TTTT
1 TTTT
55214947 CTTTTTTTTC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
10 20 0.69
11 9 0.31
ACGTcount: A:0.11, C:0.07, G:0.09, T:0.73
Consensus pattern (10 bp):
TTTTTTGCTA
Found at i:55230307 original size:22 final size:22
Alignment explanation
Indices: 55230282--55230325 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
55230272 ACATATGCAC
*
55230282 ATACTTACA-TTTTTATTTTATA
1 ATACTTAAAGTTTTT-TTTTATA
55230304 ATACTTAAAGTTTTTTTTTATA
1 ATACTTAAAGTTTTTTTTTATA
55230326 TATGTATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (22 bp):
ATACTTAAAGTTTTTTTTTATA
Found at i:55231837 original size:12 final size:12
Alignment explanation
Indices: 55231820--55231847 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
55231810 CAGTTTTCGC
55231820 ACGGCCTAGCAT
1 ACGGCCTAGCAT
55231832 ACGGCCTAGCAT
1 ACGGCCTAGCAT
55231844 ACGG
1 ACGG
55231848 GCGTGAGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.32, G:0.29, T:0.14
Consensus pattern (12 bp):
ACGGCCTAGCAT
Found at i:55233536 original size:12 final size:12
Alignment explanation
Indices: 55233514--55233543 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
55233504 AGCCATGGGT
55233514 TCTTGTTTCTTTC
1 TCTT-TTTCTTTC
55233527 TCTTTTTCTTTC
1 TCTTTTTCTTTC
55233539 TCTTT
1 TCTTT
55233544 CTTTCCGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.00, C:0.23, G:0.03, T:0.73
Consensus pattern (12 bp):
TCTTTTTCTTTC
Found at i:55233586 original size:22 final size:21
Alignment explanation
Indices: 55233513--55233587 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 21
55233503 AAGCCATGGG
*
55233513 TTCTTGTTTCTTTCTCTTTTTCT
1 TTCTT-TTTCTTTCT-TTTTTTT
* **
55233536 TTCTCTTTCTTTCCGTTTGGTTT
1 TTCTTTTTCTTT-C-TTTTTTTT
*
55233559 TGCTTTTGTCTTTCTTTTTTTT
1 TTCTTTT-TCTTTCTTTTTTTT
55233581 TTCTTTT
1 TTCTTTT
55233588 ATTACTGTAA
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
22 19 0.47
23 15 0.38
24 6 0.15
ACGTcount: A:0.00, C:0.19, G:0.08, T:0.73
Consensus pattern (21 bp):
TTCTTTTTCTTTCTTTTTTTT
Found at i:55236568 original size:37 final size:36
Alignment explanation
Indices: 55236467--55236601 Score: 92
Period size: 39 Copynumber: 3.5 Consensus size: 36
55236457 CGACCTTGAG
55236467 TCGATGAGACACTGGGTGTCATACTGTTACTTCGGATAGAT
1 TCGATGAGACACTGGGTGTCA-AC--TTACTTCGGAT--AT
** ** *
55236508 TCGATGAGTTACTGGGTACCAACTTACTTCGGCT-T
1 TCGATGAGACACTGGGTGTCAACTTACTTCGGATAT
* *
55236543 TGCCGATGAGACACTGGGTGTCAACTATTGCTTCGAACTAT
1 T--CGATGAGACACTGGGTGTCAAC--TTACTTCGGA-TAT
* *
55236584 CCGATGAGGCACTGGGTG
1 TCGATGAGACACTGGGTG
55236602 CCGTACTAGT
Statistics
Matches: 74, Mismatches: 14, Indels: 14
0.73 0.14 0.14
Matches are distributed among these distances:
35 2 0.03
37 18 0.24
38 10 0.14
39 23 0.31
40 3 0.04
41 18 0.24
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (36 bp):
TCGATGAGACACTGGGTGTCAACTTACTTCGGATAT
Found at i:55242414 original size:320 final size:320
Alignment explanation
Indices: 55241832--55242452 Score: 1233
Period size: 320 Copynumber: 1.9 Consensus size: 320
55241822 ATTTGATCAG
55241832 TTTAAAGTTCATTATCATAATTTATACCTTAAGCTTTACTGCACATGCATATTGTACCTTCACCC
1 TTTAAAGTTCATTATCATAATTTATACCTTAAGCTTTACTGCACATGCATATTGTACCTTCACCC
55241897 ACGCGGGTTTTCTGTTTGCGCCTTACACCTCAAGCAATATAAAATTAGAGTGTGCCTTGTGCCTT
66 ACGCGGGTTTTCTGTTTGCGCCTTACACCTCAAGCAATATAAAATTAGAGTGTGCCTTGTGCCTT
55241962 TAACTTGTATTTCTGCAACTCTTCAGCAGTTCCAGATGTGAAAGTTTATAGCAAATTGAGAAACT
131 TAACTTGTATTTCTGCAACTCTTCAGCAGTTCCAGATGTGAAAGTTTATAGCAAATTGAGAAACT
55242027 GATGTATAAGGTTTAAGCTTAATGGATATGGTAAACAATAGACATGTGTCAGTAAGGAAGTCGTG
196 GATGTATAAGGTTTAAGCTTAATGGATATGGTAAACAATAGACATGTGTCAGTAAGGAAGTCGTG
55242092 CACATTGTTAACAAAAGAAAATTAAAATTTTGGATATTTTGTTAATAAACTAGACTACTC
261 CACATTGTTAACAAAAGAAAATTAAAATTTTGGATATTTTGTTAATAAACTAGACTACTC
55242152 TTTAAAGTTCATTATCATAATTTATACCTTAAGCTTTACTGCACATGCATATTGTACCTTCACCC
1 TTTAAAGTTCATTATCATAATTTATACCTTAAGCTTTACTGCACATGCATATTGTACCTTCACCC
*
55242217 ACGCGGGTTTTCTGTTTGTGCCTTACACCTCAAGCAATATAAAATTAGAGTGTGCCTTGTGCCTT
66 ACGCGGGTTTTCTGTTTGCGCCTTACACCTCAAGCAATATAAAATTAGAGTGTGCCTTGTGCCTT
55242282 TAACTTGTATTTCTGCAACTCTTCAGCAGTTCCAGATGTGAAAGTTTATAGCAAATTGAGAAACT
131 TAACTTGTATTTCTGCAACTCTTCAGCAGTTCCAGATGTGAAAGTTTATAGCAAATTGAGAAACT
55242347 GATGTATAAGGTTTAAGCTTAATGGATATGGTAAACAATAGACATGTGTCAGTAAGGAAGTCGTG
196 GATGTATAAGGTTTAAGCTTAATGGATATGGTAAACAATAGACATGTGTCAGTAAGGAAGTCGTG
55242412 CACATTGTTAACAAAAGAAAATTAAAATTTTGGATATTTTG
261 CACATTGTTAACAAAAGAAAATTAAAATTTTGGATATTTTG
55242453 CAGGCTAATA
Statistics
Matches: 300, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
320 300 1.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (320 bp):
TTTAAAGTTCATTATCATAATTTATACCTTAAGCTTTACTGCACATGCATATTGTACCTTCACCC
ACGCGGGTTTTCTGTTTGCGCCTTACACCTCAAGCAATATAAAATTAGAGTGTGCCTTGTGCCTT
TAACTTGTATTTCTGCAACTCTTCAGCAGTTCCAGATGTGAAAGTTTATAGCAAATTGAGAAACT
GATGTATAAGGTTTAAGCTTAATGGATATGGTAAACAATAGACATGTGTCAGTAAGGAAGTCGTG
CACATTGTTAACAAAAGAAAATTAAAATTTTGGATATTTTGTTAATAAACTAGACTACTC
Found at i:55244682 original size:3 final size:3
Alignment explanation
Indices: 55244674--55244701 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
55244664 GTCCCTTGTC
55244674 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
55244702 TTTCGCAAGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:55253572 original size:66 final size:66
Alignment explanation
Indices: 55253496--55253627 Score: 255
Period size: 66 Copynumber: 2.0 Consensus size: 66
55253486 TGTTTAAAAA
55253496 TGTCAATAAAGAATTTCATCAATTGAAAAGACAAACACCTGGTCAGAGAATATCTTATTAATTAG
1 TGTCAATAAAGAATTTCATCAATTGAAAAGACAAACACCTGGTCAGAGAATATCTTATTAATTAG
55253561 T
66 T
*
55253562 TGTCAATAAAGAATTTCATCAATTGAAAAGACAAACACCTGTTCAGAGAATATCTTATTAATTAG
1 TGTCAATAAAGAATTTCATCAATTGAAAAGACAAACACCTGGTCAGAGAATATCTTATTAATTAG
55253627 T
66 T
55253628 ATTATCGACT
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (66 bp):
TGTCAATAAAGAATTTCATCAATTGAAAAGACAAACACCTGGTCAGAGAATATCTTATTAATTAG
T
Found at i:55261484 original size:69 final size:69
Alignment explanation
Indices: 55261373--55261510 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
55261363 GCCGGTCCTG
*
55261373 ATGTACGGTGGGTCGGGAACGAAAAAGGATCCGCCGGAAACACGAGCTGGTCTACCATAAATAGT
1 ATGTACGGTGGGTCGGAAACGAAAAAGGATCCGCCGGAAACACGAGCTGGTCTACCATAAATAGT
55261438 ACCT
66 ACCT
55261442 ATGTACGGTGGGTCGGAAACGAAAAAGGATCCGCCGGAAACACGAGCTGGTCTACCATAAATAGT
1 ATGTACGGTGGGTCGGAAACGAAAAAGGATCCGCCGGAAACACGAGCTGGTCTACCATAAATAGT
55261507 ACCT
66 ACCT
55261511 TGCTGTCGAT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.33, C:0.22, G:0.28, T:0.17
Consensus pattern (69 bp):
ATGTACGGTGGGTCGGAAACGAAAAAGGATCCGCCGGAAACACGAGCTGGTCTACCATAAATAGT
ACCT
Found at i:55272536 original size:18 final size:19
Alignment explanation
Indices: 55272513--55272548 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
55272503 AACTCAAATA
55272513 CCAAATT-AAGCATCAAAG
1 CCAAATTCAAGCATCAAAG
*
55272531 CCAAATTCAAGTATCAAA
1 CCAAATTCAAGCATCAAA
55272549 CCCTAGTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.50, C:0.22, G:0.08, T:0.19
Consensus pattern (19 bp):
CCAAATTCAAGCATCAAAG
Found at i:55273884 original size:17 final size:17
Alignment explanation
Indices: 55273850--55273886 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
55273840 GATATGCTTC
55273850 TTCTTCTTTATTTTTTT
1 TTCTTCTTTATTTTTTT
55273867 TTCTT-TTT-TTTTTGTT
1 TTCTTCTTTATTTTT-TT
55273883 TTCT
1 TTCT
55273887 CTCACCATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 5 0.26
16 9 0.47
17 5 0.26
ACGTcount: A:0.03, C:0.11, G:0.03, T:0.84
Consensus pattern (17 bp):
TTCTTCTTTATTTTTTT
Found at i:55275184 original size:2 final size:2
Alignment explanation
Indices: 55275177--55275252 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
55275167 AAATATAGAA
55275177 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
55275219 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
55275253 TTCGTTTTGA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:55283810 original size:23 final size:24
Alignment explanation
Indices: 55283765--55283810 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
55283755 GATTAAAGTT
*
55283765 ATGGATAAAATTTGGTTTTAAATA
1 ATGGATAAAATTTGGTTTGAAATA
**
55283789 ATGGATAAGGTTT-GTTTGAAAT
1 ATGGATAAAATTTGGTTTGAAAT
55283811 TTTTATATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.37, C:0.00, G:0.22, T:0.41
Consensus pattern (24 bp):
ATGGATAAAATTTGGTTTGAAATA
Found at i:55284910 original size:16 final size:16
Alignment explanation
Indices: 55284873--55284911 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
55284863 TAATAAAACT
* *
55284873 TTTAAATTTTTTAAAT
1 TTTAATTTTTTTAAAA
55284889 TTTAATTTTTTTAAAA
1 TTTAATTTTTTTAAAA
55284905 TTTAATT
1 TTTAATT
55284912 ACTTTTCAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTAATTTTTTTAAAA
Found at i:55292505 original size:43 final size:43
Alignment explanation
Indices: 55292444--55292526 Score: 166
Period size: 43 Copynumber: 1.9 Consensus size: 43
55292434 CTTGAATAAG
55292444 AATACGCATCAAAGTTCAAAACCATCAACTTTATTACATATAC
1 AATACGCATCAAAGTTCAAAACCATCAACTTTATTACATATAC
55292487 AATACGCATCAAAGTTCAAAACCATCAACTTTATTACATA
1 AATACGCATCAAAGTTCAAAACCATCAACTTTATTACATA
55292527 AACGGTCGAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.28
Consensus pattern (43 bp):
AATACGCATCAAAGTTCAAAACCATCAACTTTATTACATATAC
Found at i:55301078 original size:58 final size:57
Alignment explanation
Indices: 55300983--55301153 Score: 230
Period size: 58 Copynumber: 3.1 Consensus size: 57
55300973 TAATCTGATT
* * *
55300983 AGTGGCAAGTGATAAGTGATAACTTCAGCTACACTTATCTGATCAGCGACAAGTGACA
1 AGTGGCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAG-GACAAGTGACA
*
55301041 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGAT-----C-AGTGACA
1 AGTGGCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGACAAGTGACA
*
55301092 AGTGGCAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGGGACAAGTGATA
1 AGTGGCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCA-GGACAAGTGACA
55301149 AGTGG
1 AGTGG
55301154 TTATACACAA
Statistics
Matches: 100, Mismatches: 6, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
50 19 0.19
51 29 0.29
52 1 0.01
56 1 0.01
57 11 0.11
58 39 0.39
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (57 bp):
AGTGGCAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGGACAAGTGACA
Found at i:55301089 original size:51 final size:50
Alignment explanation
Indices: 55301034--55301152 Score: 202
Period size: 50 Copynumber: 2.4 Consensus size: 50
55301024 ATCAGCGACA
55301034 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATC
*
55301085 AGTGACAAGTGGCAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
1 AGTGACAAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
* *
55301135 AGGGACAAGTGATAAGTG
1 AGTGACAAGTGACAAGTG
55301153 GTTATACACA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 35 0.55
51 29 0.45
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (50 bp):
AGTGACAAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATC
Found at i:55302521 original size:18 final size:19
Alignment explanation
Indices: 55302500--55302545 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
55302490 CTTTACCAAG
* *
55302500 ATTTTTAAAAT-TTATTTA
1 ATTTTTAAAATCTAAATTA
55302518 ATTTTT-AAATCTAAATTA
1 ATTTTTAAAATCTAAATTA
55302536 ATTTTTAAAA
1 ATTTTTAAAA
55302546 ATTTTAAAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.17
18 17 0.71
19 3 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
ATTTTTAAAATCTAAATTA
Found at i:55306531 original size:43 final size:43
Alignment explanation
Indices: 55306452--55306534 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
55306442 AAAGATAGTT
* *
55306452 ATACTTTAACTGACAACCATTAAAAATATTAAAATAAATAGCA
1 ATACCTTAACTGACAACCATTAAAAAGATTAAAATAAATAGCA
* * *
55306495 ATACCTTAACTGATAACCATTAGAAAGATTATAATAAATA
1 ATACCTTAACTGACAACCATTAAAAAGATTAAAATAAATA
55306535 ATAAATGTGG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (43 bp):
ATACCTTAACTGACAACCATTAAAAAGATTAAAATAAATAGCA
Found at i:55313861 original size:20 final size:20
Alignment explanation
Indices: 55313836--55313875 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
55313826 AATATTTTTC
*
55313836 AGTAAATCATTTTATAGAAA
1 AGTAAAACATTTTATAGAAA
*
55313856 AGTAAAACATTTTCTAGAAA
1 AGTAAAACATTTTATAGAAA
55313876 TTATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (20 bp):
AGTAAAACATTTTATAGAAA
Found at i:55317135 original size:125 final size:124
Alignment explanation
Indices: 55316888--55317299 Score: 612
Period size: 125 Copynumber: 3.3 Consensus size: 124
55316878 ATTTATTAAG
* * * *
55316888 GAAATCGCTCCCACATGGATGCGTTTTTGATACAGTAGGTCCTGAAAAAATAATTTCGAGTTAAC
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
*
55316953 GTTTCTGAGCAAATAGTATAAAAAATGCTTCAAGTAGGATGCTTTAT-AAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAA-AAGAATTT-T
* * *
55317013 GAAATTGCTCTCACATGGACGCGCTTTTGCTATAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* * *
55317078 GTTTCTGTGTAAATAGTAT-AAAAACGATTCAAGTAGGATGCTTTATCAAAAGAAATTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAAAAG-AATTTT
* * *
55317137 GAAATCGCTCCCACGTGGACGCTCTTTTGCTACAGTAGGTCATGAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
* *
55317202 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAAAAGAA-TTTT
* *
55317262 GAAATCGCTCCCACGTGGACGCACTTTTGCTACAGTAG
1 GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAG
55317300 CATGTTTGGG
Statistics
Matches: 260, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
124 107 0.41
125 153 0.59
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.31
Consensus pattern (124 bp):
GAAATCGCTCCCACATGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGTAGGATGCTTTATCAAAAGAATTTT
Found at i:55320419 original size:48 final size:48
Alignment explanation
Indices: 55320323--55320444 Score: 217
Period size: 48 Copynumber: 2.5 Consensus size: 48
55320313 GAATATTAAT
55320323 TATTTTGTATTTTATTACATCAAATAATATCAAAATATTCAAAATAAAC
1 TATTTTGTATTTTATTACATC-AATAATATCAAAATATTCAAAATAAAC
*
55320372 TATTTTGTATTTTATTACATCAATAATATCAAAATATTCAAATTAAAC
1 TATTTTGTATTTTATTACATCAATAATATCAAAATATTCAAAATAAAC
*
55320420 TATTTTGTATTTTATTACATTAATA
1 TATTTTGTATTTTATTACATCAATA
55320445 TAAATTATTT
Statistics
Matches: 71, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
48 50 0.70
49 21 0.30
ACGTcount: A:0.43, C:0.09, G:0.02, T:0.46
Consensus pattern (48 bp):
TATTTTGTATTTTATTACATCAATAATATCAAAATATTCAAAATAAAC
Found at i:55320582 original size:21 final size:21
Alignment explanation
Indices: 55320558--55320618 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
55320548 TTGTCCAACT
* *
55320558 TCCGGCGGGGGTTGTGGTTAC
1 TCCGGCGGGGATTCTGGTTAC
55320579 TCCGGCGGGGATTCTGGTT-C
1 TCCGGCGGGGATTCTGGTTAC
*
55320599 ATCCGGTAGGGGA-TCTGGTT
1 -TCCGG-CGGGGATTCTGGTT
55320619 GTTGGTGTTG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.03
21 29 0.83
22 5 0.14
ACGTcount: A:0.08, C:0.20, G:0.43, T:0.30
Consensus pattern (21 bp):
TCCGGCGGGGATTCTGGTTAC
Found at i:55322508 original size:22 final size:22
Alignment explanation
Indices: 55322483--55322543 Score: 81
Period size: 22 Copynumber: 2.8 Consensus size: 22
55322473 AAATATGGAT
55322483 TTGAGAGAAATTTG-GAAGGAAA
1 TTGAGAGAAATTTGAG-AGGAAA
*
55322505 TTGAGAGCAATTTGAGAGGAAA
1 TTGAGAGAAATTTGAGAGGAAA
55322527 TTGAGAAGAAA-TTGAGA
1 TTGAG-AGAAATTTGAGA
55322544 AAGGATTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 30 0.86
23 5 0.14
ACGTcount: A:0.44, C:0.02, G:0.31, T:0.23
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:55322518 original size:33 final size:33
Alignment explanation
Indices: 55322481--55322543 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
55322471 TTAAATATGG
55322481 ATTTGAGA-GAAATTTG-GAAGGAAATTGAGAGCA
1 ATTTGAGAGGAAA-TTGAGAA-GAAATTGAGAGCA
55322514 ATTTGAGAGGAAATTGAGAAGAAATTGAGA
1 ATTTGAGAGGAAATTGAGAAGAAATTGAGA
55322544 AAGGATTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
33 21 0.75
34 7 0.25
ACGTcount: A:0.44, C:0.02, G:0.30, T:0.24
Consensus pattern (33 bp):
ATTTGAGAGGAAATTGAGAAGAAATTGAGAGCA
Found at i:55322544 original size:11 final size:11
Alignment explanation
Indices: 55322483--55322544 Score: 58
Period size: 11 Copynumber: 5.6 Consensus size: 11
55322473 AAATATGGAT
55322483 TTGAG-AGAAA
1 TTGAGAAGAAA
55322493 TTTG-GAAGGAAA
1 -TTGAGAA-GAAA
*
55322505 TTGAG-AGCAAT
1 TTGAGAAG-AAA
*
55322516 TTGAGAGGAAA
1 TTGAGAAGAAA
55322527 TTGAGAAGAAA
1 TTGAGAAGAAA
55322538 TTGAGAA
1 TTGAGAA
55322545 AGGATTAATT
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
10 2 0.05
11 34 0.81
12 6 0.14
ACGTcount: A:0.45, C:0.02, G:0.31, T:0.23
Consensus pattern (11 bp):
TTGAGAAGAAA
Found at i:55329619 original size:30 final size:31
Alignment explanation
Indices: 55329537--55329620 Score: 100
Period size: 30 Copynumber: 2.7 Consensus size: 31
55329527 ATCCTAAACA
*
55329537 TAAAAAATTCAATAAATTTAGCCTTCAATTTT
1 TAAAAAATTCAATAAATTTAG-CTTCAAATTT
* * *
55329569 TACAAAAATT-TATCATTTTAG-TTCAAATTT
1 TA-AAAAATTCAATAAATTTAGCTTCAAATTT
55329599 TAAAAAATTCAATAAATTTAGC
1 TAAAAAATTCAATAAATTTAGC
55329621 ACTCAACTAA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
29 7 0.17
30 18 0.43
32 10 0.24
33 7 0.17
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.40
Consensus pattern (31 bp):
TAAAAAATTCAATAAATTTAGCTTCAAATTT
Found at i:55331121 original size:21 final size:23
Alignment explanation
Indices: 55331080--55331122 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
55331070 ATTATTAATA
*
55331080 TAATAAATATAATTTATTATTTT
1 TAATAAATATAATTTAATATTTT
55331103 TAATAAAT-T-ATTTAATATTT
1 TAATAAATATAATTTAATATTT
55331123 AAATTTTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 10 0.53
22 1 0.05
23 8 0.42
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (23 bp):
TAATAAATATAATTTAATATTTT
Found at i:55331170 original size:16 final size:17
Alignment explanation
Indices: 55331134--55331170 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
55331124 AATTTTATTT
*
55331134 TAATAGTAAGTTTTAAA
1 TAATAATAAGTTTTAAA
55331151 -AATAATAA-TTTTAAA
1 TAATAATAAGTTTTAAA
55331166 TAATA
1 TAATA
55331171 TTATTCACAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (17 bp):
TAATAATAAGTTTTAAA
Found at i:55345069 original size:22 final size:24
Alignment explanation
Indices: 55345044--55345092 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
55345034 GGTGAATTTT
* *
55345044 TTTTCGAGAA-TTAAATTATAA-A
1 TTTTCAAGAAGTTAAAATATAATA
*
55345066 TTTTTAAGAAGTTAAAATATAATA
1 TTTTCAAGAAGTTAAAATATAATA
55345090 TTT
1 TTT
55345093 GATTTCATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 8 0.36
23 10 0.45
24 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.08, T:0.45
Consensus pattern (24 bp):
TTTTCAAGAAGTTAAAATATAATA
Found at i:55346724 original size:24 final size:23
Alignment explanation
Indices: 55346696--55346743 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
55346686 AAAAATTCTT
* *
55346696 ATTAAACCCCTAAAATTTTAAAAA
1 ATTAAAACCCT-AAATTTAAAAAA
*
55346720 ATTAAAACCCTTAATTTAAAAAA
1 ATTAAAACCCTAAATTTAAAAAA
55346743 A
1 A
55346744 AATTAAGTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (23 bp):
ATTAAAACCCTAAATTTAAAAAA
Found at i:55350451 original size:12 final size:12
Alignment explanation
Indices: 55350436--55350465 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
55350426 TGTTAAAGAT
55350436 GCTGAAACTGAA
1 GCTGAAACTGAA
55350448 GCTGAAACTGAA
1 GCTGAAACTGAA
*
55350460 GTTGAA
1 GCTGAA
55350466 CTTTCATCTT
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:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (12 bp):
GCTGAAACTGAA
Found at i:55351508 original size:21 final size:23
Alignment explanation
Indices: 55351476--55351519 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
55351466 TAATATTCTA
*
55351476 ATTTTAAAAATTC-AATTAAAAT
1 ATTTTAAAAATTCGAAATAAAAT
55351498 ATTTT-AAAATTCGAAATAAAAT
1 ATTTTAAAAATTCGAAATAAAAT
55351520 TTAAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (23 bp):
ATTTTAAAAATTCGAAATAAAAT
Found at i:55353241 original size:14 final size:15
Alignment explanation
Indices: 55353222--55353250 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55353212 AAATTTTCTT
55353222 ATAAAAAA-TAAATA
1 ATAAAAAAGTAAATA
55353236 ATAAAAAAGTAAATA
1 ATAAAAAAGTAAATA
55353251 TATGAAAACG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
ATAAAAAAGTAAATA
Found at i:55359436 original size:19 final size:21
Alignment explanation
Indices: 55359412--55359455 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
55359402 AAAAATTGAC
55359412 ATATATTTTT-AT-TTTTATT
1 ATATATTTTTAATATTTTATT
55359431 ATATATTTTTAATATTTTATT
1 ATATATTTTTAATATTTTATT
55359452 ATAT
1 ATAT
55359456 CTTTCACCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 10 0.43
20 2 0.09
21 11 0.48
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
ATATATTTTTAATATTTTATT
Found at i:55359579 original size:21 final size:21
Alignment explanation
Indices: 55359520--55359581 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
55359510 TTCTTTTATT
* * *
55359520 AATATAAGTATATATTAAATA
1 AATATAATTTTATATTTAATA
* *
55359541 TA-ATAATTTTCA-AGTTAATA
1 AATATAATTTT-ATATTTAATA
55359561 AATATAATTTTATATTTAATA
1 AATATAATTTTATATTTAATA
55359582 GAATGCTATG
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.45
Consensus pattern (21 bp):
AATATAATTTTATATTTAATA
Found at i:55363112 original size:27 final size:28
Alignment explanation
Indices: 55363080--55363133 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
55363070 TTTTTATATA
*
55363080 TTTAAG-ATTTAGTCTCTCTACTTTTAT
1 TTTAAGAATTTAGTCCCTCTACTTTTAT
*
55363107 TTTAAGAAATTTAGTCCCTTTACTTTT
1 TTTAAG-AATTTAGTCCCTCTACTTTT
55363134 TGGATTTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 6 0.26
29 17 0.74
ACGTcount: A:0.24, C:0.15, G:0.07, T:0.54
Consensus pattern (28 bp):
TTTAAGAATTTAGTCCCTCTACTTTTAT
Found at i:55363176 original size:29 final size:29
Alignment explanation
Indices: 55363142--55363205 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
55363132 TTTGGATTTA
55363142 AAAATGCAAGTCCAATTATTAATACTATT
1 AAAATGCAAGTCCAATTATTAATACTATT
55363171 AAAATGCAAGTCCAATTATTAATACTATT
1 AAAATGCAAGTCCAATTATTAATACTATT
55363200 AAAATG
1 AAAATG
55363206 TTTCTCTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (29 bp):
AAAATGCAAGTCCAATTATTAATACTATT
Found at i:55384470 original size:89 final size:89
Alignment explanation
Indices: 55384316--55384493 Score: 284
Period size: 89 Copynumber: 2.0 Consensus size: 89
55384306 TCTCAAATCA
* *
55384316 GATTAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGGTTGTGTAT
1 GATTAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGATTGAGTAT
*
55384381 TAGTTCAATTTATATTTTTATTGT
66 TAGTTCAATTTATATTATTATTGT
* * *
55384405 GATTAGTCACTCAAAGTAGCCATATTTTATAAAATTAAAAAATTATGAATATGATGATTGAGTAT
1 GATTAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGATTGAGTAT
**
55384470 TAGTTCGGTTTATATTATTATTGT
66 TAGTTCAATTTATATTATTATTGT
55384494 TGTTACAGTT
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 81 1.00
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (89 bp):
GATTAGCCACCCAAAGTAGCCATATTTTATAAAACTAAAAAATTATGAATATGATGATTGAGTAT
TAGTTCAATTTATATTATTATTGT
Found at i:55388207 original size:16 final size:16
Alignment explanation
Indices: 55388186--55388226 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
55388176 AATCAACATT
55388186 ATTATATAAATAAAA-A
1 ATTATA-AAATAAAATA
*
55388202 ATTATAATATAAAATA
1 ATTATAAAATAAAATA
55388218 ATTATAAAA
1 ATTATAAAA
55388227 CCAAAATACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTATAAAATAAAATA
Found at i:55391426 original size:31 final size:31
Alignment explanation
Indices: 55391373--55391454 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
55391363 TAATAATAAA
* * * *
55391373 TTTATATTCAGGTCACTAAACTATTTAAAAT
1 TTTATATTTAAGTTACTGAACTATTTAAAAT
* *
55391404 TTTATATTTAAGTTATTGAACTATTTAAATT
1 TTTATATTTAAGTTACTGAACTATTTAAAAT
*
55391435 TTTTTATTTAAGTTACTGAA
1 TTTATATTTAAGTTACTGAA
55391455 TTGTTAAATT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.50
Consensus pattern (31 bp):
TTTATATTTAAGTTACTGAACTATTTAAAAT
Found at i:55391462 original size:30 final size:31
Alignment explanation
Indices: 55391391--55391474 Score: 102
Period size: 31 Copynumber: 2.8 Consensus size: 31
55391381 CAGGTCACTA
* * *
55391391 AACTATTTAAAATTTTATATTTAAGTTATTG
1 AACTATTTAAATTTTTTTATTTAAGTTACTG
55391422 AACTATTTAAATTTTTTTATTTAAGTTACTG
1 AACTATTTAAATTTTTTTATTTAAGTTACTG
*
55391453 AA-T-TGTTAAATTTATTT-TTTAA
1 AACTAT-TTAAATTTTTTTATTTAA
55391475 AAATAAGTAA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.12
30 12 0.25
31 30 0.62
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.55
Consensus pattern (31 bp):
AACTATTTAAATTTTTTTATTTAAGTTACTG
Found at i:55392458 original size:16 final size:17
Alignment explanation
Indices: 55392437--55392469 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
55392427 CGAGTTTTCA
*
55392437 ATTATAATAT-ATTTTT
1 ATTATAAAATCATTTTT
55392453 ATTATAAAATCATTTTT
1 ATTATAAAATCATTTTT
55392470 TCACTTTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTATAAAATCATTTTT
Found at i:55395916 original size:34 final size:35
Alignment explanation
Indices: 55395872--55395938 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
55395862 CAGTAAAATA
*
55395872 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
55395906 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
55395939 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:55404465 original size:3 final size:3
Alignment explanation
Indices: 55404457--55404490 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
55404447 ACCAACACCA
* *
55404457 CAG CAG CAG CAG CAG CAG CAG CAA CAG CAA CAG C
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG C
55404491 TTAGTGGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.35, G:0.26, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:55405374 original size:21 final size:21
Alignment explanation
Indices: 55405350--55405391 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
55405340 CTCAAAATGA
55405350 GCAAATTAATCTCTTTACTTT
1 GCAAATTAATCTCTTTACTTT
55405371 GCAAATTAATCTCTTTACTTT
1 GCAAATTAATCTCTTTACTTT
55405392 TGATAAAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.29, C:0.19, G:0.05, T:0.48
Consensus pattern (21 bp):
GCAAATTAATCTCTTTACTTT
Found at i:55420080 original size:20 final size:20
Alignment explanation
Indices: 55420055--55420095 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
55420045 GAAATTAAAC
55420055 CATCCAAGAAAGCTGAATAG
1 CATCCAAGAAAGCTGAATAG
55420075 CATCCAAGAAAGCTGAATAG
1 CATCCAAGAAAGCTGAATAG
55420095 C
1 C
55420096 TTCCTCACAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.22, G:0.20, T:0.15
Consensus pattern (20 bp):
CATCCAAGAAAGCTGAATAG
Found at i:55420886 original size:390 final size:390
Alignment explanation
Indices: 55420167--55420953 Score: 1511
Period size: 390 Copynumber: 2.0 Consensus size: 390
55420157 TTTTTAGCTA
55420167 AATTTAATCAAATAAAGTGTGTTGGAACTTGGAACCAAAGTTATAATACAGTTGATATAGCCTGT
1 AATTTAATCAAATAAAGTGTGTTGGAACTTGGAACCAAAGTTATAATACAGTTGATATAGCCTGT
*
55420232 TTCAATTCCACTGAAGGTTGTTGACAAGACCATAACTGTAGATGTTTGCTTGTTAATTCCTCTAT
66 TTCAATGCCACTGAAGGTTGTTGACAAGACCATAACTGTAGATGTTTGCTTGTTAATTCCTCTAT
55420297 TTCGGAAACATGTTTTGTTTTCAAGGATTCGGAGCCAAACAGGTTCAAAATCAAATTCCTGAGAT
131 TTCGGAAACATGTTTTGTTTTCAAGGATTCGGAGCCAAACAGGTTCAAAATCAAATTCCTGAGAT
*
55420362 ACTTGTGGAGAAATCCATGGCTGGATAAAACATTATCCTTGCCAATGATATCATCAAATTTGTCC
196 ACTTGTGGAGAAATCCATGGCTGGATAAAACATTATCCTTGCCAATGATATCATCAAATTAGTCC
55420427 ATGTACCAGCTTTGCACCAGTTTCCCTTCTTGTTGGAAAATGAAATGGTTGACATCAGGATCAGT
261 ATGTACCAGCTTTGCACCAGTTTCCCTTCTTGTTGGAAAATGAAATGGTTGACATCAGGATCAGT
*
55420492 GGAAACAGCAATCTGTCGACCAACCAAACTCGTTTTAAAGCAATGAACCATACCTGAAAATATAG
326 GGAAACAACAATCTGTCGACCAACCAAACTCGTTTTAAAGCAATGAACCATACCTGAAAATATAG
55420557 AATTTAATCAAATAAAGTGTGTTGGAACTTGGAACCAAAGTTATAATACAGTTGATATAGCCTGT
1 AATTTAATCAAATAAAGTGTGTTGGAACTTGGAACCAAAGTTATAATACAGTTGATATAGCCTGT
55420622 TTCAATGCCACTGAAGGTTGTTGACAAGACCATAACTGTAGATGTTTGCTTGTTAATTCCTCTAT
66 TTCAATGCCACTGAAGGTTGTTGACAAGACCATAACTGTAGATGTTTGCTTGTTAATTCCTCTAT
* * *
55420687 TTCGGAAACGTGTTTTGTTTTCAAGTATTCGGAGCTAAACAGGTTCAAAATCAAATTCCTGAGAT
131 TTCGGAAACATGTTTTGTTTTCAAGGATTCGGAGCCAAACAGGTTCAAAATCAAATTCCTGAGAT
*
55420752 ACTTGTGGAGAAATCCATGGCTGGTTAAAACATTATCCTTGCCAATGATATCATCAAATTAGTCC
196 ACTTGTGGAGAAATCCATGGCTGGATAAAACATTATCCTTGCCAATGATATCATCAAATTAGTCC
55420817 ATGTACCAGCTTTGCACCAGTTTCCCTTCTTGTTGGAAAATGAAATGGTTGACATCAGGATCAGT
261 ATGTACCAGCTTTGCACCAGTTTCCCTTCTTGTTGGAAAATGAAATGGTTGACATCAGGATCAGT
55420882 GGAAACAACAATCTGTCGACCAACCAAACTCGTTTTAAAGCAATGAACCATACCTGAAAATATAG
326 GGAAACAACAATCTGTCGACCAACCAAACTCGTTTTAAAGCAATGAACCATACCTGAAAATATAG
55420947 AATTTAA
1 AATTTAA
55420954 AACGATTAAG
Statistics
Matches: 390, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
390 390 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (390 bp):
AATTTAATCAAATAAAGTGTGTTGGAACTTGGAACCAAAGTTATAATACAGTTGATATAGCCTGT
TTCAATGCCACTGAAGGTTGTTGACAAGACCATAACTGTAGATGTTTGCTTGTTAATTCCTCTAT
TTCGGAAACATGTTTTGTTTTCAAGGATTCGGAGCCAAACAGGTTCAAAATCAAATTCCTGAGAT
ACTTGTGGAGAAATCCATGGCTGGATAAAACATTATCCTTGCCAATGATATCATCAAATTAGTCC
ATGTACCAGCTTTGCACCAGTTTCCCTTCTTGTTGGAAAATGAAATGGTTGACATCAGGATCAGT
GGAAACAACAATCTGTCGACCAACCAAACTCGTTTTAAAGCAATGAACCATACCTGAAAATATAG
Found at i:55422097 original size:30 final size:30
Alignment explanation
Indices: 55422051--55422174 Score: 185
Period size: 30 Copynumber: 4.1 Consensus size: 30
55422041 TTTTATTATG
*
55422051 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
*
55422082 CCGATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
*
55422112 CCAATATTTGATACCCATATCTTTGACGTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * *
55422142 CTATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
55422172 CCA
1 CCA
55422175 TAAATATGGA
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
30 78 0.93
31 6 0.07
ACGTcount: A:0.25, C:0.24, G:0.08, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:55422106 original size:15 final size:15
Alignment explanation
Indices: 55422061--55422168 Score: 64
Period size: 15 Copynumber: 7.2 Consensus size: 15
55422051 CCAATATCTC
55422061 GATACCCATATCTTT
1 GATACCCATATCTTT
* *
55422076 GACTTTCCGATA--TTT
1 GA--TACCCATATCTTT
55422091 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
55422106 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
55422121 GATACCCATATCTTT
1 GATACCCATATCTTT
* * *
55422136 GACGT-TCTAT-TATTT
1 GA--TACCCATATCTTT
55422151 GATACCCATATCTTT
1 GATACCCATATCTTT
55422166 GAT
1 GAT
55422169 TTTCCATAAA
Statistics
Matches: 67, Mismatches: 16, Indels: 20
0.65 0.16 0.19
Matches are distributed among these distances:
13 7 0.10
14 7 0.10
15 39 0.58
16 7 0.10
17 7 0.10
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:55426789 original size:30 final size:30
Alignment explanation
Indices: 55426753--55426836 Score: 132
Period size: 30 Copynumber: 2.8 Consensus size: 30
55426743 CCAATATCTC
55426753 GATACCCATATCTTTGACTTTCCAAGATTT
1 GATACCCATATCTTTGACTTTCCAAGATTT
* **
55426783 GATACCCATATCTTTGACTTTCTATTATTT
1 GATACCCATATCTTTGACTTTCCAAGATTT
*
55426813 GATACCCATATCTTTGATTTTCCA
1 GATACCCATATCTTTGACTTTCCA
55426837 TAAATATGGA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 49 1.00
ACGTcount: A:0.25, C:0.23, G:0.08, T:0.44
Consensus pattern (30 bp):
GATACCCATATCTTTGACTTTCCAAGATTT
Found at i:55426798 original size:15 final size:15
Alignment explanation
Indices: 55426753--55426830 Score: 52
Period size: 15 Copynumber: 5.2 Consensus size: 15
55426743 CCAATATCTC
55426753 GATACCCATATCTTT
1 GATACCCATATCTTT
** **
55426768 GACTTTCCA-AGATTT
1 GA-TACCCATATCTTT
55426783 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
55426798 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
55426813 GATACCCATATCTTT
1 GATACCCATATCTTT
55426828 GAT
1 GAT
55426831 TTTCCATAAA
Statistics
Matches: 43, Mismatches: 16, Indels: 8
0.64 0.24 0.12
Matches are distributed among these distances:
14 8 0.19
15 27 0.63
16 8 0.19
ACGTcount: A:0.26, C:0.22, G:0.09, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:55427621 original size:16 final size:16
Alignment explanation
Indices: 55427594--55427641 Score: 69
Period size: 16 Copynumber: 3.0 Consensus size: 16
55427584 TGAATCGGGA
*
55427594 TTTTATATTTTTTAAT
1 TTTTATAATTTTTAAT
* *
55427610 TTTTTTAGTTTTTAAT
1 TTTTATAATTTTTAAT
55427626 TTTTATAATTTTTAAT
1 TTTTATAATTTTTAAT
55427642 AATTTATTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.73
Consensus pattern (16 bp):
TTTTATAATTTTTAAT
Found at i:55430879 original size:17 final size:17
Alignment explanation
Indices: 55430857--55430889 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
55430847 ATATAAAATT
*
55430857 TTTAAAAGAATATTTAA
1 TTTAAAAAAATATTTAA
55430874 TTTAAAAAAATATTTA
1 TTTAAAAAAATATTTA
55430890 TTATATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (17 bp):
TTTAAAAAAATATTTAA
Found at i:55430959 original size:39 final size:39
Alignment explanation
Indices: 55430869--55430996 Score: 204
Period size: 38 Copynumber: 3.3 Consensus size: 39
55430859 TAAAAGAATA
* *
55430869 TTTAATTTAAAAAAATATTTATTATATTTATTCGTG-TT
1 TTTAATATAATAAAATATTTATTATATTTATTCGTGTTT
55430907 TTTAATATAATAAAATATTTATTATATTTATTCGTGTTT
1 TTTAATATAATAAAATATTTATTATATTTATTCGTGTTT
*
55430946 TTTAATATAATAAAATATTTATTATATTTATGGTAGTGTTT
1 TTTAATATAATAAAATATTTATTATATTTAT--TCGTGTTT
55430987 TTTAATATAA
1 TTTAATATAA
55430997 ATATTTTTAA
Statistics
Matches: 84, Mismatches: 3, Indels: 3
0.93 0.03 0.03
Matches are distributed among these distances:
38 34 0.40
39 33 0.39
41 17 0.20
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.55
Consensus pattern (39 bp):
TTTAATATAATAAAATATTTATTATATTTATTCGTGTTT
Found at i:55432310 original size:45 final size:45
Alignment explanation
Indices: 55432241--55432329 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
55432231 AATGTTGTTG
*
55432241 ACTGTGGCCATTATCCTATTAGAGTACTGCTTGATGGTCTCTGAA
1 ACTGTGGCCATTATCCTATAAGAGTACTGCTTGATGGTCTCTGAA
55432286 ACTGTGGCCATTATCCTATAAGAGTACTGCTTGATGGTCTCTGA
1 ACTGTGGCCATTATCCTATAAGAGTACTGCTTGATGGTCTCTGA
55432330 CTCCCTTATC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.35
Consensus pattern (45 bp):
ACTGTGGCCATTATCCTATAAGAGTACTGCTTGATGGTCTCTGAA
Found at i:55434827 original size:40 final size:40
Alignment explanation
Indices: 55434772--55434854 Score: 123
Period size: 40 Copynumber: 2.0 Consensus size: 40
55434762 AAAATTCTAA
* *
55434772 AATAAAATATTTATTATATTTAT-TTGTGTTTTTTAAATAT
1 AATAAAACATTTATTATATTTATGTAGTGTTTTTT-AATAT
55434812 AATAAAACATTTATTATATTTATGGTAGTGTTTTTTAATAT
1 AATAAAACATTTATTATATTTAT-GTAGTGTTTTTTAATAT
55434853 AA
1 AA
55434855 ATATTTTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 3
0.89 0.05 0.07
Matches are distributed among these distances:
40 22 0.56
41 7 0.18
42 10 0.26
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (40 bp):
AATAAAACATTTATTATATTTATGTAGTGTTTTTTAATAT
Found at i:55435268 original size:21 final size:21
Alignment explanation
Indices: 55435244--55435287 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
55435234 AATCTAACTC
55435244 AAACTAATCCCTAAACTTTTT
1 AAACTAATCCCTAAACTTTTT
55435265 AAACTAATCCCTAAACTTTTT
1 AAACTAATCCCTAAACTTTTT
55435286 AA
1 AA
55435288 GCATTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.23, G:0.00, T:0.36
Consensus pattern (21 bp):
AAACTAATCCCTAAACTTTTT
Found at i:55435311 original size:15 final size:14
Alignment explanation
Indices: 55435291--55435320 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
55435281 TTTTTAAGCA
55435291 TTTTTTTATTTTCTT
1 TTTTTTTA-TTTCTT
55435306 TTTTTTTATTTCTT
1 TTTTTTTATTTCTT
55435320 T
1 T
55435321 ATTTCCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.07, C:0.07, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTTTTATTTCTT
Found at i:55435316 original size:23 final size:23
Alignment explanation
Indices: 55435290--55435334 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
55435280 CTTTTTAAGC
* *
55435290 ATTTTTTTATTTTCTTTTTTTTT
1 ATTTCTTTATTTCCTTTTTTTTT
55435313 ATTTCTTTATTTCCTTTTTTTT
1 ATTTCTTTATTTCCTTTTTTTT
55435335 AATGTTTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.82
Consensus pattern (23 bp):
ATTTCTTTATTTCCTTTTTTTTT
Found at i:55438671 original size:16 final size:16
Alignment explanation
Indices: 55438650--55438680 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55438640 ATAGGGATTG
55438650 TATGTATGTAGGTATA
1 TATGTATGTAGGTATA
*
55438666 TATGTATGTATGTAT
1 TATGTATGTAGGTAT
55438681 TTTTGCTTGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.23, T:0.48
Consensus pattern (16 bp):
TATGTATGTAGGTATA
Found at i:55440552 original size:33 final size:33
Alignment explanation
Indices: 55440510--55440577 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
55440500 ACGGAAGCCC
55440510 TTGTATTAAGAGTTGGATTGCATTTTACCTCAT
1 TTGTATTAAGAGTTGGATTGCATTTTACCTCAT
55440543 TTGTATTAAGAGTTGGATTGCATTTTACCTCAT
1 TTGTATTAAGAGTTGGATTGCATTTTACCTCAT
55440576 TT
1 TT
55440578 ACTCAAGAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.47
Consensus pattern (33 bp):
TTGTATTAAGAGTTGGATTGCATTTTACCTCAT
Done.