Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 203 of 204
Found at i:60266502 original size:869 final size:869
Alignment explanation
Indices: 60262694--60266714 Score: 4263
Period size: 870 Copynumber: 4.6 Consensus size: 869
60262684 TTTAAAACTT
*
60262694 AATATCATATCTTGCTTAATACATTGTTGCATTACATGCTCTCTCTTTTCTTCACTGCAATGGAA
1 AATATTATATCTTGCTTAATACA---TTGCATTACATGCTCTCTCTTTTCTTCACTGCAATGGAA
*
60262759 GAATGTACAGTTGACTTTACTAATTCAATATCATAAATTGCTTTAATTTTGCATAATTTCTTTAC
63 GAATGTACAGTTGACTTTACTAATTCAATACCATAAATTGCTTTAATTTTGCATAATTTCTTTAC
* ** * *
60262824 TCGAGCCAATATGGTTTTGTTTTGCTGATTTTTCGTTGATCTGTAAATCGTTTGTGTTTTTTTGT
128 TTGAGCCAATATGGTTTTGTTTTGCTGATTTCCCGTTGATCTGCAAACCGTTTGTGTTTTTTTGT
* *
60262889 GATCTAATCTAAATTTCACAGACACATGCCTCGATAATGAACACTCCTAGCATGCTAACACCACA
193 GATCTAATCTAAATTTCACAGACCCATGCCTCAATAATGAACACTCCTAGCATGCTAACACCACA
60262954 TGGAGTGACACCAGCAACCAATTCGATGAATTTTCAAGAGAGAGAGTTCTCAGTTGGAAACCTTC
258 TGGAGTGACACCAGCAACCAATTCGATGAATTTTCAAGAGAGAGAGTTCTCAGTTGGAAACCTTC
60263019 AGTCTCCTATGATGGTATGTATACTTTTTTGTTTAATTTAATGATATGTGTCATGTTATTATTTA
323 AGTCTCCTATGATGGTATGTATACTTTTTTGTTTAATTTAATGATATGTGTCATGTTATTATTTA
60263084 CTGATAATGCTTGAAATTTATATATCGATGATTTATAAAAGAATATTACTTATAATAATTCTCTT
388 CTGATAATGCTTGAAATTTATATATCGATGATTTATAAAAGAATATTACTTATAATAATTCTCTT
60263149 TTCTAATGCACTAGAATTTTTTTGTTTTGCTGATTGGAAAAAAGATTTTGATGCAGTTGTGTTTT
453 TTCTAATGCACTAGAATTTTTTTGTTTTGCTGATTGGAAAAAAGATTTTGATGCAGTTGTGTTTT
60263214 TCTATTCTTTTCCATTCAATGATTTGATTTGATCTAAATTTCACATATCTGTGCCAAAAAGAGCA
518 TCTATTCTTTTCCATTCAATGATTTGATTTGATCTAAATTTCACATATCTGTGCCAAAAAGAGCA
60263279 TCGATAACAACAGATCAATCCTAAAAGATTCCAATGAAGAGATTGGAGACTTGAGTTGAGTCTCC
583 TCGATAACAACAGATCAATCCTAAAAGATTCCAATGAAGAGATTGGAGACTTGAGTTGAGTCTCC
** * *
60263344 AATTTTTAACTTTCCACAAGTT-CATTTTCAAACCTCAACAAGAGCTGTGAACCACGATACTTTG
648 AATTTTTAACTTT--TTAATTTGGATTTTCAAACCTCAACAAGAGCTGTGAACCACGATACTTTG
60263408 GTATGCATTATTTTTTATTTAATTTAATGACGATGTGTCATATTATTATTTACTGATGCTTTATG
711 GTATGCATTATTTTTTATTTAATTTAATGACGATGTGTCATATTATTATTTACTGATGCTTTATG
60263473 ATAATCATATAAATACCGTTCTCATCATTTATGGTTTTTCATCAGCATATCCGGGGCTTAATATT
776 ATAATCATATAAATACCGTTCTCATCATTTATGGTTTTTCATCAGCATATCCGGGGCTTAATATT
60263538 GTTGATCAAAATCTTGCAGTTACTAATTC
841 GTTGATCAAAATCTTGCAGTTACTAATTC
60263567 AATATTATATCTTGCTTAATACATTGCATTACATGCTCTCTCTTTTCTTCACTGCAATGGAAGAA
1 AATATTATATCTTGCTTAATACATTGCATTACATGCTCTCTCTTTTCTTCACTGCAATGGAAGAA
60263632 TGTACAGTTGACTTTACTAATTCAATACCATAAATTGCTTTAATTTTGCATAATTTCTTTACTTG
66 TGTACAGTTGACTTTACTAATTCAATACCATAAATTGCTTTAATTTTGCATAATTTCTTTACTTG
60263697 AGCCAATATGGTTTTGTTTTGCTGATTTCCCGTTGATCTGCAAACCGTTTGTGTTTTTTTGTGAT
131 AGCCAATATGGTTTTGTTTTGCTGATTTCCCGTTGATCTGCAAACCGTTTGTGTTTTTTTGTGAT
60263762 CTAATCTAAATTTCACAGACCCATGCCTCAATAATGAACACTCCTAGCATGCTAACACCACATGG
196 CTAATCTAAATTTCACAGACCCATGCCTCAATAATGAACACTCCTAGCATGCTAACACCACATGG
*
60263827 AGTGACACCAGCAACCAATTCAATGAATTTTCAAGAGAGAGAGTTCTCAGTTGGAAACCTTCAGT
261 AGTGACACCAGCAACCAATTCGATGAATTTTCAAGAGAGAGAGTTCTCAGTTGGAAACCTTCAGT
* *
60263892 CTCGTATGATGGTATGCATACTTTTTTGTTTAATTTAATGATATGTGTCATGTTATTATTTACTG
326 CTCCTATGATGGTATGTATACTTTTTTGTTTAATTTAATGATATGTGTCATGTTATTATTTACTG
60263957 ATAATGCTTGAAATTTATATATCGATGATTTATAAAAGAATATTACTTATAATAATTCTCTTTTC
391 ATAATGCTTGAAATTTATATATCGATGATTTATAAAAGAATATTACTTATAATAATTCTCTTTTC
60264022 TAATGCACTAGAATTTTTTTGTTTTGCTGATTGGAAAAAAGATTTTGATGCAG-TGTGTTTTTCT
456 TAATGCACTAGAATTTTTTTGTTTTGCTGATTGGAAAAAAGATTTTGATGCAGTTGTGTTTTTCT
* *
60264086 ATTCTTTTCCTTTTAATGAATTTGATTTGATCTAAATTTCACATATCTGTGCCAAAAAAGAGCAT
521 ATTCTTTTCCATTCAATG-ATTTGATTTGATCTAAATTTCACATATCTGTGCC-AAAAAGAGCAT
********************************************************
60264151 CGATNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
584 CGAT-----AACAACAGATCAATCCTAAAAGATTCCAATGAAGAGATTGGAGACTTGAGTTGAGT
*****************************************************************
60264216 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
644 CTCCAATTTTTAACTTTTTAATTTGGATTTTCAAACCTCAACAAGAGCTGTGAACCACGATACTT
*****************************************************************
60264281 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
709 TGGTATGCATTATTTTTTATTTAATTTAATGACGATGTGTCATATTATTATTTACTGATGCTTTA
*****************************************************************
60264346 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
774 TGATAATCATATAAATACCGTTCTCATCATTTATGGTTTTTCATCAGCATATCCGGGGCTTAATA
*******************************
60264411 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
839 TTGTTGATCAAAATCTTGCAGTTACTAATTC
***************************************************** * *
60264442 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCAATGGTAGTG
1 AATATTATATCTTGCTTAATACATTGCATTACATGCTCTCTCTTTTCTTCACTGCAATGGAAG-A
** *
60264507 CGGATACCTGTTGACTTTACTAATTCAATACCATAAATTGCTTTAATTTTGCATAATTTCTTTAC
65 ATG-TA-CAGTTGACTTTACTAATTCAATACCATAAATTGCTTTAATTTTGCATAATTTCTTTAC
60264572 TTGAGCCAATATGGTTTTGTTTTGCTGATTTCCCGTTGATCTGCAAACCGTTTGTGTTTTTTTGT
128 TTGAGCCAATATGGTTTTGTTTTGCTGATTTCCCGTTGATCTGCAAACCGTTTGTGTTTTTTTGT
60264637 GATCTAATCTAAATTTCACAGACCCATGCCTCAATAATGAACACTCCTAGCATGCTAACACCACA
193 GATCTAATCTAAATTTCACAGACCCATGCCTCAATAATGAACACTCCTAGCATGCTAACACCACA
*
60264702 TGGAGTGACACCAGCAACCAATTCAATGAATTTTCAAGAGAGAGAGTTCTCAGTTGGAAACCTTC
258 TGGAGTGACACCAGCAACCAATTCGATGAATTTTCAAGAGAGAGAGTTCTCAGTTGGAAACCTTC
*
60264767 AGTCTCCTATGATGGTATGTATACTTTTTTGTTTAATTTAATTATATGTGTCATGTTATTATTTA
323 AGTCTCCTATGATGGTATGTATACTTTTTTGTTTAATTTAATGATATGTGTCATGTTATTATTTA
60264832 CTGATAATGCTTGAAATTTATATATCGATGATTTATAAAAGAATATTACTTATAATAATTCTCTT
388 CTGATAATGCTTGAAATTTATATATCGATGATTTATAAAAGAATATTACTTATAATAATTCTCTT
60264897 TTCTAATGCACTAGAATTTTTTTGTTTTGCTGATTGGAAAAAAGATTTTGATGCAGTTGTGTTTT
453 TTCTAATGCACTAGAATTTTTTTGTTTTGCTGATTGGAAAAAAGATTTTGATGCAGTTGTGTTTT
* *
60264962 TCTATTCTTTTCCTTTTAATGATTTGATTTGATCTAAATTTCACATATCTGTGCCAAAAAGAGCA
518 TCTATTCTTTTCCATTCAATGATTTGATTTGATCTAAATTTCACATATCTGTGCCAAAAAGAGCA
*
60265027 TCGAT---AACAGATCAATCCTTAAAGATTCCAATGAAGAGATTGGAGACTTGAGTTGAGTCTCC
583 TCGATAACAACAGATCAATCCTAAAAGATTCCAATGAAGAGATTGGAGACTTGAGTTGAGTCTCC
*
60265089 AATCTTACTTTTAACTTTTTAATTTGGATTTTCAAACCTCAACCAGAGCTGTGAACCACGATACT
648 AA---T--TTTTAACTTTTTAATTTGGATTTTCAAACCTCAACAAGAGCTGTGAACCACGATACT
60265154 TTGGTATGCATTATTTTTTATTTAATTTAATGACGATGTGTCATATTATTATTTACTGATGCTTT
708 TTGGTATGCATTATTTTTTATTTAATTTAATGACGATGTGTCATATTATTATTTACTGATGCTTT
* *
60265219 ATGATAATCATATAAATACCATTCTCATAATTTATGGTTTTTCATCAGCATATCCGGGGCTTAAT
773 ATGATAATCATATAAATACCGTTCTCATCATTTATGGTTTTTCATCAGCATATCCGGGGCTTAAT
*
60265284 ATTGTTGATCAAAATCTTGCATTTACTAATTC
838 ATTGTTGATCAAAATCTTGCAGTTACTAATTC
60265316 AATATTATATCTTGCTTAATACATTGTTGCATTACATGCTCTCTCTTTTCTTCACTGCAATGGAA
1 AATATTATATCTTGCTTAATACA---TTGCATTACATGCTCTCTCTTTTCTTCACTGCAATGGAA
*
60265381 GAATGTACAGTTGACTTTACTAATTCAATATCATAAATTGCTTTAATTTTGCATAATTTCTTTAC
63 GAATGTACAGTTGACTTTACTAATTCAATACCATAAATTGCTTTAATTTTGCATAATTTCTTTAC
* *
60265446 TTGAGCCAATATGGTTTTGTTTTGCTGATTACCCATTGATCTGCAAACCGTTTGTGTTTTTTTGT
128 TTGAGCCAATATGGTTTTGTTTTGCTGATTTCCCGTTGATCTGCAAACCGTTTGTGTTTTTTTGT
* *
60265511 GATCTAATCTAAATTTCACAGACACATGCCTCGATAATGAACACTCCTAGCATGCTAACACCACA
193 GATCTAATCTAAATTTCACAGACCCATGCCTCAATAATGAACACTCCTAGCATGCTAACACCACA
60265576 TGGAGTGACACCAGCAACCAATTCGATGAATTTTCAAGAGAGAGAGTTCTCAGTTGGAAACCTTC
258 TGGAGTGACACCAGCAACCAATTCGATGAATTTTCAAGAGAGAGAGTTCTCAGTTGGAAACCTTC
60265641 AGTCTCCTATGATGGTATGTATACTTTTTTGTTTAATTTAATGATATGTGTCATGTTATTATTTA
323 AGTCTCCTATGATGGTATGTATACTTTTTTGTTTAATTTAATGATATGTGTCATGTTATTATTTA
60265706 CTGATAATGCTTGAAATTTATATATCGATGATTTATAAAAGAATATTACTTATAATAATTCTCTT
388 CTGATAATGCTTGAAATTTATATATCGATGATTTATAAAAGAATATTACTTATAATAATTCTCTT
* * **
60265771 TTCTAATGCACTAGAATTTTTTTGTTTTGCTGATTGGAAAAAGGATTTTGATGGAACTGTGTTTT
453 TTCTAATGCACTAGAATTTTTTTGTTTTGCTGATTGGAAAAAAGATTTTGATGCAGTTGTGTTTT
60265836 TCTATTCTTTTCCATTCAATGATTTGATTTGATCTAAATTTCACATATCTGTGCCAAAAAGAGCA
518 TCTATTCTTTTCCATTCAATGATTTGATTTGATCTAAATTTCACATATCTGTGCCAAAAAGAGCA
*
60265901 TCGATAACAACAGATCAATCCTAAAAGATTCCAATGAAGAGATTGGAGACTTGAGTTAAGTCTCC
583 TCGATAACAACAGATCAATCCTAAAAGATTCCAATGAAGAGATTGGAGACTTGAGTTGAGTCTCC
60265966 AATTTTTAACTTTTTAATTTGGATTTTCAAACCTCAACAAGAGCTGTGAACCACGATACTTTGGT
648 AATTTTTAACTTTTTAATTTGGATTTTCAAACCTCAACAAGAGCTGTGAACCACGATACTTTGGT
60266031 ATGCATTATTTTTTATTTAATTTAATGACGATGTGTCATATTATTATTTACTGATGCTTTATGAT
713 ATGCATTATTTTTTATTTAATTTAATGACGATGTGTCATATTATTATTTACTGATGCTTTATGAT
60266096 AATCATATAAATACCGTTCTCATCATTTATGGTTTTTCATCAGCATATCCGGGGCTTAATATTGT
778 AATCATATAAATACCGTTCTCATCATTTATGGTTTTTCATCAGCATATCCGGGGCTTAATATTGT
60266161 TGATCAAAATCTTGCAGTTACTAATTC
843 TGATCAAAATCTTGCAGTTACTAATTC
60266188 AATATTATATCTTGCTTAATACATTGCATTACATGCTCTCTCTTTTCTTCACTGCAATGGAAGAA
1 AATATTATATCTTGCTTAATACATTGCATTACATGCTCTCTCTTTTCTTCACTGCAATGGAAGAA
60266253 TGTACAGTTGACTTTACTAATTCAATACCATAAATTGCTTTAATTTTGCATAATTTCTTTACTTG
66 TGTACAGTTGACTTTACTAATTCAATACCATAAATTGCTTTAATTTTGCATAATTTCTTTACTTG
*
60266318 AGCCAATATGGTTTTGTTTGGCTGATTTCCCGTTGATCTGCAAACCGTTTGTGTTTTTTTGTGAT
131 AGCCAATATGGTTTTGTTTTGCTGATTTCCCGTTGATCTGCAAACCGTTTGTGTTTTTTTGTGAT
60266383 CTAATCTAAATTTCACAGACCCATGCCTCAATAATGAACACTCCTAGCATGCTAACACCACATGG
196 CTAATCTAAATTTCACAGACCCATGCCTCAATAATGAACACTCCTAGCATGCTAACACCACATGG
** *
60266448 AGTGGGACCAACAACCAATTCGATGAATTTTCAAGAGAGAGAGTTCTCAGTTGGAAACCTTCAGT
261 AGTGACACCAGCAACCAATTCGATGAATTTTCAAGAGAGAGAGTTCTCAGTTGGAAACCTTCAGT
* * *
60266513 CTCGTATGATGGTATGCATACTTTTTTGTTTAATTTAATGATACGTGTCATGTTATTATTTACTG
326 CTCCTATGATGGTATGTATACTTTTTTGTTTAATTTAATGATATGTGTCATGTTATTATTTACTG
* * *** *
60266578 ATAATGCATGAAATTTATATATCAATGATACGTAAAAGAATATTACTTACAATAATTCTCTTTTC
391 ATAATGCTTGAAATTTATATATCGATGATTTATAAAAGAATATTACTTATAATAATTCTCTTTTC
* *
60266643 TGATGCACTAGAATTTTTTTGTTTTGCTGATTGGAAAGAAGATTTTGATGCAGTTGTGTTTTTCT
456 TAATGCACTAGAATTTTTTTGTTTTGCTGATTGGAAAAAAGATTTTGATGCAGTTGTGTTTTTCT
*
60266708 GTTCTTT
521 ATTCTTT
60266715 CCGTCTCATG
Statistics
Matches: 2388, Mismatches: 737, Indels: 50
0.75 0.23 0.02
Matches are distributed among these distances:
869 506 0.21
870 508 0.21
871 15 0.01
872 238 0.10
873 22 0.01
874 505 0.21
875 11 0.00
876 2 0.00
877 83 0.03
878 469 0.20
879 29 0.01
ACGTcount: A:0.27, C:0.15, G:0.13, T:0.37
Consensus pattern (869 bp):
AATATTATATCTTGCTTAATACATTGCATTACATGCTCTCTCTTTTCTTCACTGCAATGGAAGAA
TGTACAGTTGACTTTACTAATTCAATACCATAAATTGCTTTAATTTTGCATAATTTCTTTACTTG
AGCCAATATGGTTTTGTTTTGCTGATTTCCCGTTGATCTGCAAACCGTTTGTGTTTTTTTGTGAT
CTAATCTAAATTTCACAGACCCATGCCTCAATAATGAACACTCCTAGCATGCTAACACCACATGG
AGTGACACCAGCAACCAATTCGATGAATTTTCAAGAGAGAGAGTTCTCAGTTGGAAACCTTCAGT
CTCCTATGATGGTATGTATACTTTTTTGTTTAATTTAATGATATGTGTCATGTTATTATTTACTG
ATAATGCTTGAAATTTATATATCGATGATTTATAAAAGAATATTACTTATAATAATTCTCTTTTC
TAATGCACTAGAATTTTTTTGTTTTGCTGATTGGAAAAAAGATTTTGATGCAGTTGTGTTTTTCT
ATTCTTTTCCATTCAATGATTTGATTTGATCTAAATTTCACATATCTGTGCCAAAAAGAGCATCG
ATAACAACAGATCAATCCTAAAAGATTCCAATGAAGAGATTGGAGACTTGAGTTGAGTCTCCAAT
TTTTAACTTTTTAATTTGGATTTTCAAACCTCAACAAGAGCTGTGAACCACGATACTTTGGTATG
CATTATTTTTTATTTAATTTAATGACGATGTGTCATATTATTATTTACTGATGCTTTATGATAAT
CATATAAATACCGTTCTCATCATTTATGGTTTTTCATCAGCATATCCGGGGCTTAATATTGTTGA
TCAAAATCTTGCAGTTACTAATTC
Found at i:60272778 original size:15 final size:15
Alignment explanation
Indices: 60272758--60272791 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
60272748 ACAACTTAAA
*
60272758 TTTTCAATACCTATT
1 TTTTCAACACCTATT
*
60272773 TTTTCAACACTTATT
1 TTTTCAACACCTATT
60272788 TTTT
1 TTTT
60272792 TTTAATACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTCAACACCTATT
Found at i:60272794 original size:18 final size:18
Alignment explanation
Indices: 60272771--60272808 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
60272761 TCAATACCTA
*
60272771 TTTTTTCAACACTT-ATT
1 TTTTTTTAACACTTAATT
*
60272788 TTTTTTTAATACTTAATT
1 TTTTTTTAACACTTAATT
60272806 TTT
1 TTT
60272809 AAGTTTATCG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 12 0.67
18 6 0.33
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.66
Consensus pattern (18 bp):
TTTTTTTAACACTTAATT
Found at i:60275884 original size:36 final size:36
Alignment explanation
Indices: 60275832--60275900 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
60275822 CAAAGGCTAC
* *
60275832 AATTAAAAGCTGTATACAATTAGAACTTTAAGACAT
1 AATTAAAAGCTATATACAATTAGAACTCTAAGACAT
*
60275868 AATTAGAAGCTATATACAATTAGAACTCTAAGA
1 AATTAAAAGCTATATACAATTAGAACTCTAAGA
60275901 TTAAATAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.29
Consensus pattern (36 bp):
AATTAAAAGCTATATACAATTAGAACTCTAAGACAT
Found at i:60275890 original size:17 final size:17
Alignment explanation
Indices: 60275829--60275892 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
60275819 CATCAAAGGC
* *
60275829 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTATA
*
60275846 TACAATTAGAA-CTTTAA
1 TACAATTAGAAGCTAT-A
*
60275863 GACATAATTAGAAGCTATA
1 TAC--AATTAGAAGCTATA
60275882 TACAATTAGAA
1 TACAATTAGAA
60275893 CTCTAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.48, C:0.11, G:0.11, T:0.30
Consensus pattern (17 bp):
TACAATTAGAAGCTATA
Found at i:60280994 original size:19 final size:17
Alignment explanation
Indices: 60280968--60281021 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
60280958 AAAGCTGTAT
60280968 ACAATTAGAACTCTAAG
1 ACAATTAGAACTCTAAG
* *
60280985 ACATAATTAGAA-GCTATAT
1 AC--AATTAGAACTCTA-AG
60281004 ACAATTAGAACTCTAAG
1 ACAATTAGAACTCTAAG
60281021 A
1 A
60281022 TTAAATAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
17 12 0.41
18 6 0.21
19 11 0.38
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (17 bp):
ACAATTAGAACTCTAAG
Found at i:60281005 original size:36 final size:36
Alignment explanation
Indices: 60280953--60281021 Score: 120
Period size: 36 Copynumber: 1.9 Consensus size: 36
60280943 CAAAGGCTAC
*
60280953 AATTAAAAGCTGTATACAATTAGAACTCTAAGACAT
1 AATTAAAAGCTATATACAATTAGAACTCTAAGACAT
*
60280989 AATTAGAAGCTATATACAATTAGAACTCTAAGA
1 AATTAAAAGCTATATACAATTAGAACTCTAAGA
60281022 TTAAATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.28
Consensus pattern (36 bp):
AATTAAAAGCTATATACAATTAGAACTCTAAGACAT
Found at i:60281011 original size:17 final size:17
Alignment explanation
Indices: 60280950--60281013 Score: 58
Period size: 17 Copynumber: 3.6 Consensus size: 17
60280940 CATCAAAGGC
* *
60280950 TACAATTAAAAGCTGTA
1 TACAATTAGAAGCTATA
*
60280967 TACAATTAGAA-CTCTAA
1 TACAATTAGAAGCTAT-A
*
60280984 GACATAATTAGAAGCTATA
1 TAC--AATTAGAAGCTATA
60281003 TACAATTAGAA
1 TACAATTAGAA
60281014 CTCTAAGATT
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
16 3 0.08
17 21 0.55
19 11 0.29
20 3 0.08
ACGTcount: A:0.48, C:0.12, G:0.11, T:0.28
Consensus pattern (17 bp):
TACAATTAGAAGCTATA
Found at i:60282192 original size:9 final size:9
Alignment explanation
Indices: 60282178--60282281 Score: 147
Period size: 9 Copynumber: 11.4 Consensus size: 9
60282168 TTTGGTTAAA
60282178 AATTACCCG
1 AATTACCCG
60282187 AATTACCCG
1 AATTACCCG
60282196 AATTACCCG
1 AATTACCCG
60282205 AATTACCCG
1 AATTACCCG
60282214 AATTACCCG
1 AATTACCCG
*
60282223 AATTAACCG
1 AATTACCCG
60282232 AATTACCCG
1 AATTACCCG
**
60282241 AATTAATCG
1 AATTACCCG
60282250 AATTA-CCG
1 AATTACCCG
*
60282258 AAAAATACCCG
1 --AATTACCCG
60282269 AATTACCCG
1 AATTACCCG
60282278 AATT
1 AATT
60282282 TTTTTATTTT
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
8 2 0.02
9 76 0.89
10 4 0.05
11 3 0.04
ACGTcount: A:0.38, C:0.28, G:0.11, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:60282649 original size:18 final size:18
Alignment explanation
Indices: 60282594--60282640 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
60282584 AACCGACCGA
60282594 TTAACCGAATTCGGTCGG
1 TTAACCGAATTCGGTCGG
60282612 TTAACCGAATTCGGTCGG
1 TTAACCGAATTCGGTCGG
60282630 TTAACCGAATT
1 TTAACCGAATT
60282641 TTTTCGGTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.30
Consensus pattern (18 bp):
TTAACCGAATTCGGTCGG
Found at i:60283259 original size:4 final size:4
Alignment explanation
Indices: 60283250--60283333 Score: 168
Period size: 4 Copynumber: 21.0 Consensus size: 4
60283240 CATCTTGATC
60283250 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
60283298 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
60283334 TTATTCTTAC
Statistics
Matches: 80, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 80 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:60295217 original size:13 final size:13
Alignment explanation
Indices: 60295199--60295231 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
60295189 ACGATTTTTT
60295199 CTAAATATTATCA
1 CTAAATATTATCA
60295212 CTAAATATTATCA
1 CTAAATATTATCA
60295225 CTAAATA
1 CTAAATA
60295232 ATTCGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:60305747 original size:19 final size:19
Alignment explanation
Indices: 60305725--60305797 Score: 71
Period size: 20 Copynumber: 3.8 Consensus size: 19
60305715 TTTTAAAAAG
60305725 TATAAAT-TTTTAGAATTTT
1 TATAAATATTTT-GAATTTT
60305744 TATAAATATTTTGAA-TTT
1 TATAAATATTTTGAATTTT
* *
60305762 TAAAAATTATTTTCAATTTT
1 TATAAA-TATTTTGAATTTT
60305782 TGA-AAATTATTTTGAA
1 T-ATAAA-TATTTTGAA
60305798 ATTTGAATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
18 8 0.17
19 18 0.38
20 20 0.43
21 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.05, T:0.53
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:60305804 original size:19 final size:19
Alignment explanation
Indices: 60305728--60305804 Score: 77
Period size: 19 Copynumber: 4.1 Consensus size: 19
60305718 TAAAAAGTAT
* *
60305728 AAATT-TTTAGAATTTTTA
1 AAATTATTTTGAATTTTGA
*
60305746 TAAA-TATTTTGAATTTTAA
1 -AAATTATTTTGAATTTTGA
*
60305765 AAATTATTTTCAATTTTTGA
1 AAATTATTTTGAA-TTTTGA
*
60305785 AAATTATTTTGAAATTTGA
1 AAATTATTTTGAATTTTGA
60305804 A
1 A
60305805 TTTTTATTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
18 4 0.08
19 28 0.57
20 17 0.35
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.52
Consensus pattern (19 bp):
AAATTATTTTGAATTTTGA
Found at i:60310163 original size:94 final size:93
Alignment explanation
Indices: 60310056--60310247 Score: 305
Period size: 93 Copynumber: 2.1 Consensus size: 93
60310046 GTCCTGAAAA
*
60310056 ATCAAATT-AAAAAAAATTAAATTAGAGATTTAGATCATGAAATTGAACTTAGTAAATAAATTCC
1 ATCAAATTAAAAAAAAATTAAATTAGAGATTTAGATCATG-AATTAAACTTAGTAAATAAATT-C
* *
60310120 TAATAATTTAGGTACCTCTGATAGTTGTGG
64 TAATAATTTACGTACCTCTGATAGTTGTCG
*
60310150 ATCAAATTTAAAAAAAATTAAATTAGAGATTTAGATCATGAATTAAACTTAGTAAATAAATTCTA
1 ATCAAATTAAAAAAAAATTAAATTAGAGATTTAGATCATGAATTAAACTTAGTAAATAAATTCTA
* *
60310215 ATGATTTACGTACCTCTGATCGTTGTCG
66 ATAATTTACGTACCTCTGATAGTTGTCG
60310243 ATCAA
1 ATCAA
60310248 GTCGCCGCTC
Statistics
Matches: 92, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
93 32 0.35
94 29 0.32
95 31 0.34
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.34
Consensus pattern (93 bp):
ATCAAATTAAAAAAAAATTAAATTAGAGATTTAGATCATGAATTAAACTTAGTAAATAAATTCTA
ATAATTTACGTACCTCTGATAGTTGTCG
Found at i:60310246 original size:93 final size:94
Alignment explanation
Indices: 60310056--60310247 Score: 316
Period size: 95 Copynumber: 2.1 Consensus size: 94
60310046 GTCCTGAAAA
*
60310056 ATCAAATTAAAAAAAATTAAATTAGAGATTTAGATCATGAAATTGAACTTAGTAAATAAATTCCT
1 ATCAAATTAAAAAAAATTAAATTAGAGATTTAGATCATGAAATTAAACTTAGTAAATAAATTCCT
* *
60310121 AATAATTTAGGTACCTCTGATAGTTGTGG
66 AATAATTTACGTACCTCTGATAGTTGTCG
60310150 ATCAAATTTAAAAAAAATTAAATTAGAGATTTAGATCATG-AATTAAACTTAGTAAATAAATT-C
1 ATCAAA-TTAAAAAAAATTAAATTAGAGATTTAGATCATGAAATTAAACTTAGTAAATAAATTCC
* *
60310213 TAATGATTTACGTACCTCTGATCGTTGTCG
65 TAATAATTTACGTACCTCTGATAGTTGTCG
60310243 ATCAA
1 ATCAA
60310248 GTCGCCGCTC
Statistics
Matches: 92, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
93 32 0.35
94 27 0.29
95 33 0.36
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.34
Consensus pattern (94 bp):
ATCAAATTAAAAAAAATTAAATTAGAGATTTAGATCATGAAATTAAACTTAGTAAATAAATTCCT
AATAATTTACGTACCTCTGATAGTTGTCG
Found at i:60318779 original size:61 final size:59
Alignment explanation
Indices: 60318674--60318786 Score: 158
Period size: 61 Copynumber: 1.9 Consensus size: 59
60318664 AATAGTCACA
*
60318674 CAATTATTAGTAAATTTAATTTTGGTTGTTCAATTATGAAAAGTTATAAAATGGTCTTT
1 CAATTATTAGTAAATTTAATTTTGGTTGGTCAATTATGAAAAGTTATAAAATGGTCTTT
*
60318733 CAATTATTAGTAAATTT-ATTTT-TTTGGTCACTTATCTATGAAAAGTTATAAAAT
1 CAATTATTAGTAAATTTAATTTTGGTTGGTCA---AT-TATGAAAAGTTATAAAAT
60318787 ATCACTCAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
57 6 0.12
58 5 0.10
59 17 0.35
60 2 0.04
61 18 0.38
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.46
Consensus pattern (59 bp):
CAATTATTAGTAAATTTAATTTTGGTTGGTCAATTATGAAAAGTTATAAAATGGTCTTT
Found at i:60323850 original size:46 final size:46
Alignment explanation
Indices: 60323783--60323878 Score: 192
Period size: 46 Copynumber: 2.1 Consensus size: 46
60323773 GATTTTCAGG
60323783 ATTCAACAAAAGCAGGGAACCTTGATGCAGTCTTCACGGTATGTAT
1 ATTCAACAAAAGCAGGGAACCTTGATGCAGTCTTCACGGTATGTAT
60323829 ATTCAACAAAAGCAGGGAACCTTGATGCAGTCTTCACGGTATGTAT
1 ATTCAACAAAAGCAGGGAACCTTGATGCAGTCTTCACGGTATGTAT
60323875 ATTC
1 ATTC
60323879 GAATTTAAGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (46 bp):
ATTCAACAAAAGCAGGGAACCTTGATGCAGTCTTCACGGTATGTAT
Found at i:60326241 original size:169 final size:169
Alignment explanation
Indices: 60325959--60326292 Score: 632
Period size: 169 Copynumber: 2.0 Consensus size: 169
60325949 TTTTGGAAAT
60325959 CAAAGGTGGCTGCTGAGCTCTCATGTTTTGCAGTTGCAGTTGCCGCAAAATCTTTGGTAAGTCAC
1 CAAAGGTGGCTGCTGAGCTCTCATGTTTTGCAGTTGCAGTTGCCGCAAAATCTTTGGTAAGTCAC
* *
60326024 CATTAGAGTTGAGCTTTCTTGCATTTGAGCGTTTTATGTTTACTTTTCTTTAAGACTATGGTTTT
66 CATTAGAGTTGAGCTTTCTTGCATTTGAGCGTTTTATGTTTACTTTTCTCTAAGACAATGGTTTT
60326089 TTGGTATGAAATCGTGTGTTTGTATTGTATTTTGCTTTC
131 TTGGTATGAAATCGTGTGTTTGTATTGTATTTTGCTTTC
*
60326128 CAAAGGTGGCTGCTGAGCTCTCATGTTTTGCAGTTGCAGTTGCCGCAAAATCTTTTGTAAGTCAC
1 CAAAGGTGGCTGCTGAGCTCTCATGTTTTGCAGTTGCAGTTGCCGCAAAATCTTTGGTAAGTCAC
*
60326193 CATTAGAGTTGAGCTTTCTTGCATTTGAGCGTTTTATGTTTCCTTTTCTCTAAGACAATGGTTTT
66 CATTAGAGTTGAGCTTTCTTGCATTTGAGCGTTTTATGTTTACTTTTCTCTAAGACAATGGTTTT
60326258 TTGGTATGAAATCGTGTGTTTGTATTGTATTTTGC
131 TTGGTATGAAATCGTGTGTTTGTATTGTATTTTGC
60326293 ATTTTATGTT
Statistics
Matches: 161, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
169 161 1.00
ACGTcount: A:0.19, C:0.15, G:0.22, T:0.43
Consensus pattern (169 bp):
CAAAGGTGGCTGCTGAGCTCTCATGTTTTGCAGTTGCAGTTGCCGCAAAATCTTTGGTAAGTCAC
CATTAGAGTTGAGCTTTCTTGCATTTGAGCGTTTTATGTTTACTTTTCTCTAAGACAATGGTTTT
TTGGTATGAAATCGTGTGTTTGTATTGTATTTTGCTTTC
Found at i:60329135 original size:17 final size:17
Alignment explanation
Indices: 60329095--60329141 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
60329085 CTACAAATGA
60329095 TTTAAAATTTATAAAAT
1 TTTAAAATTTATAAAAT
** *
60329112 TAAAAAATTTCTAAAAT
1 TTTAAAATTTATAAAAT
*
60329129 TTTAAAATATATA
1 TTTAAAATTTATA
60329142 TTGAAAAATC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (17 bp):
TTTAAAATTTATAAAAT
Found at i:60331851 original size:6 final size:6
Alignment explanation
Indices: 60331840--60331885 Score: 67
Period size: 6 Copynumber: 7.8 Consensus size: 6
60331830 ACTTAATCTA
* *
60331840 TTTTGT TTTTGT TTTTGT TTTTGT TTTT-T TTTTTT TTTTGT ATTTG
1 TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTGT TTTTG
60331886 AATTTGAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
5 5 0.14
6 32 0.86
ACGTcount: A:0.02, C:0.00, G:0.13, T:0.85
Consensus pattern (6 bp):
TTTTGT
Found at i:60331871 original size:23 final size:23
Alignment explanation
Indices: 60331840--60331885 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
60331830 ACTTAATCTA
*
60331840 TTTTGTTTTTGTTTTTGTTTTTG
1 TTTTGTTTTTGTTTTTGTATTTG
* *
60331863 TTTTTTTTTTTTTTTTGTATTTG
1 TTTTGTTTTTGTTTTTGTATTTG
60331886 AATTTGAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.02, C:0.00, G:0.13, T:0.85
Consensus pattern (23 bp):
TTTTGTTTTTGTTTTTGTATTTG
Found at i:60332896 original size:42 final size:42
Alignment explanation
Indices: 60332850--60332930 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
60332840 GGAAAGGAAT
*
60332850 GACAAAAAGTCAGATATGGAATTAGTGCACGCCAAGCAAAGG
1 GACAAAAAGTCAGATATGGAATTAGTGCACACCAAGCAAAGG
60332892 GACAAAAAGTCAGATATGGAATTAGTGCACACCAAGCAA
1 GACAAAAAGTCAGATATGGAATTAGTGCACACCAAGCAA
60332931 TGGCCAGTGC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.44, C:0.17, G:0.23, T:0.15
Consensus pattern (42 bp):
GACAAAAAGTCAGATATGGAATTAGTGCACACCAAGCAAAGG
Found at i:60343120 original size:22 final size:22
Alignment explanation
Indices: 60343071--60343125 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
60343061 TTTAATTAAA
* * * *
60343071 ATTAAATTTAAAATTATTTTTT
1 ATTAAAATTAAAACTAATTGTT
*
60343093 AATAAAATTAAAACTAATTGTT
1 ATTAAAATTAAAACTAATTGTT
60343115 ATTAAAATTAA
1 ATTAAAATTAA
60343126 TTGTTAGTAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTAAAATTAAAACTAATTGTT
Found at i:60343138 original size:16 final size:16
Alignment explanation
Indices: 60343101--60343140 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
60343091 TTAATAAAAT
* *
60343101 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
60343117 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
60343133 TAAAATTA
1 TAAAATTA
60343141 TTAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:60343168 original size:16 final size:16
Alignment explanation
Indices: 60343147--60343189 Score: 77
Period size: 16 Copynumber: 2.7 Consensus size: 16
60343137 ATTATTAAAT
60343147 TATTAATTGTTAATTG
1 TATTAATTGTTAATTG
*
60343163 TATTAATTATTAATTG
1 TATTAATTGTTAATTG
60343179 TATTAATTGTT
1 TATTAATTGTT
60343190 GTAATAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (16 bp):
TATTAATTGTTAATTG
Found at i:60343172 original size:23 final size:25
Alignment explanation
Indices: 60343139--60343188 Score: 77
Period size: 23 Copynumber: 2.0 Consensus size: 25
60343129 TTAGTAAAAT
60343139 TATTAAATTATTAATTG-TTAATTG
1 TATTAAATTATTAATTGATTAATTG
60343163 TATT-AATTATTAATTGTATTAATTG
1 TATTAAATTATTAATTG-ATTAATTG
60343188 T
1 T
60343189 TGTAATAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 12 0.50
24 4 0.17
25 8 0.33
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (25 bp):
TATTAAATTATTAATTGATTAATTG
Found at i:60343194 original size:9 final size:9
Alignment explanation
Indices: 60343147--60343188 Score: 56
Period size: 9 Copynumber: 5.1 Consensus size: 9
60343137 ATTATTAAAT
60343147 TATTAATTG
1 TATTAATTG
60343156 --TTAATTG
1 TATTAATTG
60343163 TATTAA-T-
1 TATTAATTG
60343170 TATTAATTG
1 TATTAATTG
60343179 TATTAATTG
1 TATTAATTG
60343188 T
1 T
60343189 TGTAATAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
7 13 0.45
8 2 0.07
9 14 0.48
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:60343384 original size:22 final size:24
Alignment explanation
Indices: 60343344--60343387 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
60343334 AAATAAACTT
60343344 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
60343368 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
60343388 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:60349389 original size:30 final size:30
Alignment explanation
Indices: 60349355--60349433 Score: 122
Period size: 30 Copynumber: 2.5 Consensus size: 30
60349345 AGGAAATAGT
60349355 TAAAATTTAAATTTAATAAAATAAATTTAA
1 TAAAATTTAAATTTAATAAAATAAATTTAA
60349385 TAAAATTTAAATTTAATAAAATAAATTTAA
1 TAAAATTTAAATTTAATAAAATAAATTTAA
*
60349415 TGATAATAATTAAATTTAA
1 T-A-AA-ATTTAAATTTAA
60349434 ATTTTTAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
30 31 0.69
31 1 0.02
32 2 0.04
33 11 0.24
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (30 bp):
TAAAATTTAAATTTAATAAAATAAATTTAA
Found at i:60349410 original size:20 final size:19
Alignment explanation
Indices: 60349357--60349437 Score: 63
Period size: 14 Copynumber: 4.6 Consensus size: 19
60349347 GAAATAGTTA
60349357 AAATTTAAATTTAAT--A-
1 AAATTTAAATTTAATAAAT
60349373 AAA--TAAATTTAAT--A-
1 AAATTTAAATTTAATAAAT
60349387 AAATTTAAATTTAATAAAAT
1 AAATTTAAATTTAAT-AAAT
* *
60349407 AAATTT-AATGATAATAATT
1 AAATTTAAAT-TTAATAAAT
60349426 AAATTTAAATTT
1 AAATTTAAATTT
60349438 TTAATTTTGA
Statistics
Matches: 54, Mismatches: 3, Indels: 13
0.77 0.04 0.19
Matches are distributed among these distances:
14 14 0.26
16 13 0.24
19 14 0.26
20 13 0.24
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (19 bp):
AAATTTAAATTTAATAAAT
Found at i:60349425 original size:14 final size:14
Alignment explanation
Indices: 60349362--60349415 Score: 90
Period size: 14 Copynumber: 3.7 Consensus size: 14
60349352 AGTTAAAATT
60349362 TAAATTTAATAAAA
1 TAAATTTAATAAAA
60349376 TAAATTTAATAAAA
1 TAAATTTAATAAAA
60349390 TTTAAATTTAATAAAA
1 --TAAATTTAATAAAA
60349406 TAAATTTAAT
1 TAAATTTAAT
60349416 GATAATAATT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
14 24 0.63
16 14 0.37
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAATTTAATAAAA
Found at i:60352490 original size:34 final size:34
Alignment explanation
Indices: 60352452--60352604 Score: 100
Period size: 34 Copynumber: 4.4 Consensus size: 34
60352442 ACAAATAAAA
60352452 TTATATTATTAATTTAAAAAATACAAAGAAATAT
1 TTATATTATTAATTTAAAAAATACAAAGAAATAT
* * * ****
60352486 TTATATTATTAATTTATATAATA-TAATTTTTAT
1 TTATATTATTAATTTAAAAAATACAAAGAAATAT
*** *
60352519 ATTAT-TTATATAATTT-TGTAATCGCGACAAATAAA-A-
1 -TTATATTAT-TAATTTAAAAAAT----ACAAAGAAATAT
60352555 TTATATTATTAATTTAAAAAATACAAAGAAATAT
1 TTATATTATTAATTTAAAAAATACAAAGAAATAT
*
60352589 TTATATAATATAATTT
1 TTATATTAT-TAATTT
60352605 TTTAAATCCT
Statistics
Matches: 90, Mismatches: 17, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
32 8 0.09
33 15 0.17
34 39 0.43
35 16 0.18
36 7 0.08
37 2 0.02
38 3 0.03
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (34 bp):
TTATATTATTAATTTAAAAAATACAAAGAAATAT
Found at i:60356931 original size:13 final size:14
Alignment explanation
Indices: 60356886--60356938 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
60356876 AAAAATAATC
60356886 AATACTTTTTATAT
1 AATACTTTTTATAT
* * *
60356900 AATATTTTTTCAAAA
1 AATACTTTTT-ATAT
60356915 AATA-TTTTTATAT
1 AATACTTTTTATAT
60356928 AATA-TTTTTAT
1 AATACTTTTTAT
60356939 TATTTTAGAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
13 13 0.39
14 14 0.42
15 6 0.18
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (14 bp):
AATACTTTTTATAT
Found at i:60357738 original size:22 final size:22
Alignment explanation
Indices: 60357713--60357754 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
60357703 TTTTAACACA
* *
60357713 AATTTTTTTAGCTTTATCTCTC
1 AATTTTATAAGCTTTATCTCTC
*
60357735 AATTTTATAATCTTTATCTC
1 AATTTTATAAGCTTTATCTC
60357755 GTTTCTCTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.24, C:0.17, G:0.02, T:0.57
Consensus pattern (22 bp):
AATTTTATAAGCTTTATCTCTC
Found at i:60360461 original size:17 final size:19
Alignment explanation
Indices: 60360438--60360486 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
60360428 CCTATCCCGA
60360438 AATATTAAATAATTTTT-T
1 AATATTAAATAATTTTTAT
*
60360456 -ATATTACATTAATTTTTAT
1 AATATTA-AATAATTTTTAT
*
60360475 AAAATTAAATAA
1 AATATTAAATAA
60360487 AATACATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 6 0.24
18 9 0.36
19 5 0.20
20 5 0.20
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
AATATTAAATAATTTTTAT
Found at i:60363733 original size:105 final size:104
Alignment explanation
Indices: 60363544--60363746 Score: 291
Period size: 105 Copynumber: 1.9 Consensus size: 104
60363534 ATTCAAAAAA
* *
60363544 AAAAATGGAATCGATGAGCAAAAGGCGATCAATGGACCTTAGAGCAGCGACAAAGGCATCGATAA
1 AAAAATGGAATCGATGAGCAAAAAGCGATCAAGGGACCTTAGAGCAGCGACAAAGGCATCGATAA
*
60363609 ACAACGTAAACTCAAAAACAAATACAAGAAAAAAAAATT
66 ACAACGTAAACACAAAAACAAATACAAGAAAAAAAAATT
* * * * *
60363648 AAAAATGGAATTGATTAGCGAAAAAGTGATCAAGGGAGCTTAGATCAGCGACAAAGGCATCGATA
1 AAAAATGGAATCGATGAGC-AAAAAGCGATCAAGGGACCTTAGAGCAGCGACAAAGGCATCGATA
* *
60363713 AACAACGTAAA-ACACGAAACAAATTCAAGAAAAA
65 AACAACGTAAACACA-AAAACAAATACAAGAAAAA
60363747 TAATAAAATT
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
104 19 0.22
105 68 0.78
ACGTcount: A:0.51, C:0.15, G:0.19, T:0.14
Consensus pattern (104 bp):
AAAAATGGAATCGATGAGCAAAAAGCGATCAAGGGACCTTAGAGCAGCGACAAAGGCATCGATAA
ACAACGTAAACACAAAAACAAATACAAGAAAAAAAAATT
Found at i:60364176 original size:15 final size:15
Alignment explanation
Indices: 60364139--60364177 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
60364129 AAATTAGGAT
60364139 GATGGAAAATTGAAG
1 GATGGAAAATTGAAG
*
60364154 GGTGGAAAACTTGAAG
1 GATGGAAAA-TTGAAG
60364170 GAT-GAAAA
1 GATGGAAAA
60364178 ACATAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 13 0.62
16 8 0.38
ACGTcount: A:0.46, C:0.03, G:0.33, T:0.18
Consensus pattern (15 bp):
GATGGAAAATTGAAG
Found at i:60364178 original size:16 final size:16
Alignment explanation
Indices: 60364139--60364179 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
60364129 AAATTAGGAT
60364139 GATGGAAAA-TTGAAG
1 GATGGAAAACTTGAAG
*
60364154 GGTGGAAAACTTGAAG
1 GATGGAAAACTTGAAG
*
60364170 GATGAAAAAC
1 GATGGAAAAC
60364180 ATAAATTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.46, C:0.05, G:0.32, T:0.17
Consensus pattern (16 bp):
GATGGAAAACTTGAAG
Found at i:60365264 original size:15 final size:17
Alignment explanation
Indices: 60365224--60365260 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
60365214 ATAAAATAAT
60365224 AATATTTAATATTAAAA
1 AATATTTAATATTAAAA
60365241 AATATTTAATATTAAAA
1 AATATTTAATATTAAAA
60365258 AAT
1 AAT
60365261 TTAAAGCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AATATTTAATATTAAAA
Found at i:60365893 original size:21 final size:21
Alignment explanation
Indices: 60365863--60365902 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60365853 TCCATGTAGA
*
60365863 TATTAGATTAAACATTAAATT
1 TATTAAATTAAACATTAAATT
*
60365884 TATTAAATTAAATATTAAA
1 TATTAAATTAAACATTAAA
60365903 ATTAAACTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (21 bp):
TATTAAATTAAACATTAAATT
Found at i:60365917 original size:13 final size:12
Alignment explanation
Indices: 60365862--60365927 Score: 50
Period size: 12 Copynumber: 5.6 Consensus size: 12
60365852 TTCCATGTAG
*
60365862 ATATTAGATTAA
1 ATATTAAATTAA
*
60365874 ACATTAAATT--
1 ATATTAAATTAA
60365884 -TATTAAATTAA
1 ATATTAAATTAA
60365895 ATATTAAAATTAA
1 ATATT-AAATTAA
*
60365908 ACTGTTAAA-TAA
1 A-TATTAAATTAA
60365920 TATATTAA
1 -ATATTAA
60365928 TACTTAATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
9 8 0.19
12 20 0.47
13 12 0.28
14 3 0.07
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.41
Consensus pattern (12 bp):
ATATTAAATTAA
Found at i:60368142 original size:2 final size:2
Alignment explanation
Indices: 60368135--60368160 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
60368125 CTAATAAATA
60368135 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
60368161 TAGAAATTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60369388 original size:2 final size:2
Alignment explanation
Indices: 60369381--60369418 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
60369371 TCATTGCAGA
60369381 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
60369419 AATTTGGGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60370347 original size:15 final size:15
Alignment explanation
Indices: 60370327--60370360 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
60370317 GAATTAGTTC
60370327 TATTCTATGTTCAAA
1 TATTCTATGTTCAAA
*
60370342 TATTCTATGTTCATA
1 TATTCTATGTTCAAA
60370357 TATT
1 TATT
60370361 GCACACACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.53
Consensus pattern (15 bp):
TATTCTATGTTCAAA
Found at i:60372516 original size:2 final size:2
Alignment explanation
Indices: 60372511--60372535 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
60372501 TGTTTTTTTT
60372511 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
60372536 TAAGCTGCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:60377783 original size:174 final size:173
Alignment explanation
Indices: 60377445--60377823 Score: 514
Period size: 174 Copynumber: 2.2 Consensus size: 173
60377435 AGGTTTTTTT
* *
60377445 ATTTTAGAAATAAATTTTAATTATTAAGCTAATGCTAATTAGTATAATTCTTGATTAATCCTCTG
1 ATTTTAGAAAGAAATTTTAATTATTAAGCT-ATGCTAATTAGTATAAATCTTGATTAATCCTCTG
* *
60377510 AAATGTAATTTGCGGAAGTATTGTTTAGCTGTAAAAAGTTTTTGATCGGGTAATGGAAGTAATGC
65 AAATGTAATTTGCGGAAGTATTATTTAGCTGTAAAAAGTTTTTGATCGAGTAATGGAAGTAATGC
* * * * *
60377575 TTAATGAGCTTGTTATGAATTTGGATTTGTTCACAAAACGGTGAATAG
130 TTAATGACCTTATTATGAATTTGGATTAGTTCAC--AA--GTGAACAA
* * *
60377623 ATTTTAGAAAGAAAGTTTAATT-TTAAGCTAT-TTGATTAGTATAAATCTTGATTAATCCTCTGA
1 ATTTTAGAAAGAAATTTTAATTATTAAGCTATGCTAATTAGTATAAATCTTGATTAATCCTCTGA
* * * * *
60377686 AATTTAATTTGC-GATGTATTATTTAGCTGTAAAAAGTTTTTGATTGAGTGATGGAATTAATGCT
66 AATGTAATTTGCGGAAGTATTATTTAGCTGTAAAAAGTTTTTGATCGAGTAATGGAAGTAATGCT
*
60377750 TAATGACCTTATTATGCATTT-GAGTTAGTTCACAAGTGAACAA
131 TAATGACCTTATTATGAATTTGGA-TTAGTTCACAAGTGAACAA
60377793 ATTTTAGAAAGAAATTTTAATTATTAAGCTA
1 ATTTTAGAAAGAAATTTTAATTATTAAGCTA
60377824 GTAATGATTA
Statistics
Matches: 180, Mismatches: 19, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
170 27 0.15
171 8 0.04
172 2 0.01
173 2 0.01
174 72 0.40
175 40 0.22
176 2 0.01
177 7 0.04
178 20 0.11
ACGTcount: A:0.35, C:0.08, G:0.17, T:0.40
Consensus pattern (173 bp):
ATTTTAGAAAGAAATTTTAATTATTAAGCTATGCTAATTAGTATAAATCTTGATTAATCCTCTGA
AATGTAATTTGCGGAAGTATTATTTAGCTGTAAAAAGTTTTTGATCGAGTAATGGAAGTAATGCT
TAATGACCTTATTATGAATTTGGATTAGTTCACAAGTGAACAA
Found at i:60377846 original size:52 final size:52
Alignment explanation
Indices: 60377790--60377892 Score: 181
Period size: 52 Copynumber: 2.0 Consensus size: 52
60377780 CACAAGTGAA
60377790 CAAATTTTAGAAAGAAATTTT-AATTATTAAGCTAGTAATGATTAATATAATC
1 CAAATTTTAGAAAG-AATTTTCAATTATTAAGCTAGTAATGATTAATATAATC
*
60377842 CAAATTTTGGAAAGAATTTTCAATTATTAAGCTAGTAATGATTAATATAAT
1 CAAATTTTAGAAAGAATTTTCAATTATTAAGCTAGTAATGATTAATATAAT
60377893 TTTTGATTAA
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
51 6 0.12
52 43 0.88
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.39
Consensus pattern (52 bp):
CAAATTTTAGAAAGAATTTTCAATTATTAAGCTAGTAATGATTAATATAATC
Found at i:60378463 original size:24 final size:25
Alignment explanation
Indices: 60378422--60378470 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
60378412 AAAGTTAACA
*
60378422 AAAAATTTAAATACAATAAATTTAT
1 AAAAATTTAAATACAATAAAATTAT
60378447 AAAAATATTAAA-A-AATAAAATTAT
1 AAAAAT-TTAAATACAATAAAATTAT
60378471 CATGGAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 10 0.45
25 7 0.32
26 5 0.23
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
AAAAATTTAAATACAATAAAATTAT
Found at i:60395288 original size:2 final size:2
Alignment explanation
Indices: 60395281--60395326 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
60395271 ACATTAAATA
60395281 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
60395323 AT AT
1 AT AT
60395327 GTGCACGTAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:60397102 original size:27 final size:27
Alignment explanation
Indices: 60397064--60397126 Score: 108
Period size: 27 Copynumber: 2.3 Consensus size: 27
60397054 TTTTAGTCTT
*
60397064 GTGCCACCAATGAGAATGACACCATTG
1 GTGCCGCCAATGAGAATGACACCATTG
*
60397091 GTGCCGCCAATGAGAATGGCACCATTG
1 GTGCCGCCAATGAGAATGACACCATTG
60397118 GTGCCGCCA
1 GTGCCGCCA
60397127 TTCAGCCCTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.17
Consensus pattern (27 bp):
GTGCCGCCAATGAGAATGACACCATTG
Found at i:60398247 original size:12 final size:12
Alignment explanation
Indices: 60398232--60398269 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
60398222 GCCCGAGCAG
*
60398232 GAGCCTCAGCCA
1 GAGCCACAGCCA
60398244 GAGCCACAGCCA
1 GAGCCACAGCCA
*
60398256 GAGCCCCAGCCA
1 GAGCCACAGCCA
60398268 GA
1 GA
60398270 TTCGGAGCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.29, C:0.42, G:0.26, T:0.03
Consensus pattern (12 bp):
GAGCCACAGCCA
Found at i:60402864 original size:4 final size:4
Alignment explanation
Indices: 60402850--60402940 Score: 69
Period size: 4 Copynumber: 20.8 Consensus size: 4
60402840 TCTTCTTCTC
*
60402850 CTTT TTTT CTTT CTTCT ACTTT CATTTT CTTT CTTCT CATTT CCTTTT CTTT
1 CTTT CTTT CTTT CTT-T -CTTT C--TTT CTTT CTT-T C-TTT -C-TTT CTTT
60402902 CTTT CTTCT CCTTT C-TT -TTT CTTT CTTT CTTT CTTT CTT
1 CTTT CTT-T -CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTT
60402941 CTCCTTTCCT
Statistics
Matches: 73, Mismatches: 3, Indels: 22
0.74 0.03 0.22
Matches are distributed among these distances:
3 4 0.05
4 45 0.62
5 8 0.11
6 16 0.22
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.70
Consensus pattern (4 bp):
CTTT
Found at i:60402864 original size:24 final size:24
Alignment explanation
Indices: 60402837--60402964 Score: 106
Period size: 24 Copynumber: 5.4 Consensus size: 24
60402827 CTTCATTCCC
60402837 TCTTCTTCTTCTCCTTTT-TTTCTT
1 TCTTCTTCTT-TCCTTTTCTTTCTT
* *
60402861 TCTTCTACTTTCATTTTCTTTC-T
1 TCTTCTTCTTTCCTTTTCTTTCTT
*
60402884 TC-TC--ATTTCCTTTTCTTTCTT
1 TCTTCTTCTTTCCTTTTCTTTCTT
* *
60402905 TCTTCTCCTTTCTTTTTCTTTCTT
1 TCTTCTTCTTTCCTTTTCTTTCTT
* *
60402929 TCTTTCTTTCTTCTCCTTTCCTTCTCCT
1 TC-TTC-TTCTT-TCCTTTTCTT-TCTT
60402957 T-TTCTTCT
1 TCTTCTTCT
60402965 CCACCCACCA
Statistics
Matches: 85, Mismatches: 10, Indels: 17
0.76 0.09 0.15
Matches are distributed among these distances:
20 13 0.15
21 3 0.04
22 4 0.05
23 9 0.11
24 30 0.35
25 7 0.08
26 7 0.08
27 8 0.09
28 4 0.05
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.67
Consensus pattern (24 bp):
TCTTCTTCTTTCCTTTTCTTTCTT
Found at i:60402877 original size:20 final size:18
Alignment explanation
Indices: 60402842--60402948 Score: 96
Period size: 18 Copynumber: 5.7 Consensus size: 18
60402832 TTCCCTCTTC
60402842 TTCTTCTCCTTT-TTTTCT
1 TTCTTCT-CTTTCTTTTCT
60402860 TTCTTCTACTTTCATTTTCT
1 TTCTTCT-CTTTC-TTTTCT
60402880 TTCTTCTCATTTCCTTTTCT
1 TTCTTCTC-TTT-CTTTTCT
*
60402900 TTCTT-TCTTCTCCTTTCT
1 TTCTTCTCTT-TCTTTTCT
60402918 TT-TTCTTTCTTTC-TTTCT
1 TTCTTC--TCTTTCTTTTCT
60402936 TTCTTCTCCTTTC
1 TTCTTCT-CTTTC
60402949 CTTCTCCTTT
Statistics
Matches: 77, Mismatches: 2, Indels: 20
0.78 0.02 0.20
Matches are distributed among these distances:
17 3 0.04
18 33 0.43
19 9 0.12
20 31 0.40
21 1 0.01
ACGTcount: A:0.03, C:0.29, G:0.00, T:0.68
Consensus pattern (18 bp):
TTCTTCTCTTTCTTTTCT
Found at i:60402952 original size:11 final size:10
Alignment explanation
Indices: 60402842--60402966 Score: 79
Period size: 10 Copynumber: 12.9 Consensus size: 10
60402832 TTCCCTCTTC
60402842 TTCTTCTCCT
1 TTCTTCTCCT
*
60402852 TT-TT-TTCT
1 TTCTTCTCCT
*
60402860 TTCTTCTACT
1 TTCTTCTCCT
*
60402870 TTCATT-TTCT
1 TTC-TTCTCCT
*
60402880 TTCTTCTCAT
1 TTCTTCTCCT
60402890 TTC--CT--T
1 TTCTTCTCCT
60402896 TTCTT-T-CT
1 TTCTTCTCCT
60402904 TTCTTCTCCT
1 TTCTTCTCCT
* *
60402914 TTCTTTTTCT
1 TTCTTCTCCT
*
60402924 TTCTTTCTTTCT
1 TTC-TTC-TCCT
60402936 TTCTTCTCCT
1 TTCTTCTCCT
60402946 TTCCTTCTCCTT
1 TT-CTTCTCC-T
60402958 TTCTTCTCC
1 TTCTTCTCC
60402967 ACCCACCAGC
Statistics
Matches: 93, Mismatches: 9, Indels: 25
0.73 0.07 0.20
Matches are distributed among these distances:
6 4 0.04
7 1 0.01
8 13 0.14
9 7 0.08
10 37 0.40
11 21 0.23
12 10 0.11
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.66
Consensus pattern (10 bp):
TTCTTCTCCT
Found at i:60404273 original size:69 final size:69
Alignment explanation
Indices: 60404191--60404366 Score: 199
Period size: 69 Copynumber: 2.6 Consensus size: 69
60404181 CCTTAGAAAT
* * * * *
60404191 AGTTGGCGTGAGCTCAAGCTCCCATCTGTCATCTTAAGCTTGCAGGTTCAACACCACATCCTCCA
1 AGTTAGCGCGAGCTCAAGCTCCCAACTGTAATCTTAAGCTTGCAGGTTCAACACCACAACCTCCA
*
60404256 AAAT
66 AAAC
* * * * * *
60404260 AGTTAGTGCGAGCTTAAGCTCCTAACTGTAATCTTAGGCTTGTAGGTTCAACACCGCAACCTCCA
1 AGTTAGCGCGAGCTCAAGCTCCCAACTGTAATCTTAAGCTTGCAGGTTCAACACCACAACCTCCA
*
60404325 ACAC
66 AAAC
* * * *
60404329 AGTTAGCGCGAACTCAAGCTCCTAGCTGCAATCTTAAG
1 AGTTAGCGCGAGCTCAAGCTCCCAACTGTAATCTTAAG
60404367 GCTCGTTATT
Statistics
Matches: 88, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
69 88 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (69 bp):
AGTTAGCGCGAGCTCAAGCTCCCAACTGTAATCTTAAGCTTGCAGGTTCAACACCACAACCTCCA
AAAC
Found at i:60404421 original size:31 final size:32
Alignment explanation
Indices: 60404386--60404461 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
60404376 TTGAGTTAGT
* * * *
60404386 TGATTTAAGATCACAGCTTC-ATATAGCTCGC
1 TGATTTAAGATCACAACCTCTAAACAGCTCGC
*
60404417 TGATTTAAGATCGCAACCTCTAAACAGCTCGC
1 TGATTTAAGATCACAACCTCTAAACAGCTCGC
60404449 TGATTTAAGATCA
1 TGATTTAAGATCA
60404462 AAACTGATAT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
31 17 0.45
32 21 0.55
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (32 bp):
TGATTTAAGATCACAACCTCTAAACAGCTCGC
Found at i:60405435 original size:15 final size:15
Alignment explanation
Indices: 60405415--60405447 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
60405405 AAAATAGACT
60405415 TAAGTTAGTCATTTA
1 TAAGTTAGTCATTTA
60405430 TAAGTTAGTCATTTA
1 TAAGTTAGTCATTTA
60405445 TAA
1 TAA
60405448 CTATAAGCGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (15 bp):
TAAGTTAGTCATTTA
Found at i:60409709 original size:15 final size:15
Alignment explanation
Indices: 60409682--60409729 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
60409672 TTTTCGTTTG
*
60409682 TTTT-AACTTTTTTT
1 TTTTCAACTCTTTTT
60409696 TTTTCAACTCTTTTT
1 TTTTCAACTCTTTTT
*
60409711 TTTGTCAAGCACTTTTT
1 TTT-TCAA-CTCTTTTT
60409728 TT
1 TT
60409730 AAAAAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 4 0.14
15 12 0.41
16 4 0.14
17 9 0.31
ACGTcount: A:0.15, C:0.15, G:0.04, T:0.67
Consensus pattern (15 bp):
TTTTCAACTCTTTTT
Found at i:60409711 original size:16 final size:16
Alignment explanation
Indices: 60409682--60409729 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
60409672 TTTTCGTTTG
60409682 TTTT-AACT-TTTTTT
1 TTTTCAACTCTTTTTT
60409696 TTTTCAACTCTTTTTT
1 TTTTCAACTCTTTTTT
* *
60409712 TTGTCAAGCACTTTTTT
1 TTTTCAA-CTCTTTTTT
60409729 T
1 T
60409730 AAAAAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 4 0.14
15 4 0.14
16 12 0.41
17 9 0.31
ACGTcount: A:0.15, C:0.15, G:0.04, T:0.67
Consensus pattern (16 bp):
TTTTCAACTCTTTTTT
Found at i:60411050 original size:2 final size:2
Alignment explanation
Indices: 60411043--60411075 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
60411033 TAATTATTGT
60411043 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
60411076 TAGTAGATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:60416802 original size:25 final size:25
Alignment explanation
Indices: 60416774--60416866 Score: 91
Period size: 25 Copynumber: 3.7 Consensus size: 25
60416764 ATACACGCAT
60416774 TGTTTTTATATAATATATATATGCA
1 TGTTTTTATATAATATATATATGCA
* * *
60416799 TGTTTTTATATAGTATA-CTCT-CA
1 TGTTTTTATATAATATATATATGCA
*
60416822 TGGTTTTTTTTATAATATATATATGCA
1 T-G-TTTTTATATAATATATATATGCA
* * *
60416849 TCTTTTTATGTAGTATAT
1 TGTTTTTATATAATATAT
60416867 GTATACCTGT
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
23 3 0.06
24 3 0.06
25 42 0.79
26 2 0.04
27 3 0.06
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.55
Consensus pattern (25 bp):
TGTTTTTATATAATATATATATGCA
Found at i:60419009 original size:19 final size:19
Alignment explanation
Indices: 60418985--60419029 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
60418975 TAACATTTTT
*
60418985 TAATATTTATAATGTAATA
1 TAATATATATAATGTAATA
* * *
60419004 TAATATATCTAATTTTATA
1 TAATATATATAATGTAATA
60419023 TAATATA
1 TAATATA
60419030 AAATACAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
TAATATATATAATGTAATA
Found at i:60419615 original size:3 final size:3
Alignment explanation
Indices: 60419607--60419636 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
60419597 TCAATACAAG
*
60419607 TTA TTA TTA TTA TTA CTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
60419637 CACCACGAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:60419626 original size:15 final size:15
Alignment explanation
Indices: 60419608--60419637 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
60419598 CAATACAAGT
60419608 TATTATTATTATTAC
1 TATTATTATTATTAC
60419623 TATTATTATTATTAC
1 TATTATTATTATTAC
60419638 ACCACGAGCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
TATTATTATTATTAC
Found at i:60423991 original size:6 final size:6
Alignment explanation
Indices: 60423980--60424009 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
60423970 TAAATATGAT
60423980 TAATTA TAATTA TAATTA TAATTA TAATTA
1 TAATTA TAATTA TAATTA TAATTA TAATTA
60424010 ATTAGTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TAATTA
Found at i:60424234 original size:15 final size:16
Alignment explanation
Indices: 60424214--60424244 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
60424204 AAGAAGATTA
60424214 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
60424229 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
60424245 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:60424370 original size:148 final size:150
Alignment explanation
Indices: 60424186--60424457 Score: 469
Period size: 148 Copynumber: 1.8 Consensus size: 150
60424176 AAATTTTTTA
*
60424186 TTTTAATAATGTGTGAAGAAGAAGATTATTTAAAATTATTATTTTTAAAATTTATTATTAAAATA
1 TTTTAATAATATGTGAAGAAGAAGATTATTTAAAATTATTATTTTTAAAATTTATTATTAAAATA
60424251 AAATTAAAATATTAAGCAATTTATTAAAATAATAAATTATATTAACAATTTATTATATTTATTAT
66 AAATTAAAATATTAAGCAATTTATT-AAATAATAAATTATATTAACAATTTATTATATTTATTAT
60424316 TAAAATATTATTATTGAATAT
130 TAAAATATTATTATTGAATAT
60424337 TTTTAATAATATGTG-A-AA-AAGATTATTTAAAATTATTATTTTTAAAATTTATTATTAAAATA
1 TTTTAATAATATGTGAAGAAGAAGATTATTTAAAATTATTATTTTTAAAATTTATTATTAAAATA
* * * *
60424399 AAATTGAAATATTAAGTAATTTATTAAATAATAATTTATATTAATAATTTATTATATTT
66 AAATTAAAATATTAAGCAATTTATTAAATAATAAATTATATTAACAATTTATTATATTT
60424458 GGTAAGTCTT
Statistics
Matches: 116, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
147 32 0.28
148 67 0.58
149 2 0.02
150 1 0.01
151 14 0.12
ACGTcount: A:0.47, C:0.01, G:0.05, T:0.47
Consensus pattern (150 bp):
TTTTAATAATATGTGAAGAAGAAGATTATTTAAAATTATTATTTTTAAAATTTATTATTAAAATA
AAATTAAAATATTAAGCAATTTATTAAATAATAAATTATATTAACAATTTATTATATTTATTATT
AAAATATTATTATTGAATAT
Found at i:60424382 original size:15 final size:16
Alignment explanation
Indices: 60424362--60424392 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
60424352 AAAAAGATTA
60424362 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
60424377 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
60424393 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:60424426 original size:31 final size:29
Alignment explanation
Indices: 60424388--60424452 Score: 80
Period size: 28 Copynumber: 2.2 Consensus size: 29
60424378 TTAAAATTTA
60424388 TTATTAAAATAA-AATTGAAATATTAAGTAAT
1 TTATTAAAATAATAATT--AATATTAA-TAAT
*
60424419 TTATT-AAATAATAATTTATATTAATAAT
1 TTATTAAAATAATAATTAATATTAATAAT
60424447 TTATTA
1 TTATTA
60424453 TATTTGGTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
28 9 0.29
29 7 0.23
30 6 0.19
31 9 0.29
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (29 bp):
TTATTAAAATAATAATTAATATTAATAAT
Found at i:60424445 original size:13 final size:13
Alignment explanation
Indices: 60424407--60424450 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
60424397 TAAAATTGAA
60424407 ATATTAAGTAATTT
1 ATATTAA-TAATTT
*
60424421 ATTAAATAATAATTT
1 A-T-ATTAATAATTT
60424436 ATATTAATAATTT
1 ATATTAATAATTT
60424449 AT
1 AT
60424451 TATATTTGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 12 0.46
14 2 0.08
15 8 0.31
16 4 0.15
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (13 bp):
ATATTAATAATTT
Found at i:60424446 original size:16 final size:15
Alignment explanation
Indices: 60424415--60424452 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
60424405 AAATATTAAG
60424415 TAATTTATTAAATAA
1 TAATTTATTAAATAA
*
60424430 TAATTTA-T-ATTAA
1 TAATTTATTAAATAA
60424443 TAATTTATTA
1 TAATTTATTA
60424453 TATTTGGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
13 11 0.55
14 2 0.10
15 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TAATTTATTAAATAA
Found at i:60424453 original size:16 final size:16
Alignment explanation
Indices: 60424407--60424456 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
60424397 TAAAATTGAA
60424407 ATATTAAGTAATTTATT
1 ATATTAA-TAATTTATT
*
60424424 A-AATAATAA--T-TT
1 ATATTAATAATTTATT
60424436 ATATTAATAATTTATT
1 ATATTAATAATTTATT
60424452 ATATT
1 ATATT
60424457 TGGTAAGTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 9
0.71 0.05 0.24
Matches are distributed among these distances:
12 3 0.11
13 8 0.30
15 4 0.15
16 11 0.41
17 1 0.04
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:60431019 original size:31 final size:32
Alignment explanation
Indices: 60430974--60431041 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 32
60430964 TCATTTAATA
*
60430974 TTAAAGTTTGATTTT-GATGTTCGATTTGGTAC
1 TTAAAGTTTAATTTTAG-TGTTCGATTTGGTAC
60431006 TTAAA-TTTAATTTTAGTGTTCGATTTGGTAC
1 TTAAAGTTTAATTTTAGTGTTCGATTTGGTAC
60431037 TTAAA
1 TTAAA
60431042 CGAAAAGTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 28 0.82
32 6 0.18
ACGTcount: A:0.26, C:0.06, G:0.18, T:0.50
Consensus pattern (32 bp):
TTAAAGTTTAATTTTAGTGTTCGATTTGGTAC
Found at i:60435081 original size:16 final size:16
Alignment explanation
Indices: 60435055--60435097 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
60435045 CATACTCCAT
* *
60435055 TATACATATATGAATG
1 TATATATATATGAACG
* *
60435071 TGTATATATATGTACG
1 TATATATATATGAACG
60435087 TATATATATAT
1 TATATATATAT
60435098 ATATATTTGT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.12, T:0.44
Consensus pattern (16 bp):
TATATATATATGAACG
Found at i:60438393 original size:60 final size:57
Alignment explanation
Indices: 60438294--60438418 Score: 169
Period size: 60 Copynumber: 2.1 Consensus size: 57
60438284 TAGTCAGCAG
* * *
60438294 CCAACTATTAGTATTTTTTTTTTGTCACCAAATTATGAAAAGTTACAAAATAATCAC
1 CCAACTATTAGTATTTTTTTATGGTCACCAAACTATGAAAAGTTACAAAATAATCAC
* *
60438351 CCAACTATTAGTAAATTTCTTTTATGGTCACCCAACTATGAAAAGTTACAAAATAGTCAC
1 CCAACTATTAGT--ATTT-TTTTATGGTCACCAAACTATGAAAAGTTACAAAATAATCAC
60438411 CCGAACTA
1 CC-AACTA
60438419 CTCAATTTCG
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
57 12 0.20
59 4 0.07
60 38 0.64
61 5 0.08
ACGTcount: A:0.38, C:0.19, G:0.09, T:0.34
Consensus pattern (57 bp):
CCAACTATTAGTATTTTTTTATGGTCACCAAACTATGAAAAGTTACAAAATAATCAC
Found at i:60438446 original size:60 final size:57
Alignment explanation
Indices: 60438306--60438446 Score: 142
Period size: 60 Copynumber: 2.4 Consensus size: 57
60438296 AACTATTAGT
* * *
60438306 ATTT-TTTTTTTGTCACCAAATTATGAAAAGTTACAAAATAATCACCCAACTATTAGTAA
1 ATTTCTTTTTTGGTCACC-AACTATGAAAAGTTACAAAATAATCACCCAAC--TTACTAA
* * *
60438365 ATTTCTTTTATGGTCACCCAACTATGAAAAGTTACAAAATAGTCACCCGAAC-TACTCA
1 ATTTCTTTTTTGGTCA-CCAACTATGAAAAGTTACAAAATAATCACCC-AACTTACTAA
60438423 ATTTCGTCTCTTTTGGTCACCAAC
1 ATTTC-T-T-TTTTGGTCACCAAC
60438447 CGACTAATGT
Statistics
Matches: 69, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
58 9 0.13
59 5 0.07
60 42 0.61
61 13 0.19
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (57 bp):
ATTTCTTTTTTGGTCACCAACTATGAAAAGTTACAAAATAATCACCCAACTTACTAA
Found at i:60440574 original size:23 final size:22
Alignment explanation
Indices: 60440523--60440574 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 22
60440513 AATACATGAT
*
60440523 AAGATTATATTTTGATCTCTCAA
1 AAGATT-TATTTCGATCTCTCAA
60440546 AA-ATTTATTTCGATC-CTTCTAA
1 AAGATTTATTTCGATCTC-TC-AA
60440568 AAGATTT
1 AAGATTT
60440575 CTAGATTCCC
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.04
21 11 0.44
22 7 0.28
23 6 0.24
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (22 bp):
AAGATTTATTTCGATCTCTCAA
Found at i:60441779 original size:386 final size:385
Alignment explanation
Indices: 60441061--60441779 Score: 1129
Period size: 386 Copynumber: 1.9 Consensus size: 385
60441051 TTCTATCCGT
* *
60441061 ATTGAGTTCCACCATTTCCAAACCTCTTAACAAGAACAAAGGCTCCATCAATGGTTCTGAGTTTT
1 ATTGAATTCCACCATTTCCAAACCTCTTAACAAGAAAAAAGGCTCCATCAATGGTTCTGAGTTTT
*
60441126 GAAACCATCCTATCAATACATAAGAACCAATATAAATGAGGATCCAATGAGCTTTTATTAGATTT
66 GAAACCATCCGATCAATACATAAGAACCAATATAAATGAGGATCCAATGAGCTTTTATTAGATTT
* *
60441191 GTCATGCACACACTTCATACTAAATAGAAATGGAAGTACTGGAACAAATGTTTTCATGGCATTGG
131 GTCATACACACACTTCATACTAAATAGAAATGGAAGTACTGGAACAAATGTTTTCATAGCATTGG
* *
60441256 TTTAGAGTTCTCACCTATGTTGCTCTGAGTCTTCATTTTTCTTCAACTATCCATGTTTGACATAT
196 GTTAGAGTTCTCACCTATGTTGCTCTGAGTCTTCATTTTTCTTCAACAATCCATGTTTGACATAT
* * * * *
60441321 ATCTGAACACAAATACGATGATATGAGTCTCTAAATACATGAACAACAAAACATACCCATATATA
261 AGCCGAACACAAATACGAGGATAT-ACTCTCTAAATACATGAACAACAAAACATACCCATATAAA
60441386 CTAACACCTGACCGCAAGTAAAACTTATTCTCACCCTTCTACACCATCCTTCACAATCTGC
325 CTAACACCTGACCGCAAGTAAAACTTATTCTCACCCTTCTACACCATCCTTCACAATCTGC
* *
60441447 ATTGAATTCCACCATTTCCGAACCTCTTAACAAGAAAAAAGGCTCCATCAATGGTTTTGAGTTCT
1 ATTGAATTCCACCATTTCCAAACCTCTTAACAAGAAAAAAGGCTCCATCAATGGTTCTGAGTT-T
*
60441512 TGAAACCATCCGATCAATACATAAGAACCAATGTAAATGAGGATCCAATGAGCTTTTATTAGATT
65 TGAAACCATCCGATCAATACATAAGAACCAATATAAATGAGGATCCAATGAGCTTTTATTAGATT
* * * * *
60441577 TGTCATACACACGCTTCATACTAAATAGAAATGGAAGTATTGTAAGAGATG-TTTCATAGCATTG
130 TGTCATACACACACTTCATACTAAATAGAAATGGAAGTACTGGAACAAATGTTTTCATAGCATTG
* * *
60441641 GGTTGGAGTTCTCACCTATGTTGCTCTGAGTCTTCATTTTTCTTTAACAATCCGTGTTTGACATA
195 GGTTAGAGTTCTCACCTATGTTGCTCTGAGTCTTCATTTTTCTTCAACAATCCATGTTTGACATA
* * * *
60441706 TAGCCGAACACGAGTATC-AGGATAT-CTCTCTAAATACATGAACAACAGAACATTCCCATATAA
260 TAGCCGAACACAAATA-CGAGGATATACTCTCTAAATACATGAACAACAAAACATACCCATATAA
60441769 ACATTAACACC
324 AC--TAACACC
60441780 CATGTGCGAA
Statistics
Matches: 302, Mismatches: 27, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
384 36 0.12
386 156 0.52
387 110 0.36
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.31
Consensus pattern (385 bp):
ATTGAATTCCACCATTTCCAAACCTCTTAACAAGAAAAAAGGCTCCATCAATGGTTCTGAGTTTT
GAAACCATCCGATCAATACATAAGAACCAATATAAATGAGGATCCAATGAGCTTTTATTAGATTT
GTCATACACACACTTCATACTAAATAGAAATGGAAGTACTGGAACAAATGTTTTCATAGCATTGG
GTTAGAGTTCTCACCTATGTTGCTCTGAGTCTTCATTTTTCTTCAACAATCCATGTTTGACATAT
AGCCGAACACAAATACGAGGATATACTCTCTAAATACATGAACAACAAAACATACCCATATAAAC
TAACACCTGACCGCAAGTAAAACTTATTCTCACCCTTCTACACCATCCTTCACAATCTGC
Found at i:60446591 original size:17 final size:16
Alignment explanation
Indices: 60446569--60446600 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
60446559 TGAATAAAAA
60446569 ACAAACAAACAATAAAT
1 ACAAACAAAC-ATAAAT
60446586 ACAAACAAACATAAA
1 ACAAACAAACATAAA
60446601 AATTTTGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.72, C:0.19, G:0.00, T:0.09
Consensus pattern (16 bp):
ACAAACAAACATAAAT
Found at i:60460292 original size:12 final size:12
Alignment explanation
Indices: 60460275--60460301 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
60460265 TATTAAGTAT
60460275 ATAATTTTTTAA
1 ATAATTTTTTAA
60460287 ATAATTTTTTAA
1 ATAATTTTTTAA
60460299 ATA
1 ATA
60460302 TATAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
ATAATTTTTTAA
Found at i:60468547 original size:26 final size:29
Alignment explanation
Indices: 60468518--60468578 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
60468508 ATTATTTAAA
*
60468518 ATTATAAT-TAAAA-TAT-TAAATAATTT
1 ATTATAATAAAAAATTATATAAATAATTT
* *
60468544 ATTAAAATAAAAAATTATATTAATAATTT
1 ATTATAATAAAAAATTATATAAATAATTT
60468573 ATTATA
1 ATTATA
60468579 TGATTAGATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.25
27 4 0.14
28 3 0.11
29 14 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (29 bp):
ATTATAATAAAAAATTATATAAATAATTT
Found at i:60473228 original size:18 final size:18
Alignment explanation
Indices: 60473205--60473239 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
60473195 CATTGTTGGG
*
60473205 TTATTCTATTCAGTCATA
1 TTATTCTATTCACTCATA
60473223 TTATTCTATTCACTCAT
1 TTATTCTATTCACTCAT
60473240 CAGTTTTTAA
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:0.26, C:0.20, G:0.03, T:0.51
Consensus pattern (18 bp):
TTATTCTATTCACTCATA
Found at i:60479389 original size:200 final size:199
Alignment explanation
Indices: 60479041--60479566 Score: 748
Period size: 200 Copynumber: 2.6 Consensus size: 199
60479031 GAGTCTTCAT
* * * * * *
60479041 TTTTAATGAAATACATTTGTCCGAAACATATTTGAACACGGGTATCTAACGCTTAGACCCAAGTC
1 TTTTCATGAAATACATTTGTCCTATACATATTCGAACAC-GGTATCTAACACTTAGACCCAAATC
* *
60479106 CGAGCAACATAGATATCAAGCACTAGATTCATAGCAACTAGGCAAAGCAATCAACCTAGAAGGGA
65 CGAGCAATATAGATATCAAGCACTAGATTCATAGCAACTAGGCCAAGCAATCAACCTAGAAGGGA
* * * *
60479171 TTTCACTCCTTTTCCTTAGTAATCACTACTCAACCTATTGTTAATATCAAAGATTGCTAAGACTC
130 TTTCACTCCTTTTCCTTAGTAATCACAACTCAACCTATAGTTAACATCAAAGATAGCTAAGACTC
*
60479236 TTTGA
195 TTCGA
* * * *
60479241 TTTTCATGAAATACATTTGTCCTATACAAATTCAAACACAGGTATCTAAAAATTAGACCCAAATC
1 TTTTCATGAAATACATTTGTCCTATACATATTCGAACAC-GGTATCTAACACTTAGACCCAAATC
* * *
60479306 CGAGCAATACAGATATCAAGCACAAGATTCATGGCAACTAGGCCAAGCAATCAACCTAGAAGGGA
65 CGAGCAATATAGATATCAAGCACTAGATTCATAGCAACTAGGCCAAGCAATCAACCTAGAAGGGA
* * **
60479371 TTTCACTCCTTTTCCTTAGTAATCACAACTCACCCTATAGTTAACATCATAGATAGCTCTGACTC
130 TTTCACTCCTTTTCCTTAGTAATCACAACTCAACCTATAGTTAACATCAAAGATAGCTAAGACTC
*
60479436 TTCGG
195 TTCGA
*
60479441 TTTTCATGAAATACATTTGTCCTATACATATTCGAACACGAGTATCTAACACTTAGACCCAAATA
1 TTTTCATGAAATACATTTGTCCTATACATATTCGAACACG-GTATCTAACACTTAGACCCAAATC
* * *
60479506 CAAGCAATATAGATATCAAACACTAGATTCGA-AACAACTAGGCCAAGCAATCAACCTAGAA
65 CGAGCAATATAGATATCAAGCACTAGATTC-ATAGCAACTAGGCCAAGCAATCAACCTAGAA
60479567 ATCCCATAAT
Statistics
Matches: 287, Mismatches: 37, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
199 1 0.00
200 285 0.99
201 1 0.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (199 bp):
TTTTCATGAAATACATTTGTCCTATACATATTCGAACACGGTATCTAACACTTAGACCCAAATCC
GAGCAATATAGATATCAAGCACTAGATTCATAGCAACTAGGCCAAGCAATCAACCTAGAAGGGAT
TTCACTCCTTTTCCTTAGTAATCACAACTCAACCTATAGTTAACATCAAAGATAGCTAAGACTCT
TCGA
Found at i:60485589 original size:14 final size:13
Alignment explanation
Indices: 60485566--60485630 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
60485556 ATAGAAATAT
60485566 ATTTTTATTTTAA
1 ATTTTTATTTTAA
60485579 ATTTTTAATTTTAA
1 ATTTTT-ATTTTAA
* * *
60485593 AATATT-TTTAAA
1 ATTTTTATTTTAA
*
60485605 ATACTTTTATTTTTA
1 AT--TTTTATTTTAA
*
60485620 TTTTTTATTTT
1 ATTTTTATTTT
60485631 TAAAATTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
12 6 0.15
13 15 0.38
14 14 0.35
15 5 0.12
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (13 bp):
ATTTTTATTTTAA
Found at i:60494667 original size:13 final size:13
Alignment explanation
Indices: 60494649--60494676 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
60494639 TGGGGCTACT
60494649 CATTGTGATGCTA
1 CATTGTGATGCTA
60494662 CATTGTGATGCTA
1 CATTGTGATGCTA
60494675 CA
1 CA
60494677 ATCTATAAAA
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:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (13 bp):
CATTGTGATGCTA
Found at i:60515828 original size:14 final size:14
Alignment explanation
Indices: 60515809--60515838 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60515799 ATCATTAGTT
*
60515809 TTACTAAGTGGTAC
1 TTACTAAGCGGTAC
60515823 TTACTAAGCGGTAC
1 TTACTAAGCGGTAC
60515837 TT
1 TT
60515839 TTTTTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.37
Consensus pattern (14 bp):
TTACTAAGCGGTAC
Found at i:60520130 original size:92 final size:93
Alignment explanation
Indices: 60519964--60520163 Score: 366
Period size: 92 Copynumber: 2.1 Consensus size: 93
60519954 AAATTTTTAT
*
60519964 AATATTACTCGTATTTAAGTGTGAGTATTTGATATATATATATATATTTCAACACGAGTATATTC
1 AATATT-CTCGTATTTAAGTGTGAGTATTTGA-ATATAGATATATATTTCAACACGAGTATATTC
60520029 AATCTCTTGGTAAGTTTTTTTACGTATTTG
64 AATCTCTTGGTAAGTTTTTTTACGTATTTG
60520059 AATATTCTCGTATTTAAGTGTGAGTATTTG-ATATAGATATATATTTCAACACGAGTATATTCAA
1 AATATTCTCGTATTTAAGTGTGAGTATTTGAATATAGATATATATTTCAACACGAGTATATTCAA
60520123 TCTCTTGGTAAGTTTTTTTACGTATTTG
66 TCTCTTGGTAAGTTTTTTTACGTATTTG
60520151 AATATTCTCGTAT
1 AATATTCTCGTAT
60520164 CCATGTCTAG
Statistics
Matches: 104, Mismatches: 1, Indels: 3
0.96 0.01 0.03
Matches are distributed among these distances:
92 74 0.71
94 24 0.23
95 6 0.06
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (93 bp):
AATATTCTCGTATTTAAGTGTGAGTATTTGAATATAGATATATATTTCAACACGAGTATATTCAA
TCTCTTGGTAAGTTTTTTTACGTATTTG
Found at i:60522125 original size:2 final size:2
Alignment explanation
Indices: 60522118--60522167 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
60522108 GGGTTTTCTT
60522118 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
60522160 CA CA CA CA
1 CA CA CA CA
60522168 TATATATACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:60523431 original size:8 final size:8
Alignment explanation
Indices: 60523415--60523448 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
60523405 AGTTATGAAT
60523415 TATATAAA
1 TATATAAA
*
60523423 TAAATAAA
1 TATATAAA
*
60523431 TATATATA
1 TATATAAA
60523439 TATATAAA
1 TATATAAA
60523447 TA
1 TA
60523449 GAATTTATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TATATAAA
Found at i:60529786 original size:32 final size:32
Alignment explanation
Indices: 60529745--60529810 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
60529735 TTAAATAGAG
60529745 ATAATATATATTTGATAAGATAGAGATAATAT
1 ATAATATATATTTGATAAGATAGAGATAATAT
60529777 ATAATATATATTTGATAAGATAGAGATAATAT
1 ATAATATATATTTGATAAGATAGAGATAATAT
60529809 AT
1 AT
60529811 TTTAAGATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (32 bp):
ATAATATATATTTGATAAGATAGAGATAATAT
Found at i:60531064 original size:22 final size:22
Alignment explanation
Indices: 60531021--60531064 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
60531011 AATGTTAATG
* *
60531021 GTCAAATTTGACTCAAATAAAT
1 GTCAAATTTAACTCAAAAAAAT
60531043 GTCAAATTTAACT-AGAAAAAAT
1 GTCAAATTTAACTCA-AAAAAAT
60531065 AGGGATAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.50, C:0.11, G:0.09, T:0.30
Consensus pattern (22 bp):
GTCAAATTTAACTCAAAAAAAT
Found at i:60532608 original size:53 final size:51
Alignment explanation
Indices: 60532550--60532651 Score: 143
Period size: 53 Copynumber: 2.0 Consensus size: 51
60532540 ATACTAATGG
* *
60532550 TCACCCAACTATAAAAAATTACAAAATGGTCA-TTCAACTATTAATAATTTTTC
1 TCACCCAACTATAAAAAACTACAAAATGATCACTT-AACTATT--TAATTTTTC
*
60532603 TCACCCAACTATAAAAAACTACAAACTGATCACTTAACTATTTAATTTT
1 TCACCCAACTATAAAAAACTACAAAATGATCACTTAACTATTTAATTTT
60532652 ATCTGTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
51 7 0.16
53 36 0.80
54 2 0.04
ACGTcount: A:0.43, C:0.21, G:0.03, T:0.33
Consensus pattern (51 bp):
TCACCCAACTATAAAAAACTACAAAATGATCACTTAACTATTTAATTTTTC
Found at i:60533084 original size:15 final size:16
Alignment explanation
Indices: 60533059--60533088 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
60533049 TTTTAAACCC
60533059 AAAATATAAAAAAAAT
1 AAAATATAAAAAAAAT
60533075 AAAA-ATAAAAAAAA
1 AAAATATAAAAAAAA
60533089 ACCTCAAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (16 bp):
AAAATATAAAAAAAAT
Found at i:60534497 original size:166 final size:166
Alignment explanation
Indices: 60534223--60534542 Score: 523
Period size: 166 Copynumber: 1.9 Consensus size: 166
60534213 AATGGACCAA
* *
60534223 AGTTAATTAGAACGAGGAATAAAACCATGAAACAAAGCAAACACAATATACAAACATGACACAAG
1 AGTTAATTAGAACAAGGAATAAAACCATGAAACAAAGCAAACACAACATACAAACATGACACAAG
* * * *
60534288 TTTATTTTGCTAAAATCAAATGCAACAGCCAATGTTTTCGAGATGTCTTCGATGGTTCTAACAGC
66 TTTATTTTGCTAAAACCAAATGCAACACCCAATGTTTTCGAGATGTCTTCAAGGGTTCTAACAGC
60534353 AGCTATTGTGAACTTACAAAATTTCCCATAAACACT
131 AGCTATTGTGAACTTACAAAATTTCCCATAAACACT
* * *
60534389 AGTTAATTAGAACAAGGAATAAGACCATGAAACAAAGCAAACACAACATGCAAACATGATACAAG
1 AGTTAATTAGAACAAGGAATAAAACCATGAAACAAAGCAAACACAACATACAAACATGACACAAG
* * * *
60534454 TTTGTTTTGCTAAAACCGAGTGCAACACCCAATGTTTTCGAGATGTCTTCAAGGGTTTTAACAGC
66 TTTATTTTGCTAAAACCAAATGCAACACCCAATGTTTTCGAGATGTCTTCAAGGGTTCTAACAGC
60534519 AGCTATTGTGAACTTACAAAATTT
131 AGCTATTGTGAACTTACAAAATTT
60534543 ATAATTAGAA
Statistics
Matches: 141, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
166 141 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (166 bp):
AGTTAATTAGAACAAGGAATAAAACCATGAAACAAAGCAAACACAACATACAAACATGACACAAG
TTTATTTTGCTAAAACCAAATGCAACACCCAATGTTTTCGAGATGTCTTCAAGGGTTCTAACAGC
AGCTATTGTGAACTTACAAAATTTCCCATAAACACT
Found at i:60547674 original size:22 final size:22
Alignment explanation
Indices: 60547648--60547692 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
60547638 TAGTGGCGAG
** *
60547648 ATATAATAAGTAATAAATAAAT
1 ATATAATAAACAATAAAAAAAT
*
60547670 ATATATTAAACAATAAAAAAAT
1 ATATAATAAACAATAAAAAAAT
60547692 A
1 A
60547693 GAAAAATTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
ATATAATAAACAATAAAAAAAT
Found at i:60556948 original size:191 final size:188
Alignment explanation
Indices: 60556411--60557020 Score: 670
Period size: 191 Copynumber: 3.2 Consensus size: 188
60556401 AGCACATTGC
* * * ** *
60556411 TATACC-GACATAACACTCTCTAGAAAAGAATGTTTAGAACCTAGAAACCGATGTCTTTACGAGT
1 TATACCAGACGTAACACCCTCTAGAAAAGAATGTTTAGAACC-CGAAAATGATGTCTTTGCGAGT
*** * *
60556475 AGCAGTGTGAATTCATGACTTGTATGCTTTTATAATGACATGTTTTCTA-TGTCTAGAGCATCCT
65 AG-A-TGTGAATTC-TGACGCATATGCTTTTATAATGAAATGTTTTC-AGTGTCTAGAGCACCCT
* * * * *
60556539 TTTGATCGAAACCATATTCATGTTCAGCTGCATATTATGAACTTGAATGAATGAAGCATGTTG
126 TTTGATTGAAGCCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATGAAACACGTTG
* * * * *
60556602 CTATA-CAGACGTAAAACCTTCTAGAAAAGAATGTTTAGAA-CCGAGAAATCAAGGTAC-TAGC-
1 -TATACCAGACGTAACACCCTCTAGAAAAGAATGTTTAGAACCCGA-AAAT-GATGT-CTTTGCG
*
60556663 AG-AGATGTGAA-TCTG-CGACATATGCATTTATAATGAAATGTTTTC-GATGTCTAGAGCACCC
62 AGTAGATGTGAATTCTGACG-CATATGCTTTTATAATGAAATGTTTTCAG-TGTCTAGAGCA-CC
* * *
60556724 CTTTTGATTGAAGCCATATTCATGTTCTGCTGCATATTTTGAATTTGAATGAATGAAACACATTG
124 CTTTTGATTGAAGCCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATGAAACACGTTG
* ** *
60556789 TATACCAG-CGTAACACCCTATATTAAGGAATGTTTAGAACCCGGAAAATGATGTCTTTGCGAGT
1 TATACCAGACGTAACACCCTCTAGAAAAGAATGTTTAGAACCC-GAAAATGATGTCTTTGCGAGT
*
60556853 AGGTATGTGAATTCGTGAAGCATATGCTTTTATAATGAAATGTTTTCAGTGTCTAGAGCACCCTT
65 A-G-ATGTGAATTC-TGACGCATATGCTTTTATAATGAAATGTTTTCAGTGTCTAGAGCACCCTT
* *
60556918 TTGATTGCAGTCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATGAAGA-ACGTTG
127 TTGATTGAAGCCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATGAA-ACACGTTG
* *
60556980 TATGCC-GACGTAACACCGTCTAGAAAAGAATGTTTAGAACC
1 TATACCAGACGTAACACCCTCTAGAAAAGAATGTTTAGAACC
60557021 TAGAAAAGAA
Statistics
Matches: 349, Mismatches: 47, Indels: 45
0.79 0.11 0.10
Matches are distributed among these distances:
185 2 0.01
186 71 0.20
187 71 0.20
188 9 0.03
189 2 0.01
190 12 0.03
191 101 0.29
192 78 0.22
193 3 0.01
ACGTcount: A:0.32, C:0.16, G:0.19, T:0.32
Consensus pattern (188 bp):
TATACCAGACGTAACACCCTCTAGAAAAGAATGTTTAGAACCCGAAAATGATGTCTTTGCGAGTA
GATGTGAATTCTGACGCATATGCTTTTATAATGAAATGTTTTCAGTGTCTAGAGCACCCTTTTGA
TTGAAGCCATATTCATGTTCTGCTGCATATTATGAACTTGAATGAATGAAACACGTTG
Found at i:60557025 original size:21 final size:21
Alignment explanation
Indices: 60556999--60557042 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
60556989 GTAACACCGT
60556999 CTAGAAAAGAATGTTTAGAAC
1 CTAGAAAAGAATGTTTAGAAC
60557020 CTAGAAAAGAATGTTTAGAAC
1 CTAGAAAAGAATGTTTAGAAC
60557041 CT
1 CT
60557043 GGAACCCGAT
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:0.45, C:0.11, G:0.18, T:0.25
Consensus pattern (21 bp):
CTAGAAAAGAATGTTTAGAAC
Found at i:60557456 original size:193 final size:193
Alignment explanation
Indices: 60557127--60557669 Score: 838
Period size: 194 Copynumber: 2.8 Consensus size: 193
60557117 CTAAAGCAAT
* * * *
60557127 TATGAACTTGAATGAATGAAGCACATCG-TTTAACCGATGTAACACCCTCTAGAAAGGAATGTTT
1 TATGAACTTGAATGAATGAAGCACATTGCTAT-ACCGACGTAACACCCTCTAGAAAAGAATGTTT
*
60557191 AGAATTCGGAAACCAATATCTTTACAAGTAGCGGTGTGAATTCGTGACTTTTATGCATTTATAAT
65 AGAATTCGGAAACCAATATCTTTACAAGTAGCGGTGTGAATTCGTGACTTTTATGCTTTTATAAT
60557256 GAAATGTTTTTTATGTCTAGTGCACCCCTTTTGATTGAAGCCATATTCATGTTCTGCTGCATAC
130 GAAATGTTTTTTATGTCTAGTGCACCCCTTTTGATTGAAGCCATATTCATGTTCTGCTGCATAC
60557320 TATGAACTTGAATGAATGAAGCACATTGCTATACCGACGTAACACCCTCTAGAAAAGAATGTTTA
1 TATGAACTTGAATGAATGAAGCACATTGCTATACCGACGTAACACCCTCTAGAAAAGAATGTTTA
*
60557385 GAATTCGGAAACCAATATCTTTACAAGTAGCGGTGTGAATTCGTAACTTTTATGCTTTTATAATG
66 GAATTCGGAAACCAATATCTTTACAAGTAGCGGTGTGAATTCGTGACTTTTATGCTTTTATAATG
* *
60557450 AAATGTTTTTTATGTATAGTGCAACCCCTTTTGATTGAAGCGATATTCATGTTCTGCTGCATAC
131 AAATGTTTTTTATGTCTAGTGC-ACCCCTTTTGATTGAAGCCATATTCATGTTCTGCTGCATAC
* * *
60557514 TGTGAACTTGAATGAATGAAGCACGTTGCTATACCG-CGGTAACACCCTCTAGAAAAGAAGGTTT
1 TATGAACTTGAATGAATGAAGCACATTGCTATACCGAC-GTAACACCCTCTAGAAAAGAATGTTT
* * * ** * * * *
60557578 AGAACTCGAAAACCAATGTCTTTATGAGTAGCGATATGAATCCGTGACTTATATGCTTTTATAAT
65 AGAATTCGGAAACCAATATCTTTACAAGTAGCGGTGTGAATTCGTGACTTTTATGCTTTTATAAT
* * *
60557643 GAAATGTTTTTGATGGCTAGAGCACCC
130 GAAATGTTTTTTATGTCTAGTGCACCC
60557670 TTTGGTAAAA
Statistics
Matches: 322, Mismatches: 25, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
193 147 0.46
194 175 0.54
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (193 bp):
TATGAACTTGAATGAATGAAGCACATTGCTATACCGACGTAACACCCTCTAGAAAAGAATGTTTA
GAATTCGGAAACCAATATCTTTACAAGTAGCGGTGTGAATTCGTGACTTTTATGCTTTTATAATG
AAATGTTTTTTATGTCTAGTGCACCCCTTTTGATTGAAGCCATATTCATGTTCTGCTGCATAC
Found at i:60558497 original size:17 final size:18
Alignment explanation
Indices: 60558464--60558497 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
60558454 TTTCAAAGCT
*
60558464 TTCGTAGAAATTTTATTC
1 TTCGTAGAAAATTTATTC
60558482 TTCGTA-AAAATTTATT
1 TTCGTAGAAAATTTATT
60558498 TTAAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (18 bp):
TTCGTAGAAAATTTATTC
Found at i:60558951 original size:19 final size:20
Alignment explanation
Indices: 60558927--60558966 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
60558917 TAGCAATTAC
*
60558927 TTAATA-TATAAAAATACTT
1 TTAATATTATAAAAAAACTT
*
60558946 TTAATATTTTAAAAAAACTT
1 TTAATATTATAAAAAAACTT
60558966 T
1 T
60558967 AAGTAACTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (20 bp):
TTAATATTATAAAAAAACTT
Found at i:60565762 original size:30 final size:31
Alignment explanation
Indices: 60565726--60565795 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
60565716 AATAAACCTT
**
60565726 AATAGTTCAATGACTTAAAT-AAAACTTTCG
1 AATAGTTCAACAACTTAAATGAAAACTTTCG
* * *
60565756 AATAGTTCAGCAACTTAGATGAAAACTTTTG
1 AATAGTTCAACAACTTAAATGAAAACTTTCG
60565787 AATAGTTCA
1 AATAGTTCA
60565796 GTGATCAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 16 0.47
31 18 0.53
ACGTcount: A:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (31 bp):
AATAGTTCAACAACTTAAATGAAAACTTTCG
Found at i:60565784 original size:31 final size:30
Alignment explanation
Indices: 60565738--60565796 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 30
60565728 TAGTTCAATG
60565738 ACTTAAATAAAACTTTCGAATAGTTCAGCA
1 ACTTAAATAAAACTTTCGAATAGTTCAGCA
* *
60565768 ACTTAGATGAAAACTTTTGAATAGTTCAG
1 ACTTAAAT-AAAACTTTCGAATAGTTCAG
60565797 TGATCAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (30 bp):
ACTTAAATAAAACTTTCGAATAGTTCAGCA
Found at i:60568149 original size:30 final size:29
Alignment explanation
Indices: 60568115--60568174 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 29
60568105 TCGATTTTAA
60568115 TAAAATAAAT-TATTAAAAAATCATACAAAT
1 TAAAA-AAATATATTAAAAAATCATA-AAAT
* * *
60568145 TAAAAAGATATATTAATAAATTATAAAAT
1 TAAAAAAATATATTAAAAAATCATAAAAT
60568174 T
1 T
60568175 TGATTCAACT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
29 8 0.31
30 18 0.69
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (29 bp):
TAAAAAAATATATTAAAAAATCATAAAAT
Found at i:60569044 original size:22 final size:22
Alignment explanation
Indices: 60569002--60569044 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
60568992 ATTAAAATTT
* *
60569002 TTAAAAAATTTAAAGTTTAATA
1 TTAAAAAATATAAAGTCTAATA
60569024 TTAAAAAA-ATAAAGGTCTAAT
1 TTAAAAAATATAAA-GTCTAAT
60569045 TAATTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.35
Consensus pattern (22 bp):
TTAAAAAATATAAAGTCTAATA
Found at i:60584377 original size:30 final size:29
Alignment explanation
Indices: 60584307--60584378 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
60584297 AAAATTTTTC
*
60584307 AAAATTTTTAAACTTTTGAAGACTCAAGT
1 AAAATTTTAAAACTTTTGAAGACTCAAGT
* * *
60584336 AAAATTCTTAAAACTTTTGAGAGGCTTAATT
1 AAAATT-TTAAAACTTTTGA-AGACTCAAGT
*
60584367 GAAATTTTAAAA
1 AAAATTTTAAAA
60584379 AATTTCAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 6 0.17
30 18 0.50
31 12 0.33
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.38
Consensus pattern (29 bp):
AAAATTTTAAAACTTTTGAAGACTCAAGT
Found at i:60588102 original size:25 final size:23
Alignment explanation
Indices: 60588065--60588115 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 23
60588055 TTTTGAGCAA
60588065 TTTAATTTTTTCTTTTATCTTAT
1 TTTAATTTTTTCTTTTATCTTAT
* *
60588088 TTTAACTTTCTTTCTTTTTTCTTTT
1 TTTAA-TTT-TTTCTTTTATCTTAT
60588113 TTT
1 TTT
60588116 TCATTCTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.21
24 3 0.12
25 16 0.67
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTAATTTTTTCTTTTATCTTAT
Found at i:60592656 original size:30 final size:29
Alignment explanation
Indices: 60592586--60592657 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 29
60592576 AAAAATTTTC
*
60592586 AAAATTTTGAAACTTTTGAAGACTCAAGT
1 AAAATTTTAAAACTTTTGAAGACTCAAGT
* * *
60592615 AAAATTCTTAAAACTTTTGAGAGGCTTAATT
1 AAAATT-TTAAAACTTTTGA-AGACTCAAGT
*
60592646 GAAATTTTAAAA
1 AAAATTTTAAAA
60592658 AATTTCAAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
29 6 0.17
30 18 0.50
31 12 0.33
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.36
Consensus pattern (29 bp):
AAAATTTTAAAACTTTTGAAGACTCAAGT
Found at i:60610833 original size:4 final size:4
Alignment explanation
Indices: 60610824--60610849 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
60610814 AATATCCCAA
60610824 AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AA
60610850 ATGATCATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:60613627 original size:29 final size:29
Alignment explanation
Indices: 60613595--60613657 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
60613585 TTTTTTTAAA
*
60613595 AATTAAA-CCTCCAAAATTTT-AGATATTTT
1 AATTAAACCCT-CAAAATTTTGA-AAATTTT
60613624 AATTAAACCCTCAAAATTTTGAAAATTTT
1 AATTAAACCCTCAAAATTTTGAAAATTTT
60613653 AATTA
1 AATTA
60613658 GACTTCTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.44, C:0.13, G:0.03, T:0.40
Consensus pattern (29 bp):
AATTAAACCCTCAAAATTTTGAAAATTTT
Found at i:60614187 original size:4 final size:4
Alignment explanation
Indices: 60614178--60614204 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
60614168 TTATCATCAA
60614178 ATGT ATGT ATGT ATGT ATGT ATGT ATG
1 ATGT ATGT ATGT ATGT ATGT ATGT ATG
60614205 CATGCAACTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:60616362 original size:31 final size:31
Alignment explanation
Indices: 60616327--60616393 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
60616317 TTAATATATT
*
60616327 ATTTGATACATATGTTT-GGTGTTAATACTCA
1 ATTTGATACATATGTTTAGTTG-TAATACTCA
* * *
60616358 ATTTGATACTTGTGTTTAGTTGTAATATTCA
1 ATTTGATACATATGTTTAGTTGTAATACTCA
60616389 ATTTG
1 ATTTG
60616394 GTATCCAGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
31 28 0.90
32 3 0.10
ACGTcount: A:0.27, C:0.07, G:0.16, T:0.49
Consensus pattern (31 bp):
ATTTGATACATATGTTTAGTTGTAATACTCA
Found at i:60617565 original size:30 final size:29
Alignment explanation
Indices: 60617529--60617598 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 29
60617519 TGAGAAATTC
*
60617529 TTTTTAAAAAATTGAGTAGTC-TAATTAAAA
1 TTTTTAAAAAATTGA--AGGCTTAATTAAAA
*
60617559 TTTTTAAAAACTTGAAGGCTTAATTAAAA
1 TTTTTAAAAAATTGAAGGCTTAATTAAAA
60617588 TTTTCTAAAAA
1 TTTT-TAAAAA
60617599 CTTCAAGGGA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
28 3 0.08
29 13 0.36
30 20 0.56
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.40
Consensus pattern (29 bp):
TTTTTAAAAAATTGAAGGCTTAATTAAAA
Found at i:60617599 original size:30 final size:29
Alignment explanation
Indices: 60617550--60617606 Score: 96
Period size: 29 Copynumber: 1.9 Consensus size: 29
60617540 TTGAGTAGTC
*
60617550 TAATTAAAATTTTTAAAAACTTGAAGGCT
1 TAATTAAAATTTTTAAAAACTTCAAGGCT
60617579 TAATTAAAATTTTCTAAAAACTTCAAGG
1 TAATTAAAATTTT-TAAAAACTTCAAGG
60617607 GAGAAATGAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 13 0.50
30 13 0.50
ACGTcount: A:0.46, C:0.09, G:0.09, T:0.37
Consensus pattern (29 bp):
TAATTAAAATTTTTAAAAACTTCAAGGCT
Found at i:60620585 original size:18 final size:18
Alignment explanation
Indices: 60620564--60620602 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
60620554 TCATTAAAAA
*
60620564 TTTCATCAAACGTCTTAT
1 TTTCATCAAACGTCCTAT
60620582 TTTCATCAAACGTCCTAT
1 TTTCATCAAACGTCCTAT
60620600 TTT
1 TTT
60620603 ACTGTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.23, G:0.05, T:0.46
Consensus pattern (18 bp):
TTTCATCAAACGTCCTAT
Found at i:60621488 original size:221 final size:221
Alignment explanation
Indices: 60621105--60621505 Score: 560
Period size: 221 Copynumber: 1.8 Consensus size: 221
60621095 ATATATCATA
* * *
60621105 TATGGTACTTTCGTTTCTCTAACTCGTGTGAAAGAAAAGACTTGTTTAGTCCTTAGAATCAATTT
1 TATGGTACTTTCGTTTCTCTAACTCATGTGAAAGAAAAGAATCGTTTAGTCCTTAGAATCAATTT
*
60621170 TATGCATCGAGGTTCTGAGAGTCAAATGCTGCTTCCATCCGTTGTCGATATGCCGGTTATTTTTG
66 TATGCATCAAGGTTCTGAGAGTCAAATGCTGCTTCCATCCGTTGTCGATATGCCGGTTATTTTTG
* * * * *
60621235 TGTGAATCTTGTTGTGTCTGATATTAGTTCTTAACAAGATGTCGTGTTTGATCCCTCATCGTTAA
131 TGTGAATATTATTATGTCCGATATTAGTTCTTAACAAGATATCGTGTTTGATCCCTCATCGTTAA
60621300 ACCGAACCTTCATCGTACTTATTGTG
196 ACCGAACCTTCATCGTACTTATTGTG
* * * *
60621326 TATGGTACTTTCGTTTCTCTAGCATCATGTGAAAGCAAAGAATCGTTTAGT-C-T-G-TTCGATT
1 TATGGTACTTTCGTTTCTCTAAC-TCATGTGAAAGAAAAGAATCGTTTAGTCCTTAGAATCAATT
* * * * *
60621387 TTATGCATCAAGGTTCTGAGGGTCAAATGTTGC-TCCTATCCGTTGTTGATATTCCGGTGTTTTT
65 TTATGCATCAAGGTTCTGAGAGTCAAATGCTGCTTCC-ATCCGTTGTCGATATGCC-G-GTTATT
60621451 TTGTGTGTGAATATTATTATGTCCGATATTAGTTCTTAACAAGATATCGTGTTTG
127 TT-TGTGTGAATATTATTATGTCCGATATTAGTTCTTAACAAGATATCGTGTTTG
60621506 CTGTTCTGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
217 3 0.02
218 51 0.32
219 2 0.01
220 8 0.05
221 70 0.45
222 23 0.15
ACGTcount: A:0.22, C:0.16, G:0.20, T:0.41
Consensus pattern (221 bp):
TATGGTACTTTCGTTTCTCTAACTCATGTGAAAGAAAAGAATCGTTTAGTCCTTAGAATCAATTT
TATGCATCAAGGTTCTGAGAGTCAAATGCTGCTTCCATCCGTTGTCGATATGCCGGTTATTTTTG
TGTGAATATTATTATGTCCGATATTAGTTCTTAACAAGATATCGTGTTTGATCCCTCATCGTTAA
ACCGAACCTTCATCGTACTTATTGTG
Found at i:60622403 original size:12 final size:10
Alignment explanation
Indices: 60622375--60622421 Score: 58
Period size: 10 Copynumber: 4.5 Consensus size: 10
60622365 CCCTCATATG
60622375 TATATATACA
1 TATATATACA
*
60622385 TACATATACA
1 TATATATACA
60622395 TGCATATATACA
1 T--ATATATACA
*
60622407 TATATATATA
1 TATATATACA
60622417 TATAT
1 TATAT
60622422 GCATGTATGT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
10 23 0.72
12 9 0.28
ACGTcount: A:0.47, C:0.11, G:0.02, T:0.40
Consensus pattern (10 bp):
TATATATACA
Found at i:60624716 original size:15 final size:15
Alignment explanation
Indices: 60624682--60624724 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
60624672 ATTTAGGCCT
60624682 TAAATATTAAAATTTAAA
1 TAAAT-TTAAAA--TAAA
*
60624700 TATATTTAAAATAAA
1 TAAATTTAAAATAAA
60624715 TAAATTTAAA
1 TAAATTTAAA
60624725 TTTTAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 13 0.57
17 6 0.26
18 4 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
TAAATTTAAAATAAA
Found at i:60624738 original size:15 final size:16
Alignment explanation
Indices: 60624685--60624736 Score: 61
Period size: 16 Copynumber: 3.3 Consensus size: 16
60624675 TAGGCCTTAA
*
60624685 ATATTAAAATTTAAAT
1 ATATTTAAATTTAAAT
*
60624701 ATATTTAAA-ATAAAT
1 ATATTTAAATTTAAAT
* *
60624716 AAATTTAAATTTTAAT
1 ATATTTAAATTTAAAT
60624732 ATATT
1 ATATT
60624737 AATCTATTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
15 13 0.45
16 16 0.55
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATTTAAATTTAAAT
Done.