Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 131 of 235
Found at i:44504879 original size:14 final size:14
Alignment explanation
Indices: 44504857--44504886 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
44504847 TAGACTCGCA
*
44504857 GACATACAAGATGC
1 GACACACAAGATGC
44504871 GACACACAAGATGC
1 GACACACAAGATGC
44504885 GA
1 GA
44504887 GCTATCTTGA
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:0.43, C:0.23, G:0.23, T:0.10
Consensus pattern (14 bp):
GACACACAAGATGC
Found at i:44504922 original size:29 final size:29
Alignment explanation
Indices: 44504880--44504942 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
44504870 CGACACACAA
*
44504880 GATGCGAGCTATCTTGACACGCGAATTAC
1 GATGCGAGCTATCTTGACACGCGAACTAC
* * *
44504909 GATGTGAGCTATCTTGACATGTGAACTAC
1 GATGCGAGCTATCTTGACACGCGAACTAC
44504938 GATGC
1 GATGC
44504943 TGTGAACTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (29 bp):
GATGCGAGCTATCTTGACACGCGAACTAC
Found at i:44505650 original size:13 final size:13
Alignment explanation
Indices: 44505634--44505662 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
44505624 CTTTTTTACC
44505634 GCACTTTTCAAAA
1 GCACTTTTCAAAA
44505647 GCACTTTTCAAAA
1 GCACTTTTCAAAA
44505660 GCA
1 GCA
44505663 ATGAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (13 bp):
GCACTTTTCAAAA
Found at i:44506783 original size:8 final size:8
Alignment explanation
Indices: 44506770--44506809 Score: 80
Period size: 8 Copynumber: 5.0 Consensus size: 8
44506760 TTAGCTCTTG
44506770 TTATTTTA
1 TTATTTTA
44506778 TTATTTTA
1 TTATTTTA
44506786 TTATTTTA
1 TTATTTTA
44506794 TTATTTTA
1 TTATTTTA
44506802 TTATTTTA
1 TTATTTTA
44506810 AATTTTTAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 32 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATTTTA
Found at i:44506817 original size:16 final size:16
Alignment explanation
Indices: 44506770--44506815 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
44506760 TTAGCTCTTG
*
44506770 TTATTTTATTATTTTA
1 TTATTTTAATATTTTA
*
44506786 TTATTTTATTATTTTA
1 TTATTTTAATATTTTA
44506802 TTATTTTAA-ATTTT
1 TTATTTTAATATTTT
44506816 TAATAATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
15 5 0.17
16 24 0.83
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTTTAATATTTTA
Found at i:44507609 original size:16 final size:15
Alignment explanation
Indices: 44507583--44507613 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
44507573 ACATTTATTC
44507583 AAAATATTAAAAATT
1 AAAATATTAAAAATT
44507598 AAAATAATTAAAAATT
1 AAAAT-ATTAAAAATT
44507614 TTAGTTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
AAAATATTAAAAATT
Found at i:44510310 original size:29 final size:30
Alignment explanation
Indices: 44510269--44510325 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
44510259 TACAGATAGT
* *
44510269 CACCCAACTATAAAAAATTTTCAATTTAGG
1 CACCCAACAATAAAAAATTTCCAATTTAGG
44510299 CACCCAA-AATAAAAAATTTCCAATTTA
1 CACCCAACAATAAAAAATTTCCAATTTA
44510326 AGTTTCACGT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 18 0.72
30 7 0.28
ACGTcount: A:0.47, C:0.21, G:0.04, T:0.28
Consensus pattern (30 bp):
CACCCAACAATAAAAAATTTCCAATTTAGG
Found at i:44510643 original size:15 final size:16
Alignment explanation
Indices: 44510625--44510658 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
44510615 AAATAGTTTG
*
44510625 AAAT-TTAATATTTTA
1 AAATATTAATATTGTA
44510640 AAATATTAATATTGTA
1 AAATATTAATATTGTA
44510656 AAA
1 AAA
44510659 ATCTCCGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
AAATATTAATATTGTA
Found at i:44515954 original size:24 final size:24
Alignment explanation
Indices: 44515926--44515972 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
44515916 TTCAACTTTG
44515926 AGTTAGGTGACAAAACAATCACTT
1 AGTTAGGTGACAAAACAATCACTT
* *
44515950 AGTTAGTTGATAAAACAATCACT
1 AGTTAGGTGACAAAACAATCACT
44515973 CAGGTTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.28
Consensus pattern (24 bp):
AGTTAGGTGACAAAACAATCACTT
Found at i:44532041 original size:93 final size:93
Alignment explanation
Indices: 44531933--44532103 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
44531923 CGCCCATAAG
* * *
44531933 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTC-GGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAAC-CAAGACTCAACTC
*
44531997 AACGAGCTCGGATGCCTAGTTACACTTCA
65 AACAAGCTCGGATGCCTAGTTACACTTCA
* *
44532026 CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTGAACCAAGATTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACCAAGACTCAACTCA
*
44532091 ACAAGTTCGGATG
66 ACAAGCTCGGATG
44532104 TTTGCATCCA
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 69 0.99
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACGTTCACATCCATAAGTGAACCAAGACTCAACTCA
ACAAGCTCGGATGCCTAGTTACACTTCA
Found at i:44532149 original size:46 final size:46
Alignment explanation
Indices: 44531926--44532196 Score: 225
Period size: 46 Copynumber: 5.8 Consensus size: 46
44531916 TGTAACCCGC
* * ** *
44531926 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACAT
* *
44531972 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACA-
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TCACAT
* * * *
44532021 -CTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACAT
* * * **
44532065 CCATAAGTGAAC-CAAGATTCAACTCAACAAGTTCGGATGTTTGCAT
1 CCATAAGTGAACTC-GGACTCAACTCAACGAGTTCGGATGTTCACAT
* *
44532111 CCATAAGTGAACTCGGACTCAACTCAACGAGTTGGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG--T--TCACAT
*
44532161 CTCA-CA---AACTCGGACTCAACTCAACGAGTTCGGATG
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
44532197 GCCAAATATC
Statistics
Matches: 184, Mismatches: 27, Indels: 27
0.77 0.11 0.11
Matches are distributed among these distances:
43 4 0.02
45 5 0.03
46 99 0.54
47 59 0.32
48 5 0.03
50 10 0.05
51 2 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACAT
Found at i:44532176 original size:139 final size:139
Alignment explanation
Indices: 44531944--44532194 Score: 414
Period size: 139 Copynumber: 1.8 Consensus size: 139
44531934 GAACTCGGAC
* *
44531944 TCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 TCAACTCAACAAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
*
44532009 TGCCTAGTTACACTTCACGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTG
66 TGCCTAGTTACACTTCACAAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTG
44532074 AACCAAGAT
131 AACCAAGAT
* * * * *
44532083 TCAACTCAACAAGTTCGGATGTTTGCATCCATAAGTGAACTCGGACTCAACTCAACGAGTTGGGA
1 TCAACTCAACAAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
44532148 TGCCTAGTTACA-TCTCACAAACTCGGACTCAACTCAACGAGTTCGGA
66 TGCCTAGTTACACT-TCACAAACTCGGACTCAACTCAACGAGTTCGGA
44532195 TGGCCAAATA
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
138 1 0.01
139 102 0.99
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (139 bp):
TCAACTCAACAAGCTCGGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
TGCCTAGTTACACTTCACAAACTCGGACTCAACTCAACGAGTTCGGACGTTCACATCCATAAGTG
AACCAAGAT
Found at i:44535071 original size:40 final size:40
Alignment explanation
Indices: 44535027--44535146 Score: 204
Period size: 40 Copynumber: 3.0 Consensus size: 40
44535017 GAACATGATA
*
44535027 AAATTTTGACATTTTGATAACATGTTAAATGATGTAACAT
1 AAATTTTGACATTTTGATAACATGTTAAATGACGTAACAT
44535067 AAATTTTGACATTTTGATAACATGTTAAATGACGTAACAT
1 AAATTTTGACATTTTGATAACATGTTAAATGACGTAACAT
* * *
44535107 AAATTTTGATATTTTGATAACGTGTTAAATGACCTAACAT
1 AAATTTTGACATTTTGATAACATGTTAAATGACGTAACAT
44535147 TAGAGGCAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.39, C:0.09, G:0.12, T:0.39
Consensus pattern (40 bp):
AAATTTTGACATTTTGATAACATGTTAAATGACGTAACAT
Found at i:44535672 original size:44 final size:44
Alignment explanation
Indices: 44535598--44535693 Score: 131
Period size: 44 Copynumber: 2.2 Consensus size: 44
44535588 TATTAAACTC
* * * * *
44535598 TAATTTTAGTTTCTCACTTAAACTTAAATTAGTGTAGGTTATTT
1 TAATATTAGTTACCCACTTAAACTTAAATTAGAGTAAGTTATTT
44535642 TAATATTAGTTACCCACTTAAACTCT-AATTAGAGTAAGTTATTT
1 TAATATTAGTTACCCACTTAAACT-TAAATTAGAGTAAGTTATTT
44535686 TAATATTA
1 TAATATTA
44535694 TTTGACCTAC
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 45 0.98
45 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.46
Consensus pattern (44 bp):
TAATATTAGTTACCCACTTAAACTTAAATTAGAGTAAGTTATTT
Found at i:44536932 original size:26 final size:28
Alignment explanation
Indices: 44536893--44536945 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 28
44536883 TGAAAATCAA
44536893 ACTGAAGTTAAAAAATTAAAAAAAAACC
1 ACTGAAGTTAAAAAATTAAAAAAAAACC
*
44536921 ACTGAA-TT-AAAAATTAAAAGAAAAC
1 ACTGAAGTTAAAAAATTAAAAAAAAAC
44536946 TCCAGTGAGC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 16 0.67
27 2 0.08
28 6 0.25
ACGTcount: A:0.64, C:0.09, G:0.08, T:0.19
Consensus pattern (28 bp):
ACTGAAGTTAAAAAATTAAAAAAAAACC
Found at i:44538713 original size:18 final size:19
Alignment explanation
Indices: 44538686--44538726 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
44538676 AGGTGGTATT
44538686 ATAATGTTGATCT-GA-AA
1 ATAATGTTGATCTAGAGAA
44538703 ATAACTGTTGATCTAGAGAA
1 ATAA-TGTTGATCTAGAGAA
44538723 ATAA
1 ATAA
44538727 AGTGCGTGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.19
18 9 0.43
19 2 0.10
20 6 0.29
ACGTcount: A:0.44, C:0.07, G:0.17, T:0.32
Consensus pattern (19 bp):
ATAATGTTGATCTAGAGAA
Found at i:44538915 original size:58 final size:58
Alignment explanation
Indices: 44538788--44538929 Score: 169
Period size: 58 Copynumber: 2.4 Consensus size: 58
44538778 TTATGAAGAT
* * * * *
44538788 GATATGCCTTACCTTCGTCGAGAG-CTAGAACGGTTCATGGAGGGGCCCGAATGTTGAA
1 GATATACCTCACCTTCATCGAGAGCCT-GAATGGTTCATGGAGGGACCCGAATGTTGAA
** * * *
44538846 GATATGTCTCACTTTCATTGAGAGCCTGAATGGTTCATGGAGGGACCCGAGTGTTGAA
1 GATATACCTCACCTTCATCGAGAGCCTGAATGGTTCATGGAGGGACCCGAATGTTGAA
*
44538904 GATATACCTCACCTTGATCGAGAGCC
1 GATATACCTCACCTTCATCGAGAGCC
44538930 CAAAAGATTT
Statistics
Matches: 70, Mismatches: 13, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
58 68 0.97
59 2 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (58 bp):
GATATACCTCACCTTCATCGAGAGCCTGAATGGTTCATGGAGGGACCCGAATGTTGAA
Found at i:44538944 original size:58 final size:58
Alignment explanation
Indices: 44538821--44538944 Score: 140
Period size: 58 Copynumber: 2.1 Consensus size: 58
44538811 GCTAGAACGG
* ** * * ** * *
44538821 TTCATGGAGGGGCCCGAATGTTGAAGATATGTCTCACTTTCATTGAGAGCCTGAATGG
1 TTCATGGAGGGACCCGAATGTTGAAGATATACCTCACCTTCATCGAGAGCCCAAAAGA
* *
44538879 TTCATGGAGGGACCCGAGTGTTGAAGATATACCTCACCTTGATCGAGAGCCCAAAAGA
1 TTCATGGAGGGACCCGAATGTTGAAGATATACCTCACCTTCATCGAGAGCCCAAAAGA
*
44538937 TTTATGGA
1 TTCATGGA
44538945 TGCCTCATCT
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 54 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (58 bp):
TTCATGGAGGGACCCGAATGTTGAAGATATACCTCACCTTCATCGAGAGCCCAAAAGA
Found at i:44540742 original size:60 final size:60
Alignment explanation
Indices: 44540665--44540779 Score: 162
Period size: 60 Copynumber: 1.9 Consensus size: 60
44540655 AAATTTCAAC
* * * *
44540665 AAATTTAGCCCTTAATATTTACAAAATTTGTCATTTTAGTTCTAAT-TCTAAAAAAATAAT
1 AAATTTAGCCCTTAATATTTACAAAATCTATCAATTTAGTCCT-ATCTCTAAAAAAATAAT
44540725 AAATTT-GACCCTTAATATTTACAAAATCTATCAATTTAGTCCTATCTCTAAAAAA
1 AAATTTAG-CCCTTAATATTTACAAAATCTATCAATTTAGTCCTATCTCTAAAAAA
44540780 TTAAAAGATA
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
59 3 0.06
60 46 0.94
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.39
Consensus pattern (60 bp):
AAATTTAGCCCTTAATATTTACAAAATCTATCAATTTAGTCCTATCTCTAAAAAAATAAT
Found at i:44541423 original size:31 final size:29
Alignment explanation
Indices: 44541363--44541433 Score: 72
Period size: 31 Copynumber: 2.4 Consensus size: 29
44541353 TTTTGAAAAG
* * *
44541363 TTAAGTGACTAAATTAAAAAAAATAATAA
1 TTAAGTGACCAAAATAAAAAAAAGAATAA
*
44541392 TTAAGTGACCAAAATAGAACAAAAAGCATAA
1 TTAAGTGACCAAAATA-AA-AAAAAGAATAA
44541423 TT-AGATGACCA
1 TTAAG-TGACCA
44541434 TTTTTATAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
29 14 0.40
30 4 0.11
31 17 0.49
ACGTcount: A:0.56, C:0.10, G:0.11, T:0.23
Consensus pattern (29 bp):
TTAAGTGACCAAAATAAAAAAAAGAATAA
Found at i:44559321 original size:47 final size:47
Alignment explanation
Indices: 44559257--44559367 Score: 145
Period size: 47 Copynumber: 2.4 Consensus size: 47
44559247 GACATTGAGT
* *
44559257 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTATTC
* * *
44559304 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTATTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
44559351 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
44559368 CTTATCCCGG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
47 51 0.93
48 4 0.07
ACGTcount: A:0.26, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTATTC
Found at i:44571901 original size:4 final size:4
Alignment explanation
Indices: 44571892--44571972 Score: 72
Period size: 4 Copynumber: 19.8 Consensus size: 4
44571882 AGTAAGTTAA
* *** * *
44571892 AAAG AAAG AAAG AAAG AAAG AAAG ATAG AAAG AGTT ACAG AGAG CAAACG
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG -AAA-G
**
44571942 TGAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
1 AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAA
44571973 TAGAAAAGGG
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
4 57 0.93
5 3 0.05
6 1 0.02
ACGTcount: A:0.65, C:0.04, G:0.26, T:0.05
Consensus pattern (4 bp):
AAAG
Found at i:44572800 original size:47 final size:47
Alignment explanation
Indices: 44572736--44572846 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
44572726 GACATTGAGT
*
44572736 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
44572783 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
44572830 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
44572847 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:44585096 original size:17 final size:16
Alignment explanation
Indices: 44585073--44585114 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 16
44585063 TCAATAGTGA
44585073 AAAAAAAATGCTGAAAAC
1 AAAAAAAA--CTGAAAAC
44585091 AAAAAAAACTGAAAAC
1 AAAAAAAACTGAAAAC
44585107 AAAAAAAA
1 AAAAAAAA
44585115 ATAAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 16 0.67
18 8 0.33
ACGTcount: A:0.76, C:0.10, G:0.07, T:0.07
Consensus pattern (16 bp):
AAAAAAAACTGAAAAC
Found at i:44585121 original size:16 final size:16
Alignment explanation
Indices: 44585086--44585121 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
44585076 AAAAATGCTG
* *
44585086 AAAACAAAAAAAACTG
1 AAAACAAAAAAAAATA
44585102 AAAACAAAAAAAAATA
1 AAAACAAAAAAAAATA
44585118 AAAA
1 AAAA
44585122 AAATAGGTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.83, C:0.08, G:0.03, T:0.06
Consensus pattern (16 bp):
AAAACAAAAAAAAATA
Found at i:44585285 original size:17 final size:16
Alignment explanation
Indices: 44585265--44585320 Score: 57
Period size: 13 Copynumber: 3.7 Consensus size: 16
44585255 AAAGGGAAAG
*
44585265 AAAGGAGAAGAGAAGAA
1 AAAGAAGAAG-GAAGAA
44585282 AAAGAAGAAGGAAGAA
1 AAAGAAGAAGGAAGAA
*
44585298 AGA-AAGAA--AAGAA
1 AAAGAAGAAGGAAGAA
44585311 AAA-AAGAAGG
1 AAAGAAGAAGG
44585321 TATAATTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 12 0.35
15 5 0.15
16 8 0.24
17 9 0.26
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (16 bp):
AAAGAAGAAGGAAGAA
Found at i:44585317 original size:28 final size:31
Alignment explanation
Indices: 44585262--44585320 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 31
44585252 AAGAAAGGGA
*
44585262 AAGAAAGGAGAAGAGAAGAAAAAGAAGAAGG
1 AAGAAAGGAGAAGAAAAGAAAAAGAAGAAGG
44585293 AAGAAA-GA-AAGAAAAGAAAAA-AAGAAGG
1 AAGAAAGGAGAAGAAAAGAAAAAGAAGAAGG
44585321 TATAATTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 7 0.26
29 12 0.44
30 2 0.07
31 6 0.22
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (31 bp):
AAGAAAGGAGAAGAAAAGAAAAAGAAGAAGG
Found at i:44590218 original size:17 final size:17
Alignment explanation
Indices: 44590196--44590234 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
44590186 CGGTAATAGT
44590196 ATGTTCCAATTTA-ATTA
1 ATGTTCCAA-TTAGATTA
44590213 ATGTTCCAATTAGATTA
1 ATGTTCCAATTAGATTA
44590230 ATGTT
1 ATGTT
44590235 GTAATGTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 3 0.14
17 18 0.86
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (17 bp):
ATGTTCCAATTAGATTA
Found at i:44593082 original size:26 final size:26
Alignment explanation
Indices: 44593052--44593112 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
44593042 AATAACCCTG
44593052 ATTTTAGCACTTTATTCGTATTT-T-TT
1 ATTTTAGCACTTTATT--TATTTATATT
* * *
44593078 ATTTTCGTATTTTATTTATTTATATT
1 ATTTTAGCACTTTATTTATTTATATT
44593104 ATTTTAGCA
1 ATTTTAGCA
44593113 AAAAATGTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
24 5 0.18
25 1 0.04
26 22 0.79
ACGTcount: A:0.23, C:0.08, G:0.07, T:0.62
Consensus pattern (26 bp):
ATTTTAGCACTTTATTTATTTATATT
Found at i:44593085 original size:150 final size:151
Alignment explanation
Indices: 44592776--44593099 Score: 519
Period size: 151 Copynumber: 2.1 Consensus size: 151
44592766 ATAAGTAAAA
44592776 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTAATATTATTTTAGC
1 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTAATATTATTTTAGC
44592841 AAAAAATGTTTCAAATGTATTATGTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTT
66 AAAAAATGTTTCAAATGTATTATGTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTT
* *
44592906 TGGCACTTTCTTCGTATTTTT
131 TAGCACTTTATTCGTATTTTT
*
44592927 TATTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTTT-ATATTATTTTAG
1 TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTT-TTTAATATTATTTTAG
* * * * *
44592991 TACATAATGTTTCAAATGTATTATTTAAGTG-TTTTTTATATT-TTCTTAATAAATAACCCTGAT
65 CAAAAAATGTTTCAAATGTATTATGTAAGTGTTTTTTTATATTAAT-TTAATAAATAACCCTGAT
44593054 TTTAGCACTTTATTCGTATTTTT
129 TTTAGCACTTTATTCGTATTTTT
*
44593077 TATTTTCGTATTTTATTTATTTA
1 TATTTTCGTATATTATTT-TTTA
44593100 TATTATTTTA
Statistics
Matches: 161, Mismatches: 9, Indels: 6
0.91 0.05 0.03
Matches are distributed among these distances:
149 1 0.01
150 67 0.42
151 90 0.56
152 3 0.02
ACGTcount: A:0.28, C:0.08, G:0.07, T:0.57
Consensus pattern (151 bp):
TATTTTCGTATATTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTAATATTATTTTAGC
AAAAAATGTTTCAAATGTATTATGTAAGTGTTTTTTTATATTAATTTAATAAATAACCCTGATTT
TAGCACTTTATTCGTATTTTT
Found at i:44593125 original size:120 final size:121
Alignment explanation
Indices: 44592956--44593220 Score: 356
Period size: 120 Copynumber: 2.2 Consensus size: 121
44592946 TTAAAATATA
* * * *
44592956 TTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT
1 TTATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGT
* * *
44593021 -GTTTTTTATATT-TTCTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA-TTTT
65 AGTTTTTTATATTAAT-TTAATAAAAAACCCTAATTTTAGCACTTTATTCGTATTTTT
44593076 TTATTTTCGTATTTTATTTATTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGT
1 TTATTTTCGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGT
* * * * *
44593141 ATTTTTTTATATTAATTTAATAAAAAATCCTAATTTTGGCATTTTCTTCGTATTTTT
65 AGTTTTTTATATTAATTTAATAAAAAACCCTAATTTTAGCACTTTATTCGTATTTTT
* *
44593198 TTATTTTTGTATCTTATTTTTTA
1 TTATTTTCGTATTTTATTTTTTA
44593221 AAATATATTA
Statistics
Matches: 127, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
120 60 0.47
121 45 0.35
122 22 0.17
ACGTcount: A:0.28, C:0.08, G:0.07, T:0.57
Consensus pattern (121 bp):
TTATTTTCGTATTTTATTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGTA
GTTTTTTATATTAATTTAATAAAAAACCCTAATTTTAGCACTTTATTCGTATTTTT
Found at i:44593414 original size:151 final size:151
Alignment explanation
Indices: 44593076--44594316 Score: 1740
Period size: 151 Copynumber: 8.3 Consensus size: 151
44593066 TTCGTATTTT
* * *
44593076 TTATTTTCGTATTTTATTTATTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGT
1 TTATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAAAAATGTTTCAAATGTATTATTTAAGT
* * * * * * * *
44593141 ATTTTTTTATATTAATTTAATAAAAAATCCTAATTTTGGCATTTTCTTCGTATTTTTTTATTTTT
66 GTTTTTTTATATTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA-TTTTTTATTTTC
44593206 GTATCTTATTTTTTAAAATATA
130 GTATCTTATTTTTTAAAATATA
* * * * *
44593228 TTATTTTCCTATTTTATTCCTTTACATTATTTTAGTACATAATGTTTCAAATGTATTATTTAAGT
1 TTATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAAAAATGTTTCAAATGTATTATTTAAGT
* *
44593293 GTTTTTTTATATT-TTCTTAATAAATAATCCTGATTTTAGCACTTTATTCGTATTTTTTATTTTC
66 GTTTTTTTATATTAAT-TTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTATTTTC
44593357 GTATCTTATTTTTTAAAATATA
130 GTATCTTATTTTTTAAAATATA
* ** * *
44593379 TTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATGATGTTTGAAATGTATGATTTAAGT
1 TTATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAAAAATGTTTCAAATGTATTATTTAAGT
* * *
44593444 GTTTTTTTATATT-TTCTTAATAAATAATCCTGATTTTAGCACTTTATTCGTA-TTTTTATTTTT
66 GTTTTTTTATATTAAT-TTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTATTTTC
*
44593507 GTATATTATTTTTTAAAATATA
130 GTATCTTATTTTTTAAAATATA
**
44593529 TTATTTTCGTATTTTATTT-TTTATATTATTTTAGTAAAAAATGTTTCAAATGTATTACGTAAGT
1 TTATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAAAAATGTTTCAAATGTATTATTTAAGT
* *
44593593 G-TTTTTTATATTAATTTAATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTC
66 GTTTTTTTATATTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA-TTTTTTATTTTC
*
44593657 GTATCTTATTTTTTAAAATGTA
130 GTATCTTATTTTTTAAAATATA
* * *
44593679 TTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATATTTCAAATGTATTATTTAAGT
1 TTATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAAAAATGTTTCAAATGTATTATTTAAGT
*
44593744 G-TTTTTTATATT-TTCTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTATTTTC
66 GTTTTTTTATATTAAT-TTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTATTTTC
* * *
44593807 ATATATTATTTTTTAAAATATT
130 GTATCTTATTTTTTAAAATATA
* * * *
44593829 TTATTTTTGTATTTTATTTTTTTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTACTTAAG
1 TTATTTTCGTATTTTA-TTTCTTTATATTATTTTAGTAAAAAATGTTTCAAATGTATTATTTAAG
* *
44593894 TGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTGGCACTTTATTTGTATTTTTTATTTTC
65 TGTTTTTTTATATTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTATTTTC
44593959 GTATCTTATTTTTTAAAATATA
130 GTATCTTATTTTTTAAAATATA
* * * * *
44593981 TTATTTTCATATTTTATTTCTTTATATTATTTTAATACATAATGTTTTAAATGTATTATTTAAGT
1 TTATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAAAAATGTTTCAAATGTATTATTTAAGT
* *
44594046 GTTTTTTTATATT-TTTTAATAAATAACCCTGATTTTAGCACTTTATTTGTATTTTTTATTTTCG
66 GTTTTTTTATATTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTATTTTCG
*
44594110 TATATTA-TTTTTAAAATATA
131 TATCTTATTTTTTAAAATATA
* *
44594130 TTATTTTTGTATTTTATTT-TTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATTTAAGT
1 TTATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAAAAATGTTTCAAATGTATTATTTAAGT
* * * *
44594194 -TTTTTTTATATTAATTTAATAAATAACCCTGACTTTGGCACCTTGTTCGTATTTTTTTATTTTC
66 GTTTTTTTATATTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTA-TTTTTTATTTTC
*
44594258 GGA---T-TTTTTTAAAATATA
130 GTATCTTATTTTTTAAAATATA
* * *
44594276 CTATTTTCATATTTTATTT-TTTATATTATTTTAGCAAAAAA
1 TTATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAAAAA
44594317 CTCGTCAGCA
Statistics
Matches: 985, Mismatches: 92, Indels: 30
0.89 0.08 0.03
Matches are distributed among these distances:
146 52 0.05
147 12 0.01
148 116 0.12
149 84 0.09
150 200 0.20
151 330 0.34
152 190 0.19
153 1 0.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (151 bp):
TTATTTTCGTATTTTATTTCTTTATATTATTTTAGTAAAAAATGTTTCAAATGTATTATTTAAGT
GTTTTTTTATATTAATTTAATAAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTATTTTCG
TATCTTATTTTTTAAAATATA
Found at i:44593517 original size:13 final size:13
Alignment explanation
Indices: 44593499--44593560 Score: 54
Period size: 13 Copynumber: 4.5 Consensus size: 13
44593489 ATTCGTATTT
44593499 TTATTTTTGTATA
1 TTATTTTTGTATA
*
44593512 TTATTTTTTAAAATATA
1 TTA-TTTTT---GTATA
* *
44593529 TTATTTTCGTATT
1 TTATTTTTGTATA
44593542 TTATTTTT-TATA
1 TTATTTTTGTATA
44593554 TTATTTT
1 TTATTTT
44593561 AGTAAAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
12 10 0.26
13 13 0.33
14 5 0.13
16 4 0.10
17 7 0.18
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (13 bp):
TTATTTTTGTATA
Found at i:44593647 original size:451 final size:450
Alignment explanation
Indices: 44593076--44594316 Score: 1804
Period size: 451 Copynumber: 2.8 Consensus size: 450
44593066 TTCGTATTTT
*
44593076 TTATTTTCGTATTTTATTTATTTATATTATTTTAGCAAAAAATGTTTCAAATGTATTATGTAAGT
1 TTATTTTCGTATTTTATTTATTTATATTATTTTAGTAAAAAATGTTTCAAATGTATTATGTAAGT
* * * * * *
44593141 ATTTTTTTATATTAATTTAATAAAAAATCCTAATTTTGGCATTTTCTTCGTATTTTTTTATTTTT
66 -GTTTTTTATATTAATTTAATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTC
* *
44593206 GTATCTTATTTTTTAAAATATATTATTTTCCTATTTTATTCCTTTACATTATTTTAGTACATAAT
130 GTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATT-CTTTATATTATTTTAGTACATAAT
*
44593271 GTTTCAAATGTATTATTTAAGTGTTTTTTTATATTTTCTTAATAAATAATCCTGATTTTAGCACT
194 GTTTCAAATGTATTATTTAAGTGTTTTTTTATATTTTCTTAATAAATAACCCTGATTTTAGCACT
44593336 TTATTCGTATTTTTTATTTTCGTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTTCTT
259 TTATTCGTATTTTTTATTTTCGTAT-TTATTTTTTAAAATATATTATTTTCGTATTTTATTT-TT
* * ** * * *
44593401 TATATTATTTTAGTACATGATGTTTGAAATGTATGATTTAAGTGTTTTTTTATATT-TTCTTAAT
322 TATATTATTTTAGCAAAAAATGTTTCAAATGTATGACTTAAGTGTTTTTTTATATTAAT-TTAAT
* *
44593465 AAATAATCCTGATTTTAGCACTTTATTCGTA-TTTTTATTTTTGTATATTATTTTTTAAAATATA
386 AAATAACCCTGATTTTAGCACTTTATTCGTATTTTTTATTTTCGTATATTATTTTTTAAAATATA
*
44593529 TTATTTTCGTATTTTATTT-TTTATATTATTTTAGTAAAAAATGTTTCAAATGTATTACGTAAGT
1 TTATTTTCGTATTTTATTTATTTATATTATTTTAGTAAAAAATGTTTCAAATGTATTATGTAAGT
44593593 GTTTTTTATATTAATTTAATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCG
66 GTTTTTTATATTAATTTAATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCG
* *
44593658 TATCTTATTTTTTAAAATGTATTATTTTCGTATTTTATTTCTTTATATTATTTTAGTACATAATA
131 TATCTTATTTTTTAAAATATATTATTTTCGTATTTTA-TTCTTTATATTATTTTAGTACATAATG
44593723 TTTCAAATGTATTATTTAAGTG-TTTTTTATATTTTCTTAATAAATAACCCTGATTTTAGCACTT
195 TTTCAAATGTATTATTTAAGTGTTTTTTTATATTTTCTTAATAAATAACCCTGATTTTAGCACTT
* * *
44593787 TATTCGTATTTTTTATTTTCATATATTATTTTTTAAAATATTTTATTTTTGTATTTTATTTTTTT
260 TATTCGTATTTTTTATTTTCGTAT-TTATTTTTTAAAATATATTATTTTCGTATTTTA--TTTTT
*
44593852 TATATTATTTTAGCAAAAAATGTTTCAAATGTATTACTTAAGTGTTTTTTTATATTAATTTAATA
322 TATATTATTTTAGCAAAAAATGTTTCAAATGTATGACTTAAGTGTTTTTTTATATTAATTTAATA
* * *
44593917 AATAACCCTGATTTTGGCACTTTATTTGTATTTTTTATTTTCGTATCTTATTTTTTAAAATATA
387 AATAACCCTGATTTTAGCACTTTATTCGTATTTTTTATTTTCGTATATTATTTTTTAAAATATA
* * * * * * *
44593981 TTATTTTCATATTTTATTTCTTTATATTATTTTAATACATAATGTTTTAAATGTATTATTTAAGT
1 TTATTTTCGTATTTTATTTATTTATATTATTTTAGTAAAAAATGTTTCAAATGTATTATGTAAGT
* * * *
44594046 GTTTTTTTATATT-TTTTAATAAATAACCCTGATTTTAGCACTTTATTTGTA-TTTTTTATTTTC
66 G-TTTTTTATATTAATTTAATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTC
* * * * * *
44594109 GTATATTA-TTTTTAAAATATATTATTTTTGTATTTTATTTTTTATATTATTTTAGCAAAAAATG
130 GTATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTCTTTATATTATTTTAGTACATAATG
* * * *
44594173 TTTCAAATGTATTATTTAAGT-TTTTTTTATATTAAT-TTAATAAATAACCCTGACTTTGGCACC
195 TTTCAAATGTATTATTTAAGTGTTTTTTTATATT-TTCTTAATAAATAACCCTGATTTTAGCACT
* * * *
44594236 TTGTTCGTATTTTTTTATTTTCGGA--T-TTTTTTAAAATATACTATTTTCATATTTTATTTTTT
259 TTATTCGTA-TTTTTTATTTTCGTATTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTT
44594298 ATATTATTTTAGCAAAAAA
323 ATATTATTTTAGCAAAAAA
44594317 CTCGTCAGCA
Statistics
Matches: 718, Mismatches: 60, Indels: 28
0.89 0.07 0.03
Matches are distributed among these distances:
445 25 0.03
447 26 0.04
448 1 0.00
450 181 0.25
451 264 0.37
452 117 0.16
453 93 0.13
454 11 0.02
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (450 bp):
TTATTTTCGTATTTTATTTATTTATATTATTTTAGTAAAAAATGTTTCAAATGTATTATGTAAGT
GTTTTTTATATTAATTTAATAAATAACCCTGATTTTGGCACTTTCTTCGTATTTTTTTATTTTCG
TATCTTATTTTTTAAAATATATTATTTTCGTATTTTATTCTTTATATTATTTTAGTACATAATGT
TTCAAATGTATTATTTAAGTGTTTTTTTATATTTTCTTAATAAATAACCCTGATTTTAGCACTTT
ATTCGTATTTTTTATTTTCGTATTTATTTTTTAAAATATATTATTTTCGTATTTTATTTTTTATA
TTATTTTAGCAAAAAATGTTTCAAATGTATGACTTAAGTGTTTTTTTATATTAATTTAATAAATA
ACCCTGATTTTAGCACTTTATTCGTATTTTTTATTTTCGTATATTATTTTTTAAAATATA
Found at i:44593696 original size:16 final size:16
Alignment explanation
Indices: 44593638--44593696 Score: 50
Period size: 16 Copynumber: 3.8 Consensus size: 16
44593628 TGGCACTTTC
*
44593638 TTCGTATTTTTTTATT
1 TTCGTATTTTATTATT
*
44593654 TTCGTATCTTATT-TT
1 TTCGTATTTTATTATT
** * *
44593669 TT-AAAATGTATTATT
1 TTCGTATTTTATTATT
44593684 TTCGTATTTTATT
1 TTCGTATTTTATT
44593697 TCTTTATATT
Statistics
Matches: 30, Mismatches: 11, Indels: 4
0.67 0.24 0.09
Matches are distributed among these distances:
14 5 0.17
15 8 0.27
16 17 0.57
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.66
Consensus pattern (16 bp):
TTCGTATTTTATTATT
Found at i:44593843 original size:13 final size:13
Alignment explanation
Indices: 44593825--44593849 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44593815 TTTTTTAAAA
44593825 TATTTTATTTTTG
1 TATTTTATTTTTG
44593838 TATTTTATTTTT
1 TATTTTATTTTT
44593850 TTTATATTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
TATTTTATTTTTG
Found at i:44594158 original size:12 final size:13
Alignment explanation
Indices: 44594101--44594161 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
44594091 TTTGTATTTT
*
44594101 TTATTTTCGTATA
1 TTATTTTTGTATA
*
44594114 TTATTTTTAAAATATA
1 TTATTTTT---GTATA
*
44594130 TTATTTTTGTATT
1 TTATTTTTGTATA
44594143 TTATTTTT-TATA
1 TTATTTTTGTATA
44594155 TTATTTT
1 TTATTTT
44594162 AGCAAAAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
12 10 0.25
13 18 0.45
16 12 0.30
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (13 bp):
TTATTTTTGTATA
Found at i:44594892 original size:22 final size:21
Alignment explanation
Indices: 44594866--44594948 Score: 57
Period size: 22 Copynumber: 3.8 Consensus size: 21
44594856 CTTCTCCTCC
44594866 TCTTCCCTTTCTTTTTCTTTCT
1 TCTT-CCTTTCTTTTTCTTTCT
*
44594888 TCTT-CTGCTCTTCTTTCTTTCTT
1 TCTTCCT-TTCTT-TTTCTTTC-T
*
44594911 CTCATTCTTTTCTTTTTC-TTCT
1 -TC-TTCCTTTCTTTTTCTTTCT
44594933 TC-TCC-TTCTTTGTTCT
1 TCTTCCTTTCTTT-TTCT
44594949 CGAAACTCAA
Statistics
Matches: 49, Mismatches: 4, Indels: 18
0.69 0.06 0.25
Matches are distributed among these distances:
18 6 0.12
19 5 0.10
20 2 0.04
21 6 0.12
22 13 0.27
23 4 0.08
24 6 0.12
25 6 0.12
26 1 0.02
ACGTcount: A:0.01, C:0.30, G:0.02, T:0.66
Consensus pattern (21 bp):
TCTTCCTTTCTTTTTCTTTCT
Found at i:44595122 original size:19 final size:20
Alignment explanation
Indices: 44595073--44595122 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
44595063 TCTATTTTTT
*
44595073 TATTTTTTTTTGTTTTCAGC
1 TATTTTTTTTCGTTTTCAGC
*
44595093 TTTTTTTTTTCGTTTTCAG-
1 TATTTTTTTTCGTTTTCAGC
44595112 TATTTTTTTTC
1 TATTTTTTTTC
44595123 ACTGTTGAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 10 0.37
20 17 0.63
ACGTcount: A:0.08, C:0.10, G:0.08, T:0.74
Consensus pattern (20 bp):
TATTTTTTTTCGTTTTCAGC
Found at i:44595767 original size:18 final size:18
Alignment explanation
Indices: 44595746--44595795 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
44595736 TTTTCTGGTT
*
44595746 CTTTGTAATTTTTTTTTA
1 CTTTTTAATTTTTTTTTA
*
44595764 CTTTTTAAGTTTTTTTTA
1 CTTTTTAATTTTTTTTTA
*
44595782 TTTATTTAATTTTT
1 CTT-TTTAATTTTT
44595796 ATGTTTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 18 0.67
19 9 0.33
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.74
Consensus pattern (18 bp):
CTTTTTAATTTTTTTTTA
Found at i:44595823 original size:5 final size:5
Alignment explanation
Indices: 44595773--44595838 Score: 50
Period size: 5 Copynumber: 13.6 Consensus size: 5
44595763 ACTTTTTAAG
* * * *
44595773 TTTT- TTTTA -TTTA TTTAA TTTTTA TGTT- TTTTA TTTGTC CTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTT-TA TTTTA TTTTA
44595822 TTTTA -TTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTT
44595839 ATTATTGGTT
Statistics
Matches: 48, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
4 15 0.31
5 26 0.54
6 7 0.15
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (5 bp):
TTTTA
Found at i:44595832 original size:9 final size:9
Alignment explanation
Indices: 44595773--44595841 Score: 52
Period size: 9 Copynumber: 7.2 Consensus size: 9
44595763 ACTTTTTAAG
*
44595773 TTTTTTTTA
1 TTTTATTTA
44595782 -TTTATTTAA
1 TTTTATTT-A
44595791 TTTTTATGTT-
1 -TTTTAT-TTA
*
44595801 TTTTATTTG
1 TTTTATTTA
44595810 TCCTTTATTTTA
1 T--TTTA-TTTA
44595822 TTTTATTTA
1 TTTTATTTA
44595831 TTTTATTTA
1 TTTTATTTA
44595840 TT
1 TT
44595842 ATTGGTTTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
8 8 0.16
9 23 0.46
10 4 0.08
11 9 0.18
12 6 0.12
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (9 bp):
TTTTATTTA
Found at i:44595936 original size:20 final size:20
Alignment explanation
Indices: 44595885--44595940 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 20
44595875 AATGTTTAAT
* *
44595885 AATATTATTTTTTAAAATTTTA
1 AATA-TATTTTTT-TAATCTTA
44595907 AATATA--TTTTTAATCTTA
1 AATATATTTTTTTAATCTTA
44595925 AATATATTTTTTTAAT
1 AATATATTTTTTTAAT
44595941 ATTATAAAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 12 0.40
19 4 0.13
20 8 0.27
21 2 0.07
22 4 0.13
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
AATATATTTTTTTAATCTTA
Found at i:44598246 original size:53 final size:51
Alignment explanation
Indices: 44598098--44598284 Score: 166
Period size: 53 Copynumber: 3.5 Consensus size: 51
44598088 GCGATACCCA
* * *
44598098 TATAATACCATAGCTGGGCTATGGCAT-TGGAAAACAAAAGAT-AAGTGATTTCCG
1 TATAAGACCATAGCTGGGCTATGGCATCTGG--AA-TAATGATAAAGTGA--TCCG
* * *
44598152 TATAAGACCAGAGCTGGGCTATGGCTTC-GGATTAATGTGATACAAGTGATCCG
1 TATAAGACCATAGCTGGGCTATGGCATCTGGAATAA--TGATA-AAGTGATCCG
*
44598205 TATAAGACCATAGCTGGGCTATGGCATCTGTGAATAATGAT-AAGTGCTCCCG
1 TATAAGACCATAGCTGGGCTATGGCATCTG-GAATAATGATAAAGTGAT-CCG
* * *
44598257 TGTAAGACCATATCTGGGATATGGCATC
1 TATAAGACCATAGCTGGGCTATGGCATC
44598285 GGTATGATAT
Statistics
Matches: 112, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
51 8 0.07
52 29 0.26
53 37 0.33
54 27 0.24
55 11 0.10
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (51 bp):
TATAAGACCATAGCTGGGCTATGGCATCTGGAATAATGATAAAGTGATCCG
Found at i:44602944 original size:21 final size:21
Alignment explanation
Indices: 44602905--44602957 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
44602895 AGACTAATTG
44602905 TAATATATA-TTTTAATTTTC
1 TAATATATATTTTTAATTTTC
* * *
44602925 TAATATAAATTTTTACTTTTT
1 TAATATATATTTTTAATTTTC
44602946 TAATATATATTT
1 TAATATATATTT
44602958 AAAAAAATCA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 8 0.29
21 20 0.71
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (21 bp):
TAATATATATTTTTAATTTTC
Found at i:44603054 original size:20 final size:21
Alignment explanation
Indices: 44603025--44603075 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
44603015 CAATTTTCAC
* *
44603025 TTTTTGAAA-TAAAATATTAT
1 TTTTTAAAATTAAAATAGTAT
*
44603045 TTTTTAAAATTTTAAATAGTAT
1 TTTTTAAAA-TTAAAATAGTAT
44603067 TTTTTAAAA
1 TTTTTAAAA
44603076 ATATTTAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 8 0.31
22 18 0.69
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTTAAAATTAAAATAGTAT
Found at i:44603067 original size:22 final size:24
Alignment explanation
Indices: 44603036--44603086 Score: 79
Period size: 22 Copynumber: 2.2 Consensus size: 24
44603026 TTTTGAAATA
*
44603036 AAATATTATTTTTT-AAAAT-TTT
1 AAATAGTATTTTTTAAAAATATTT
44603058 AAATAGTATTTTTTAAAAATATTT
1 AAATAGTATTTTTTAAAAATATTT
44603082 AAATA
1 AAATA
44603087 TCTTTAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 13 0.50
23 5 0.19
24 8 0.31
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
AAATAGTATTTTTTAAAAATATTT
Found at i:44603274 original size:21 final size:21
Alignment explanation
Indices: 44603250--44603319 Score: 110
Period size: 20 Copynumber: 3.4 Consensus size: 21
44603240 TTTTATATTA
44603250 TTAAAAATAATATTTAAAATT
1 TTAAAAATAATATTTAAAATT
44603271 TTAAAAATAATATTT-AAATT
1 TTAAAAATAATATTTAAAATT
44603291 TTAAAAATATATATTTAAAA--
1 TTAAAAATA-ATATTTAAAATT
44603311 TTAAAAATA
1 TTAAAAATA
44603320 TTATAAAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
20 23 0.49
21 21 0.45
22 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAAAAATAATATTTAAAATT
Found at i:44603289 original size:20 final size:20
Alignment explanation
Indices: 44603250--44603319 Score: 106
Period size: 21 Copynumber: 3.5 Consensus size: 20
44603240 TTTTATATTA
44603250 TTAAAAATAATATTTAAAATT
1 TTAAAAATAATATTT-AAATT
44603271 TTAAAAATAATATTTAAATT
1 TTAAAAATAATATTTAAATT
*
44603291 TTAAAAATATATATTTAAA-A
1 TTAAAAATA-ATATTTAAATT
44603311 TTAAAAATA
1 TTAAAAATA
44603320 TTATAAAACA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
20 23 0.49
21 24 0.51
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAAAATAATATTTAAATT
Found at i:44603334 original size:20 final size:21
Alignment explanation
Indices: 44603250--44603340 Score: 86
Period size: 20 Copynumber: 4.5 Consensus size: 21
44603240 TTTTATATTA
*
44603250 TTAAAAATA-ATATTTAAAATT
1 TTAAAAATATATA-TTAAAAAT
* *
44603271 TTAAAAATA-ATATTTAAATT
1 TTAAAAATATATATTAAAAAT
*
44603291 TTAAAAATATATATTTAAAA-
1 TTAAAAATATATATTAAAAAT
44603311 TTAAAAATAT-TA-TAAAACAT
1 TTAAAAATATATATTAAAA-AT
44603331 TT-AAAATATA
1 TTAAAAATATA
44603341 CATTTCAGAT
Statistics
Matches: 63, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
18 4 0.06
19 10 0.16
20 28 0.44
21 21 0.33
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (21 bp):
TTAAAAATATATATTAAAAAT
Found at i:44603334 original size:40 final size:41
Alignment explanation
Indices: 44603250--44603345 Score: 110
Period size: 39 Copynumber: 2.4 Consensus size: 41
44603240 TTTTATATTA
* *
44603250 TTAAAAATA-ATATTTAAAATTTTAAAAATAATATTTAAATT
1 TTAAAAATATATATTTAAAA-TTTAAAAATAATATTAAAAAT
*
44603291 TTAAAAATATATATTTAAAA-TTAAAAATATTA-TAAAACAT
1 TTAAAAATATATATTTAAAATTTAAAAATAATATTAAAA-AT
*
44603331 TT-AAAATATACATTT
1 TTAAAAATATATATTT
44603346 CAGATTTTAT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
39 16 0.33
40 14 0.29
41 9 0.18
42 10 0.20
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (41 bp):
TTAAAAATATATATTTAAAATTTAAAAATAATATTAAAAAT
Found at i:44615436 original size:13 final size:13
Alignment explanation
Indices: 44615418--44615443 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
44615408 TAGTTTTATA
44615418 ATATTTTAAATAT
1 ATATTTTAAATAT
44615431 ATATTTTAAATAT
1 ATATTTTAAATAT
44615444 TTTTTAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATATTTTAAATAT
Found at i:44615667 original size:21 final size:20
Alignment explanation
Indices: 44615643--44615694 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
44615633 GACTTTATTT
44615643 AAAATATATATTAAAAAAGTAA
1 AAAATATATATT-AAAAA-TAA
*
44615665 AAAAT-TAAATTAAAAATAA
1 AAAATATATATTAAAAATAA
44615684 AAAATATATAT
1 AAAATATATAT
44615695 CATAACTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 8 0.30
20 9 0.33
21 5 0.19
22 5 0.19
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAATATATATTAAAAATAA
Found at i:44618308 original size:30 final size:30
Alignment explanation
Indices: 44618272--44618374 Score: 154
Period size: 30 Copynumber: 3.4 Consensus size: 30
44618262 GTTGAAGAAC
* *
44618272 AGTTCATATCACCCGAACATTGGCAGTTCG
1 AGTTCATATCACCCGAACATAGGCGGTTCG
*
44618302 AGTTCATATCACTCGAACATAGGCGGTTCG
1 AGTTCATATCACCCGAACATAGGCGGTTCG
44618332 AGTTCATATCACCCTG-ACATAGGCGGTTCG
1 AGTTCATATCACCC-GAACATAGGCGGTTCG
*
44618362 AGTTCATTTCACC
1 AGTTCATATCACC
44618375 TAGAGAAACC
Statistics
Matches: 67, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
30 66 0.99
31 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.28
Consensus pattern (30 bp):
AGTTCATATCACCCGAACATAGGCGGTTCG
Found at i:44624644 original size:9 final size:9
Alignment explanation
Indices: 44624637--44624669 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
44624627 ATTATTTTTA
44624637 AAAAT-TTT
1 AAAATATTT
44624645 AAAATATTT
1 AAAATATTT
44624654 AAAATATTT
1 AAAATATTT
44624663 AAAATAT
1 AAAATAT
44624670 ACATTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.21
9 19 0.79
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
AAAATATTT
Found at i:44624749 original size:10 final size:10
Alignment explanation
Indices: 44624734--44624771 Score: 51
Period size: 9 Copynumber: 3.7 Consensus size: 10
44624724 ATAATACATT
44624734 TTAAAAAAAA
1 TTAAAAAAAA
44624744 TT-AAAAAAA
1 TTAAAAAAAA
44624753 TTATAAAACAAA
1 TTA-AAAA-AAA
44624765 TTAAAAA
1 TTAAAAA
44624772 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.36
10 2 0.08
11 8 0.32
12 6 0.24
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (10 bp):
TTAAAAAAAA
Found at i:44624765 original size:21 final size:20
Alignment explanation
Indices: 44624733--44624780 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
44624723 AATAATACAT
44624733 TTTAAAAAAAATTAAAAAAA
1 TTTAAAAAAAATTAAAAAAA
* *
44624753 TTATAAAACAAATTAAAAATA
1 TT-TAAAAAAAATTAAAAAAA
44624774 TTTAAAA
1 TTTAAAA
44624781 TTTAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (20 bp):
TTTAAAAAAAATTAAAAAAA
Found at i:44624778 original size:10 final size:10
Alignment explanation
Indices: 44624733--44624780 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
44624723 AATAATACAT
44624733 TTTAAAAAAA
1 TTTAAAAAAA
*
44624743 ATTAAAAAAA
1 TTTAAAAAAA
44624753 TTATAAAACAAA
1 TT-TAAAA-AAA
*
44624765 -TTAAAAATA
1 TTTAAAAAAA
44624774 TTTAAAA
1 TTTAAAA
44624781 TTTAAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
9 2 0.06
10 21 0.66
11 6 0.19
12 3 0.09
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (10 bp):
TTTAAAAAAA
Found at i:44624889 original size:21 final size:21
Alignment explanation
Indices: 44624850--44624899 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
44624840 TAAAATATTT
*
44624850 AAATAT-TTTATATTATTAAA
1 AAATATATTTAAATTATTAAA
*
44624870 AAATATATTTAAATTTTTAAA
1 AAATATATTTAAATTATTAAA
44624891 AAATA-ATTT
1 AAATATATTT
44624900 CAAAAATATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 10 0.37
21 17 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AAATATATTTAAATTATTAAA
Found at i:44624890 original size:121 final size:121
Alignment explanation
Indices: 44624587--44624892 Score: 306
Period size: 121 Copynumber: 2.5 Consensus size: 121
44624577 AAATATTTGA
* * *
44624587 ATATCTTTAAAATTAATTTAAAAATTAATAATT-TATAAAAATTATTTTTAAAAATTTT-AAAAT
1 ATATCTTTAAAA-T-ATTTAAAATTTTAT-ATTAT-TAAAAAATA-TTTT-AAAATTTTAAAAAT
*
44624650 ATTTAAAATATTTAAAATATACATTTAAAATATTATAAAACAAATAATAAATTTGAAAGGTC
60 ATTTAAAATATTTAAAATATACACTTAAAATATTATAAAACAAATAATAAATTTGAAAGGTC
* ** * **
44624712 ATATCTTTAAAA-A--TAATACATTTTAAAAAAAATTAAAAAA-ATTATAAAACAAATTAAAAAT
1 ATATCTTTAAAATATTTAA-A-ATTTT--ATATTATTAAAAAATATT-TTAAA-ATTTTAAAAAT
*
44624773 ATTT-AAA-ATTTAAAATATACACTTAAAATATTATAAAA-ATAATAATAAATTTGAAAGGTT
60 ATTTAAAATATTTAAAATATACACTTAAAATATTATAAAACA-AATAATAAATTTGAAAGGTC
*
44624833 ATATCTTTAAAATATTTAAATATTTTATATTATTAAAAAATATATTTAAATTTTTAAAAA
1 ATATCTTTAAAATATTTAAA-ATTTTATATTATTAAAAAATAT-TTTAAAATTTTAAAAA
44624893 ATAATTTCAA
Statistics
Matches: 148, Mismatches: 19, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
120 4 0.03
121 85 0.57
122 19 0.13
123 23 0.16
124 5 0.03
125 12 0.08
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.40
Consensus pattern (121 bp):
ATATCTTTAAAATATTTAAAATTTTATATTATTAAAAAATATTTTAAAATTTTAAAAATATTTAA
AATATTTAAAATATACACTTAAAATATTATAAAACAAATAATAAATTTGAAAGGTC
Found at i:44624927 original size:23 final size:23
Alignment explanation
Indices: 44624901--44624966 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 23
44624891 AAATAATTTC
44624901 AAAAATATATATTTAAAATTTTT
1 AAAAATATATATTTAAAATTTTT
* *
44624924 AAAAA-ATAT-TATAAAATATTT
1 AAAAATATATATTTAAAATTTTT
* * *
44624945 -CAAATATATATTTCAAGTTTTT
1 AAAAATATATATTTAAAATTTTT
44624967 TTAAAATAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
20 3 0.09
21 14 0.41
22 12 0.35
23 5 0.15
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (23 bp):
AAAAATATATATTTAAAATTTTT
Found at i:44624953 original size:21 final size:20
Alignment explanation
Indices: 44624833--44624953 Score: 62
Period size: 20 Copynumber: 6.3 Consensus size: 20
44624823 TTGAAAGGTT
*
44624833 ATATCTTTAAAATATTT-AA
1 ATATATTTAAAATATTTAAA
* * *
44624852 ATAT-TTTATATTATTAAAAA
1 ATATATTTAAAATATT-TAAA
*
44624872 ATATATTT-AAATTTTTAAA
1 ATATATTTAAAATATTTAAA
*
44624891 AAATAATTTCAAAA-A--T---
1 ATAT-ATTT-AAAATATTTAAA
*
44624907 ATATATTTAAAATTTTTAAA
1 ATATATTTAAAATATTTAAA
* *
44624927 AAATATTATAAAATATTTCAA
1 ATATATT-TAAAATATTTAAA
44624948 ATATAT
1 ATATAT
44624954 ATTTCAAGTT
Statistics
Matches: 74, Mismatches: 15, Indels: 24
0.65 0.13 0.21
Matches are distributed among these distances:
14 4 0.05
15 4 0.05
16 3 0.04
17 1 0.01
18 9 0.12
19 11 0.15
20 20 0.27
21 19 0.26
22 3 0.04
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
ATATATTTAAAATATTTAAA
Found at i:44628941 original size:19 final size:19
Alignment explanation
Indices: 44628905--44628944 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
44628895 AGCTGAAGTA
*
44628905 GAGAACAGATTAGAGTGGT
1 GAGAACAGATAAGAGTGGT
44628924 GAGAACAGA-AAGAGGTGGT
1 GAGAACAGATAAGA-GTGGT
44628943 GA
1 GA
44628945 ATATTATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.40, C:0.05, G:0.40, T:0.15
Consensus pattern (19 bp):
GAGAACAGATAAGAGTGGT
Found at i:44629460 original size:43 final size:43
Alignment explanation
Indices: 44629399--44629510 Score: 163
Period size: 43 Copynumber: 2.6 Consensus size: 43
44629389 AGCCACAGAG
* * **
44629399 GACACACGGTCGTGTCACCTGACCGTGTGTCACACACGACTAA
1 GACACACGGCCGTGTCACCTGACCATGCATCACACACGACTAA
44629442 GACACACGGCCGTGTCACCTGACCATGCATCACACACGACTAA
1 GACACACGGCCGTGTCACCTGACCATGCATCACACACGACTAA
* *
44629485 GACACACGCCCGTGTC-TCTGACCATG
1 GACACACGGCCGTGTCACCTGACCATG
44629511 TGGACGAAAA
Statistics
Matches: 63, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 9 0.14
43 54 0.86
ACGTcount: A:0.26, C:0.36, G:0.21, T:0.17
Consensus pattern (43 bp):
GACACACGGCCGTGTCACCTGACCATGCATCACACACGACTAA
Found at i:44636942 original size:16 final size:16
Alignment explanation
Indices: 44636923--44636976 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
44636913 TTATATATAA
44636923 ATTTTTTTATCTTTTT
1 ATTTTTTTATCTTTTT
* *
44636939 ATTTTTTTACCTCTTT
1 ATTTTTTTATCTTTTT
* * *
44636955 AATTTTTCATATTTTT
1 ATTTTTTTATCTTTTT
44636971 AATTTT
1 -ATTTT
44636977 CTTTTCACTT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 25 0.86
17 4 0.14
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTTTTTATCTTTTT
Found at i:44649868 original size:46 final size:46
Alignment explanation
Indices: 44649796--44649887 Score: 157
Period size: 46 Copynumber: 2.0 Consensus size: 46
44649786 TATTATTTGA
*
44649796 GGTTAGGATGTTGGGGTGTAAACCAGCTAAAACTCCCATGGAATTC
1 GGTTAGGATGTTGGGGTGTAAACCAGCTAAAACCCCCATGGAATTC
* *
44649842 GGTTGGGATGTTGGGGTGTAAACCAGCTGAAACCCCCATGGAATTC
1 GGTTAGGATGTTGGGGTGTAAACCAGCTAAAACCCCCATGGAATTC
44649888 AATCTTAAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.26, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
GGTTAGGATGTTGGGGTGTAAACCAGCTAAAACCCCCATGGAATTC
Found at i:44658678 original size:25 final size:25
Alignment explanation
Indices: 44658640--44658692 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
44658630 AGAACAGAAG
44658640 CTGTATTTTCTCTGCTAGCTTCATT
1 CTGTATTTTCTCTGCTAGCTTCATT
*
44658665 CTGTATTTTTTCTGCTAGCTTCATT
1 CTGTATTTTCTCTGCTAGCTTCATT
44658690 CTG
1 CTG
44658693 AAAAAATTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.11, C:0.23, G:0.13, T:0.53
Consensus pattern (25 bp):
CTGTATTTTCTCTGCTAGCTTCATT
Found at i:44669251 original size:9 final size:9
Alignment explanation
Indices: 44669237--44669304 Score: 84
Period size: 9 Copynumber: 7.6 Consensus size: 9
44669227 TTTTCAAAAA
*
44669237 AATTAATCG
1 AATTAACCG
44669246 AATTAACCG
1 AATTAACCG
*
44669255 AATTAATCG
1 AATTAACCG
44669264 AATTAACCG
1 AATTAACCG
44669273 AATT-ACCTG
1 AATTAACC-G
**
44669282 AATTAACTA
1 AATTAACCG
44669291 AATTAACCG
1 AATTAACCG
44669300 AATTA
1 AATTA
44669305 TTTGTATAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
8 3 0.06
9 45 0.90
10 2 0.04
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:44670372 original size:22 final size:22
Alignment explanation
Indices: 44670347--44670393 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
44670337 ATTGAATAAA
44670347 CATCAAATCTAATTAACTCTTT
1 CATCAAATCTAATTAACTCTTT
44670369 CATCAAATCTAATTAACTCTTT
1 CATCAAATCTAATTAACTCTTT
44670391 CAT
1 CAT
44670394 TCATTTGTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.23, G:0.00, T:0.40
Consensus pattern (22 bp):
CATCAAATCTAATTAACTCTTT
Found at i:44672046 original size:15 final size:15
Alignment explanation
Indices: 44672026--44672075 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
44672016 ATTAATATAA
44672026 AATATTATTATTTTC
1 AATATTATTATTTTC
44672041 AATATTATT-TTTT-
1 AATATTATTATTTTC
*
44672054 AA-A--ATAATTTTC
1 AATATTATTATTTTC
44672066 AATATTATTA
1 AATATTATTA
44672076 AACATACATA
Statistics
Matches: 28, Mismatches: 2, Indels: 10
0.70 0.05 0.25
Matches are distributed among these distances:
10 2 0.07
11 4 0.14
12 3 0.11
13 3 0.11
14 4 0.14
15 12 0.43
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (15 bp):
AATATTATTATTTTC
Found at i:44672048 original size:12 final size:12
Alignment explanation
Indices: 44672031--44672074 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
44672021 TATAAAATAT
44672031 TATTATTTTCAA
1 TATTATTTTCAA
*
44672043 TATTATTTTTTAA
1 TATTA-TTTTCAA
* *
44672056 AATAATTTTCAA
1 TATTATTTTCAA
44672068 TATTATT
1 TATTATT
44672075 AAACATACAT
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
12 16 0.64
13 9 0.36
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTATTTTCAA
Found at i:44672884 original size:18 final size:19
Alignment explanation
Indices: 44672861--44672896 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
44672851 TGATTAGTAC
44672861 AAAAT-ATTTTCTTATTAG
1 AAAATAATTTTCTTATTAG
*
44672879 AAAATAATTTTTTTATTA
1 AAAATAATTTTCTTATTA
44672897 TTAAAAGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
AAAATAATTTTCTTATTAG
Found at i:44673611 original size:8 final size:8
Alignment explanation
Indices: 44673587--44673619 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
44673577 ATATTTTTGA
44673587 AAATTCAT
1 AAATTCAT
*
44673595 -AATTTAT
1 AAATTCAT
44673602 AAATTCAT
1 AAATTCAT
44673610 AAATTCAT
1 AAATTCAT
44673618 AA
1 AA
44673620 TTTTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
7 6 0.27
8 16 0.73
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (8 bp):
AAATTCAT
Found at i:44673621 original size:15 final size:16
Alignment explanation
Indices: 44673587--44673619 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
44673577 ATATTTTTGA
*
44673587 AAATTCAT-AATTTAT
1 AAATTCATAAATTCAT
44673602 AAATTCATAAATTCAT
1 AAATTCATAAATTCAT
44673618 AA
1 AA
44673620 TTTTTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATTCATAAATTCAT
Found at i:44674513 original size:3 final size:3
Alignment explanation
Indices: 44674498--44674541 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
44674488 CTCGTACTCA
* * * *
44674498 TCT TCT TCG TCT TCT TCT TCT ACT TCT TCT TCT GCA TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
44674542 CTTTGCATCC
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.05, C:0.34, G:0.05, T:0.57
Consensus pattern (3 bp):
TCT
Found at i:44674538 original size:15 final size:15
Alignment explanation
Indices: 44674507--44674550 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
44674497 ATCTTCTTCG
44674507 TCTTCTTCTTCT--A
1 TCTTCTTCTTCTGCA
44674520 -CTTCTTCTTCTGCA
1 TCTTCTTCTTCTGCA
44674534 TCTTCTTCCTT-TGCA
1 TCTTCTT-CTTCTGCA
44674549 TC
1 TC
44674551 CCCATCTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 11 0.41
14 1 0.04
15 12 0.44
16 3 0.11
ACGTcount: A:0.07, C:0.34, G:0.05, T:0.55
Consensus pattern (15 bp):
TCTTCTTCTTCTGCA
Found at i:44675059 original size:19 final size:19
Alignment explanation
Indices: 44675027--44675065 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
44675017 ACAAGATAAG
*
44675027 AAAAAAGGAAAAAAGAAAA
1 AAAAAAGCAAAAAAGAAAA
* *
44675046 AAAAAAGCACAAAATAAAA
1 AAAAAAGCAAAAAAGAAAA
44675065 A
1 A
44675066 CAAGAAAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.82, C:0.05, G:0.10, T:0.03
Consensus pattern (19 bp):
AAAAAAGCAAAAAAGAAAA
Found at i:44678757 original size:23 final size:24
Alignment explanation
Indices: 44678731--44678781 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
44678721 ATGATTTTTT
*
44678731 TTTAATATTTT-TTTAAATAATAA
1 TTTAATATTTTATTAAAATAATAA
44678754 TTTAATATTTTACTTAAAATAATAA
1 TTTAATATTTTA-TTAAAATAATAA
44678779 TTT
1 TTT
44678782 TTTACAAGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 11 0.44
25 14 0.56
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTAATATTTTATTAAAATAATAA
Found at i:44680287 original size:22 final size:22
Alignment explanation
Indices: 44680244--44680287 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
44680234 ATAATGTTAT
* *
44680244 TAATAAATTAATTTTGTTAAAA
1 TAATAAATGAATTTTGTAAAAA
44680266 TAATAATATGAATTTT-TAAAAA
1 TAATAA-ATGAATTTTGTAAAAA
44680288 AATTGTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (22 bp):
TAATAAATGAATTTTGTAAAAA
Found at i:44684218 original size:13 final size:14
Alignment explanation
Indices: 44684200--44684229 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
44684190 TTGAATTTTA
44684200 AAATTT-TAAAAAT
1 AAATTTCTAAAAAT
44684213 AAATTTCTAAAAAT
1 AAATTTCTAAAAAT
44684227 AAA
1 AAA
44684230 AACCTAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATTTCTAAAAAT
Found at i:44685326 original size:10 final size:10
Alignment explanation
Indices: 44685311--44685335 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
44685301 TCAAGTTAAA
44685311 TAAATTATAG
1 TAAATTATAG
44685321 TAAATTATAG
1 TAAATTATAG
44685331 TAAAT
1 TAAAT
44685336 ACAAACTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (10 bp):
TAAATTATAG
Found at i:44694239 original size:3 final size:3
Alignment explanation
Indices: 44694231--44694260 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
44694221 GCAACAAAAG
44694231 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
44694261 TTTTAATATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:44707516 original size:30 final size:30
Alignment explanation
Indices: 44707474--44707537 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
44707464 TAAAAGTTAT
*
44707474 AAAAGTTATTAAATTTTAATAAAAAATACA
1 AAAAGTTATTAAAATTTAATAAAAAATACA
* * *
44707504 AAAAG-TATTTAAAATTTATTAAAAATTAGA
1 AAAAGTTA-TTAAAATTTAATAAAAAATACA
44707534 AAAA
1 AAAA
44707538 AAATTATAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.61, C:0.02, G:0.05, T:0.33
Consensus pattern (30 bp):
AAAAGTTATTAAAATTTAATAAAAAATACA
Found at i:44707537 original size:20 final size:20
Alignment explanation
Indices: 44707523--44707591 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
44707513 TAAAATTTAT
44707523 TAAAAATTAGAAAAAAAATTA
1 TAAAAATTAG-AAAAAAATTA
*
44707544 TAAAAA-TAGTAAAAAAATTG
1 TAAAAATTAG-AAAAAAATTA
* *
44707564 TAAAAATT-GTAAAAATTTA
1 TAAAAATTAGAAAAAAATTA
44707583 TAAAAATTA
1 TAAAAATTA
44707592 TAACATGCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
19 15 0.37
20 19 0.46
21 7 0.17
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (20 bp):
TAAAAATTAGAAAAAAATTA
Found at i:44707548 original size:9 final size:9
Alignment explanation
Indices: 44707536--44707594 Score: 64
Period size: 9 Copynumber: 6.2 Consensus size: 9
44707526 AAATTAGAAA
44707536 AAAAATTAT
1 AAAAATTAT
*
44707545 AAAAATAGTAA
1 AAAAAT--TAT
*
44707556 AAAAATTGT
1 AAAAATTAT
*
44707565 AAAAATTGT
1 AAAAATTAT
44707574 AAAAATTTAT
1 AAAAA-TTAT
44707584 AAAAATTAT
1 AAAAATTAT
44707593 AA
1 AA
44707595 CATGCATCAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
9 27 0.63
10 8 0.19
11 8 0.19
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:44707748 original size:12 final size:12
Alignment explanation
Indices: 44707731--44707755 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
44707721 AAAAATCAAT
44707731 AAAAATTATAAA
1 AAAAATTATAAA
44707743 AAAAATTATAAA
1 AAAAATTATAAA
44707755 A
1 A
44707756 TGCTCCTTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (12 bp):
AAAAATTATAAA
Found at i:44707909 original size:22 final size:21
Alignment explanation
Indices: 44707881--44707948 Score: 84
Period size: 22 Copynumber: 3.2 Consensus size: 21
44707871 TTTTTTATGA
44707881 TTTTTATAAAATTTTACAATT
1 TTTTTATAAAATTTTACAATT
*
44707902 TTTATTATAAATTTTTACAA-T
1 TTT-TTATAAAATTTTACAATT
* *
44707923 TTTTTATTAAAATTTAATAATT
1 TTTTTA-TAAAATTTTACAATT
44707945 TTTT
1 TTTT
44707949 ATATTTTTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
20 3 0.08
21 17 0.43
22 20 0.50
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTATAAAATTTTACAATT
Found at i:44707948 original size:21 final size:21
Alignment explanation
Indices: 44707881--44707950 Score: 90
Period size: 21 Copynumber: 3.3 Consensus size: 21
44707871 TTTTTTATGA
44707881 TTTTTA-TAAAATTTTACAA-
1 TTTTTATTAAAATTTTACAAT
44707900 TTTTTATTATAAATTTTTACAAT
1 TTTTTATTA-AAA-TTTTACAAT
* *
44707923 TTTTTATTAAAATTTAATAAT
1 TTTTTATTAAAATTTTACAAT
44707944 TTTTTAT
1 TTTTTAT
44707951 ATTTTTATTG
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.13
20 2 0.04
21 17 0.38
22 11 0.24
23 9 0.20
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTTATTAAAATTTTACAAT
Found at i:44709899 original size:36 final size:37
Alignment explanation
Indices: 44709836--44709911 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 37
44709826 AATTTCGCAC
* *** **
44709836 AGGGCGCAAATCCTGGCTATGGGCAGAATTTTGGGCA
1 AGGGCGCAAATCCTGACTATACCCAGAATCCTGGGCA
44709873 AGGG-GCAAATCCTGACTATACCCAGAATCCTGGGCA
1 AGGGCGCAAATCCTGACTATACCCAGAATCCTGGGCA
44709909 AGG
1 AGG
44709912 CTACGAGCGA
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
36 29 0.88
37 4 0.12
ACGTcount: A:0.28, C:0.22, G:0.32, T:0.18
Consensus pattern (37 bp):
AGGGCGCAAATCCTGACTATACCCAGAATCCTGGGCA
Found at i:44711795 original size:21 final size:21
Alignment explanation
Indices: 44711769--44711817 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
44711759 AAAGTCTTTT
* *
44711769 ATTGAATAAGGAACTAGTACA
1 ATTGAATAAGGAACCAATACA
*
44711790 ATTGAATACGGAACCAATACA
1 ATTGAATAAGGAACCAATACA
44711811 ATTGAAT
1 ATTGAAT
44711818 GCACGAATTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.24
Consensus pattern (21 bp):
ATTGAATAAGGAACCAATACA
Found at i:44713762 original size:21 final size:20
Alignment explanation
Indices: 44713732--44713839 Score: 78
Period size: 21 Copynumber: 5.3 Consensus size: 20
44713722 ATCAATAAAG
*
44713732 TTATAGAAAATTATTAAAAAT
1 TTATA-AAAAATATTAAAAAT
* *
44713753 TTATAAAAAA-ATATAGAAAC
1 TTATAAAAAATAT-TAAAAAT
* * *
44713773 ATATTAAAAATATAAAAAAT
1 TTATAAAAAATATTAAAAAT
*
44713793 TTATAGAAAAATATTTAAAAT
1 TTATA-AAAAATATTAAAAAT
* *
44713814 TTATCATAAAATA--AAAAAA
1 TTAT-AAAAAATATTAAAAAT
44713833 TTATAAA
1 TTATAAA
44713840 TCACAAAAAT
Statistics
Matches: 67, Mismatches: 16, Indels: 11
0.71 0.17 0.12
Matches are distributed among these distances:
18 2 0.03
19 10 0.15
20 24 0.36
21 30 0.45
22 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (20 bp):
TTATAAAAAATATTAAAAAT
Found at i:44713963 original size:16 final size:16
Alignment explanation
Indices: 44713942--44713972 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
44713932 GAATTTTTTT
44713942 ATAAAATAGTAAAAAC
1 ATAAAATAGTAAAAAC
*
44713958 ATAAAATTGTAAAAA
1 ATAAAATAGTAAAAA
44713973 TATTATAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.03, G:0.06, T:0.23
Consensus pattern (16 bp):
ATAAAATAGTAAAAAC
Found at i:44714521 original size:60 final size:60
Alignment explanation
Indices: 44714444--44714569 Score: 152
Period size: 60 Copynumber: 2.1 Consensus size: 60
44714434 TTATGAATTT
* *
44714444 TATATTTCTTTACATTTTT-TATAATTTTCTTACGA-CTTTATAAAATTTATA-ATTTTTTTA
1 TATATTTCTATACATTTTTATA-AATTTT-TTACGATCTTTATAAAATTT-TACATATTTTTA
* * *
44714504 TATATTTCTATATATTTTTATAAATTTTTTATGATTTTTATAAAATTTTACATATTTTTA
1 TATATTTCTATACATTTTTATAAATTTTTTACGATCTTTATAAAATTTTACATATTTTTA
44714564 TA-ATTT
1 TATATTT
44714570 TTTTTCTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
59 11 0.19
60 45 0.78
61 2 0.03
ACGTcount: A:0.32, C:0.06, G:0.02, T:0.61
Consensus pattern (60 bp):
TATATTTCTATACATTTTTATAAATTTTTTACGATCTTTATAAAATTTTACATATTTTTA
Found at i:44714524 original size:40 final size:41
Alignment explanation
Indices: 44714480--44714566 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 41
44714470 TTCTTACGAC
* * *
44714480 TTTATAAAATTTATAAT-TTTTTTAT-ATATTTCTATATATT
1 TTTATAAAATTTATAATGATTTTTATAAAATTT-TACATATT
* *
44714520 TTTAT-AAATTTTTTATGATTTTTATAAAATTTTACATATT
1 TTTATAAAATTTATAATGATTTTTATAAAATTTTACATATT
44714560 TTTATAA
1 TTTATAA
44714567 TTTTTTTTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
39 9 0.23
40 24 0.62
41 6 0.15
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.61
Consensus pattern (41 bp):
TTTATAAAATTTATAATGATTTTTATAAAATTTTACATATT
Found at i:44714531 original size:10 final size:10
Alignment explanation
Indices: 44714480--44714634 Score: 75
Period size: 10 Copynumber: 15.2 Consensus size: 10
44714470 TTCTTACGAC
*
44714480 TTTATAAA-A
1 TTTATAAATT
*
44714489 TTTATAATTTT
1 TTTATAA-ATT
*
44714500 TTTATATATT
1 TTTATAAATT
* *
44714510 TCTATATATT
1 TTTATAAATT
44714520 TTTATAAATT
1 TTTATAAATT
*
44714530 TTT-TATGATT
1 TTTATA-AATT
*
44714540 TTTATAAAAT
1 TTTATAAATT
* *
44714550 TTTACATATT
1 TTTATAAATT
*
44714560 TTTATAATTT
1 TTTATAAATT
* *
44714570 TTTTTCTAATT
1 TTTAT-AAATT
*
44714581 TTTA-ATAACT
1 TTTATA-AATT
*
44714591 TCTA-AATATT
1 TTTATAA-ATT
*
44714601 ATTTATTAAAAT
1 -TTTA-TAAATT
*
44714613 TTTATAATTT
1 TTTATAAATT
44714623 TTTATAAATT
1 TTTATAAATT
44714633 TT
1 TT
44714635 ATTGATTTTT
Statistics
Matches: 107, Mismatches: 29, Indels: 19
0.69 0.19 0.12
Matches are distributed among these distances:
9 10 0.09
10 72 0.67
11 21 0.20
12 2 0.02
13 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.01, T:0.61
Consensus pattern (10 bp):
TTTATAAATT
Found at i:44714572 original size:20 final size:20
Alignment explanation
Indices: 44714421--44714572 Score: 79
Period size: 20 Copynumber: 7.7 Consensus size: 20
44714411 ATACAATAAA
* *
44714421 TTTTATAATTTTTT-TATGAA
1 TTTTATAATTTTTTACAT-AT
44714441 TTTTAT-ATTTCTTTACAT-T
1 TTTTATAATTT-TTTACATAT
*
44714460 TTTTATAATTTTCTTAC-GA-
1 TTTTATAATTTT-TTACATAT
* * * *
44714479 CTTTATAAAATTTATA-ATTT
1 TTTTAT-AATTTTTTACATAT
* *
44714499 TTTTAT-ATATTTCTATATAT
1 TTTTATAAT-TTTTTACATAT
44714519 TTTTATAAATTTTTT--ATGAT
1 TTTTAT-AATTTTTTACAT-AT
**
44714539 TTTTATAAAATTTTACATAT
1 TTTTATAATTTTTTACATAT
44714559 TTTTATAATTTTTT
1 TTTTATAATTTTTT
44714573 TTCTAATTTT
Statistics
Matches: 100, Mismatches: 17, Indels: 30
0.68 0.12 0.20
Matches are distributed among these distances:
18 1 0.01
19 31 0.31
20 58 0.58
21 8 0.08
22 2 0.02
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTTACATAT
Found at i:44714572 original size:40 final size:40
Alignment explanation
Indices: 44714498--44714633 Score: 116
Period size: 41 Copynumber: 3.3 Consensus size: 40
44714488 ATTTATAATT
* *
44714498 TTTTTATATATTTCTATATATTTTTATAAATTTTTTATGA
1 TTTTTATAAATTTCTACATATTTTTATAAATTTTTTATGA
* * *
44714538 TTTTTATAAAATTT-TACATATTTTTATAATTTTTTTTCTAA
1 TTTTTAT-AAATTTCTACATATTTTTATAA-ATTTTTTATGA
* * * *
44714579 TTTTTA-ATAACTTCTAAATATTATTTATTAAA-ATTTTATAA
1 TTTTTATA-AATTTCTACATATT-TTTA-TAAATTTTTTATGA
44714620 TTTTTTATAAATTT
1 -TTTTTATAAATTT
44714634 TATTGATTTT
Statistics
Matches: 77, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
39 1 0.01
40 25 0.32
41 33 0.43
42 14 0.18
43 4 0.05
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.62
Consensus pattern (40 bp):
TTTTTATAAATTTCTACATATTTTTATAAATTTTTTATGA
Found at i:44714642 original size:20 final size:18
Alignment explanation
Indices: 44714597--44714644 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
44714587 AACTTCTAAA
*
44714597 TATTATTTATTAAAATTT
1 TATTATTTTTTAAAATTT
*
44714615 TATAATTTTTTATAAATTT
1 TATTATTTTTTA-AAATTT
44714634 TATTGATTTTT
1 TATT-ATTTTT
44714645 ATTTTTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 10 0.40
19 9 0.36
20 6 0.24
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TATTATTTTTTAAAATTT
Found at i:44715771 original size:42 final size:42
Alignment explanation
Indices: 44715722--44715840 Score: 139
Period size: 43 Copynumber: 2.8 Consensus size: 42
44715712 ATTAGGGTTA
*
44715722 ATGAGACTACGTGTAAGACCATATCTGGGATATGACATCGAT
1 ATGAGACTACGTGTAAGACCATATCTGGGATATGACATCGAC
** * * * * *
44715764 ATGAGACTTTGTGTAAGACCACAGCTAGGTTATTGGCATCGAC
1 ATGAGACTACGTGTAAGACCATATCTGGGATA-TGACATCGAC
* *
44715807 ATGAGATTACATGTAAGACCATATCTGGGATATG
1 ATGAGACTACGTGTAAGACCATATCTGGGATATG
44715841 GCATTAGTAT
Statistics
Matches: 60, Mismatches: 16, Indels: 2
0.77 0.21 0.03
Matches are distributed among these distances:
42 28 0.47
43 32 0.53
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (42 bp):
ATGAGACTACGTGTAAGACCATATCTGGGATATGACATCGAC
Found at i:44718556 original size:16 final size:16
Alignment explanation
Indices: 44718526--44718565 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
44718516 ATTCCAATGC
44718526 TATCC-TTTCAATTGA
1 TATCCTTTTCAATTGA
*
44718541 TATCCTTTTCATTTGA
1 TATCCTTTTCAATTGA
44718557 TATCCTTTT
1 TATCCTTTT
44718566 TAACCTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.20, C:0.20, G:0.05, T:0.55
Consensus pattern (16 bp):
TATCCTTTTCAATTGA
Found at i:44731867 original size:16 final size:15
Alignment explanation
Indices: 44731842--44731871 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
44731832 TTAATTATGT
44731842 AAAAAAAATTTATTA
1 AAAAAAAATTTATTA
44731857 AAAATAAAATTTATT
1 AAAA-AAAATTTATT
44731872 TTATAACTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (15 bp):
AAAAAAAATTTATTA
Found at i:44732108 original size:21 final size:21
Alignment explanation
Indices: 44732084--44732127 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
44732074 TCCCCCTTCT
44732084 TTTTGCTTTGATC-TTTGTCTC
1 TTTTG-TTTGATCATTTGTCTC
**
44732105 TTTTGTTTTTTCATTTGTCTC
1 TTTTGTTTGATCATTTGTCTC
44732126 TT
1 TT
44732128 CCATTTTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.05, C:0.16, G:0.11, T:0.68
Consensus pattern (21 bp):
TTTTGTTTGATCATTTGTCTC
Found at i:44746083 original size:473 final size:473
Alignment explanation
Indices: 44745198--44746125 Score: 1847
Period size: 473 Copynumber: 2.0 Consensus size: 473
44745188 CAAGAATGAA
44745198 GAGGCTCGAGTAGCTGAACAAGGCAGTGACAGTGAAGAACAAGTGTTTGCAGTCTCATGTTTAGC
1 GAGGCTCGAGTAGCTGAACAAGGCAGTGACAGTGAAGAACAAGTGTTTGCAGTCTCATGTTTAGC
*
44745263 TGCAAAATGCAAGGTTAAAAAGGGATGGCTCCTTGACAGTGGCTGCACCAACCACATGTCACCAG
66 TGCAAAATGCAAGGTTAAAAAAGGATGGCTCCTTGACAGTGGCTGCACCAACCACATGTCACCAG
44745328 ATGCAACTATCTTCAAAACTCTAGATAGAAGCTGTAAGACTAGAGTAAAAATTGGAGATGGACAC
131 ATGCAACTATCTTCAAAACTCTAGATAGAAGCTGTAAGACTAGAGTAAAAATTGGAGATGGACAC
44745393 TGTATTCAGGCAGAAGGCATAGGTGATGTGATAATATGCACTCCATCAGGTAACAAACTCATCCC
196 TGTATTCAGGCAGAAGGCATAGGTGATGTGATAATATGCACTCCATCAGGTAACAAACTCATCCC
44745458 AAATGTACTGTTTGTACCTGAAATTGATAGAAATTTGTTGAGCATAGCTCAGTTGCTGGAAAAAG
261 AAATGTACTGTTTGTACCTGAAATTGATAGAAATTTGTTGAGCATAGCTCAGTTGCTGGAAAAAG
44745523 GATATACTGTGGTCTTTAAAGGAAAGGAGTGCCAAATCAGTGACCAAAAAGGGTCCATACTTATG
326 GATATACTGTGGTCTTTAAAGGAAAGGAGTGCCAAATCAGTGACCAAAAAGGGTCCATACTTATG
44745588 ACAGTCACCATGAGTGACAAATGTTTTGAAGTTGACTAGTCAGGTGACTCACACACAGCCCATAT
391 ACAGTCACCATGAGTGACAAATGTTTTGAAGTTGACTAGTCAGGTGACTCACACACAGCCCATAT
44745653 CCACAACATAAGGCTGCT
456 CCACAACATAAGGCTGCT
44745671 GAGGCTCGAGTAGCTGAACAAGGCAGTGACAGTGAAGAACAAGTGTTTGCAGTCTCATGTTTAGC
1 GAGGCTCGAGTAGCTGAACAAGGCAGTGACAGTGAAGAACAAGTGTTTGCAGTCTCATGTTTAGC
44745736 TGCAAAATGCAAGGTTAAAAAAGGATGGCTCCTTGACAGTGGCTGCACCAACCACATGTCACCAG
66 TGCAAAATGCAAGGTTAAAAAAGGATGGCTCCTTGACAGTGGCTGCACCAACCACATGTCACCAG
44745801 ATGCAACTATCTTCAAAACTCTAGATAGAAGCTGTAAGACTAGAGTAAAAATTGGAGATGGACAC
131 ATGCAACTATCTTCAAAACTCTAGATAGAAGCTGTAAGACTAGAGTAAAAATTGGAGATGGACAC
44745866 TGTATTCAGGCAGAAGGCATAGGTGATGTGATAATATGCACTCCATCAGGTAACAAACTCATCCC
196 TGTATTCAGGCAGAAGGCATAGGTGATGTGATAATATGCACTCCATCAGGTAACAAACTCATCCC
44745931 AAATGTACTGTTTGTACCTGAAATTGATAGAAATTTGTTGAGCATAGCTCAGTTGCTGGAAAAAG
261 AAATGTACTGTTTGTACCTGAAATTGATAGAAATTTGTTGAGCATAGCTCAGTTGCTGGAAAAAG
44745996 GATATACTGTGGTCTTTAAAGGAAAGGAGTGCCAAATCAGTGACCAAAAAGGGTCCATACTTATG
326 GATATACTGTGGTCTTTAAAGGAAAGGAGTGCCAAATCAGTGACCAAAAAGGGTCCATACTTATG
44746061 ACAGTCACCATGAGTGACAAATGTTTTGAAGTTGACTAGTCAGGTGACTCACACACAGCCCATAT
391 ACAGTCACCATGAGTGACAAATGTTTTGAAGTTGACTAGTCAGGTGACTCACACACAGCCCATAT
44746126 AGCCTCAACA
Statistics
Matches: 454, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
473 454 1.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.24
Consensus pattern (473 bp):
GAGGCTCGAGTAGCTGAACAAGGCAGTGACAGTGAAGAACAAGTGTTTGCAGTCTCATGTTTAGC
TGCAAAATGCAAGGTTAAAAAAGGATGGCTCCTTGACAGTGGCTGCACCAACCACATGTCACCAG
ATGCAACTATCTTCAAAACTCTAGATAGAAGCTGTAAGACTAGAGTAAAAATTGGAGATGGACAC
TGTATTCAGGCAGAAGGCATAGGTGATGTGATAATATGCACTCCATCAGGTAACAAACTCATCCC
AAATGTACTGTTTGTACCTGAAATTGATAGAAATTTGTTGAGCATAGCTCAGTTGCTGGAAAAAG
GATATACTGTGGTCTTTAAAGGAAAGGAGTGCCAAATCAGTGACCAAAAAGGGTCCATACTTATG
ACAGTCACCATGAGTGACAAATGTTTTGAAGTTGACTAGTCAGGTGACTCACACACAGCCCATAT
CCACAACATAAGGCTGCT
Found at i:44751210 original size:26 final size:24
Alignment explanation
Indices: 44751150--44751210 Score: 61
Period size: 26 Copynumber: 2.5 Consensus size: 24
44751140 TATTATATGA
*
44751150 AAATTATTTATATAAATATGTATT
1 AAATAATTTATATAAATATGTATT
* *
44751174 ACAA-AAATTATATCAATTATGATATT
1 A-AATAATTTATAT-AAATATG-TATT
44751200 AAATAATTTAT
1 AAATAATTTAT
44751211 CAAATTAGTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
24 8 0.28
25 10 0.34
26 11 0.38
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (24 bp):
AAATAATTTATATAAATATGTATT
Found at i:44751217 original size:25 final size:25
Alignment explanation
Indices: 44751157--44751213 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
44751147 TGAAAATTAT
*
44751157 TTATAT-AAATATGTATTACAAAAA
1 TTATATCAATTATGTATTACAAAAA
*
44751181 TTATATCAATTATGATATTA-AATAA
1 TTATATCAATTATG-TATTACAAAAA
44751206 TT-TATCAA
1 TTATATCAA
44751214 ATTAGTAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 12 0.41
25 12 0.41
26 5 0.17
ACGTcount: A:0.49, C:0.05, G:0.04, T:0.42
Consensus pattern (25 bp):
TTATATCAATTATGTATTACAAAAA
Found at i:44753211 original size:24 final size:24
Alignment explanation
Indices: 44753179--44753224 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
44753169 AATAAAAGAG
44753179 TTTTAATAGAATTTAACTAGTTCC
1 TTTTAATAGAATTTAACTAGTTCC
44753203 TTTTAATAGAATTTAACTAGTT
1 TTTTAATAGAATTTAACTAGTT
44753225 TGTTTAATTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.48
Consensus pattern (24 bp):
TTTTAATAGAATTTAACTAGTTCC
Found at i:44755156 original size:11 final size:11
Alignment explanation
Indices: 44755140--44755180 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
44755130 TTTTACTATA
44755140 AAATATTTATT
1 AAATATTTATT
44755151 AAATATTTA-T
1 AAATATTTATT
*
44755161 AAAT-TTTAAT
1 AAATATTTATT
*
44755171 ATATATTTAT
1 AAATATTTAT
44755181 ACTTGAAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
9 4 0.15
10 9 0.35
11 13 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
AAATATTTATT
Found at i:44758201 original size:30 final size:30
Alignment explanation
Indices: 44758167--44758229 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
44758157 ACTTTTCATG
* *
44758167 TTTTTAGAATTTATAA-GTTTTTTTAATATT
1 TTTTTAGAATTT-TAATGATTTTTTAAAATT
* *
44758197 TTTTTGGACTTTTAATGATTTTTTAAAATT
1 TTTTTAGAATTTTAATGATTTTTTAAAATT
44758227 TTT
1 TTT
44758230 CGAAGTTCCA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 3 0.11
30 25 0.89
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (30 bp):
TTTTTAGAATTTTAATGATTTTTTAAAATT
Found at i:44758266 original size:23 final size:24
Alignment explanation
Indices: 44758239--44758284 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
44758229 TCGAAGTTCC
*
44758239 ACATA-CTTATCATTTTAAAAAAA
1 ACATATCTTATAATTTTAAAAAAA
* *
44758262 ACATATTTTATAATTTTCAAAAA
1 ACATATCTTATAATTTTAAAAAA
44758285 TAAATTATGA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (24 bp):
ACATATCTTATAATTTTAAAAAAA
Found at i:44760339 original size:22 final size:24
Alignment explanation
Indices: 44760314--44760366 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
44760304 TTATAAATTC
44760314 AATTTAA-AATATATAAT-ACAAT
1 AATTTAAGAATATATAATAACAAT
* *
44760336 AATTTCAAGCATATTTAATAACAAT
1 AATTT-AAGAATATATAATAACAAT
44760361 AATTTA
1 AATTTA
44760367 GTCATAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
22 5 0.19
23 2 0.08
24 9 0.35
25 10 0.38
ACGTcount: A:0.53, C:0.08, G:0.02, T:0.38
Consensus pattern (24 bp):
AATTTAAGAATATATAATAACAAT
Found at i:44763865 original size:17 final size:17
Alignment explanation
Indices: 44763843--44763876 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44763833 ATCCACTAAT
*
44763843 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
44763860 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
44763877 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:44768504 original size:17 final size:17
Alignment explanation
Indices: 44768482--44768515 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
44768472 ATCCACTAAT
*
44768482 CCACTACCACCAACAAC
1 CCACTACCAACAACAAC
44768499 CCACTACCAACAACAAC
1 CCACTACCAACAACAAC
44768516 AATCCACTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.50, G:0.00, T:0.06
Consensus pattern (17 bp):
CCACTACCAACAACAAC
Found at i:44769577 original size:15 final size:14
Alignment explanation
Indices: 44769557--44769598 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
44769547 ATATTCGATA
44769557 AAAAAAATATAAAT
1 AAAAAAATATAAAT
* * *
44769571 AACAAAAT-TATAG
1 AAAAAAATATAAAT
44769584 AAAAAAATATAAAT
1 AAAAAAATATAAAT
44769598 A
1 A
44769599 TTCTTCATAA
Statistics
Matches: 21, Mismatches: 6, Indels: 2
0.72 0.21 0.07
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.21
Consensus pattern (14 bp):
AAAAAAATATAAAT
Found at i:44770341 original size:30 final size:30
Alignment explanation
Indices: 44770306--44770364 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
44770296 TATTTTATTG
44770306 TTAATTTGGTTATTATTTTAAAGACATTTA
1 TTAATTTGGTTATTATTTTAAAGACATTTA
* * *
44770336 TTAATTTTGTTATTATTTTAGAGGCATTT
1 TTAATTTGGTTATTATTTTAAAGACATTT
44770365 GTTTGTTAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.03, G:0.12, T:0.56
Consensus pattern (30 bp):
TTAATTTGGTTATTATTTTAAAGACATTTA
Found at i:44771951 original size:3 final size:3
Alignment explanation
Indices: 44771928--44771971 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
44771918 TGTCTAACAC
* * *
44771928 TAT TAT TTT TAT TTT TA- TAT TAT TAT TAT TAC TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
44771972 ATATGAGTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:44772011 original size:25 final size:25
Alignment explanation
Indices: 44771965--44772042 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 25
44771955 ATTACTATTA
*
44771965 TTATTATATATGAGTATATATTTTT
1 TTATTATATACGAGTATATATTTTT
* *
44771990 TTATTATATAC--GTATATGTATTT
1 TTATTATATACGAGTATATATTTTT
* *
44772013 ATATT-TATACATAGTAT-TATTTTT
1 TTATTATATAC-GAGTATATATTTTT
*
44772037 TAATTA
1 TTATTA
44772043 CTTTATTTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
22 5 0.12
23 14 0.34
24 8 0.20
25 14 0.34
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.58
Consensus pattern (25 bp):
TTATTATATACGAGTATATATTTTT
Found at i:44772111 original size:3 final size:3
Alignment explanation
Indices: 44772091--44772413 Score: 59
Period size: 3 Copynumber: 105.7 Consensus size: 3
44772081 TGTATTTCAA
* *
44772091 TAT TAT TAC TAT TGT TAT TAT TAT TAT TAT TAT TAGT GTAT GT-T T-T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T -TAT -TAT TAT
* * * * *
44772137 TAT TAT ATAGG TAT ATAT ATAT T-T ATAT ATAG TGT TAT TTT TAAT TAC
1 TAT TAT -TA-T TAT -TAT -TAT TAT -TAT -TAT TAT TAT TAT T-AT TAT
* * * *
44772185 T-T TAA T-T TAA TAT TAT TAT TA- TAT TAT GT-T TAT TTT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT
* * * *
44772227 TTT GTAT T-T CAT TAT TAT T-T CTAG TAT TAT TAT TAT TAT TAA TAT
1 TAT -TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
* * *
44772272 TAG TA- TAT GTTT TAT TAT ATAT GTA- TAT ATAT T-T ATAT ATAG TAT
1 TAT TAT TAT -TAT TAT TAT -TAT -TAT TAT -TAT TAT -TAT -TAT TAT
* * *
44772317 TAT TTT TAAT TAC T-T TAT T-T TAA TAT TAT TAT TA- TAT TA- TATT
1 TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * * * *
44772360 TACT TTT TTT GTAT T-T CAT TAC TAT TGT TAG TAT TAT TAT CAT TAT
1 TA-T TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
44772406 TAA TAT TA
1 TAT TAT TA
44772414 GTGTATGTTT
Statistics
Matches: 232, Mismatches: 55, Indels: 66
0.66 0.16 0.19
Matches are distributed among these distances:
2 24 0.10
3 160 0.69
4 46 0.20
5 2 0.01
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:44772321 original size:145 final size:141
Alignment explanation
Indices: 44772002--44772499 Score: 675
Period size: 145 Copynumber: 3.5 Consensus size: 141
44771992 ATTATATACG
* * *
44772002 TATATGTATTTATATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATA
1 TATATGTATATATATTTATATATAGTATTA-TTTTTAATTACTTTATTTTAATATTATTATTATA
* * * * * * *
44772067 TTACATTTGC--TTTTTGTATTTCAATATTATTACTATTGTTATTATTATTATTATTATTAGTGT
65 TTATATTTACTTTTTTTGTATTTCATTATTATTTCTAGTATTATTATTATTATTAATATTAGTGT
44772130 ATGTTTTTATTA
130 ATGTTTTTATTA
* * *
44772142 TATAGGTATATATATATTTATATATAGTGTTATTTTTAATTACTTTAATTTAATATTATTATTAT
1 TATA--TGTATATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTAT
44772207 ATTATGTTTATTTTTA-TTTTTTTGTATTTCATTATTATTTCTAGTATTATTATTATTATTAATA
64 ATTA----TA--TTTACTTTTTTTGTATTTCATTATTATTTCTAGTATTATTATTATTATTAATA
*
44772271 TTAGTATATG-TTTTATTA
123 TTAGTGTATGTTTTTATTA
44772289 TATATGTATATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATAT
1 TATATGTATATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATAT
* *
44772354 TATATTTACTTTTTTTGTATTTCATTACTATTGT-TAGTATTATTATCATTATTAATATTAGTGT
66 TATATTTACTTTTTTTGTATTTCATTATTATT-TCTAGTATTATTATTATTATTAATATTAGTGT
44772418 ATGTTTTTATTA
130 ATGTTTTTATTA
*
44772430 TATGTGTATATACATATATTTATATATAGTATT-TTTTTAATTACTTTATTTTAATATTATTATT
1 TATATG--TAT--ATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATT
44772494 ATATTA
62 ATATTA
44772500 CATGCCTTCC
Statistics
Matches: 320, Mismatches: 21, Indels: 30
0.86 0.06 0.08
Matches are distributed among these distances:
139 4 0.01
140 57 0.18
141 51 0.16
142 22 0.07
143 3 0.01
144 37 0.12
145 81 0.25
147 15 0.05
148 50 0.16
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.61
Consensus pattern (141 bp):
TATATGTATATATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATAT
TATATTTACTTTTTTTGTATTTCATTATTATTTCTAGTATTATTATTATTATTAATATTAGTGTA
TGTTTTTATTA
Found at i:44772535 original size:7 final size:7
Alignment explanation
Indices: 44772518--44772577 Score: 50
Period size: 7 Copynumber: 8.3 Consensus size: 7
44772508 CCTTTTTGTG
44772518 TTTATTTA
1 TTTA-TTA
44772526 TTTATTA
1 TTTATTA
44772533 TTTTATTA
1 -TTTATTA
* *
44772541 TTAACTAA
1 TTTA-TTA
*
44772549 TTTAGTA
1 TTTATTA
44772556 -TTATTA
1 TTTATTA
*
44772562 ATTATTA
1 TTTATTA
44772569 TTTATTA
1 TTTATTA
44772576 TT
1 TT
44772578 GTCCTTGTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
6 5 0.12
7 21 0.50
8 16 0.38
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (7 bp):
TTTATTA
Found at i:44772558 original size:145 final size:142
Alignment explanation
Indices: 44772012--44772558 Score: 555
Period size: 145 Copynumber: 3.8 Consensus size: 142
44772002 TATATGTATT
* * *
44772012 TATATTTATACATAGTATTATTTTTTAATTACTTTATTTTAATATTTTTATTATATTACATTTGC
1 TATATTTATATATAGTATTA-TTTTTAATTACTTTATTTTAATATTATTATTATATTACATTTAC
* * * * * *
44772077 TTTTTG---TATTTCAATATTATTACTATTGTTATTATTATTATTATTATTAGTGTATGTTTTTA
65 TTTTTGTTTTATTTCATTATTATTATTATTATTA--ACTAATATTAATATTAGTGTATGTTTTTA
44772139 TTATATAG-GTATATA
128 TTATAT-GTGTATATA
* * **
44772154 TATATTTATATATAGTGTTATTTTTAATTACTTTAATTTAATATTATTATTATATTATGTTTATT
1 TATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTACATTTA--
* * * * * *
44772219 TTTATTTTTTTGTATTTCATTATTATT-TCTAGTATTATTATTATTATTAATATTAGTATATG-T
64 CTT-TTTGTTT-TATTTCATTATTATTAT-TATTATTA--ACTAATATTAATATTAGTGTATGTT
*
44772282 TTTATTATATATG--TATA
124 TTTATTATATGTGTATATA
*
44772299 TATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTATATTTACT
1 TATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTACATTTACT
* * * * *
44772364 TTTT-TTGTATTTCATTACTATTGTTAGTATTATTA-TCATTATTAATATTAGTGTATGTTTTTA
66 TTTTGTTTTATTTCATTATTATTATTATTATTA--ACT-AATATTAATATTAGTGTATGTTTTTA
44772427 TTATATGTGTATATACA
128 TTATATGTGTATAT--A
44772444 TATATTTATATATAGTATT-TTTTTAATTACTTTATTTTAATATTATTATTATATTACATGCCTT
1 TATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTACAT---TT
* *
44772508 CCTTTTTGTGTTTATTT-ATTTATTATT-TTATTATTAACTAAT-TTAGTATTA
63 ACTTTTTGT-TTTATTTCA-TTATTATTATTATTATTAACTAATATTAATATTA
44772559 TTAATTATTA
Statistics
Matches: 351, Mismatches: 31, Indels: 43
0.83 0.07 0.10
Matches are distributed among these distances:
139 1 0.00
140 44 0.13
141 54 0.15
142 21 0.06
143 7 0.02
144 42 0.12
145 92 0.26
146 3 0.01
147 21 0.06
148 53 0.15
149 13 0.04
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.61
Consensus pattern (142 bp):
TATATTTATATATAGTATTATTTTTAATTACTTTATTTTAATATTATTATTATATTACATTTACT
TTTTGTTTTATTTCATTATTATTATTATTATTAACTAATATTAATATTAGTGTATGTTTTTATTA
TATGTGTATATA
Done.