Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 26 of 295
Found at i:7747319 original size:23 final size:24
Alignment explanation
Indices: 7747278--7747324 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
7747268 ATAAAATAAT
*
7747278 AAATTTACTTTTAATGTGCTCGAA
1 AAATTTACTTTTAACGTGCTCGAA
7747302 AAATTTAC-TTTAACGTGCTCGAA
1 AAATTTACTTTTAACGTGCTCGAA
7747325 TCCTTAAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (24 bp):
AAATTTACTTTTAACGTGCTCGAA
Found at i:7755796 original size:16 final size:17
Alignment explanation
Indices: 7755769--7755814 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
7755759 TGCATATTAT
7755769 TATTACTATTATTTATT-
1 TATTACT-TTATTTATTG
7755786 TATTTA-TTTA-TTATTG
1 TA-TTACTTTATTTATTG
7755802 TATTACTTTATTT
1 TATTACTTTATTT
7755815 TAAAATTCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
15 8 0.32
16 9 0.36
17 5 0.20
18 3 0.12
ACGTcount: A:0.26, C:0.04, G:0.02, T:0.67
Consensus pattern (17 bp):
TATTACTTTATTTATTG
Found at i:7755855 original size:18 final size:19
Alignment explanation
Indices: 7755822--7755858 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
7755812 TTTTAAAATT
*
7755822 CATATTGTTCATATTTTCA
1 CATATTATTCATATTTTCA
7755841 CATATTATT-ATATTTTCA
1 CATATTATTCATATTTTCA
7755859 TTATTATCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.30, C:0.14, G:0.03, T:0.54
Consensus pattern (19 bp):
CATATTATTCATATTTTCA
Found at i:7755917 original size:30 final size:27
Alignment explanation
Indices: 7755859--7755917 Score: 64
Period size: 30 Copynumber: 2.1 Consensus size: 27
7755849 TATATTTTCA
**
7755859 TTATTATCCTTTTTATTTCTTGTTATT
1 TTATTATCCTTTTTATTTCTTGGCATT
*
7755886 TTATTATTCCTTTTATTATTTTTTGGCATT
1 TTATTA-TCC-TTT-TTATTTCTTGGCATT
7755916 TT
1 TT
7755918 TCAAATCGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
27 6 0.23
28 3 0.12
29 3 0.12
30 14 0.54
ACGTcount: A:0.15, C:0.10, G:0.05, T:0.69
Consensus pattern (27 bp):
TTATTATCCTTTTTATTTCTTGGCATT
Found at i:7763617 original size:23 final size:23
Alignment explanation
Indices: 7763570--7763703 Score: 124
Period size: 23 Copynumber: 5.7 Consensus size: 23
7763560 ATATATCAAA
*
7763570 TCGTAAGAGCTTACTGTTTTCAGC
1 TCGTTAGAGCTTACTG-TTTCAGC
7763594 TCGTTAGAGCTTACTGTTTCAGC
1 TCGTTAGAGCTTACTGTTTCAGC
* *
7763617 TCGTTGGAGCTTACTGTTTTAGC
1 TCGTTAGAGCTTACTGTTTCAGC
** * * *
7763640 TTATAAAAGCTTATTGTTTTCAGC
1 TCGTTAGAGCTTACTG-TTTCAGC
* * *
7763664 TCGTCAGAGCTTACCGTTTGAGC
1 TCGTTAGAGCTTACTGTTTCAGC
***
7763687 TTAATAGAGCTTACTGT
1 TCGTTAGAGCTTACTGT
7763704 CCATCAACTC
Statistics
Matches: 87, Mismatches: 22, Indels: 3
0.78 0.20 0.03
Matches are distributed among these distances:
23 56 0.64
24 31 0.36
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (23 bp):
TCGTTAGAGCTTACTGTTTCAGC
Found at i:7763636 original size:47 final size:47
Alignment explanation
Indices: 7763570--7763703 Score: 130
Period size: 47 Copynumber: 2.9 Consensus size: 47
7763560 ATATATCAAA
* * * *
7763570 TCGTAAGAGCTTACTGTTTTCAGCTCGTTAGAGCTTACTG-TTTCAGC
1 TCGTCAGAGCTTACTGTTTT-AGCTCATAAAAGCTTACTGTTTTCAGC
** * *
7763617 TCGTTGGAGCTTACTGTTTTAGCTTATAAAAGCTTATTGTTTTCAGC
1 TCGTCAGAGCTTACTGTTTTAGCTCATAAAAGCTTACTGTTTTCAGC
* *
7763664 TCGTCAGAGCTTACCGTTTGAGCT--TAATAGAGCTTACTGT
1 TCGTCAGAGCTTACTGTTTTAGCTCATAA-A-AGCTTACTGT
7763704 CCATCAACTC
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
45 3 0.04
46 15 0.21
47 54 0.75
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (47 bp):
TCGTCAGAGCTTACTGTTTTAGCTCATAAAAGCTTACTGTTTTCAGC
Found at i:7766566 original size:17 final size:18
Alignment explanation
Indices: 7766536--7766577 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
7766526 AGCCCATTAC
7766536 AAACCCAAACCTAA-ATT
1 AAACCCAAACCTAACATT
7766553 AAACCC-AACTCTAATCATT
1 AAACCCAAAC-CTAA-CATT
7766572 AAACCC
1 AAACCC
7766578 TAAGACCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.14
17 10 0.45
19 9 0.41
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (18 bp):
AAACCCAAACCTAACATT
Found at i:7767854 original size:26 final size:26
Alignment explanation
Indices: 7767825--7767878 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
7767815 TCCATGTTAT
*
7767825 TTTATATTTA-ATTTCTTTTAAATCTA
1 TTTATATGTATATTT-TTTTAAATCTA
7767851 TTTATATGTATATTTTTTTAAATCTA
1 TTTATATGTATATTTTTTTAAATCTA
7767877 TT
1 TT
7767879 ATGTATATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 22 0.85
27 4 0.15
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTATATGTATATTTTTTTAAATCTA
Found at i:7767887 original size:25 final size:27
Alignment explanation
Indices: 7767825--7767887 Score: 78
Period size: 26 Copynumber: 2.4 Consensus size: 27
7767815 TCCATGTTAT
*
7767825 TTTATATTTA-ATTTCTTTTAAATCTA
1 TTTATATATATATTTCTTTTAAATCTA
*
7767851 TTTATATGTATATTT-TTTTAAATCTA
1 TTTATATATATATTTCTTTTAAATCTA
*
7767877 -TTATGTATATA
1 TTTATATATATA
7767888 ATTCATTCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
25 9 0.27
26 20 0.61
27 4 0.12
ACGTcount: A:0.32, C:0.05, G:0.03, T:0.60
Consensus pattern (27 bp):
TTTATATATATATTTCTTTTAAATCTA
Found at i:7768754 original size:13 final size:13
Alignment explanation
Indices: 7768736--7768763 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7768726 AATATAGGGG
7768736 AAAATGTACCATT
1 AAAATGTACCATT
7768749 AAAATGTACCATT
1 AAAATGTACCATT
7768762 AA
1 AA
7768764 CGAATTTTCA
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:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (13 bp):
AAAATGTACCATT
Found at i:7776649 original size:45 final size:45
Alignment explanation
Indices: 7776443--7776899 Score: 268
Period size: 45 Copynumber: 10.1 Consensus size: 45
7776433 GTCATCATAG
* * **
7776443 CAAATATTATCTCCCTAAAGTTGCAGTGGAGCATATT-AAAGCCA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAAGTTA
* * * * *
7776487 CAAGTCTTATCTCCCTAAAGTTGCAATAGAGCAGACTG-AAGATA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAAGTTA
** * * * * * *
7776531 GTGAATCTTATTTCCCTGAAGTTGCAGTGAAACAAATTAAGGCTACAAATTA
1 -CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT---G--A-AAGTTA
* * * *
7776583 CAAATCTGATCACCTTGAAGTTGCAGTGGAGCAGATTGAAAGTTA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAAGTTA
* * * ** *
7776628 CAGAT-TTGATCTCCCTAAAGTTGCATTAGATTAGATT-AAAGATA
1 CAAATCTT-ATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAAGTTA
* ** * *
7776672 GCAAATCTTATCTCTCTGAAA-TTGCAGCAGAGTAGAGT-AAAGTTA
1 -CAAATCTTATCTCCCT-AAAGTTGCAGTGGAGCAGATTGAAAGTTA
* * * * *
7776717 TAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTG-AATTTA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAAGTTA
* * * * * * *
7776761 CAAGTCTTACCTCCCTGAAGTTGTAGTGGAGTACATTG-AAGATA
1 CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAAGTTA
* *
7776805 GTAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTG-AAGATA
1 -CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAAGTTA
* * * * * *
7776850 GCGAACCTTATTTCCCTGAAGTTGCAGTGGAACAGATT-AAAGCTA
1 -CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAAGTTA
7776895 CAAAT
1 CAAAT
7776900 TATAAATCTT
Statistics
Matches: 312, Mismatches: 84, Indels: 34
0.73 0.20 0.08
Matches are distributed among these distances:
43 2 0.01
44 109 0.35
45 161 0.52
46 6 0.02
48 2 0.01
51 28 0.09
52 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (45 bp):
CAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAAGTTA
Found at i:7776775 original size:44 final size:44
Alignment explanation
Indices: 7776598--7777060 Score: 229
Period size: 44 Copynumber: 10.3 Consensus size: 44
7776588 CTGATCACCT
*
7776598 TGAAGTTGCAGTGGAGCAGATTGAAAGTTA-CAGAT-TTGATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTG-AAGATAGCA-ATCTT-ATCTCCC
* * * ** * *
7776643 TAAAGTTGCATTAGATTAGATTAAAGATAGCAAATCTTATCTCTC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAGC-AATCTTATCTCCC
* ** * * * * ** *
7776688 TGAAATTGCAGCAGAGTAGAGTAAAGTTATAAACCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAATCTTATCTCCC
* ** *
7776732 TGAAGTTGCAGTGGAGCAGGTTGAATTTA-CAAGTCTTACCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAA-TCTTATCTCCC
* * * *
7776776 TGAAGTTGTAGTGGAGTACATTGAAGATAGTAAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAG-CAATCTTATCTCCC
* * *
7776821 TAAAGTTGCAGTGGAGCAGATTGAAGATAGCGAACCTTATTTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAGC-AATCTTATCTCCC
* * ** *
7776866 TGAAGTTGCAGTGGAACAGATTAAAGCTACAAATTATAAATCTTATCTCCT
1 TGAAGTTGCAGTGGAGCAGATT---G--A-AGA-TAGCAATCTTATCTCCC
* * ** *
7776917 TGAAGTTGTAGTGGAGCGGATTGCAA-CCA-CAAATCTTATCTTCC
1 TGAAGTTGCAGTGGAGCAGATTG-AAGATAGC-AATCTTATCTCCC
* * ** * * **
7776961 TGAAGTTGCAATGAAAAAGATTGAAGATA-CGAGTCTCATCTCTT
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAGC-AATCTTATCTCCC
* * * * * *
7777005 TGAAGTTACATTGGAGCAAATTAAAGCTA-CAAGTCTAATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAA-TCTTATCTCCC
*
7777049 TGAAGTTACAGT
1 TGAAGTTGCAGT
7777061 AGAGTAGGTC
Statistics
Matches: 312, Mismatches: 89, Indels: 35
0.72 0.20 0.08
Matches are distributed among these distances:
43 5 0.02
44 149 0.48
45 115 0.37
46 6 0.02
47 1 0.00
48 2 0.01
50 1 0.00
51 31 0.10
52 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.30
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAGATTGAAGATAGCAATCTTATCTCCC
Found at i:7778698 original size:3 final size:3
Alignment explanation
Indices: 7778690--7778714 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7778680 TTCATTCGTA
7778690 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
7778715 GTCTTACTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:7795326 original size:10 final size:10
Alignment explanation
Indices: 7795289--7795332 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
7795279 TGGACTTCAA
7795289 TTTTATTTT-
1 TTTTATTTTG
7795298 TTTTATTTTG
1 TTTTATTTTG
*
7795308 ATTTATTTTG
1 TTTTATTTTG
*
7795318 TTTTTTTTTAG
1 TTTTATTTT-G
7795329 TTTT
1 TTTT
7795333 TGTGTAAGCC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
9 9 0.30
10 16 0.53
11 5 0.17
ACGTcount: A:0.11, C:0.00, G:0.07, T:0.82
Consensus pattern (10 bp):
TTTTATTTTG
Found at i:7802918 original size:21 final size:21
Alignment explanation
Indices: 7802881--7802920 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
7802871 ATGTTGACCG
*
7802881 AGCATTGACTGATCATTGACT
1 AGCATTGACTCATCATTGACT
7802902 AGCATTGAC-CATCCATTGA
1 AGCATTGACTCAT-CATTGA
7802921 TTGGTCAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (21 bp):
AGCATTGACTCATCATTGACT
Found at i:7803025 original size:30 final size:29
Alignment explanation
Indices: 7802989--7803058 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 29
7802979 TTTTAATATT
*
7802989 ATATATATCATACTGAT-TAAAAATGT-AAAA
1 ATATATATAATA-T-ATATAAAAA-GTAAAAA
7803019 ATATATATAATATATATAAAAAGTAAAAA
1 ATATATATAATATATATAAAAAGTAAAAA
7803048 ATAGTATATAA
1 ATA-TATATAA
7803059 AAATTGAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 4 0.11
29 14 0.39
30 18 0.50
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.33
Consensus pattern (29 bp):
ATATATATAATATATATAAAAAGTAAAAA
Found at i:7803040 original size:21 final size:20
Alignment explanation
Indices: 7803014--7803082 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 20
7803004 ATTAAAAATG
*
7803014 TAAAAATATATATAATATATA
1 TAAAAATATA-AAAATATATA
7803035 TAAAAAGTA-AAAAATAGTATA
1 TAAAAA-TATAAAAATA-TATA
7803056 TAAAAAT-TGAAAAATAT-TA
1 TAAAAATAT-AAAAATATATA
7803075 TAAAAATA
1 TAAAAATA
7803083 ATATATTTTT
Statistics
Matches: 42, Mismatches: 1, Indels: 11
0.78 0.02 0.20
Matches are distributed among these distances:
19 9 0.21
20 7 0.17
21 24 0.57
22 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (20 bp):
TAAAAATATAAAAATATATA
Found at i:7803078 original size:19 final size:20
Alignment explanation
Indices: 7803027--7803081 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
7803017 AAATATATAT
*
7803027 AATATATATAAAAAGTAAAA
1 AATATATATAAAAATTAAAA
*
7803047 AATAGTATATAAAAATTGAAA
1 AATA-TATATAAAAATTAAAA
7803068 AATAT-TATAAAAAT
1 AATATATATAAAAAT
7803082 AATATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 9 0.28
20 5 0.16
21 18 0.56
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (20 bp):
AATATATATAAAAATTAAAA
Found at i:7803188 original size:23 final size:23
Alignment explanation
Indices: 7803139--7803210 Score: 85
Period size: 23 Copynumber: 3.1 Consensus size: 23
7803129 TTATTTTGAC
**
7803139 TTTTTAAAA-TT-TAAAATTATA
1 TTTTTAAAATTTATAAAAAAATA
*
7803160 TGTTTTAGAAATTTATAAAAAATTA
1 T-TTTTA-AAATTTATAAAAAAATA
7803185 TTTTTAAAATTTATAAAAAAATA
1 TTTTTAAAATTTATAAAAAAATA
7803208 TTT
1 TTT
7803211 ATTATATACA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
21 1 0.02
22 5 0.12
23 22 0.51
24 7 0.16
25 8 0.19
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (23 bp):
TTTTTAAAATTTATAAAAAAATA
Found at i:7803419 original size:24 final size:24
Alignment explanation
Indices: 7803389--7803441 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 24
7803379 TTAATATTAT
* *
7803389 ATTTTTTTATTTTTAATTTAAATTTA
1 ATTTTTTTA-TTGTAA-ATAAATTTA
7803415 ATTTTTTTATTGTAAATAAATTTA
1 ATTTTTTTATTGTAAATAAATTTA
7803439 ATT
1 ATT
7803442 GCCACGTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 11 0.44
25 5 0.20
26 9 0.36
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (24 bp):
ATTTTTTTATTGTAAATAAATTTA
Found at i:7803850 original size:18 final size:17
Alignment explanation
Indices: 7803809--7803850 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
7803799 ATTTTACACA
7803809 TTTTGTAATTTGATTCT
1 TTTTGTAATTTGATTCT
* *
7803826 TTTTGTAATTTTATTTT
1 TTTTGTAATTTGATTCT
7803843 TCTTTGTA
1 T-TTTGTA
7803851 TCCCTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.17, C:0.05, G:0.10, T:0.69
Consensus pattern (17 bp):
TTTTGTAATTTGATTCT
Found at i:7804416 original size:15 final size:15
Alignment explanation
Indices: 7804396--7804451 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
7804386 ATTCAATATT
7804396 AATATTTTAATAATA
1 AATATTTTAATAATA
*
7804411 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
7804430 AATATATTAATAATA
1 AATATTTTAATAATA
7804445 AAT-TTTT
1 AATATTTT
7804452 TGTAGTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 9
0.72 0.09 0.20
Matches are distributed among these distances:
14 3 0.09
15 13 0.39
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:7807846 original size:46 final size:48
Alignment explanation
Indices: 7807774--7807875 Score: 136
Period size: 46 Copynumber: 2.2 Consensus size: 48
7807764 GACAGGACAG
* * * * *
7807774 GACAGAAATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGA
1 GACAGGAACGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
*
7807820 GACAGGAACGAGCCATGTAAGCCCATATTATATATATATGGCATTGGA
1 GACAGGAACGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
7807868 GACAGGAA
1 GACAGGAA
7807876 TAATTCATGT
Statistics
Matches: 48, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
46 26 0.54
47 1 0.02
48 21 0.44
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (48 bp):
GACAGGAACGAGCCATGTAAGCCCATATCATATATATATGGCATTGGA
Found at i:7824407 original size:28 final size:28
Alignment explanation
Indices: 7824375--7824431 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
7824365 GGTTGGCATC
7824375 TCCGGCAAGTTGATGTCAATAATACCTT
1 TCCGGCAAGTTGATGTCAATAATACCTT
*
7824403 TCCGGCAAGTTGATGTCAATAATGCCTT
1 TCCGGCAAGTTGATGTCAATAATACCTT
7824431 T
1 T
7824432 TTAAATGGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.33
Consensus pattern (28 bp):
TCCGGCAAGTTGATGTCAATAATACCTT
Found at i:7836578 original size:23 final size:23
Alignment explanation
Indices: 7836552--7836604 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
7836542 AATTTTAAAA
*
7836552 TATTAAAATATAATTTTATCATT
1 TATTAAAATATAATTTCATCATT
** *
7836575 TATTAATTTATAATTTCATTATT
1 TATTAAAATATAATTTCATCATT
7836598 T-TTAAAA
1 TATTAAAA
7836605 CAACTAAAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
22 4 0.17
23 20 0.83
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (23 bp):
TATTAAAATATAATTTCATCATT
Found at i:7840358 original size:25 final size:25
Alignment explanation
Indices: 7840328--7840379 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
7840318 TACAATTGTC
7840328 TATATATTTATTAAATTTATAAACA
1 TATATATTTATTAAATTTATAAACA
7840353 TATATATTTATTAAATTTATAAACA
1 TATATATTTATTAAATTTATAAACA
7840378 TA
1 TA
7840380 GACAAACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (25 bp):
TATATATTTATTAAATTTATAAACA
Found at i:7840976 original size:29 final size:29
Alignment explanation
Indices: 7840944--7841015 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 29
7840934 AGGGGTTATA
*
7840944 AAAAAATAATTTTGACAAGATGGGTTCTG
1 AAAAAATAATTTTGACAAGATGAGTTCTG
* * *
7840973 AAAAAATAA-TTTGACGAGTTGAGTTTTG
1 AAAAAATAATTTTGACAAGATGAGTTCTG
*
7841001 AAGAAATAATTTTGA
1 AAAAAATAATTTTGA
7841016 AGAAAAAAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 23 0.62
29 14 0.38
ACGTcount: A:0.43, C:0.04, G:0.19, T:0.33
Consensus pattern (29 bp):
AAAAAATAATTTTGACAAGATGAGTTCTG
Found at i:7843615 original size:65 final size:65
Alignment explanation
Indices: 7843533--7843744 Score: 185
Period size: 65 Copynumber: 3.2 Consensus size: 65
7843523 GGTCACAATC
* * * * *
7843533 CCTTTTCAAGTACTACACACGAAGTGTACATACCCTTTTCAATTTGTACACACAAAGTGCACATA
1 CCTTTTCAAGTAGTACACACAAAGTGTACCTAACCTTTTCAA-TTGTACACACAAAGTGTACATA
7843598 A
65 A
* * ** * * * * *
7843599 CCTTTTCAAGT-GTACACATATAGTGTACCTTTCCTTTTCAAGTGGTATACACAAAGTATACCTT
1 CCTTTTCAAGTAGTACACACAAAGTGTACCTAACCTTTTCAA-TTGTACACACAAAGTGTACATA
*
7843663 T
65 A
* * * * *
7843664 CCTTTTCATA-TGGTATACACAAAGTATACCTAACCTTTTCGATTGTACACATAAAGTGTACATA
1 CCTTTTCA-AGTAGTACACACAAAGTGTACCTAACCTTTTCAATTGTACACACAAAGTGTACATA
*
7843728 G
65 A
*
7843729 CCTTTTCAAGTTGTAC
1 CCTTTTCAAGTAGTAC
7843745 CCTTTCGGGA
Statistics
Matches: 112, Mismatches: 31, Indels: 7
0.75 0.21 0.05
Matches are distributed among these distances:
64 1 0.01
65 76 0.68
66 35 0.31
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (65 bp):
CCTTTTCAAGTAGTACACACAAAGTGTACCTAACCTTTTCAATTGTACACACAAAGTGTACATAA
Found at i:7843635 original size:32 final size:32
Alignment explanation
Indices: 7843533--7843744 Score: 129
Period size: 33 Copynumber: 6.5 Consensus size: 32
7843523 GGTCACAATC
* ** * * *
7843533 CCTTTTCAAGTACTACACACGAAGTGTACATAC
1 CCTTTTCAAGT-GTACACATAAAGTATACCTAT
* * ** * *
7843566 CCTTTTCAATTTGTACACACAAAGTGCACATAA
1 CCTTTTCAA-GTGTACACATAAAGTATACCTAT
* * *
7843599 CCTTTTCAAGTGTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGTACACATAAAGTATACCTAT
* * *
7843631 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGT-GTACACATAAAGTATACCTAT
* * *
7843664 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTTCA-AGT-GTACACATAAAGTATACCTAT
* * * * *
7843697 CCTTTTCGATTGTACACATAAAGTGTACATAG
1 CCTTTTCAAGTGTACACATAAAGTATACCTAT
7843729 CCTTTTCAAGTTGTAC
1 CCTTTTCAAG-TGTAC
7843745 CCTTTCGGGA
Statistics
Matches: 148, Mismatches: 26, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
32 52 0.35
33 94 0.64
34 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (32 bp):
CCTTTTCAAGTGTACACATAAAGTATACCTAT
Found at i:7843635 original size:98 final size:98
Alignment explanation
Indices: 7843533--7843739 Score: 227
Period size: 98 Copynumber: 2.1 Consensus size: 98
7843523 GGTCACAATC
* * * *
7843533 CCTTTTCAAGTACTACACACGAAGTGTACATACCCTTTTCA-ATTTGTACACACAAAGTGCACAT
1 CCTTTTCAAGTACTACACACAAAGTATACATACCCTTTTCATA-TGGTACACACAAAGTACACAT
* * **
7843597 AACCTTTTCAAGTGTACACATATAGTGTACCTTT
65 AACCTTTTCAAGTGTACACATAAAGTGTACATAG
** * * ** * * *
7843631 CCTTTTCAAGTGGTATACACAAAGTATACCTTTCCTTTTCATATGGTATACACAAAGTATACCTA
1 CCTTTTCAAGTACTACACACAAAGTATACATACCCTTTTCATATGGTACACACAAAGTACACATA
* *
7843696 ACCTTTTCGATTGTACACATAAAGTGTACATAG
66 ACCTTTTCAAGTGTACACATAAAGTGTACATAG
7843729 CCTTTTCAAGT
1 CCTTTTCAAGT
7843740 TGTACCCTTT
Statistics
Matches: 89, Mismatches: 19, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
98 88 0.99
99 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (98 bp):
CCTTTTCAAGTACTACACACAAAGTATACATACCCTTTTCATATGGTACACACAAAGTACACATA
ACCTTTTCAAGTGTACACATAAAGTGTACATAG
Found at i:7843666 original size:33 final size:33
Alignment explanation
Indices: 7843599--7843703 Score: 133
Period size: 33 Copynumber: 3.2 Consensus size: 33
7843589 GTGCACATAA
* * * *
7843599 CCTTTTCAAGT-GTACACATATAGTGTACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
7843631 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
1 CCTTTTCAAGTGGTATACACAAAGTATACCTTT
**
7843664 CCTTTTCATA-TGGTATACACAAAGTATACCTAA
1 CCTTTTCA-AGTGGTATACACAAAGTATACCTTT
7843697 CCTTTTC
1 CCTTTTC
7843704 GATTGTACAC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
32 11 0.17
33 53 0.82
34 1 0.02
ACGTcount: A:0.29, C:0.23, G:0.10, T:0.38
Consensus pattern (33 bp):
CCTTTTCAAGTGGTATACACAAAGTATACCTTT
Found at i:7844907 original size:13 final size:13
Alignment explanation
Indices: 7844889--7844914 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7844879 ACACATAATT
7844889 GATAAAAATTTTC
1 GATAAAAATTTTC
7844902 GATAAAAATTTTC
1 GATAAAAATTTTC
7844915 ATGCAACATT
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:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
GATAAAAATTTTC
Found at i:7848436 original size:20 final size:20
Alignment explanation
Indices: 7848411--7848458 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
7848401 CAGTTCACAC
*
7848411 GCCCGTGTGGATCTTGTCCA
1 GCCCGTGTGGATCGTGTCCA
*
7848431 GCCCGTGTGGATCGTGTCTA
1 GCCCGTGTGGATCGTGTCCA
7848451 GCCCGTGT
1 GCCCGTGT
7848459 TTGTTGCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.08, C:0.29, G:0.33, T:0.29
Consensus pattern (20 bp):
GCCCGTGTGGATCGTGTCCA
Found at i:7862929 original size:33 final size:32
Alignment explanation
Indices: 7862878--7862973 Score: 115
Period size: 33 Copynumber: 3.0 Consensus size: 32
7862868 TAACCTTTTC
* *
7862878 AAGTGTACATTTCCTTTTCAAGTGGTATACACA
1 AAGTATACCTTTCCTTTTCAA-TGGTATACACA
*
7862911 AAGTATATCTTTCCTTTTCATATGGTATACACA
1 AAGTATACCTTTCCTTTTCA-ATGGTATACACA
**
7862944 AAGTATACCTAACCTTTTCAAT--TATACACA
1 AAGTATACCTTTCCTTTTCAATGGTATACACA
7862974 TAAAGTGTAC
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
30 8 0.14
32 2 0.04
33 45 0.80
34 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (32 bp):
AAGTATACCTTTCCTTTTCAATGGTATACACA
Found at i:7863351 original size:18 final size:18
Alignment explanation
Indices: 7863311--7863352 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
7863301 CTAGTCCGAG
7863311 ACTTTTTCTTTCATTCGA
1 ACTTTTTCTTTCATTCGA
* *
7863329 TCTTTTTCTTT-GTTCGA
1 ACTTTTTCTTTCATTCGA
7863346 CACTTTT
1 -ACTTTT
7863353 GGATCTATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.12, C:0.21, G:0.07, T:0.60
Consensus pattern (18 bp):
ACTTTTTCTTTCATTCGA
Found at i:7863550 original size:25 final size:25
Alignment explanation
Indices: 7863511--7863559 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
7863501 AATTTACTCC
*
7863511 TTATTCCAATCTTATTCAAAATTCG
1 TTATTCCAAGCTTATTCAAAATTCG
*
7863536 TTATTCCAAGGTTATTCAAAATTC
1 TTATTCCAAGCTTATTCAAAATTC
7863560 CAATATAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.43
Consensus pattern (25 bp):
TTATTCCAAGCTTATTCAAAATTCG
Found at i:7866543 original size:2 final size:2
Alignment explanation
Indices: 7866536--7866565 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7866526 AGTCTTAGGC
7866536 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
7866566 TATAAGACCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:7872054 original size:15 final size:15
Alignment explanation
Indices: 7872036--7872071 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
7872026 ATTATAACAA
7872036 AGCTTATTACATACG
1 AGCTTATTACATACG
7872051 AGCTTATTACATACG
1 AGCTTATTACATACG
*
7872066 AACTTA
1 AGCTTA
7872072 CCTCGAATGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.36, C:0.19, G:0.11, T:0.33
Consensus pattern (15 bp):
AGCTTATTACATACG
Found at i:7874004 original size:23 final size:22
Alignment explanation
Indices: 7873965--7874052 Score: 95
Period size: 23 Copynumber: 3.8 Consensus size: 22
7873955 GCTGATGGAT
*
7873965 AGTAAGCTCTATTGAGCTAAAAC
1 AGTAAGCTCTA-CGAGCTAAAAC
* **
7873988 GGTAAGCTCTGACGAGCTAAATT
1 AGTAAGCTCT-ACGAGCTAAAAC
7874011 AGTAAGCTCATACGAGCTAAGAAC
1 AGTAAGCTC-TACGAGCTAA-AAC
7874035 AGTAAGCTCTTACGAGCT
1 AGTAAGCTC-TACGAGCT
7874053 GATATATTAG
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
23 34 0.63
24 20 0.37
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (22 bp):
AGTAAGCTCTACGAGCTAAAAC
Found at i:7874079 original size:50 final size:49
Alignment explanation
Indices: 7873928--7874079 Score: 152
Period size: 50 Copynumber: 3.1 Consensus size: 49
7873918 CTGCTCTTTC
* * * * *
7873928 GAGCTATGAACAGTAAACTCCTCCTGAGCTGATGGA-TAGTAAGCTC-TATT
1 GAGCTAAGAACAGTAAGCTCTTAC-GAGCTGAT-AATTAGTAAGCTCATA-T
* * *
7873978 GAGCTAA-AACGGTAAGCTCTGACGAGCT-A-AATTAGTAAGCTCATAC
1 GAGCTAAGAACAGTAAGCTCTTACGAGCTGATAATTAGTAAGCTCATAT
7874024 GAGCTAAGAACAGTAAGCTCTTACGAGCTGATATATTAGTAAGCTCATAT
1 GAGCTAAGAACAGTAAGCTCTTACGAGCTGATA-ATTAGTAAGCTCATAT
*
7874074 AAGCTA
1 GAGCTA
7874080 TGGTGAGTCT
Statistics
Matches: 84, Mismatches: 12, Indels: 12
0.78 0.11 0.11
Matches are distributed among these distances:
45 1 0.01
46 17 0.20
47 22 0.26
48 6 0.07
49 12 0.14
50 26 0.31
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (49 bp):
GAGCTAAGAACAGTAAGCTCTTACGAGCTGATAATTAGTAAGCTCATAT
Found at i:7884613 original size:14 final size:14
Alignment explanation
Indices: 7884594--7884623 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
7884584 CGCGATTTAG
7884594 TTCTTTTTACTGAA
1 TTCTTTTTACTGAA
7884608 TTCTTTTTACTGAA
1 TTCTTTTTACTGAA
7884622 TT
1 TT
7884624 AAGCATTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.07, T:0.60
Consensus pattern (14 bp):
TTCTTTTTACTGAA
Found at i:7886444 original size:34 final size:34
Alignment explanation
Indices: 7886401--7886469 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
7886391 GTCGTCAAAG
7886401 TCTGTTTCAATTAGAACATTACCAGATTGCGGCC
1 TCTGTTTCAATTAGAACATTACCAGATTGCGGCC
7886435 TCTGTTTCAATTAGAACATTACCAGATTGCGGCC
1 TCTGTTTCAATTAGAACATTACCAGATTGCGGCC
7886469 T
1 T
7886470 TAGCTCGCTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (34 bp):
TCTGTTTCAATTAGAACATTACCAGATTGCGGCC
Found at i:7887771 original size:22 final size:22
Alignment explanation
Indices: 7887743--7887789 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
7887733 AAAGGTTATC
7887743 ATAGTTTAGGAGTATAAATAAG
1 ATAGTTTAGGAGTATAAATAAG
7887765 ATAGTTTAGGAGTATAAATAAG
1 ATAGTTTAGGAGTATAAATAAG
7887787 ATA
1 ATA
7887790 CTGGTGCTCG
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:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (22 bp):
ATAGTTTAGGAGTATAAATAAG
Found at i:7890600 original size:26 final size:26
Alignment explanation
Indices: 7890570--7890631 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
7890560 TAGGTTAGAA
*
7890570 AAATAATTATATT-ATTTATTTATATT
1 AAATAATTA-ATTAATATATTTATATT
7890596 AAATAA-TAATTAGATATATTTATATT
1 AAATAATTAATTA-ATATATTTATATT
*
7890622 AAATTATTAA
1 AAATAATTAA
7890632 CTCAATAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 3 0.10
25 2 0.06
26 23 0.74
27 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (26 bp):
AAATAATTAATTAATATATTTATATT
Found at i:7892359 original size:112 final size:112
Alignment explanation
Indices: 7892162--7892383 Score: 390
Period size: 112 Copynumber: 2.0 Consensus size: 112
7892152 AGTCTATAAT
* *
7892162 CAAACTAACTTCAAAATTGCATCTTGAATTTTGGAGGTTGTGATGACTAAACGAGTGTTTTGATG
1 CAAACTAACTTCAAAATTGCAACTTGAATTTTGGAGGTTGTGACGACTAAACGAGTGTTTTGATG
7892227 GTTGGAAGAGAAAGTTGTGGCAGCAGGCCACAATGAGTGAAGGTAAC
66 GTTGGAAGAGAAAGTTGTGGCAGCAGGCCACAATGAGTGAAGGTAAC
* * *
7892274 CAAACTTACTTCAAAGTTGCAACTTGAATTTTGGAGGTTGTGACGACTAGACGAGTGTTTTGATG
1 CAAACTAACTTCAAAATTGCAACTTGAATTTTGGAGGTTGTGACGACTAAACGAGTGTTTTGATG
*
7892339 GTTGGAAGAGAAAGTTGTGGCAGCAGGCCACAGTGAGTGAAGGTA
66 GTTGGAAGAGAAAGTTGTGGCAGCAGGCCACAATGAGTGAAGGTA
7892384 GTAAGCTGCC
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
112 104 1.00
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (112 bp):
CAAACTAACTTCAAAATTGCAACTTGAATTTTGGAGGTTGTGACGACTAAACGAGTGTTTTGATG
GTTGGAAGAGAAAGTTGTGGCAGCAGGCCACAATGAGTGAAGGTAAC
Found at i:7903053 original size:39 final size:40
Alignment explanation
Indices: 7902985--7903063 Score: 92
Period size: 39 Copynumber: 2.0 Consensus size: 40
7902975 AAGATGTTTA
* *
7902985 AAAACATTTATTTATTATTTTATGTTTTTA-ATTTTTATT
1 AAAACATTTATTTATTATTTTATGATTTTAGAATTTTATT
*
7903024 AAAACTATTT-TTTATTTTTATTA-GATTTTAGAATTTTATT
1 AAAAC-ATTTATTTATTATT-TTATGATTTTAGAATTTTATT
7903064 TTTAATTATC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
39 19 0.56
40 15 0.44
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.62
Consensus pattern (40 bp):
AAAACATTTATTTATTATTTTATGATTTTAGAATTTTATT
Found at i:7916371 original size:33 final size:34
Alignment explanation
Indices: 7916328--7916398 Score: 92
Period size: 33 Copynumber: 2.1 Consensus size: 34
7916318 ACAATGCATG
* * *
7916328 CAGTAACAGTCTGGG-CTTGGGCCCTATTCAGTAT
1 CAGTAACAGTCTGGGCCTT-AGCCCTATACAGTAA
7916362 CAGT-ACAGTCTGGGCCTTAGCCCTATACAGTAA
1 CAGTAACAGTCTGGGCCTTAGCCCTATACAGTAA
7916395 CAGT
1 CAGT
7916399 GTGGGCCTAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 26 0.79
34 7 0.21
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (34 bp):
CAGTAACAGTCTGGGCCTTAGCCCTATACAGTAA
Found at i:7916420 original size:28 final size:28
Alignment explanation
Indices: 7916328--7916426 Score: 74
Period size: 28 Copynumber: 3.4 Consensus size: 28
7916318 ACAATGCATG
* **
7916328 CAGTAACAGTCTGGGCTTGGGCCCTATT
1 CAGTAACAGTCTGGGCCTAAGCCCTATT
* *
7916356 CAGTATCAGTACAGTCTGGGCCTTAGCCCTATA
1 CAG--T-A--ACAGTCTGGGCCTAAGCCCTATT
*
7916389 CAGTAACAGTGTGGGCCTAAG-CCTAATT
1 CAGTAACAGTCTGGGCCTAAGCCCT-ATT
*
7916417 CAGTATCAGT
1 CAGTAACAGT
7916427 ATAGTGCAGT
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
27 3 0.05
28 28 0.49
30 2 0.04
31 2 0.04
33 22 0.39
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (28 bp):
CAGTAACAGTCTGGGCCTAAGCCCTATT
Found at i:7917066 original size:20 final size:19
Alignment explanation
Indices: 7917020--7917077 Score: 57
Period size: 20 Copynumber: 3.1 Consensus size: 19
7917010 TGTGGTGTCC
*
7917020 ACGA-GCCCATTGGGCCCA
1 ACGAGGCCCATTCGGCCCA
*
7917038 TCG-GGCCCATCTCGGCCCA
1 ACGAGGCCCAT-TCGGCCCA
*
7917057 ACGAGGCCCATAACGGCCCA
1 ACGAGGCCCAT-TCGGCCCA
7917077 A
1 A
7917078 GCCCACGAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
18 8 0.25
19 9 0.28
20 15 0.47
ACGTcount: A:0.22, C:0.41, G:0.26, T:0.10
Consensus pattern (19 bp):
ACGAGGCCCATTCGGCCCA
Found at i:7921784 original size:23 final size:24
Alignment explanation
Indices: 7921758--7921853 Score: 71
Period size: 23 Copynumber: 4.3 Consensus size: 24
7921748 CCTGATCAGA
7921758 ATACGACGACACAT-AAGTGCCTG
1 ATACGACGACACATAAAGTGCCTG
* *
7921781 ATACGAC-ACAC--GAGGTGCCT-
1 ATACGACGACACATAAAGTGCCTG
* ** *
7921801 AAAATACGACACCTAAAGTGCCTG
1 ATACGACGACACATAAAGTGCCTG
* *
7921825 ATA-TACGACACATAAAGTGCTTG
1 ATACGACGACACATAAAGTGCCTG
7921848 AT-CGAC
1 ATACGAC
7921854 AAAGCCGATA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
20 4 0.07
21 11 0.19
22 4 0.07
23 36 0.63
24 2 0.04
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (24 bp):
ATACGACGACACATAAAGTGCCTG
Found at i:7922732 original size:17 final size:18
Alignment explanation
Indices: 7922702--7922735 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
7922692 AATTTCTATT
7922702 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
7922720 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
7922736 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:7923255 original size:12 final size:12
Alignment explanation
Indices: 7923240--7923267 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
7923230 GTTAATAATG
7923240 ATAATAATTATA
1 ATAATAATTATA
7923252 ATAATAATTATA
1 ATAATAATTATA
7923264 ATAA
1 ATAA
7923268 ATATCTTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATAATAATTATA
Found at i:7923574 original size:21 final size:20
Alignment explanation
Indices: 7923521--7923574 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 20
7923511 TAATAAATAA
*
7923521 TAAATATATAT-TTACTAAT
1 TAAATATATATATTACAAAT
7923540 TAAATATA-AGTATTACAAAT
1 TAAATATATA-TATTACAAAT
*
7923560 GTACATATATATATT
1 -TAAATATATATATT
7923575 TTTACAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
18 1 0.03
19 9 0.31
20 7 0.24
21 11 0.38
22 1 0.03
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.43
Consensus pattern (20 bp):
TAAATATATATATTACAAAT
Found at i:7927750 original size:43 final size:43
Alignment explanation
Indices: 7927600--7927827 Score: 221
Period size: 42 Copynumber: 5.4 Consensus size: 43
7927590 GTTTATTTAA
* * * *
7927600 AAAAACGCTGTTAAAGACCATGACCTTTAGCGGCGC-TTTTCC
1 AAAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTCT
** * * *
7927642 CGAAACACCGCTAAAGACCATGACTTTTAGCCGCTCTTTTT-T
1 AAAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTCT
* *** * * *
7927684 TAAAACGCCGCTAAAGGTAATGACTTTTAGCGACGCTTCTCCT
1 AAAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTCT
* *
7927727 AAAAACGCCGCTAAAGACCATGACATTTAGCGGCAC-TTTTCT
1 AAAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTCT
* * *
7927769 CAAAAACGTCACTAAAGACCATGACTTTTAACGGCGCTTTTTCT
1 -AAAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTCT
*
7927813 -CAAACGCCGCTAAAG
1 AAAAACGCCGCTAAAG
7927828 GTCACTACAT
Statistics
Matches: 145, Mismatches: 37, Indels: 8
0.76 0.19 0.04
Matches are distributed among these distances:
42 74 0.51
43 65 0.45
44 6 0.04
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGACCATGACTTTTAGCGGCGCTTTTTCT
Found at i:7927818 original size:85 final size:84
Alignment explanation
Indices: 7927611--7927868 Score: 245
Period size: 85 Copynumber: 3.0 Consensus size: 84
7927601 AAAACGCTGT
* * * *
7927611 TAAAGACCATGACCTTTAGCGGCGC-TTTTCCCGAAACACCGCTAAAGACCATGACTTTTAGCCG
1 TAAAGACCATGACTTTTAGCGGCGCTTTTTCTC-AAACGCCGCTAAAGACCATGACATTTAGCCG
* ** *
7927675 CTCTTTTTTTAAAACGCCGC
65 CACTTTTTCAAAAACGCCAC
*** * * * * *
7927695 TAAAGGTAATGACTTTTAGCGACGCTTCTCCTAAAAACGCCGCTAAAGACCATGACATTTAGCGG
1 TAAAGACCATGACTTTTAGCGGCGCTTTTTCT-CAAACGCCGCTAAAGACCATGACATTTAGCCG
*
7927760 CACTTTTCTCAAAAACGTCAC
65 CACTTTT-TCAAAAACGCCAC
* **
7927781 TAAAGACCATGACTTTTAACGGCGCTTTTTCTCAAACGCCGCTAAAGGTCACT-ACATTTAG-CG
1 TAAAGACCATGACTTTTAGCGGCGCTTTTTCTCAAACGCCGCTAAAGACCA-TGACATTTAGCCG
*
7927844 -ACGTTTTTTCATAAACGCCAC
65 CAC--TTTTTCAAAAACGCCAC
7927865 TAAA
1 TAAA
7927869 AAGTATAAAT
Statistics
Matches: 138, Mismatches: 30, Indels: 12
0.77 0.17 0.07
Matches are distributed among these distances:
83 2 0.01
84 36 0.26
85 65 0.47
86 35 0.25
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (84 bp):
TAAAGACCATGACTTTTAGCGGCGCTTTTTCTCAAACGCCGCTAAAGACCATGACATTTAGCCGC
ACTTTTTCAAAAACGCCAC
Found at i:7931125 original size:40 final size:40
Alignment explanation
Indices: 7931070--7931151 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
7931060 TGACAAATGA
7931070 ATGCAATACAACACACGTATGCTGTGAGAGGAACCATTTC
1 ATGCAATACAACACACGTATGCTGTGAGAGGAACCATTTC
7931110 ATGCAATACAACACACGTATGCTGTGAGAGGAACCATTTC
1 ATGCAATACAACACACGTATGCTGTGAGAGGAACCATTTC
7931150 AT
1 AT
7931152 ATGCAAAAGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (40 bp):
ATGCAATACAACACACGTATGCTGTGAGAGGAACCATTTC
Found at i:7933122 original size:25 final size:25
Alignment explanation
Indices: 7933075--7933122 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
7933065 ATTACCCTTG
* * * *
7933075 AAAATGACCGTTTTGCCCTTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
7933100 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
7933123 GTTTATATAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:7933173 original size:9 final size:9
Alignment explanation
Indices: 7933161--7933217 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
7933151 TTTGATAAAC
7933161 ATGATATGT
1 ATGATATGT
*
7933170 ATGATATGCAC
1 ATGATATG--T
*
7933181 ATGACATGT
1 ATGATATGT
*
7933190 ATGATATGCAC
1 ATGATATG--T
7933201 ATGATATGT
1 ATGATATGT
7933210 ATGATATG
1 ATGATATG
7933218 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:7933184 original size:20 final size:20
Alignment explanation
Indices: 7933159--7933221 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
7933149 ATTTTGATAA
7933159 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
7933179 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
7933199 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
7933219 ACA
1 ACA
7933222 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:7933378 original size:23 final size:24
Alignment explanation
Indices: 7933275--7933443 Score: 245
Period size: 24 Copynumber: 7.0 Consensus size: 24
7933265 GAGGAAGTGC
7933275 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
7933299 AAAAGGGTTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
7933323 AAAAGGGTTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
7933347 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
7933371 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
7933394 AAAAAAAGGGCTT-TGCCCCAGTTATT
1 ---AAAAGGGCTTATGCCCCAGTTATT
*
7933420 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
7933444 ATGATAAAGT
Statistics
Matches: 135, Mismatches: 3, Indels: 13
0.89 0.02 0.09
Matches are distributed among these distances:
23 29 0.21
24 76 0.56
25 8 0.06
26 13 0.10
27 9 0.07
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:7933671 original size:31 final size:31
Alignment explanation
Indices: 7933636--7933699 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
7933626 CGGTTACAGT
*
7933636 AAAGGCTCCGGCCCAGTAATATGAAATATGA
1 AAAGGCTCCGACCCAGTAATATGAAATATGA
* ** *
7933667 AAAGGCTTCGACCCAGTGTTATGAATTATGA
1 AAAGGCTCCGACCCAGTAATATGAAATATGA
7933698 AA
1 AA
7933700 TATGAAAAGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTCCGACCCAGTAATATGAAATATGA
Found at i:7935797 original size:8 final size:7
Alignment explanation
Indices: 7935750--7935794 Score: 58
Period size: 7 Copynumber: 6.6 Consensus size: 7
7935740 ATATTAAATG
7935750 TTAATTT
1 TTAATTT
7935757 TTAATTT
1 TTAATTT
*
7935764 TTAAATT
1 TTAATTT
7935771 TTAATTT
1 TTAATTT
7935778 TT--TTT
1 TTAATTT
7935783 TATAATTT
1 T-TAATTT
7935791 TTAA
1 TTAA
7935795 ATTATAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 4 0.12
6 1 0.03
7 24 0.73
8 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTAATTT
Found at i:7935799 original size:14 final size:14
Alignment explanation
Indices: 7935758--7935802 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
7935748 TGTTAATTTT
*
7935758 TAATTTTTAAATTT
1 TAATTTTTAAATTA
**
7935772 TAATTTTT-TTTTA
1 TAATTTTTAAATTA
7935785 TAATTTTTAAATTA
1 TAATTTTTAAATTA
7935799 TAAT
1 TAAT
7935803 GAAATCGATG
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TAATTTTTAAATTA
Found at i:7936841 original size:7 final size:7
Alignment explanation
Indices: 7936825--7936877 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
7936815 CCCCAACTCT
*
7936825 TAAACTA
1 TAAACCA
7936832 TAAACCA
1 TAAACCA
*
7936839 TAACCCA
1 TAAACCA
7936846 TAAACCA
1 TAAACCA
* *
7936853 TAATCCC
1 TAAACCA
7936860 TAAACCCA
1 TAAA-CCA
*
7936868 TAATCCA
1 TAAACCA
7936875 TAA
1 TAA
7936878 GCCCTAAATA
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
7 32 0.86
8 5 0.14
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (7 bp):
TAAACCA
Found at i:7936849 original size:21 final size:22
Alignment explanation
Indices: 7936825--7936877 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
7936815 CCCCAACTCT
*
7936825 TAAACTATAAACCAT-AACCCA
1 TAAACCATAAACCATAAACCCA
* *
7936846 TAAACCATAATCCCTAAACCCA
1 TAAACCATAAACCATAAACCCA
*
7936868 TAATCCATAA
1 TAAACCATAA
7936878 GCCCTAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 12 0.44
22 15 0.56
ACGTcount: A:0.49, C:0.30, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAACCATAAACCATAAACCCA
Found at i:7936868 original size:22 final size:22
Alignment explanation
Indices: 7936840--7936885 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
7936830 TATAAACCAT
*
7936840 AACCCATAAACCATAATCCCTA
1 AACCCATAAACCATAAGCCCTA
*
7936862 AACCCATAATCCATAAGCCCTA
1 AACCCATAAACCATAAGCCCTA
7936884 AA
1 AA
7936886 TAGTAACTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.46, C:0.35, G:0.02, T:0.17
Consensus pattern (22 bp):
AACCCATAAACCATAAGCCCTA
Found at i:7936870 original size:15 final size:15
Alignment explanation
Indices: 7936831--7936877 Score: 64
Period size: 14 Copynumber: 3.3 Consensus size: 15
7936821 CTCTTAAACT
7936831 ATAAACCATAA-CCC
1 ATAAACCATAATCCC
7936845 ATAAACCATAATCCC
1 ATAAACCATAATCCC
7936860 -TAAACCCATAAT-CC
1 ATAAA-CCATAATCCC
7936874 ATAA
1 ATAA
7936878 GCCCTAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (15 bp):
ATAAACCATAATCCC
Found at i:7937481 original size:81 final size:80
Alignment explanation
Indices: 7937396--7937578 Score: 215
Period size: 81 Copynumber: 2.3 Consensus size: 80
7937386 TTTTTCGGCG
* * *
7937396 TTTTTTGAAAAGCGCTGCTAAATATCGAGCAT-TAGCGGCGTTTTTTAAAAAGCGCCGCTAATAC
1 TTTTTTGAAAAGCGC-GCTAAAGAT-GAACATATAGCAGCGTTTTTTAAAAAGCGCCGCTAATAC
7937460 TCAATCTTTAGCAGCGT
64 TCAATCTTTAGCAGCGT
* * * *
7937477 TTTTTTAAAAAGCGCCGCTAAAGGTGAACCTATAGCAGCGTTTTTTAAAAAGCGCCGCTAATGCT
1 TTTTTTGAAAAGCG-CGCTAAAGATGAACATATAGCAGCGTTTTTTAAAAAGCGCCGCTAATACT
** * *
7937542 CGTTTTTTAGCGGCGT
65 CAATCTTTAGCAGCGT
* *
7937558 TTTTATGAAAAACGCGCTAAA
1 TTTTTTGAAAAGCGCGCTAAA
7937579 AATGCCGCTA
Statistics
Matches: 86, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
80 11 0.13
81 74 0.86
82 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (80 bp):
TTTTTTGAAAAGCGCGCTAAAGATGAACATATAGCAGCGTTTTTTAAAAAGCGCCGCTAATACTC
AATCTTTAGCAGCGT
Found at i:7937558 original size:40 final size:40
Alignment explanation
Indices: 7937393--7937577 Score: 162
Period size: 40 Copynumber: 4.6 Consensus size: 40
7937383 ATTTTTTTCG
* * * * * *
7937393 GCGTTTTTTGAAAAGCGCTGCTAAAT-ATCGAGCATTAGCG
1 GCGTTTTTTAAAAAGCGCCGCT-AATGCTCGATCTTTAGCA
* *
7937433 GCGTTTTTTAAAAAGCGCCGCTAATACTCAATCTTTAGCA
1 GCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTTTAGCA
* * * *
7937473 GCGTTTTTTTAAAAAGCGCCGCTAAAGGT-GAACCTATAGCA
1 GCG-TTTTTTAAAAAGCGCCGCTAATGCTCG-ATCTTTAGCA
* * *
7937514 GCGTTTTTTAAAAAGCGCCGCTAATGCTCGTTTTTTAGCG
1 GCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTTTAGCA
7937554 GCGTTTTTATGAAAAA-CG-CGCTAA
1 GCGTTTTT-T-AAAAAGCGCCGCTAA
7937578 AAATGCCGCT
Statistics
Matches: 119, Mismatches: 20, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 3 0.03
40 74 0.62
41 37 0.31
42 5 0.04
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.31
Consensus pattern (40 bp):
GCGTTTTTTAAAAAGCGCCGCTAATGCTCGATCTTTAGCA
Found at i:7937787 original size:10 final size:10
Alignment explanation
Indices: 7937774--7937827 Score: 51
Period size: 10 Copynumber: 5.6 Consensus size: 10
7937764 AAAAAATATT
7937774 AAATATATAA
1 AAATATATAA
*
7937784 AAATATATAG
1 AAATATATAA
* *
7937794 AAATATTCTTA
1 AAATA-TATAA
7937805 AAA-ATA-AA
1 AAATATATAA
7937813 AAATAT-TAA
1 AAATATATAA
7937822 AAATAT
1 AAATAT
7937828 GATAGAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
8 4 0.11
9 11 0.31
10 15 0.43
11 5 0.14
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (10 bp):
AAATATATAA
Found at i:7937869 original size:14 final size:14
Alignment explanation
Indices: 7937850--7937876 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
7937840 AAAAATTGGT
7937850 AAAAATTATAGAAA
1 AAAAATTATAGAAA
7937864 AAAAATTATAGAA
1 AAAAATTATAGAA
7937877 GAACTATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (14 bp):
AAAAATTATAGAAA
Found at i:7942827 original size:19 final size:17
Alignment explanation
Indices: 7942794--7942829 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
7942784 GATATGATAC
7942794 TAAAATTATTAAAAAAT
1 TAAAATTATTAAAAAAT
7942811 TAAAATATATATAAAAAAT
1 TAAAAT-TAT-TAAAAAAT
7942830 CTGGGAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 3 0.18
19 8 0.47
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
TAAAATTATTAAAAAAT
Found at i:7943118 original size:22 final size:21
Alignment explanation
Indices: 7943083--7943177 Score: 74
Period size: 18 Copynumber: 4.7 Consensus size: 21
7943073 AAAAGGTATC
* *
7943083 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
7943104 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
7943127 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
7943146 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
7943164 TGCATATCATATCT
1 TACAAATCATATCT
7943178 AAGATTGCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
18 17 0.27
19 17 0.27
21 4 0.06
22 15 0.24
23 10 0.16
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:7943126 original size:23 final size:22
Alignment explanation
Indices: 7943083--7943140 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
7943073 AAAAGGTATC
* *
7943083 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
7943104 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
7943127 TGCATATCATATCT
1 TACAAATCATATCT
7943141 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:7943143 original size:19 final size:19
Alignment explanation
Indices: 7943119--7943192 Score: 141
Period size: 19 Copynumber: 3.9 Consensus size: 19
7943109 AATCATATCT
7943119 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
7943138 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
7943156 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
7943175 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
7943193 TGAATATTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.33
19 36 0.67
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:7943165 original size:37 final size:38
Alignment explanation
Indices: 7943112--7943192 Score: 141
Period size: 37 Copynumber: 2.2 Consensus size: 38
7943102 ATTACAAAAT
7943112 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
7943148 CA-ATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
7943185 CATATCAT
1 CATATCAT
7943193 TGAATATTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
35 3 0.07
36 3 0.07
37 31 0.74
38 5 0.12
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:7943350 original size:21 final size:21
Alignment explanation
Indices: 7943311--7943351 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7943301 TTGGACTTCG
* **
7943311 TTTTTTTTTTTGGGTTTATTA
1 TTTTTGTTTTTGGACTTATTA
7943332 TTTTTGTTTTTGGACTTATT
1 TTTTTGTTTTTGGACTTATT
7943352 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.02, G:0.15, T:0.73
Consensus pattern (21 bp):
TTTTTGTTTTTGGACTTATTA
Found at i:7943665 original size:44 final size:45
Alignment explanation
Indices: 7943544--7943725 Score: 249
Period size: 45 Copynumber: 4.1 Consensus size: 45
7943534 GGAAGGCGAT
* * * *
7943544 ATCTGCTATCTTTGATCTACTCCCCGTTTAATACAGAGACGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
*
7943589 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * * *
7943634 ATCTGCT-TCTTCAATCTGCTCCCCATTTAATACAGATATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
* * *
7943678 ATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
7943723 ATC
1 ATC
7943726 ATCTTGGATC
Statistics
Matches: 119, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
44 39 0.33
45 80 0.67
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAA
Found at i:7943677 original size:89 final size:90
Alignment explanation
Indices: 7943544--7943725 Score: 285
Period size: 89 Copynumber: 2.0 Consensus size: 90
7943534 GGAAGGCGAT
** * *
7943544 ATCTGCTATCTTTGATCTACTCCCCGTTTAATACAGAGACGCCAAATCTGTTATCTTCGATCTGC
1 ATCTGCTATCTTCAATCTACTCCCCATTTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGC
7943609 TCCCCGTCTAATACAGAGATGCCAA
66 TCCCCGTCTAATACAGAGATGCCAA
* * * *
7943634 ATCTGCT-TCTTCAATCTGCTCCCCATTTAATACAGATATGCCAAATCTGTTATCTCCGATTTGC
1 ATCTGCTATCTTCAATCTACTCCCCATTTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGC
7943698 TCCCCGTCTAATACAGAGATGCCAA
66 TCCCCGTCTAATACAGAGATGCCAA
7943723 ATC
1 ATC
7943726 ATCTTGGATC
Statistics
Matches: 84, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
89 77 0.92
90 7 0.08
ACGTcount: A:0.26, C:0.29, G:0.13, T:0.32
Consensus pattern (90 bp):
ATCTGCTATCTTCAATCTACTCCCCATTTAATACAGAGACGCCAAATCTGTTATCTCCGATCTGC
TCCCCGTCTAATACAGAGATGCCAA
Found at i:7943836 original size:78 final size:76
Alignment explanation
Indices: 7943677--7943829 Score: 234
Period size: 78 Copynumber: 2.0 Consensus size: 76
7943667 AGATATGCCA
*
7943677 AATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTC
1 AATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATATTGGATCTGCTTC
*
7943742 AGTGAAGGTCC
66 AATGAAGGTCC
* * *
7943753 AATCTGTTATGTCTTCGATTTGTTCCCTGTCTAATACAGAGATGCCAAATCATATTGGATCTGCT
1 AATCTGTTA--TCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATATTGGATCTGCT
*
7943818 TTAATGAAGGTC
64 TCAATGAAGGTC
7943830 AGATCTGCTC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
76 9 0.13
78 60 0.87
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (76 bp):
AATCTGTTATCTCCGATTTGCTCCCCGTCTAATACAGAGATGCCAAATCATATTGGATCTGCTTC
AATGAAGGTCC
Found at i:7943857 original size:62 final size:62
Alignment explanation
Indices: 7943776--7943900 Score: 214
Period size: 62 Copynumber: 2.0 Consensus size: 62
7943766 TTCGATTTGT
* *
7943776 TCCCTGTCTAATACAGAGATGCCAAATCATATTGGATCTGCTTTAATGAAGGTCAGATCTGC
1 TCCCCGTCTAATACAGAGATGCCAAATCATATTGGATCTGCTTCAATGAAGGTCAGATCTGC
* *
7943838 TCCCCGTCTAATACAGAGATGCCAAATCATCTTGGATCTGCTTCAATGAAGGTTAGATCTGC
1 TCCCCGTCTAATACAGAGATGCCAAATCATATTGGATCTGCTTCAATGAAGGTCAGATCTGC
7943900 T
1 T
7943901 ATATCTTCAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (62 bp):
TCCCCGTCTAATACAGAGATGCCAAATCATATTGGATCTGCTTCAATGAAGGTCAGATCTGC
Found at i:7955771 original size:17 final size:19
Alignment explanation
Indices: 7955749--7955783 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7955739 GATATGATAC
7955749 TAAAAT-TAT-TAAAAAAT
1 TAAAATATATATAAAAAAT
7955766 TAAAATATATATAAAAAA
1 TAAAATATATATAAAAAA
7955784 AATTCGGGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 3 0.19
19 7 0.44
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TAAAATATATATAAAAAAT
Found at i:7956075 original size:22 final size:21
Alignment explanation
Indices: 7956040--7956134 Score: 74
Period size: 18 Copynumber: 4.7 Consensus size: 21
7956030 AAAAGGTATC
* *
7956040 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
7956061 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
7956084 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
7956103 TGC-AATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* *
7956121 TGCATATCATATCT
1 TACAAATCATATCT
7956135 AAGATTGCAT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
18 17 0.27
19 17 0.27
21 4 0.06
22 15 0.24
23 10 0.16
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:7956083 original size:23 final size:22
Alignment explanation
Indices: 7956040--7956097 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
7956030 AAAAGGTATC
* *
7956040 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
7956061 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
7956084 TGCATATCATATCT
1 TACAAATCATATCT
7956098 AAGATTGCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:7956100 original size:19 final size:19
Alignment explanation
Indices: 7956076--7956149 Score: 141
Period size: 19 Copynumber: 3.9 Consensus size: 19
7956066 AATCATATCT
7956076 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
7956095 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
7956113 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
7956132 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
7956150 TGAAGATTAT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
18 18 0.33
19 36 0.67
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:7956122 original size:37 final size:38
Alignment explanation
Indices: 7956069--7956149 Score: 141
Period size: 37 Copynumber: 2.2 Consensus size: 38
7956059 ATTACAAAAT
7956069 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
7956105 CA-ATCATATCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTGCATATCATATCTAAGATTG
7956142 CATATCAT
1 CATATCAT
7956150 TGAAGATTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
35 3 0.07
36 3 0.07
37 31 0.74
38 5 0.12
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGATTG
Found at i:7956169 original size:37 final size:37
Alignment explanation
Indices: 7956079--7956158 Score: 110
Period size: 37 Copynumber: 2.2 Consensus size: 37
7956069 CATATCTTCT
* *
7956079 AAGATTGCATATCATATCTAAGATTGCAATCATATCT
1 AAGATTACATATCATATCTAAGATTGCAATCATATCG
*
7956116 AAGATTGCATATCATATCTAAGATTGCATATCAT-T-G
1 AAGATTACATATCATATCTAAGATTGCA-ATCATATCG
7956152 AAGATTA
1 AAGATTA
7956159 TATTTCCATA
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
36 6 0.15
37 29 0.73
38 5 0.12
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (37 bp):
AAGATTACATATCATATCTAAGATTGCAATCATATCG
Found at i:7956307 original size:21 final size:20
Alignment explanation
Indices: 7956269--7956308 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
7956259 TGGACTTCGG
**
7956269 TTTTTTTTTTGGGTTTATTA
1 TTTTTTTTTTGGACTTATTA
7956289 TTTTTGTTTTTGGACTTATT
1 TTTTT-TTTTTGGACTTATT
7956309 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (20 bp):
TTTTTTTTTTGGACTTATTA
Found at i:7957930 original size:12 final size:12
Alignment explanation
Indices: 7957913--7957940 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
7957903 ACAATAAGAA
7957913 GCTAAGGCTAGG
1 GCTAAGGCTAGG
7957925 GCTAAGGCTAGG
1 GCTAAGGCTAGG
7957937 GCTA
1 GCTA
7957941 GGGTTAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.18, G:0.39, T:0.18
Consensus pattern (12 bp):
GCTAAGGCTAGG
Found at i:7960846 original size:23 final size:24
Alignment explanation
Indices: 7960796--7960848 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
7960786 GAATAAAATA
* *
7960796 AAAATATAATAAATGTTATATAAT
1 AAAATATAATAAATGATATATAAG
* *
7960820 AAAATATAATATA-GATATATAGG
1 AAAATATAATAAATGATATATAAG
7960843 AAAATA
1 AAAATA
7960849 ATATATGATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 13 0.52
24 12 0.48
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (24 bp):
AAAATATAATAAATGATATATAAG
Found at i:7965793 original size:54 final size:54
Alignment explanation
Indices: 7965734--7965842 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
7965724 TGAATGGAGA
7965734 GATGTAATATTAATTAACTAGTTTATATTTCTATGTGATACACAAATCAGTTGT
1 GATGTAATATTAATTAACTAGTTTATATTTCTATGTGATACACAAATCAGTTGT
7965788 GATGTAATATTAATTAACTAGTTTATATTTCTATGTGATACACAAATCAGTTGT
1 GATGTAATATTAATTAACTAGTTTATATTTCTATGTGATACACAAATCAGTTGT
7965842 G
1 G
7965843 TATATTAAAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.35, C:0.09, G:0.14, T:0.42
Consensus pattern (54 bp):
GATGTAATATTAATTAACTAGTTTATATTTCTATGTGATACACAAATCAGTTGT
Found at i:7966014 original size:16 final size:16
Alignment explanation
Indices: 7965995--7966025 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
7965985 ATATTAATTT
*
7965995 TATTTAATATTAAAAA
1 TATTTAACATTAAAAA
7966011 TATTTAACATTAAAA
1 TATTTAACATTAAAA
7966026 TAATATAAAA
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:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTTAACATTAAAAA
Found at i:7971587 original size:21 final size:23
Alignment explanation
Indices: 7971561--7971606 Score: 78
Period size: 21 Copynumber: 2.1 Consensus size: 23
7971551 TCTATTTAAT
7971561 TATTTTAA-TTATTTAA-TTATA
1 TATTTTAATTTATTTAATTTATA
7971582 TATTTTAATTTATTTAATTTATA
1 TATTTTAATTTATTTAATTTATA
7971605 TA
1 TA
7971607 AGTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 8 0.35
22 8 0.35
23 7 0.30
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (23 bp):
TATTTTAATTTATTTAATTTATA
Found at i:7971615 original size:21 final size:21
Alignment explanation
Indices: 7971566--7971617 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
7971556 TTAATTATTT
**
7971566 TAATTATTTAATTATATATTT
1 TAATTATTTAATTATATATAG
7971587 TAATTTATTTAATT-TATATAAG
1 TAA-TTATTTAATTATATAT-AG
7971609 TAATTATTT
1 TAATTATTT
7971618 GATAAATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TAATTATTTAATTATATATAG
Found at i:7977980 original size:25 final size:25
Alignment explanation
Indices: 7977951--7978007 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
7977941 GCGTTGAATG
* *
7977951 TAATTTT-AAGTATTTAGTTTTTAAT
1 TAATTTTAAAATAATTA-TTTTTAAT
7977976 TAATTTTAAAATAATTATTTTTAAT
1 TAATTTTAAAATAATTATTTTTAAT
7978001 TAATTTT
1 TAATTTT
7978008 TTAAAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 22 0.76
26 7 0.24
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (25 bp):
TAATTTTAAAATAATTATTTTTAAT
Found at i:7978015 original size:14 final size:15
Alignment explanation
Indices: 7977971--7978015 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
7977961 TATTTAGTTT
7977971 TTAATTAATTTTAAAA
1 TTAATT-ATTTTAAAA
*
7977987 -TAATTATTTT-TAA
1 TTAATTATTTTAAAA
7978000 TTAATT-TTTTAAAA
1 TTAATTATTTTAAAA
7978014 TT
1 TT
7978016 TTAATTCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
13 6 0.24
14 14 0.56
15 5 0.20
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAATTATTTTAAAA
Found at i:7978109 original size:19 final size:19
Alignment explanation
Indices: 7978065--7978110 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
7978055 ATTAACTTAT
7978065 TTAACAATTCAAATATAATA
1 TTAA-AATTCAAATATAATA
** *
7978085 AAAAAATTCAAATATCATA
1 TTAAAATTCAAATATAATA
7978104 TTAAAAT
1 TTAAAAT
7978111 ATTGATATTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
19 19 0.90
20 2 0.10
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.33
Consensus pattern (19 bp):
TTAAAATTCAAATATAATA
Found at i:7979621 original size:19 final size:19
Alignment explanation
Indices: 7979581--7979620 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
7979571 TTTAAGTATT
*
7979581 AAATTAAATATTAAAATTA
1 AAATCAAATATTAAAATTA
7979600 AAATCAAATATT-AAATTA
1 AAATCAAATATTAAAATTA
7979618 AAA
1 AAA
7979621 AAAATTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATCAAATATTAAAATTA
Found at i:7984603 original size:18 final size:19
Alignment explanation
Indices: 7984566--7984604 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
7984556 ATTACAAAAT
*
7984566 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTATAA
*
7984585 AATTTAAAAT-ATTTATAA
1 AATTCAAAATAATTTATAA
7984603 AA
1 AA
7984605 ATTCTAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
AATTCAAAATAATTTATAA
Found at i:7984618 original size:18 final size:18
Alignment explanation
Indices: 7984551--7984619 Score: 50
Period size: 19 Copynumber: 3.6 Consensus size: 18
7984541 TCTCTCCCAA
*
7984551 TAAAAATTACAAAATAATTC
1 TAAAAATTA-TAAA-AATTC
* * *
7984571 AAAATAATTTTTAAAATT-
1 TAAA-AATTATAAAAATTC
7984589 TAAAATATTTATAAAAATTC
1 TAAAA-A-TTATAAAAATTC
7984609 TAAAAATTATA
1 TAAAAATTATA
7984620 TTTTTTTAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 10
0.69 0.13 0.18
Matches are distributed among these distances:
17 1 0.03
18 9 0.24
19 14 0.37
20 10 0.26
21 4 0.11
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAAAATTATAAAAATTC
Found at i:7987471 original size:12 final size:13
Alignment explanation
Indices: 7987443--7987471 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
7987433 GAATGAGAAT
7987443 ATTTATTTAATAA
1 ATTTATTTAATAA
7987456 ATTTATTTAA-AA
1 ATTTATTTAATAA
7987468 ATTT
1 ATTT
7987472 GACAAAACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTATTTAATAA
Found at i:7992155 original size:69 final size:69
Alignment explanation
Indices: 7992044--7992182 Score: 269
Period size: 69 Copynumber: 2.0 Consensus size: 69
7992034 CTTACTCAAA
7992044 GTATTAATTATTGGAGAACAGTAGAATGTTCCACTTGTTGGAAAATTAAAAAATTTTCTAAAATG
1 GTATTAATTATTGGAGAACAGTAGAATGTTCCACTTGTTGGAAAATTAAAAAATTTTCTAAAATG
7992109 GGGT
66 GGGT
*
7992113 GTATTAATTATTGGAGAACAGTAGAATGTTCCACTTGTTGGAAAATTAAAAGATTTTCTAAAATG
1 GTATTAATTATTGGAGAACAGTAGAATGTTCCACTTGTTGGAAAATTAAAAAATTTTCTAAAATG
7992178 GGGT
66 GGGT
7992182 G
1 G
7992183 GTTTTGACAT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.35
Consensus pattern (69 bp):
GTATTAATTATTGGAGAACAGTAGAATGTTCCACTTGTTGGAAAATTAAAAAATTTTCTAAAATG
GGGT
Found at i:7992736 original size:41 final size:41
Alignment explanation
Indices: 7992679--7992760 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
7992669 TGCAATATAG
7992679 ATGGGTCTCCGGGCTTATCTAATGTATTGGATATTAATTAT
1 ATGGGTCTCCGGGCTTATCTAATGTATTGGATATTAATTAT
*
7992720 ATGGGTCTCCGGGCTTATCTAATGTATTGGGTATTAATTAT
1 ATGGGTCTCCGGGCTTATCTAATGTATTGGATATTAATTAT
7992761 TTGTGTTATC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.41
Consensus pattern (41 bp):
ATGGGTCTCCGGGCTTATCTAATGTATTGGATATTAATTAT
Found at i:7994967 original size:19 final size:19
Alignment explanation
Indices: 7994939--7994976 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
7994929 AACTAGAGAA
7994939 TGTTGACAAACCCTAATAC
1 TGTTGACAAACCCTAATAC
*
7994958 TGTTGCCAAACCCTAATAC
1 TGTTGACAAACCCTAATAC
7994977 CCTCTTCGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (19 bp):
TGTTGACAAACCCTAATAC
Found at i:7999191 original size:25 final size:25
Alignment explanation
Indices: 7999144--7999191 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
7999134 TAGTCACGTC
** * *
7999144 TATTTTTAACAGTAGAAATGGACGA
1 TATTTTTAACAAAAAAAAGGGACGA
7999169 TATTTTTAACAAAAAAAAGGGAC
1 TATTTTTAACAAAAAAAAGGGAC
7999192 CAATTTGATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.46, C:0.08, G:0.17, T:0.29
Consensus pattern (25 bp):
TATTTTTAACAAAAAAAAGGGACGA
Found at i:8006781 original size:21 final size:21
Alignment explanation
Indices: 8006755--8006795 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8006745 ATCTGCTCAA
* *
8006755 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
8006776 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
8006796 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:8022359 original size:3 final size:3
Alignment explanation
Indices: 8022351--8022376 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
8022341 TGTGCTCTAA
8022351 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
8022377 GAAGATACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:8024379 original size:19 final size:18
Alignment explanation
Indices: 8024356--8024401 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 18
8024346 GTACATAGGG
*
8024356 TTTTTTTTTTTACATTTCAC
1 TTTTTTTTTTAAC-TTT-AC
*
8024376 TTTTTCTTTTAACTTTAC
1 TTTTTTTTTTAACTTTAC
8024394 TTTTTTTT
1 TTTTTTTT
8024402 AAAAGTGAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 9 0.39
19 3 0.13
20 11 0.48
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTTTTTTAACTTTAC
Found at i:8033003 original size:8 final size:8
Alignment explanation
Indices: 8032987--8033016 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
8032977 GTACCTATAT
*
8032987 TTTTTAAA
1 TTTTAAAA
8032995 TTTTAAAA
1 TTTTAAAA
8033003 TTTTAAAA
1 TTTTAAAA
8033011 TTTTAA
1 TTTTAA
8033017 TCTTAATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TTTTAAAA
Found at i:8036284 original size:102 final size:102
Alignment explanation
Indices: 8036108--8036309 Score: 377
Period size: 102 Copynumber: 2.0 Consensus size: 102
8036098 TTTCATGAAG
8036108 AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTCCCCATGCACAA
1 AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTCCCCATGCACAA
8036173 ATGCAGTATTTTCAGTAACTATTTCATTCTCATCAAC
66 ATGCAGTATTTTCAGTAACTATTTCATTCTCATCAAC
*
8036210 AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTTCCCATGCACAA
1 AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTCCCCATGCACAA
* *
8036275 ATGCAGTATTTTCAGTACCTATTTCATTCTTATCA
66 ATGCAGTATTTTCAGTAACTATTTCATTCTCATCA
8036310 TCTTCACCTG
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 97 1.00
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (102 bp):
AATTTCCATATCAGATTCAACTTTCGGAGGTCCAGCAGCATCTTGAGGTGGTTCCCCATGCACAA
ATGCAGTATTTTCAGTAACTATTTCATTCTCATCAAC
Found at i:8040522 original size:21 final size:21
Alignment explanation
Indices: 8040496--8040536 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
8040486 ATCTGCTCAA
* *
8040496 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
8040517 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
8040537 TTGTTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:8069479 original size:21 final size:21
Alignment explanation
Indices: 8069455--8069494 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
8069445 TGTACATGTG
* *
8069455 TTAGTATACTTTGTATAGGAT
1 TTAGAATACTTTATATAGGAT
*
8069476 TTAGAATAGTTTATATAGG
1 TTAGAATACTTTATATAGG
8069495 GTTTTAGGCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.20, T:0.45
Consensus pattern (21 bp):
TTAGAATACTTTATATAGGAT
Found at i:8074075 original size:80 final size:76
Alignment explanation
Indices: 8073944--8074092 Score: 208
Period size: 80 Copynumber: 1.9 Consensus size: 76
8073934 AAAGAATTGA
* * *
8073944 TCGAGAAATCAACAAAAAAATAAAAACTATCAGAATACCAATTGACAACACAATCTCAGAACAAA
1 TCGAAAAATCAACAAAAAAATAAAAAATATCAGAATACCAATCGACAACACAATCTCAGAACAAA
8074009 AAAATAGAAAC
66 AAAATAGAAAC
* * *
8074020 TCGAAAAATCAACAAAAAAAATAGAAACTAATATTAGAATACCAATCGGCTACACAATCTCAGAA
1 TCGAAAAATCAAC-AAAAAAATA-AAA--AATATCAGAATACCAATCGACAACACAATCTCAGAA
8074085 CAAAAAAA
62 CAAAAAAA
8074093 AAAAGAATCT
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
76 12 0.19
77 9 0.14
78 3 0.05
80 39 0.62
ACGTcount: A:0.58, C:0.18, G:0.08, T:0.15
Consensus pattern (76 bp):
TCGAAAAATCAACAAAAAAATAAAAAATATCAGAATACCAATCGACAACACAATCTCAGAACAAA
AAAATAGAAAC
Found at i:8074681 original size:14 final size:15
Alignment explanation
Indices: 8074658--8074688 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
8074648 AGAATGAGGG
8074658 AAAATAAAAAACAAA
1 AAAATAAAAAACAAA
8074673 AAAAT-AAAAACAAA
1 AAAATAAAAAACAAA
8074687 AA
1 AA
8074689 GAAGGCCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.69
15 5 0.31
ACGTcount: A:0.87, C:0.06, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAATAAAAAACAAA
Found at i:8078300 original size:17 final size:17
Alignment explanation
Indices: 8078278--8078311 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8078268 TTTCTTTTGA
*
8078278 ATTTTTATGAACTTTTT
1 ATTTTTATGAAATTTTT
*
8078295 ATTTTTTTGAAATTTTT
1 ATTTTTATGAAATTTTT
8078312 TTATAATTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.68
Consensus pattern (17 bp):
ATTTTTATGAAATTTTT
Found at i:8091014 original size:14 final size:14
Alignment explanation
Indices: 8090991--8091021 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8090981 AGACGATTTG
*
8090991 AATAATTTAATATA
1 AATAAATTAATATA
8091005 AATAAATTAATATA
1 AATAAATTAATATA
8091019 AAT
1 AAT
8091022 TCAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AATAAATTAATATA
Found at i:8091036 original size:7 final size:7
Alignment explanation
Indices: 8091024--8091057 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
8091014 ATATAAATTC
8091024 AAAAATA
1 AAAAATA
8091031 AAAAATA
1 AAAAATA
8091038 AAAAATA
1 AAAAATA
*
8091045 AACAATA
1 AAAAATA
8091052 AAAAAT
1 AAAAAT
8091058 CATAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (7 bp):
AAAAATA
Found at i:8097310 original size:17 final size:18
Alignment explanation
Indices: 8097290--8097323 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
8097280 AAGTTGATTA
8097290 AAATTGC-AAAATTAAAT
1 AAATTGCGAAAATTAAAT
8097307 AAATTGCGAAAATTAAA
1 AAATTGCGAAAATTAAA
8097324 ATAGAGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:8100029 original size:14 final size:14
Alignment explanation
Indices: 8100010--8100041 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
8100000 ATAGAGGCAT
8100010 ATAGAAGTTGCTGA
1 ATAGAAGTTGCTGA
*
8100024 ATAGAAGTTGTTGA
1 ATAGAAGTTGCTGA
8100038 ATAG
1 ATAG
8100042 TCCTTGAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.31
Consensus pattern (14 bp):
ATAGAAGTTGCTGA
Found at i:8107947 original size:46 final size:48
Alignment explanation
Indices: 8107875--8107979 Score: 142
Period size: 46 Copynumber: 2.2 Consensus size: 48
8107865 GACAGGACAG
* * *
8107875 GACAGAAATGAGCCATGTAAGTCCATATCAG-T-TATATGGCTTTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAGATATATATGGCATTGGA
*
8107921 GACAGGAATGAGCCATGTAAGCCCATATTAGATATATATATGGCATTGGA
1 GACAGGAATGAGCCATGTAAGCCCATATCAG--ATATATATGGCATTGGA
8107971 GACAGGAAT
1 GACAGGAAT
8107980 AATTCATGTA
Statistics
Matches: 51, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
46 28 0.55
49 1 0.02
50 22 0.43
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (48 bp):
GACAGGAATGAGCCATGTAAGCCCATATCAGATATATATGGCATTGGA
Done.