Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 82 of 185
Found at i:25646144 original size:23 final size:23
Alignment explanation
Indices: 25646093--25646145 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
25646083 AGTGTTATTG
25646093 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
25646116 -TACAGTGGTAG-TTACGGCTACAT
1 AT-CAGTGGTAGCTT-CGGCTACAT
25646139 ATCAGTG
1 ATCAGTG
25646146 TGACACTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 3 0.11
23 23 0.85
24 1 0.04
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:25648858 original size:33 final size:32
Alignment explanation
Indices: 25648808--25648923 Score: 90
Period size: 28 Copynumber: 3.8 Consensus size: 32
25648798 CATGCAGAAT
*
25648808 CAGTCTGGG-CTTGAGCCCTATACAGTATCAGT-A
1 CAGTGTGGGCCTT-AGCCC-ATACAGTA-CAGTAA
*
25648841 TAGTGTGGGCCTTAGCCCAT----TACAGTAA
1 CAGTGTGGGCCTTAGCCCATACAGTACAGTAA
25648869 CAGTGTGGGCCTTAGCCC--A-A-TACAGTAA
1 CAGTGTGGGCCTTAGCCCATACAGTACAGTAA
* *
25648897 CAATGTGGGCCTTAGCTCAATACAGTA
1 CAGTGTGGGCCTTAGC-CCATACAGTA
25648924 ATCAGTACAA
Statistics
Matches: 69, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
27 4 0.06
28 43 0.62
29 1 0.01
31 1 0.01
32 3 0.04
33 14 0.20
34 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (32 bp):
CAGTGTGGGCCTTAGCCCATACAGTACAGTAA
Found at i:25648875 original size:28 final size:28
Alignment explanation
Indices: 25648842--25648929 Score: 140
Period size: 28 Copynumber: 3.1 Consensus size: 28
25648832 GTATCAGTAT
*
25648842 AGTGTGGGCCTTAGCCCATTACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
25648870 AGTGTGGGCCTTAGCCCAATACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
* *
25648898 AATGTGGGCCTTAGCTCAATACAGTAATC
1 AGTGTGGGCCTTAGCCCAATACAGTAA-C
25648927 AGT
1 AGT
25648930 ACAATACAGT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
28 52 0.95
29 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAC
Found at i:25649303 original size:27 final size:27
Alignment explanation
Indices: 25649274--25649594 Score: 349
Period size: 27 Copynumber: 11.9 Consensus size: 27
25649264 GGGGTATAAT
* * *
25649274 GGTCATTTTACCCTTCGAAGCTATTTT
1 GGTCATTTTACCCTTCGAGGGTATTTC
* *
25649301 GGTCATTGTA-CCTTCGGGGGTATTTC
1 GGTCATTTTACCCTTCGAGGGTATTTC
*
25649327 GGTCATTTTACCCTTTGAGGGTATTTC
1 GGTCATTTTACCCTTCGAGGGTATTTC
* * * * *
25649354 AGTTATTTAACCTTTCTAGGGTATTTC
1 GGTCATTTTACCCTTCGAGGGTATTTC
** * *
25649381 AATTATTTTACCCTTCGAGGGTATTTT
1 GGTCATTTTACCCTTCGAGGGTATTTC
25649408 GGTCATTTTACCCTTCGAGGGTATTTC
1 GGTCATTTTACCCTTCGAGGGTATTTC
*
25649435 GGTCATTTTACCCTTCGAGGGTATTTT
1 GGTCATTTTACCCTTCGAGGGTATTTC
* * * * *
25649462 AGTTATCTTACCCTTCGGGGGTATTTT
1 GGTCATTTTACCCTTCGAGGGTATTTC
* * * *
25649489 AGTCATTTTACCTTTCGAGAGTATTTT
1 GGTCATTTTACCCTTCGAGGGTATTTC
*
25649516 GGTCATTTTACCCTTCGGGGGTATTTC
1 GGTCATTTTACCCTTCGAGGGTATTTC
* * *
25649543 AGTTATTTTACCATTC-AGGGGTATTTC
1 GGTCATTTTACCCTTCGA-GGGTATTTC
*
25649570 GGTCATTTTACCCTTCGAGAGTATT
1 GGTCATTTTACCCTTCGAGGGTATT
25649595 CAGACATTTT
Statistics
Matches: 245, Mismatches: 46, Indels: 6
0.82 0.15 0.02
Matches are distributed among these distances:
26 21 0.09
27 223 0.91
28 1 0.00
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.44
Consensus pattern (27 bp):
GGTCATTTTACCCTTCGAGGGTATTTC
Found at i:25649412 original size:81 final size:81
Alignment explanation
Indices: 25649274--25649594 Score: 385
Period size: 81 Copynumber: 4.0 Consensus size: 81
25649264 GGGGTATAAT
* * ** * * *
25649274 GGTCATTTTACCCTTCGAAGCTATTTTGGTCATTGTA-CCTTCGGGGGTATTTCGGTCATTTTAC
1 GGTCATTTTACCCTTCGAGGGTATTTCAGTTATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC
* *
25649338 CCTTTGAGGGTATTTC
66 CCTTCGAGAGTATTTC
* * * * * * *
25649354 AGTTATTTAACCTTTCTAGGGTATTTCAATTATTTTACCCTTCGAGGGTATTTTGGTCATTTTAC
1 GGTCATTTTACCCTTCGAGGGTATTTCAGTTATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC
*
25649419 CCTTCGAGGGTATTTC
66 CCTTCGAGAGTATTTC
* * * **
25649435 GGTCATTTTACCCTTCGAGGGTATTTTAGTTATCTTACCCTTCGGGGGTATTTTAGTCATTTTAC
1 GGTCATTTTACCCTTCGAGGGTATTTCAGTTATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC
* *
25649500 CTTTCGAGAGTATTTT
66 CCTTCGAGAGTATTTC
* *
25649516 GGTCATTTTACCCTTCGGGGGTATTTCAGTTATTTTACCATTC-AGGGGTATTTCGGTCATTTTA
1 GGTCATTTTACCCTTCGAGGGTATTTCAGTTATTTTACCCTTCGA-GGGTATTTCGGTCATTTTA
25649580 CCCTTCGAGAGTATT
65 CCCTTCGAGAGTATT
25649595 CAGACATTTT
Statistics
Matches: 203, Mismatches: 36, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
80 25 0.12
81 178 0.88
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.44
Consensus pattern (81 bp):
GGTCATTTTACCCTTCGAGGGTATTTCAGTTATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC
CCTTCGAGAGTATTTC
Found at i:25656360 original size:33 final size:32
Alignment explanation
Indices: 25656310--25656425 Score: 90
Period size: 28 Copynumber: 3.8 Consensus size: 32
25656300 CATGCAGAAT
*
25656310 CAGTCTGGG-CTTGAGCCCTATACAGTATCAGT-A
1 CAGTGTGGGCCTT-AGCCC-ATACAGTA-CAGTAA
*
25656343 TAGTGTGGGCCTTAGCCCAT----TACAGTAA
1 CAGTGTGGGCCTTAGCCCATACAGTACAGTAA
25656371 CAGTGTGGGCCTTAGCCC--A-A-TACAGTAA
1 CAGTGTGGGCCTTAGCCCATACAGTACAGTAA
* *
25656399 CAATGTGGGCCTTAGCTCAATACAGTA
1 CAGTGTGGGCCTTAGC-CCATACAGTA
25656426 ATCAGTACAA
Statistics
Matches: 69, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
27 4 0.06
28 43 0.62
29 1 0.01
31 1 0.01
32 3 0.04
33 14 0.20
34 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (32 bp):
CAGTGTGGGCCTTAGCCCATACAGTACAGTAA
Found at i:25656377 original size:28 final size:28
Alignment explanation
Indices: 25656344--25656431 Score: 140
Period size: 28 Copynumber: 3.1 Consensus size: 28
25656334 GTATCAGTAT
*
25656344 AGTGTGGGCCTTAGCCCATTACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
25656372 AGTGTGGGCCTTAGCCCAATACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGTAAC
* *
25656400 AATGTGGGCCTTAGCTCAATACAGTAATC
1 AGTGTGGGCCTTAGCCCAATACAGTAA-C
25656429 AGT
1 AGT
25656432 ACAATACAGT
Statistics
Matches: 55, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
28 52 0.95
29 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGTAAC
Found at i:25656586 original size:26 final size:26
Alignment explanation
Indices: 25656530--25656586 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
25656520 GCCAACACAC
* *
25656530 CAATATCGCAGCAAAGCTACCAGTGA
1 CAATAACGCAGCAAAGCTACCAGTAA
* * *
25656556 TAATAACGTAGCAAAGCTGCCAGTAA
1 CAATAACGCAGCAAAGCTACCAGTAA
25656582 CAATA
1 CAATA
25656587 TATGTGGCAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.18
Consensus pattern (26 bp):
CAATAACGCAGCAAAGCTACCAGTAA
Found at i:25656825 original size:27 final size:27
Alignment explanation
Indices: 25656779--25656993 Score: 117
Period size: 27 Copynumber: 8.0 Consensus size: 27
25656769 GTATAACGGT
*
25656779 CATTTTACCCTATAGG-GGTATTTCAGA
1 CATTTTACCCT-TTGGAGGTATTTCAGA
** *
25656806 CATTTTACCCTTTGGAGGTATTTTGGT
1 CATTTTACCCTTTGGAGGTATTTCAGA
* * * **
25656833 CCTTTTA-CCATTCGAGGGTATTTTGGTA
1 CATTTTACCCTTTGGA-GGTATTTCAG-A
*
25656861 -ATTTTACCGTTT-GAGGGTATTTCA-A
1 CATTTTACCCTTTGGA-GGTATTTCAGA
* *
25656886 TCATTTTACCCTTCGGGGGTATTTCAGTA
1 -CATTTTACCCTTTGGAGGTATTTCAG-A
* * *
25656915 -ATTTTACCTTTTGAAGGTATTTCGGTA
1 CATTTTACCCTTTGGAGGTATTTCAG-A
25656942 -ATTTTACCCTTT-GAGGGTATTTC-GA
1 CATTTTACCCTTTGGA-GGTATTTCAGA
* *
25656967 TAATTTTACCC-TTCGAGCGTATTTCAG
1 -CATTTTACCCTTTGGAG-GTATTTCAG
25656994 TCCCATTACG
Statistics
Matches: 150, Mismatches: 23, Indels: 29
0.74 0.11 0.14
Matches are distributed among these distances:
25 2 0.01
26 14 0.09
27 128 0.85
28 5 0.03
29 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
CATTTTACCCTTTGGAGGTATTTCAGA
Found at i:25656852 original size:54 final size:54
Alignment explanation
Indices: 25656775--25656979 Score: 220
Period size: 54 Copynumber: 3.8 Consensus size: 54
25656765 AGGGGTATAA
*
25656775 CGGTCATTTTACCCTATAG-GGGTATTTCAG-ACATTTTACCCTTTGGAGGTATTT
1 CGGTCATTTTACCCT-TCGAGGGTATTTCAGTA-ATTTTACCCTTTGGAGGTATTT
* * * ** *
25656829 TGGTCCTTTTACCATTCGAGGGTATTTTGGTAATTTTACCGTTT-GAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTTGGA-GGTATTT
** * * *
25656883 CAATCATTTTACCCTTCGGGGGTATTTCAGTAATTTTACCTTTTGAAGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTTGGAGGTATTT
* *
25656937 CGGTAATTTTACCCTTTGAGGGTATTTC-GATAATTTTACCCTT
1 CGGTCATTTTACCCTTCGAGGGTATTTCAG-TAATTTTACCCTT
25656980 CGAGCGTATT
Statistics
Matches: 123, Mismatches: 23, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
53 5 0.04
54 116 0.94
55 2 0.02
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.44
Consensus pattern (54 bp):
CGGTCATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTTGGAGGTATTT
Found at i:25656907 original size:81 final size:81
Alignment explanation
Indices: 25656775--25656994 Score: 255
Period size: 81 Copynumber: 2.7 Consensus size: 81
25656765 AGGGGTATAA
* * * * ** **
25656775 CGGTCATTTTACCCTAT-AGGGGTATTTCAGA-CATTTTACCCTTTGGAGGTATTTTGGTCCTTT
1 CGGTAATTTTACCCTTTGA-GGGTATTTCA-ATCATTTTACCCTTCGGGGGTATTTCAGTAATTT
*
25656838 TACCATTCGAGGGTATTT
64 TACCATTCGAAGGTATTT
* *
25656856 TGGTAATTTTACCGTTTGAGGGTATTTCAATCATTTTACCCTTCGGGGGTATTTCAGTAATTTTA
1 CGGTAATTTTACCCTTTGAGGGTATTTCAATCATTTTACCCTTCGGGGGTATTTCAGTAATTTTA
* *
25656921 CCTTTTGAAGGTATTT
66 CCATTCGAAGGTATTT
* * * *
25656937 CGGTAATTTTACCCTTTGAGGGTATTTCGATAATTTTACCCTTCGAGCGTATTTCAGT
1 CGGTAATTTTACCCTTTGAGGGTATTTCAATCATTTTACCCTTCGGGGGTATTTCAGT
25656995 CCCATTACGG
Statistics
Matches: 118, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
80 1 0.01
81 116 0.98
82 1 0.01
ACGTcount: A:0.20, C:0.17, G:0.20, T:0.43
Consensus pattern (81 bp):
CGGTAATTTTACCCTTTGAGGGTATTTCAATCATTTTACCCTTCGGGGGTATTTCAGTAATTTTA
CCATTCGAAGGTATTT
Found at i:25661723 original size:17 final size:18
Alignment explanation
Indices: 25661701--25661735 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
25661691 AAAATTCTGA
25661701 ATTTATTTCCAAT-TTAC
1 ATTTATTTCCAATGTTAC
*
25661718 ATTTATTTTCAATGTTAC
1 ATTTATTTCCAATGTTAC
25661736 TCAATTGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.29, C:0.14, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTTATTTCCAATGTTAC
Found at i:25663525 original size:18 final size:18
Alignment explanation
Indices: 25663502--25663537 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
25663492 ATTTTACTTT
*
25663502 TATTTTATTTTACCAATG
1 TATTTTATTTTAACAATG
25663520 TATTTTATTTTAACAATG
1 TATTTTATTTTAACAATG
25663538 ATTCGAGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.08, G:0.06, T:0.56
Consensus pattern (18 bp):
TATTTTATTTTAACAATG
Found at i:25668130 original size:30 final size:29
Alignment explanation
Indices: 25668073--25668131 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
25668063 CTGATGACTT
* *
25668073 AAATAAAATTTTTTTAATAGTTCATGATC
1 AAATAAAATTTTTTGAATAGTTAATGATC
25668102 AAATGAAAA-TTTTTGAATAGTTTAATGATC
1 AAAT-AAAATTTTTTGAATAG-TTAATGATC
25668132 TTTTTATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (29 bp):
AAATAAAATTTTTTGAATAGTTAATGATC
Found at i:25674614 original size:16 final size:16
Alignment explanation
Indices: 25674595--25674627 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
25674585 GGCCCGTGTC
25674595 CTTCACACGGCGATGA
1 CTTCACACGGCGATGA
25674611 CTTCACACGGCGATGA
1 CTTCACACGGCGATGA
25674627 C
1 C
25674628 ACGCCCTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.33, G:0.24, T:0.18
Consensus pattern (16 bp):
CTTCACACGGCGATGA
Found at i:25677537 original size:20 final size:20
Alignment explanation
Indices: 25677512--25677552 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
25677502 TAACGATTGA
*
25677512 TATC-AAGATTTTGACAAGAT
1 TATCAAAGATTTAGA-AAGAT
25677532 TATCAAAGATTTAGAAAGAT
1 TATCAAAGATTTAGAAAGAT
25677552 T
1 T
25677553 TGAAGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (20 bp):
TATCAAAGATTTAGAAAGAT
Found at i:25683530 original size:24 final size:24
Alignment explanation
Indices: 25683497--25683544 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
25683487 TCCGAGCAAT
*
25683497 AATCATCATATCACGATTCAAACC
1 AATCAACATATCACGATTCAAACC
25683521 AATCAACATATCACGATTCAAACC
1 AATCAACATATCACGATTCAAACC
25683545 TTTAAATCCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.29, G:0.04, T:0.23
Consensus pattern (24 bp):
AATCAACATATCACGATTCAAACC
Found at i:25686034 original size:40 final size:40
Alignment explanation
Indices: 25685971--25686063 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 40
25685961 ATCTCTGTCT
* * *
25685971 AACCCAACACACC-A-TGTGAGGATAAAATCGACCCACCC
1 AACCCTACACACCAAGTATGAGGATAAAATCAACCCACCC
* *
25686009 AGCCCTACACACCAAGTATGAGGATAAAATCAACCCATCC
1 AACCCTACACACCAAGTATGAGGATAAAATCAACCCACCC
25686049 AACCCTACACACCAA
1 AACCCTACACACCAA
25686064 ATGGTACCGT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 11 0.23
39 1 0.02
40 35 0.74
ACGTcount: A:0.41, C:0.37, G:0.11, T:0.12
Consensus pattern (40 bp):
AACCCTACACACCAAGTATGAGGATAAAATCAACCCACCC
Found at i:25698976 original size:17 final size:16
Alignment explanation
Indices: 25698957--25699006 Score: 55
Period size: 18 Copynumber: 2.9 Consensus size: 16
25698947 TTTTTTTATT
25698957 TTTTATATTTAATTAC
1 TTTTATATTTAATTAC
*
25698973 TTTTATTGTTTAATTAC
1 TTTTA-TATTTAATTAC
*
25698990 ATTTAATGATTTAATTA
1 -TTTTAT-ATTTAATTA
25699007 ATTATCGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 5 0.18
17 11 0.39
18 12 0.43
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (16 bp):
TTTTATATTTAATTAC
Found at i:25699004 original size:18 final size:18
Alignment explanation
Indices: 25698963--25699006 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
25698953 TATTTTTTAT
* *
25698963 ATTTAATTACTTTTATTG
1 ATTTAATTACATTTAATG
25698981 -TTTAATTACATTTAATG
1 ATTTAATTACATTTAATG
25698998 ATTTAATTA
1 ATTTAATTA
25699007 ATTATCGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 15 0.65
18 8 0.35
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.57
Consensus pattern (18 bp):
ATTTAATTACATTTAATG
Found at i:25700040 original size:17 final size:16
Alignment explanation
Indices: 25700020--25700093 Score: 55
Period size: 17 Copynumber: 4.6 Consensus size: 16
25700010 ATAGATTAAT
25700020 TTATATTTTATGTATCA
1 TTATATTTTAT-TATCA
**
25700037 TTATATTAAATTAT--
1 TTATATTTTATTATCA
* * *
25700051 TTAAACTTTATTTATTA
1 TTATATTTTA-TTATCA
25700068 TTATATTTTATATATCA
1 TTATATTTTAT-TATCA
25700085 TTA-ATTTTA
1 TTATATTTTA
25700094 CAAATGATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 9
0.71 0.15 0.15
Matches are distributed among these distances:
14 6 0.14
15 4 0.09
16 10 0.23
17 24 0.55
ACGTcount: A:0.35, C:0.04, G:0.01, T:0.59
Consensus pattern (16 bp):
TTATATTTTATTATCA
Found at i:25709777 original size:15 final size:13
Alignment explanation
Indices: 25709754--25709791 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 13
25709744 TTTTATAATT
25709754 AAATTTAAATAAA
1 AAATTTAAATAAA
25709767 AATATTTTAAA-AAA
1 AA-A-TTTAAATAAA
25709781 AAATTTAAATA
1 AAATTTAAATA
25709792 TTTTGACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 6 0.27
15 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAATTTAAATAAA
Found at i:25713842 original size:24 final size:25
Alignment explanation
Indices: 25713815--25713863 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
25713805 TTTTTTTTAT
*
25713815 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
25713839 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
25713864 AAACAAATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:25713856 original size:25 final size:23
Alignment explanation
Indices: 25713827--25713891 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 23
25713817 AATAAAAAAC
*
25713827 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
25713852 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
25713873 -TTAAAACA-AAAAACAAATA
1 TTTAAAACATAAAAACAAATA
25713892 AGAAATAAGA
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
19 10 0.26
20 8 0.21
21 1 0.03
23 5 0.13
24 3 0.08
25 11 0.29
ACGTcount: A:0.66, C:0.09, G:0.00, T:0.25
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:25713886 original size:19 final size:20
Alignment explanation
Indices: 25713853--25713891 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
25713843 TCAAATACAT
25713853 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
25713873 TTAAAACA-AAAAACAAATA
1 TTAAAACATAAAAACAAATA
25713892 AGAAATAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.72, C:0.10, G:0.00, T:0.18
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:25716639 original size:3 final size:3
Alignment explanation
Indices: 25716631--25716660 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
25716621 TTGTAAAATT
25716631 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
25716661 TATCACAATT
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:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:25718428 original size:21 final size:21
Alignment explanation
Indices: 25718402--25718444 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
25718392 TGGTTGTTAT
25718402 ACACCTATAACAACACTTGAG
1 ACACCTATAACAACACTTGAG
* *
25718423 ACACCTATAATAACATTTGAG
1 ACACCTATAACAACACTTGAG
25718444 A
1 A
25718445 TTTAGGTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.23, G:0.09, T:0.23
Consensus pattern (21 bp):
ACACCTATAACAACACTTGAG
Found at i:25719246 original size:20 final size:20
Alignment explanation
Indices: 25719223--25719275 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
25719213 AATTAATTTG
25719223 AAAAAATATTAAAAATTTAA
1 AAAAAATATTAAAAATTTAA
* * **
25719243 AAAATATA-TAAAAGTTTTT
1 AAAAAATATTAAAAATTTAA
25719262 AAAAAATAATTAAA
1 AAAAAAT-ATTAAA
25719276 TGTTGATGTG
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 14 0.54
20 8 0.31
21 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (20 bp):
AAAAAATATTAAAAATTTAA
Found at i:25719275 original size:21 final size:18
Alignment explanation
Indices: 25719217--25719275 Score: 64
Period size: 21 Copynumber: 3.0 Consensus size: 18
25719207 GCATTTAATT
25719217 AATTTGAAAAAATATTAAA
1 AATTT-AAAAAATATTAAA
25719236 AATTTAAAAAATATATAAA
1 AATTTAAAAAATAT-TAAA
*
25719255 AGTTTTTAAAAAATAATTAAA
1 A--ATTTAAAAAAT-ATTAAA
25719276 TGTTGATGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
18 9 0.26
19 10 0.29
21 14 0.40
22 2 0.06
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AATTTAAAAAATATTAAA
Found at i:25721388 original size:196 final size:196
Alignment explanation
Indices: 25721054--25721454 Score: 685
Period size: 196 Copynumber: 2.0 Consensus size: 196
25721044 GAAGATACCC
* * *
25721054 CACAATTCTGTTAATACTGCAAATTTCACAAAGCATTGAGAAGCCAACATTCCTAGCTCCATGGT
1 CACAATTCCGTTAATACTGCAAATTCCACAAAGCATTGAGAAGCCAACATTCCTAGCTCCATGGC
25721119 AGTCCCGAATAGCTCCACCTGCCCTAGCTCTCTCACCTAAAAAGGCTCAACTACCACCAACATTC
66 AGTCCCGAATAGCTCCACCTGCCCTAGCTCTCTCACCTAAAAAGGCTCAACTACCACCAACATTC
* *
25721184 AACTTAAACCAATCATATGGAGGTTTCTCCCAACTTAGCATCACAATACTCTTTTTCCTTATCAT
131 AACTTAAACCAATCATATAGAGGTTTCTCCCAACTTAGCATCACAATACTCTTTTTCCTTAGCAT
25721249 A
196 A
* * *
25721250 CACAATTCCGTTAATACTGTAAATTCCACAAAGGATTGAGAAGCCAACATTCTTAGCTCCATGGC
1 CACAATTCCGTTAATACTGCAAATTCCACAAAGCATTGAGAAGCCAACATTCCTAGCTCCATGGC
*
25721315 AGTCCCGAATAGCTCCACCTGCCCTAGCTCTCTCACCTAAAAAGGCTCAACTACCATCAACATTC
66 AGTCCCGAATAGCTCCACCTGCCCTAGCTCTCTCACCTAAAAAGGCTCAACTACCACCAACATTC
* *
25721380 AACTTAAACCAATCCTGTAGAGGTTTCTCCCAACTTAGCATCACAATACTCTTTTTCCTTAGCAT
131 AACTTAAACCAATCATATAGAGGTTTCTCCCAACTTAGCATCACAATACTCTTTTTCCTTAGCAT
25721445 A
196 A
*
25721446 AACTAATTC
1 CAC-AATTC
25721455 GTACAAAATT
Statistics
Matches: 192, Mismatches: 12, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
196 187 0.97
197 5 0.03
ACGTcount: A:0.32, C:0.30, G:0.11, T:0.27
Consensus pattern (196 bp):
CACAATTCCGTTAATACTGCAAATTCCACAAAGCATTGAGAAGCCAACATTCCTAGCTCCATGGC
AGTCCCGAATAGCTCCACCTGCCCTAGCTCTCTCACCTAAAAAGGCTCAACTACCACCAACATTC
AACTTAAACCAATCATATAGAGGTTTCTCCCAACTTAGCATCACAATACTCTTTTTCCTTAGCAT
A
Found at i:25723238 original size:13 final size:14
Alignment explanation
Indices: 25723200--25723236 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
25723190 TAAAAGTGAG
*
25723200 AAAACAAAAATTCA
1 AAAAGAAAAATTCA
25723214 AAAAGAAAAATTCA
1 AAAAGAAAAATTCA
25723228 AAAAGAAAA
1 AAAAGAAAA
25723237 TTAAAAGAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.76, C:0.08, G:0.05, T:0.11
Consensus pattern (14 bp):
AAAAGAAAAATTCA
Found at i:25726512 original size:56 final size:56
Alignment explanation
Indices: 25726450--25726572 Score: 169
Period size: 56 Copynumber: 2.2 Consensus size: 56
25726440 TTGGCGCTAC
25726450 GTGTGCGAGTTTAAAT-TGTGCAGCACTAAGTCTGCGA-ATTGACTATGTAGCACTAA
1 GTGTGCGAGTTTAAATATGT--AGCACTAAGTCTGCGAGATTGACTATGTAGCACTAA
* * * * *
25726506 GTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGTAGCACTAA
1 GTGTGCGAGTTTAAATATGTAGCACTAAGTCTGCGAGATTGACTATGTAGCACTAA
25726562 GTGTGCGAGTT
1 GTGTGCGAGTT
25726573 GATTATATAG
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
55 15 0.25
56 42 0.70
57 3 0.05
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.33
Consensus pattern (56 bp):
GTGTGCGAGTTTAAATATGTAGCACTAAGTCTGCGAGATTGACTATGTAGCACTAA
Found at i:25726528 original size:28 final size:28
Alignment explanation
Indices: 25726471--25726595 Score: 182
Period size: 28 Copynumber: 4.5 Consensus size: 28
25726461 TAAATTGTGC
* *
25726471 AGCACTAAGTCTGCGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
25726498 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
25726526 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
25726554 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
25726581 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25726596 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
27 38 0.41
28 54 0.59
ACGTcount: A:0.26, C:0.14, G:0.28, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:25729741 original size:53 final size:53
Alignment explanation
Indices: 25729616--25729767 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
25729606 GACGGTTAAG
*
25729616 GATACCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAA
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTT-C-ATAAGGCAAA
* * * *
25729671 GGTCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGCAAA
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAGGCAAA
* * *
25729724 GATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCA
1 GATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCA
25729768 AAAAGAAAAA
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
53 47 0.55
54 1 0.01
55 37 0.44
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGTCAAGACATGGCATTGGTGAGTTCATAAGGCAAA
Found at i:25733612 original size:19 final size:19
Alignment explanation
Indices: 25733577--25733627 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
25733567 GAAATGACAA
25733577 AGATGAGAAAT-AAATATG
1 AGATGAGAAATGAAATATG
25733595 AGATGAGAAATGAAATATG
1 AGATGAGAAATGAAATATG
25733614 A-ATTGATGAAATGA
1 AGA-TGA-GAAATGA
25733628 TATGTGAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 12 0.40
19 11 0.37
20 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (19 bp):
AGATGAGAAATGAAATATG
Found at i:25734682 original size:54 final size:54
Alignment explanation
Indices: 25734572--25734684 Score: 174
Period size: 54 Copynumber: 2.1 Consensus size: 54
25734562 AATTGGGCAA
* ** *
25734572 AGACACGAGCTGGGACATGATCGTGTGTCTCAAGTTAGTGAGTTACACGGGTAG
1 AGACACGAGCTGGGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAG
25734626 AGACAC-AGGCTGGGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAG
1 AGACACGA-GCTGGGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAG
25734680 AGACA
1 AGACA
25734685 TGGGCTAGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
53 1 0.02
54 53 0.98
ACGTcount: A:0.29, C:0.19, G:0.31, T:0.21
Consensus pattern (54 bp):
AGACACGAGCTGGGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAG
Found at i:25734696 original size:54 final size:54
Alignment explanation
Indices: 25734584--25734697 Score: 165
Period size: 54 Copynumber: 2.1 Consensus size: 54
25734574 ACACGAGCTG
* ** * *
25734584 GGACATGATCGTGTGTCTCAAGTTAGTGAGTTACACGGGTAGAGACACAGGCTG
1 GGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAGAGACACAGGCTA
**
25734638 GGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAGAGACATGGGCTA
1 GGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAGAGACACAGGCTA
25734692 GGACAC
1 GGACAC
25734698 AGCCCTGTGT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.28, C:0.18, G:0.32, T:0.22
Consensus pattern (54 bp):
GGACACGATCGTGTGTCTCAAGTTAGTGAGTTACACAAGCAGAGACACAGGCTA
Found at i:25736895 original size:19 final size:19
Alignment explanation
Indices: 25736871--25736909 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25736861 TAAAATTAAT
25736871 TTTTCTAAAAATATT-TTTA
1 TTTTCT-AAAATATTATTTA
*
25736890 TTTTCTAGAATATTATTTA
1 TTTTCTAAAATATTATTTA
25736909 T
1 T
25736910 CGATTTTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.33, C:0.05, G:0.03, T:0.59
Consensus pattern (19 bp):
TTTTCTAAAATATTATTTA
Found at i:25741227 original size:21 final size:20
Alignment explanation
Indices: 25741192--25741239 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
25741182 CATGTATTAG
*
25741192 ATATTAAATAGATATTTATT
1 ATATTAAAAAGATATTTATT
25741212 ATATTATAAAAGATATTTATT
1 ATATTA-AAAAGATATTTATT
25741233 A-ATTAAA
1 ATATTAAA
25741240 TAATTATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 2 0.08
20 10 0.38
21 14 0.54
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
ATATTAAAAAGATATTTATT
Found at i:25748377 original size:113 final size:113
Alignment explanation
Indices: 25748179--25748406 Score: 402
Period size: 113 Copynumber: 2.0 Consensus size: 113
25748169 CTCGGAATCT
* **
25748179 AGTTCCGTAAATTTTCCCTCAAACTAGACTCATATGCTCATCTACATTTTTTTTTCTAGAATTTT
1 AGTTCCGTAAATTTTCCCTCAAACTAGACTCATATGCCCATCTACAAATTTTTTTCTAGAATTTT
25748244 TGGTTGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTAC
66 TGGTTGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTAC
* * *
25748292 AGTTCTGTAAATTTTCCCTGAAACTAGACTCATATTCCCATCTACAAATTTTTTTCTAGAATTTT
1 AGTTCCGTAAATTTTCCCTCAAACTAGACTCATATGCCCATCTACAAATTTTTTTCTAGAATTTT
25748357 TGGTTGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTAC
66 TGGTTGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTAC
25748405 AG
1 AG
25748407 GGATCGACTA
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
113 109 1.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.40
Consensus pattern (113 bp):
AGTTCCGTAAATTTTCCCTCAAACTAGACTCATATGCCCATCTACAAATTTTTTTCTAGAATTTT
TGGTTGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTAC
Found at i:25748691 original size:181 final size:181
Alignment explanation
Indices: 25748432--25748793 Score: 679
Period size: 181 Copynumber: 2.0 Consensus size: 181
25748422 ACCTTTGCGC
25748432 GTTACGACTTGGATATCTCCCTGTACAGGGCTTCAACACTGATGCCGTTTGTTTCTACAGAAACT
1 GTTACGACTTGGATATCTCCCTGTACAGGGCTTCAACACTGATGCCGTTTGTTTCTACAGAAACT
* *
25748497 AGACTTAGAGAGGAATCTATACATATATTGCTTGACTCCTAATTGTCTCTGTTTAATTTATAATG
66 AGACTCAGAGAGGAATCTATACATATATTGCTTGACTCCTAATTGTCTCTGGTTAATTTATAATG
25748562 AATTTCCAAAGTCGGAACAGGAAATCCAGAACCCGTTCTGGACCTGTCTCA
131 AATTTCCAAAGTCGGAACAGGAAATCCAGAACCCGTTCTGGACCTGTCTCA
*
25748613 GTTACGACTTGGATATCTCCCTGTACAGGGCTTCAACACTGATGCCGTTTGTTTCTATAGAAACT
1 GTTACGACTTGGATATCTCCCTGTACAGGGCTTCAACACTGATGCCGTTTGTTTCTACAGAAACT
* *
25748678 AGACTCAGAGAGGAATCTTTACATATATTGCTTTACTCCTAATTGTCTCTGGTTAATTTATAATG
66 AGACTCAGAGAGGAATCTATACATATATTGCTTGACTCCTAATTGTCTCTGGTTAATTTATAATG
25748743 AATTTCCAAAGTCGGAACAGGAAATCCAGAACCCGTTCTGGACCTGTCTCA
131 AATTTCCAAAGTCGGAACAGGAAATCCAGAACCCGTTCTGGACCTGTCTCA
25748794 CAAGAACCTG
Statistics
Matches: 176, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
181 176 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (181 bp):
GTTACGACTTGGATATCTCCCTGTACAGGGCTTCAACACTGATGCCGTTTGTTTCTACAGAAACT
AGACTCAGAGAGGAATCTATACATATATTGCTTGACTCCTAATTGTCTCTGGTTAATTTATAATG
AATTTCCAAAGTCGGAACAGGAAATCCAGAACCCGTTCTGGACCTGTCTCA
Found at i:25749128 original size:160 final size:160
Alignment explanation
Indices: 25748864--25749182 Score: 620
Period size: 160 Copynumber: 2.0 Consensus size: 160
25748854 AAATAGATTT
*
25748864 ATCAAGGTTTGTTTACATAATTTATTCACTATTTAATTCCATTCTTACTATTTTTAGTGATTTTC
1 ATCAAGGTTTGTTTACATAATTTATTCACTATTTAATTCCATTCCTACTATTTTTAGTGATTTTC
*
25748929 CAAATCTACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGACTTTACCTATTTCATAGTTT
66 CAAATCTACATCACTGCTGCTGTCAGCATATGCCTTTAAGGTAGACTTTACCTATTTCATAGTTT
25748994 CCATGATTCAACTAGCCCTTTTAGCATAAC
131 CCATGATTCAACTAGCCCTTTTAGCATAAC
25749024 ATCAAGGTTTGTTTACATAATTTATTCACTATTTAATTCCATTCCTACTATTTTTAGTGATTTTC
1 ATCAAGGTTTGTTTACATAATTTATTCACTATTTAATTCCATTCCTACTATTTTTAGTGATTTTC
25749089 CAAATCTACATCACTGCTGCTGTCAGCATATGCCTTTAAGGTAGACTTTACCTATTTCATAGTTT
66 CAAATCTACATCACTGCTGCTGTCAGCATATGCCTTTAAGGTAGACTTTACCTATTTCATAGTTT
25749154 CCATGATTCAACTAGCCCTTTTAGCATAA
131 CCATGATTCAACTAGCCCTTTTAGCATAA
25749183 ATAGCACAAT
Statistics
Matches: 157, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
160 157 1.00
ACGTcount: A:0.27, C:0.21, G:0.11, T:0.42
Consensus pattern (160 bp):
ATCAAGGTTTGTTTACATAATTTATTCACTATTTAATTCCATTCCTACTATTTTTAGTGATTTTC
CAAATCTACATCACTGCTGCTGTCAGCATATGCCTTTAAGGTAGACTTTACCTATTTCATAGTTT
CCATGATTCAACTAGCCCTTTTAGCATAAC
Found at i:25749206 original size:100 final size:100
Alignment explanation
Indices: 25749093--25749291 Score: 380
Period size: 100 Copynumber: 2.0 Consensus size: 100
25749083 ATTTTCCAAA
25749093 TCTACATCACTGCTGCTGTCAGCATATGCCTTTAAGGTAGACTTTACCTATTTCATAGTTTCCAT
1 TCTACATCACTGCTGCTGTCAGCATATGCCTTTAAGGTAGACTTTACCTATTTCATAGTTTCCAT
*
25749158 GATTCAACTAGCCCTTTTAGCATAAATAGCACAAT
66 GATTCAACTAGCCCTTTTAACATAAATAGCACAAT
*
25749193 TCTACATCACTGCTGCTGTCAGCATCTGCCTTTAAGGTAGACTTTACCTATTTCATAGTTTCCAT
1 TCTACATCACTGCTGCTGTCAGCATATGCCTTTAAGGTAGACTTTACCTATTTCATAGTTTCCAT
25749258 GATTCAACTAGCCCTTTTAACATAAATAGCACAA
66 GATTCAACTAGCCCTTTTAACATAAATAGCACAA
25749292 ATTATGATAG
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 97 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.35
Consensus pattern (100 bp):
TCTACATCACTGCTGCTGTCAGCATATGCCTTTAAGGTAGACTTTACCTATTTCATAGTTTCCAT
GATTCAACTAGCCCTTTTAACATAAATAGCACAAT
Found at i:25750067 original size:80 final size:79
Alignment explanation
Indices: 25749928--25750187 Score: 242
Period size: 80 Copynumber: 3.3 Consensus size: 79
25749918 CCAAATCACG
* * * ** * *
25749928 TACCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TT
1 TACCTTCGGGACTTAACCCGGATTTAG-TAACTCGCACAAATGCCTTC-GGACTTAACCCGGATT
*
25749990 ATAGTAACTCGCACAAT
64 -TAGTAACTCGCACAAA
25750007 TACCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCAGGACTTAACCCGGATTT
1 TACCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTC-GGACTTAACCCGGATTT
25750072 AGTAACTCGCACAAA
65 AGTAACTCGCACAAA
* * * * * ** *
25750087 TGCCTGCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGGATAT
1 TACCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGA-CTTAACCCGGATTT
* * *
25750151 GGTCACTTAGCACAAA
65 AGTAAC-TCGCACAAA
* *
25750167 -GCCTTCGGGACTTAGCCCGGA
1 TACCTTCGGGACTTAACCCGGA
25750188 CATCATTCAA
Statistics
Matches: 154, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
78 3 0.02
79 71 0.46
80 78 0.51
81 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (79 bp):
TACCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGACTTAACCCGGATTTA
GTAACTCGCACAAA
Found at i:25750120 original size:39 final size:40
Alignment explanation
Indices: 25749963--25750187 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
25749953 GCTACTCGTT
* *
25749963 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
* *
25750003 CAATTACCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
25750043 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
25750083 CAAATGCCTGCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
25750122 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
25750163 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
25750188 CATCATTCAA
Statistics
Matches: 159, Mismatches: 21, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 112 0.70
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:25750147 original size:119 final size:120
Alignment explanation
Indices: 25749963--25750187 Score: 269
Period size: 119 Copynumber: 1.9 Consensus size: 120
25749953 GCTACTCGTT
* * *
25749963 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATTACCTTCGGGACTTAACCCGG
1 CAAATGCCTGCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGG
* *
25750028 ATTTAGTAAC-TCGCACAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
* * * **
25750083 CAAATGCCTGCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTGCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATACCTTCGGGA-CTTAACCC
* * * *
25750145 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCAGGACTTAACCCGGA
25750188 CATCATTCAA
Statistics
Matches: 88, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
118 4 0.05
119 63 0.72
120 21 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTGCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:25755682 original size:49 final size:50
Alignment explanation
Indices: 25755607--25755753 Score: 172
Period size: 50 Copynumber: 3.0 Consensus size: 50
25755597 AGCCGAAGCT
*
25755607 ATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-C-CAAC
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTCAAC
* * * * *
25755655 AGTCTGGTACACATAGTAGTCTCCACTTAGTACTACACACGTGACCTCACC
1 A-TCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTCAAC
** * * *
25755706 ATCTAATACTCGTAGTAGCCTGCACTTAGTACTACACATGCGGCCTCA
1 ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTCA
25755754 CAATAGATCA
Statistics
Matches: 81, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
48 1 0.01
49 37 0.46
50 39 0.48
51 4 0.05
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (50 bp):
ATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCTCAAC
Found at i:25755769 original size:50 final size:49
Alignment explanation
Indices: 25755619--25755769 Score: 121
Period size: 50 Copynumber: 3.0 Consensus size: 49
25755609 CTGGTACGCA
* * * * *
25755619 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AACAGTCTGGTACA-CA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACAAT-AGAT-CATCG
* * * * *
25755668 TAGTAGTCTCCACTTAGTACTACACACGTGACCTCACCATCTA-AT-ACTCG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCA-CA-ATAGATCA-TCG
*
25755718 TAGTAGCCTGCACTTAGTACTACACATGCGGCCTCACAATAGATCATTCG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACAATAGATCA-TCG
25755768 TA
1 TA
25755770 TTGTTTTTAT
Statistics
Matches: 79, Mismatches: 16, Indels: 13
0.73 0.15 0.12
Matches are distributed among these distances:
48 3 0.04
49 33 0.42
50 40 0.51
51 2 0.03
52 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTCACAATAGATCATCG
Found at i:25759705 original size:43 final size:41
Alignment explanation
Indices: 25759643--25759795 Score: 180
Period size: 43 Copynumber: 3.6 Consensus size: 41
25759633 TACCGTACCA
*
25759643 ATGCCATATCCCAGATATGGTCTTACATGTAATGTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACATG-AATGTCATATCG
* * * *
25759685 ATGCCAATAGCCCAGCTATGGTCTTACATGAAGTCTCATACCG
1 ATGCC-ATATCCCAGATATGGTCTTACATGAA-TGTCATATCG
* *
25759728 ATGCCATATCCCATATATGGTCTTACACGAATGTCTAATATCG
1 ATGCCATATCCCAGATATGGTCTTACATGAATGTC--ATATCG
* *
25759771 ATACCATATCCTAGATATGGTCTTA
1 ATGCCATATCCCAGATATGGTCTTA
25759796 AATGTAATCT
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
41 3 0.03
42 29 0.31
43 61 0.66
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACATGAATGTCATATCG
Found at i:25759790 original size:85 final size:85
Alignment explanation
Indices: 25759638--25759795 Score: 212
Period size: 85 Copynumber: 1.9 Consensus size: 85
25759628 CACAGTACCG
* * * *
25759638 TACCAATGCCATATCCCAGATATGGTCTTACATGTAATGTCGTATCGATGCCAATAGCCCAGCTA
1 TACCAATGCCATATCCCAGATATGGTCTTACACGTAATGTCATATCGATACCAATAGCCCAGATA
25759703 TGGTCTTACATGAAGTCTCA
66 TGGTCTTACATGAAGTCTCA
* * * *
25759723 TACCGATGCCATATCCCATATATGGTCTTACACG-AATGTCTAATATCGATACC-ATATCCTAGA
1 TACCAATGCCATATCCCAGATATGGTCTTACACGTAATGTC--ATATCGATACCAATAGCCCAGA
25759786 TATGGTCTTA
64 TATGGTCTTA
25759796 AATGTAATCT
Statistics
Matches: 63, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
84 6 0.10
85 48 0.76
86 9 0.14
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (85 bp):
TACCAATGCCATATCCCAGATATGGTCTTACACGTAATGTCATATCGATACCAATAGCCCAGATA
TGGTCTTACATGAAGTCTCA
Found at i:25760742 original size:26 final size:27
Alignment explanation
Indices: 25760697--25760758 Score: 124
Period size: 27 Copynumber: 2.3 Consensus size: 27
25760687 CCAAATTACT
25760697 AAAATGCCCTTAATGAAAAACTTTAGA
1 AAAATGCCCTTAATGAAAAACTTTAGA
25760724 AAAATGCCCTTAATGAAAAACTTTAGA
1 AAAATGCCCTTAATGAAAAACTTTAGA
25760751 AAAATGCC
1 AAAATGCC
25760759 TAACCATGTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.48, C:0.16, G:0.11, T:0.24
Consensus pattern (27 bp):
AAAATGCCCTTAATGAAAAACTTTAGA
Found at i:25760743 original size:16 final size:16
Alignment explanation
Indices: 25760697--25760743 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
25760687 CCAAATTACT
25760697 AAAATGCCCTTAATGA
1 AAAATGCCCTTAATGA
*
25760713 AAAA----CTTTA-GA
1 AAAATGCCCTTAATGA
25760724 AAAATGCCCTTAATGA
1 AAAATGCCCTTAATGA
25760740 AAAA
1 AAAA
25760744 CTTTAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 10
0.67 0.06 0.28
Matches are distributed among these distances:
11 6 0.25
12 4 0.17
15 4 0.17
16 10 0.42
ACGTcount: A:0.51, C:0.15, G:0.11, T:0.23
Consensus pattern (16 bp):
AAAATGCCCTTAATGA
Found at i:25761473 original size:40 final size:40
Alignment explanation
Indices: 25761414--25761626 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 40
25761404 ATATCTCGTG
* *
25761414 CACTAAGTGTCATACATAGCCGAAGCTATCTCAAATCACA
1 CACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCACA
* * * *
25761454 CAATAAGTGCCATATATAGCAGAAACTATGTCAAATCACA
1 CACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCACA
* ** *
25761494 CACTAAGTTCCATACT-T----G-A--TATCTC-TCTCGCA
1 CACTAAGTGCCATA-TATAGCCGAAGCTATCTCAAATCACA
*** * *
25761526 CACTAAGTGTGGTACATAGCCGAAGCTATCTCAAATCGCA
1 CACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCACA
** * *
25761566 CACTAAGTGCCATATATAGTAGAAGCTATGTCGAATCACA
1 CACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCACA
* *
25761606 CACTAAGTGCCACAAATAGCC
1 CACTAAGTGCCATATATAGCC
25761627 AAATTGTTGT
Statistics
Matches: 131, Mismatches: 32, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
32 15 0.11
33 5 0.04
35 1 0.01
36 2 0.02
37 1 0.01
39 6 0.05
40 100 0.76
41 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.15, T:0.24
Consensus pattern (40 bp):
CACTAAGTGCCATATATAGCCGAAGCTATCTCAAATCACA
Found at i:25761577 original size:112 final size:108
Alignment explanation
Indices: 25761384--25761617 Score: 351
Period size: 112 Copynumber: 2.1 Consensus size: 108
25761374 CAATGTCTCG
*
25761384 CACACTAAGTGCCATACTTGATATCTCGTGCACTAAGTGTCATACATAGCCGAAGCTATCTCAAA
1 CACACTAAGTGCCATACTTGATATCTCCTGCACTAAGTGTCATACATAGCCGAAGCTATCTCAAA
25761449 TCACACAATAAGTGCCATATATAGCAGAAACTATGTCAAATCA
66 TCACACAATAAGTGCCATATATAGCAGAAACTATGTCAAATCA
* **
25761492 CACACTAAGTTCCATACTTGATATCTCTCTCGCACACTAAGTGTGGTACATAGCCGAAGCTATCT
1 CACACTAAGTGCCATACTTGATATCTC-CT-G--CACTAAGTGTCATACATAGCCGAAGCTATCT
* * * * *
25761557 CAAATCGCACACTAAGTGCCATATATAGTAGAAGCTATGTCGAATCA
62 CAAATCACACAATAAGTGCCATATATAGCAGAAACTATGTCAAATCA
25761604 CACACTAAGTGCCA
1 CACACTAAGTGCCA
25761618 CAAATAGCCA
Statistics
Matches: 112, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
108 26 0.23
109 1 0.01
110 1 0.01
112 84 0.75
ACGTcount: A:0.35, C:0.25, G:0.15, T:0.25
Consensus pattern (108 bp):
CACACTAAGTGCCATACTTGATATCTCCTGCACTAAGTGTCATACATAGCCGAAGCTATCTCAAA
TCACACAATAAGTGCCATATATAGCAGAAACTATGTCAAATCA
Found at i:25762082 original size:17 final size:18
Alignment explanation
Indices: 25762043--25762082 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
25762033 TTTAACCACT
*
25762043 ACATTTCACCTTTTTTTG
1 ACATTTAACCTTTTTTTG
25762061 A-ATTTAACC-TTTTTTG
1 ACATTTAACCTTTTTTTG
25762077 ACATTT
1 ACATTT
25762083 TTGTTAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 8 0.40
17 11 0.55
18 1 0.05
ACGTcount: A:0.23, C:0.17, G:0.05, T:0.55
Consensus pattern (18 bp):
ACATTTAACCTTTTTTTG
Found at i:25768795 original size:47 final size:47
Alignment explanation
Indices: 25768727--25768945 Score: 232
Period size: 47 Copynumber: 4.7 Consensus size: 47
25768717 GCCACATTAT
* *
25768727 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTGACATGGAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC-TCGAGAC
* * *
25768775 GAGAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCCTCGAGAC
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACTCGAGAC
* ** *
25768821 GTA-AGCCAGTGTAAGA-CATGTCTGGGACAT-GCACCGGTTACGAGAT
1 G-AGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACT-CGAGAC
* * * * *
25768867 GATAGTCAGTGTAAGACCATGTCTGGGAAATGGCATCGACTTGAGAT
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGAC
*
25768914 GTGAGCCAGTGTAAGACCATGTCTGGGACATG
1 GAGAGCCAGTGTAAGACCATGTCTGGGACATG
25768946 ACACCAGCAC
Statistics
Matches: 144, Mismatches: 21, Indels: 13
0.81 0.12 0.07
Matches are distributed among these distances:
45 3 0.02
46 58 0.40
47 62 0.43
48 21 0.15
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (47 bp):
GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTCGAGAC
Found at i:25768945 original size:140 final size:140
Alignment explanation
Indices: 25768688--25768945 Score: 358
Period size: 140 Copynumber: 1.8 Consensus size: 140
25768678 TGTGTGAGCT
* *
25768688 AGTGGAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGGAAGACATGTCTGGGACATGCACCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
* * *
25768753 GACATGGCATTGACATGGAGACGAGAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA
66 GAAATGGCATCGACATGGAGACGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA
25768818 GACGTAAGCC
131 GACGTAAGCC
* ** * *
25768828 AGTGTAAGACATGTCTGGGACATGCACCGGTTACGA-GATGATAGTCAGTGTAAGACCATGTCTG
1 AGTGGAAGACATGTCTGGGACATGCACCGGCCAC-ATGATGAGAGCCAGTGTAAGACCATGTCTG
* * * *
25768892 GGAAATGGCATCGAC-TTGAGATGTGAGCCAGTGTAAGACCATGTCTGGGACATG
65 GGAAATGGCATCGACATGGAGACGAGAGCCAGTGTAAGA-CATGTCTAGGACATG
25768946 ACACCAGCAC
Statistics
Matches: 102, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
139 19 0.19
140 82 0.80
141 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.31, T:0.22
Consensus pattern (140 bp):
AGTGGAAGACATGTCTGGGACATGCACCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTGG
GAAATGGCATCGACATGGAGACGAGAGCCAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGA
GACGTAAGCC
Found at i:25769242 original size:17 final size:17
Alignment explanation
Indices: 25769220--25769259 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
25769210 TTATATGCAC
25769220 CTTACTAAGCTTTTATG
1 CTTACTAAGCTTTTATG
25769237 CTTACTAAGCTTTTATG
1 CTTACTAAGCTTTTATG
25769254 CTTACT
1 CTTACT
25769260 CCTTTTCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.23, C:0.20, G:0.10, T:0.47
Consensus pattern (17 bp):
CTTACTAAGCTTTTATG
Found at i:25769693 original size:30 final size:30
Alignment explanation
Indices: 25769657--25769720 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
25769647 CACGGGTAGG
25769657 CACACGGACGTGTGTCTAGGCCGTGTGTGA
1 CACACGGACGTGTGTCTAGGCCGTGTGTGA
*
25769687 CACACGGATGTGTGTCTAGGCCGTGTGTGA
1 CACACGGACGTGTGTCTAGGCCGTGTGTGA
25769717 CACA
1 CACA
25769721 TGGTCTACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.19, C:0.23, G:0.34, T:0.23
Consensus pattern (30 bp):
CACACGGACGTGTGTCTAGGCCGTGTGTGA
Found at i:25771877 original size:40 final size:40
Alignment explanation
Indices: 25771807--25771917 Score: 125
Period size: 40 Copynumber: 2.8 Consensus size: 40
25771797 CTCGATATCT
* * * *
25771807 TGCACACTAAGTGTCGTACATAGCCGAAGCTAT-CCCAAA
1 TGCACACTAAGTGCCATATATACCCGAAGCTATGCCCAAA
* * ***
25771846 TCGGACACTAAGTGCCATATATACCCAAAGCTATGTTGAAA
1 T-GCACACTAAGTGCCATATATACCCGAAGCTATGCCCAAA
25771887 TGCACACTAAGTGCCATATATACCCGAAGCT
1 TGCACACTAAGTGCCATATATACCCGAAGCT
25771918 TTGTCGAATC
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
39 1 0.02
40 54 0.92
41 4 0.07
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (40 bp):
TGCACACTAAGTGCCATATATACCCGAAGCTATGCCCAAA
Found at i:25771933 original size:40 final size:40
Alignment explanation
Indices: 25771850--25771942 Score: 134
Period size: 40 Copynumber: 2.3 Consensus size: 40
25771840 CCCAAATCGG
* *
25771850 ACACTAAGTGCCATATATACCCAAAGCTATGTTGAAATGC
1 ACACTAAGTGCCATATATACCCAAAGCTATGTCGAAATAC
* *
25771890 ACACTAAGTGCCATATATACCCGAAGCTTTGTCG-AATCAC
1 ACACTAAGTGCCATATATACCCAAAGCTATGTCGAAAT-AC
25771930 ACACTAAGTGCCA
1 ACACTAAGTGCCA
25771943 CAAATAATTG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 3 0.06
40 45 0.94
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (40 bp):
ACACTAAGTGCCATATATACCCAAAGCTATGTCGAAATAC
Found at i:25773814 original size:27 final size:26
Alignment explanation
Indices: 25773766--25773817 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
25773756 GCGAGGCTGC
*
25773766 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
25773792 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
25773818 TTACAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:25774443 original size:26 final size:27
Alignment explanation
Indices: 25774414--25774467 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
25774404 TCACACAAGT
*
25774414 TAGTCATTT-ACGCACGAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
* *
25774440 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTTAACACACGAGGGGCAAAA
25774467 T
1 T
25774468 GGTAATTTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 9 0.38
27 15 0.62
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
TAGTCATTTAACACACGAGGGGCAAAA
Found at i:25774498 original size:27 final size:26
Alignment explanation
Indices: 25774468--25774640 Score: 184
Period size: 27 Copynumber: 6.4 Consensus size: 26
25774458 GGGGCAAAAT
* * *
25774468 GGTAATTTTATCCCACAAGGGTATCTC
1 GGTAATTCTA-CCCACAGGGGTATTTC
* * *
25774495 GGTAATTCTTTCCTACAGGGGTATTTT
1 GGTAATTC-TACCCACAGGGGTATTTC
* * *
25774522 GGTATTTCTACCCTATAAGGGTATTTC
1 GGTAATTCTACCC-ACAGGGGTATTTC
* *
25774549 GGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTA-CCCACAGGGGTATTTC
25774576 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCC-ACAGGGGTATTTC
*
25774603 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACC-CACAGGGGTATTTC
25774630 GGTAATTCTAC
1 GGTAATTCTAC
25774641 AACTTATCCA
Statistics
Matches: 123, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
26 5 0.04
27 115 0.93
28 3 0.02
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (26 bp):
GGTAATTCTACCCACAGGGGTATTTC
Found at i:25774543 original size:54 final size:54
Alignment explanation
Indices: 25774468--25774640 Score: 233
Period size: 54 Copynumber: 3.2 Consensus size: 54
25774458 GGGGCAAAAT
* * *
25774468 GGTAATTTTATCCC-ACAAGGGTATCTCGGTAATTCTTTCCTACAGGGGTATTTT
1 GGTAATTCTA-CCCTACAAGGGTATTTCGGTAATTCTTTCCTACAGGGGTATTTC
* * * *
25774522 GGTATTTCTACCCTATAAGGGTATTTCGGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTTTCCTACAGGGGTATTTC
* *
25774576 GGTAATTCTACCCTACAGGGGTATTTCGGTAATTC-TACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTTTCC-TACAGGGGTATTTC
25774630 GGTAATTCTAC
1 GGTAATTCTAC
25774641 AACTTATCCA
Statistics
Matches: 104, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
53 5 0.05
54 99 0.95
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (54 bp):
GGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTTTCCTACAGGGGTATTTC
Found at i:25774572 original size:81 final size:81
Alignment explanation
Indices: 25774468--25774639 Score: 236
Period size: 81 Copynumber: 2.1 Consensus size: 81
25774458 GGGGCAAAAT
* ** * *
25774468 GGTAATTTTATCCCACAAGGGTATCTCGGTAATTCTTTCCTACAGGGGTATTTTGGTATTTCTAC
1 GGTAATTCTATCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
*
25774533 CCTATAAGGGTATTTC
66 CCTACAAGGGTATTTC
* * * *
25774549 GGTAATTCTATCCTATAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
1 GGTAATTCTATCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
* *
25774614 CTTACAGGGGTATTTC
66 CCTACAAGGGTATTTC
25774630 GGTAATTCTA
1 GGTAATTCTA
25774640 CAACTTATCC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.38
Consensus pattern (81 bp):
GGTAATTCTATCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTAC
CCTACAAGGGTATTTC
Found at i:25781291 original size:27 final size:27
Alignment explanation
Indices: 25781261--25781379 Score: 166
Period size: 27 Copynumber: 4.4 Consensus size: 27
25781251 GGGGAAAAAT
* * * *
25781261 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
25781288 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
25781315 GGTATTTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
25781342 GATAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
25781369 GGTAATTCTAC
1 GGTAATTCTAC
25781380 AACTTATCTA
Statistics
Matches: 80, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 80 1.00
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:25784099 original size:15 final size:15
Alignment explanation
Indices: 25784079--25784107 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25784069 ATGCCTCACA
25784079 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
25784094 CACCGTGTTATCAA
1 CACCGTGTTATCAA
25784108 GCAACAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:25785303 original size:15 final size:17
Alignment explanation
Indices: 25785272--25785303 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
25785262 TGCCCCTTAA
25785272 TAACATCAACACACAAC
1 TAACATCAACACACAAC
25785289 TAAC-TCAAC-CACAAC
1 TAACATCAACACACAAC
25785304 CAAGTGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.50, C:0.38, G:0.00, T:0.12
Consensus pattern (17 bp):
TAACATCAACACACAAC
Found at i:25786424 original size:37 final size:37
Alignment explanation
Indices: 25786374--25786452 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
25786364 TTATTACGAA
* * *
25786374 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
25786411 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
25786448 GTCTT
1 GTCTT
25786453 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:25786776 original size:47 final size:47
Alignment explanation
Indices: 25786707--25786963 Score: 514
Period size: 47 Copynumber: 5.5 Consensus size: 47
25786697 TTTCCAAAGT
25786707 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
25786754 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
25786801 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
25786848 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
25786895 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
1 TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
25786942 TCACATCGGCCATTAGGCCTTA
1 TCACATCGGCCATTAGGCCTTA
25786964 CTATCATTTC
Statistics
Matches: 210, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 210 1.00
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
TCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCA
Found at i:25808517 original size:14 final size:14
Alignment explanation
Indices: 25808498--25808524 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25808488 GTGAATTAAT
25808498 TTAAAATTAAAATA
1 TTAAAATTAAAATA
25808512 TTAAAATTAAAAT
1 TTAAAATTAAAAT
25808525 TTTCAAAAGA
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:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
TTAAAATTAAAATA
Found at i:25812967 original size:18 final size:18
Alignment explanation
Indices: 25812944--25812981 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
25812934 TTATAGGATT
25812944 AAAATATGTTT-AGGATAA
1 AAAATATGTTTGA-GATAA
25812962 AAAATATGTTTGAGATAA
1 AAAATATGTTTGAGATAA
25812980 AA
1 AA
25812982 GTATTGTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.32
Consensus pattern (18 bp):
AAAATATGTTTGAGATAA
Found at i:25816787 original size:14 final size:14
Alignment explanation
Indices: 25816765--25816818 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
25816755 TTAATTATCA
*
25816765 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
*
25816779 TTATGGTTTAGGAT
1 TTATGGTTTAGGGT
* *
25816793 ATATGGTGTAGGGT
1 TTATGGTTTAGGGT
*
25816807 TTAAGGTTTAGG
1 TTATGGTTTAGG
25816819 AGTTACTATT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.22, C:0.00, G:0.33, T:0.44
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:25816923 original size:29 final size:28
Alignment explanation
Indices: 25816884--25816974 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 28
25816874 AACAGTTGGA
25816884 GTTTAAGGTTTAGGGGTTAAGGGTTAGAG
1 GTTTAAGGTTTA-GGGTTAAGGGTTAGAG
* * *
25816913 GTTTATGGTTTAGAGTCTAAGGGTTATAG
1 GTTTAAGGTTTAGGGT-TAAGGGTTAGAG
25816942 G-TTAAGGGTTTAGGGTTAAGGGTTTAG-G
1 GTTTAA-GGTTTAGGGTTAAGGG-TTAGAG
25816970 GTTTA
1 GTTTA
25816975 GGATATAGGG
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
28 14 0.27
29 38 0.73
ACGTcount: A:0.23, C:0.01, G:0.37, T:0.38
Consensus pattern (28 bp):
GTTTAAGGTTTAGGGTTAAGGGTTAGAG
Found at i:25816971 original size:14 final size:14
Alignment explanation
Indices: 25816886--25816986 Score: 91
Period size: 14 Copynumber: 7.1 Consensus size: 14
25816876 CAGTTGGAGT
25816886 TTAA-GGTTTAGGGG
1 TTAAGGGTTTA-GGG
25816900 TTAAGGG-TTAGAGG
1 TTAAGGGTTTAG-GG
* * *
25816914 TTTATGGTTTAGAG
1 TTAAGGGTTTAGGG
25816928 TCTAAGGGTTATA-GG
1 T-TAAGGGTT-TAGGG
25816943 TTAAGGGTTTAGGG
1 TTAAGGGTTTAGGG
25816957 TTAAGGGTTTAGGG
1 TTAAGGGTTTAGGG
* * *
25816971 TTTAGGATATAGGG
1 TTAAGGGTTTAGGG
25816985 TT
1 TT
25816987 TAAAGTTTAG
Statistics
Matches: 72, Mismatches: 9, Indels: 12
0.77 0.10 0.13
Matches are distributed among these distances:
13 3 0.04
14 53 0.74
15 14 0.19
16 2 0.03
ACGTcount: A:0.24, C:0.01, G:0.38, T:0.38
Consensus pattern (14 bp):
TTAAGGGTTTAGGG
Found at i:25816973 original size:7 final size:7
Alignment explanation
Indices: 25816884--25817002 Score: 80
Period size: 7 Copynumber: 16.7 Consensus size: 7
25816874 AACAGTTGGA
*
25816884 GTTTAAG
1 GTTTAGG
25816891 GTTTAGGG
1 GTTTA-GG
*
25816899 GTTAAGG
1 GTTTAGG
25816906 G-TTAGAG
1 GTTTAG-G
*
25816913 GTTTATG
1 GTTTAGG
*
25816920 GTTTAGA
1 GTTTAGG
*
25816927 GTCTAAGG
1 GT-TTAGG
25816935 GTTATA-G
1 GTT-TAGG
*
25816942 GTTAAGG
1 GTTTAGG
25816949 GTTTAGG
1 GTTTAGG
*
25816956 GTTAAGG
1 GTTTAGG
25816963 GTTTAGG
1 GTTTAGG
25816970 GTTTAGG
1 GTTTAGG
* *
25816977 ATATAGG
1 GTTTAGG
**
25816984 GTTTAAA
1 GTTTAGG
*
25816991 GTTTAGT
1 GTTTAGG
25816998 GTTTA
1 GTTTA
25817003 TGCATGGGAT
Statistics
Matches: 85, Mismatches: 21, Indels: 12
0.72 0.18 0.10
Matches are distributed among these distances:
6 4 0.05
7 67 0.79
8 14 0.16
ACGTcount: A:0.24, C:0.01, G:0.35, T:0.39
Consensus pattern (7 bp):
GTTTAGG
Found at i:25817417 original size:61 final size:61
Alignment explanation
Indices: 25817348--25817472 Score: 214
Period size: 61 Copynumber: 2.0 Consensus size: 61
25817338 GTGGCATTTC
*
25817348 TTAAAAAACGCCGCAAAAAACATAATAGTTTAACAAAAATGGCATCGTTTTAATTGGAGAT
1 TTAAAAAACGCCGCAAAAAACATAATAGTTTAACAAAAACGGCATCGTTTTAATTGGAGAT
* * *
25817409 TTAAAAAACGCCGCAAAAAACATAGTAGTTTAACGAAAACGGCATTGTTTTAATTGGAGAT
1 TTAAAAAACGCCGCAAAAAACATAATAGTTTAACAAAAACGGCATCGTTTTAATTGGAGAT
25817470 TTA
1 TTA
25817473 GGGGATTAGC
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (61 bp):
TTAAAAAACGCCGCAAAAAACATAATAGTTTAACAAAAACGGCATCGTTTTAATTGGAGAT
Found at i:25817527 original size:84 final size:83
Alignment explanation
Indices: 25817411--25817627 Score: 267
Period size: 84 Copynumber: 2.6 Consensus size: 83
25817401 TTGGAGATTT
* * * * *
25817411 AAAAAACGCCGCAAAAAACATAGTAGTTTAACGAAAACGGCATTGTTTTAATTGGAGATTTAGGG
1 AAAAAACGCCGCAAAAAACAAAATAGTATAACGAAAACGGCATCGTTTTAATTGAAGATTTAGGG
* *
25817476 GATTAGCGGA-ATTTTTTG
66 GAGTAGC-GACATTTTTTA
* *
25817494 AAAAAATGCCGCAAGAAAACAAAATAGTATAACGAAAACGGCGTCGTTTTAATTGAAGATTTAGG
1 AAAAAACGCCGCAA-AAAACAAAATAGTATAACGAAAACGGCATCGTTTTAATTGAAGATTTAGG
25817559 GGAGTAGCGACATTTTTTA
65 GGAGTAGCGACATTTTTTA
* * * *
25817578 AAAAAACGCCGCAAAAAAACATAGTAGCT-TAATGAAAACGGCGTCGTTTT
1 AAAAAACGCCGC-AAAAAACAAAATAG-TATAACGAAAACGGCATCGTTTT
25817628 CATATATTTC
Statistics
Matches: 117, Mismatches: 13, Indels: 7
0.85 0.09 0.05
Matches are distributed among these distances:
83 15 0.13
84 99 0.85
85 3 0.03
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (83 bp):
AAAAAACGCCGCAAAAAACAAAATAGTATAACGAAAACGGCATCGTTTTAATTGAAGATTTAGGG
GAGTAGCGACATTTTTTA
Found at i:25826219 original size:29 final size:28
Alignment explanation
Indices: 25826183--25826253 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 28
25826173 TCATGAGATT
*
25826183 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGAGTTTAAA--GTACA
*
25826213 -GCACTAAGTGTGTGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGAGTTTAAAGTACA
25826240 TGGCACTAAGTGTG
1 -GGCACTAAGTGTG
25826254 AGCGGTTGAT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
27 5 0.14
29 32 0.86
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.30
Consensus pattern (28 bp):
GGCACTAAGTGTGCGAGTTTAAAGTACA
Found at i:25826395 original size:29 final size:29
Alignment explanation
Indices: 25826362--25826429 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
25826352 GCGGAAAATG
25826362 TAAGTGTGCGAACTTGAAA-TGCATGGCAC
1 TAAGTGTGCG-ACTTGAAAGTGCATGGCAC
* * *
25826391 TAAGTGTGTGAGTTTAAAGTGCATGGCAC
1 TAAGTGTGCGACTTGAAAGTGCATGGCAC
25826420 TAAGTGTGCG
1 TAAGTGTGCG
25826430 CGGTTGATTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 6 0.18
29 28 0.82
ACGTcount: A:0.28, C:0.13, G:0.31, T:0.28
Consensus pattern (29 bp):
TAAGTGTGCGACTTGAAAGTGCATGGCAC
Found at i:25826478 original size:174 final size:174
Alignment explanation
Indices: 25826213--25826540 Score: 611
Period size: 174 Copynumber: 1.9 Consensus size: 174
25826203 AAATTGTACA
25826213 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGAGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGAGCGGTTGATTATTAAGCACTATG
*
25826278 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
*
25826343 TTTTGAACAGCGGAAAATGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGAACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
25826387 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGAGCGGTTGATTATTAAGCACTATG
25826452 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
*
25826517 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGAACAGCGGAAAAGGTAAGT
25826541 ACCTTGAGTT
Statistics
Matches: 149, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
174 149 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGAGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGAACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:25827497 original size:84 final size:84
Alignment explanation
Indices: 25827351--25827517 Score: 316
Period size: 84 Copynumber: 2.0 Consensus size: 84
25827341 AGTGACGTGA
* *
25827351 GATTGAAAAATCACTAAAACTAGTAGGAGTGGAATTAATTGATGAATAAATTATGTATTCGAAGC
1 GATTAAAAAATCACTAAAAATAGTAGGAGTGGAATTAATTGATGAATAAATTATGTATTCGAAGC
25827416 TCGATGAGTCTATTTTCAG
66 TCGATGAGTCTATTTTCAG
25827435 GATTAAAAAATCACTAAAAATAGTAGGAGTGGAATTAATTGATGAATAAATTATGTATTCGAAGC
1 GATTAAAAAATCACTAAAAATAGTAGGAGTGGAATTAATTGATGAATAAATTATGTATTCGAAGC
25827500 TCGATGAGTCTATTTTCA
66 TCGATGAGTCTATTTTCA
25827518 TATAGAAGCA
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.32
Consensus pattern (84 bp):
GATTAAAAAATCACTAAAAATAGTAGGAGTGGAATTAATTGATGAATAAATTATGTATTCGAAGC
TCGATGAGTCTATTTTCAG
Found at i:25828467 original size:20 final size:21
Alignment explanation
Indices: 25828442--25828481 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
25828432 GAGAAAGAAG
25828442 ATGAAAGAA-ATAATGAAAAA
1 ATGAAAGAATATAATGAAAAA
*
25828462 ATGAAAGAATATCATGAAAA
1 ATGAAAGAATATAATGAAAA
25828482 TGAGGGTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.65, C:0.03, G:0.15, T:0.17
Consensus pattern (21 bp):
ATGAAAGAATATAATGAAAAA
Found at i:25833840 original size:21 final size:21
Alignment explanation
Indices: 25833802--25833842 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
25833792 TGGATAAGCC
*
25833802 ACCACATAATTATCGATAAAG
1 ACCACATAATTAGCGATAAAG
25833823 ACCACATAATT-GCAGATAAA
1 ACCACATAATTAGC-GATAAA
25833843 CTGCCACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.22
Consensus pattern (21 bp):
ACCACATAATTAGCGATAAAG
Found at i:25849077 original size:39 final size:39
Alignment explanation
Indices: 25848833--25849095 Score: 219
Period size: 40 Copynumber: 6.6 Consensus size: 39
25848823 TTGAATGCTG
* * * * *
25848833 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
25848873 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
25848912 TTCCGGGTTAAGCCCCAAAGGCATTTGTGCGAGATAC-AAA
1 -TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGATACTAAA
* * *
25848952 TTCTGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* * **
25848993 ACCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
25849033 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
25849072 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
25849096 TGAACGAGGA
Statistics
Matches: 189, Mismatches: 26, Indels: 17
0.81 0.11 0.07
Matches are distributed among these distances:
39 39 0.21
40 136 0.72
41 13 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:25849115 original size:79 final size:80
Alignment explanation
Indices: 25848956--25849130 Score: 201
Period size: 79 Copynumber: 2.2 Consensus size: 80
25848946 TACAAATTCT
* * * **
25848956 GGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAAACCGGGTTAAGTCCCGAAGGCATTCGTG
1 GGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
** *
25849021 CGAGTTGTTAAATCC
66 CGAGGAGCTAAATCC
* * * * *
25849036 GGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTGAA
1 GGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
*
25849100 CGAGGAGCTATATCC
66 CGAGGAGCTAAATCC
*
25849115 -GGTTAAATCCCGAAGG
1 GGGTTAAGTCCCGAAGG
25849131 TACGTGATTT
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
78 14 0.18
79 50 0.63
80 15 0.19
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (80 bp):
GGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTCGAA
CGAGGAGCTAAATCC
Found at i:25856896 original size:80 final size:80
Alignment explanation
Indices: 25856760--25857023 Score: 261
Period size: 80 Copynumber: 3.3 Consensus size: 80
25856750 TGAATGCTGT
* * ** **
25856760 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGA-ATATATCCGGACTAAGATCCGAAGGCAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TGACA-A-ATCCGGGTTAAGCCCCGAAGGCAT
*
25856822 TTGTGCGAGATAC-AAATT
63 TTGTGCGAGATACTAAA-A
* *
25856840 CCGGGTTAAGCCCCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGGCATTT
25856904 GTGCGAGATACTAAAA
65 GTGCGAGATACTAAAA
* * * ** * *
25856920 CCGGGTTAAGTCCCGAAAGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCA-TTG
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTTG
* *
25856984 TGTGAGTTACTAAAA
66 TGCGAGATACTAAAA
* *
25856999 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGTTAAGTCCCGAAGGCATTTG
25857024 AACGAGGAGC
Statistics
Matches: 154, Mismatches: 24, Indels: 13
0.81 0.13 0.07
Matches are distributed among these distances:
79 38 0.25
80 99 0.64
81 16 0.10
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTTG
TGCGAGATACTAAAA
Found at i:25857003 original size:39 final size:39
Alignment explanation
Indices: 25856759--25857021 Score: 228
Period size: 40 Copynumber: 6.6 Consensus size: 39
25856749 TTGAATGCTG
* * * * *
25856759 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
25856799 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
*
25856838 TTCCGGGTTAAGCCCCGAAGGCATTTGTGCGAGATAC-AAA
1 -TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
25856878 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* * * **
25856919 ACCGGGTTAAGTCCCGAAAGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
25856959 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
25856998 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
25857022 TGAACGAGGA
Statistics
Matches: 191, Mismatches: 24, Indels: 17
0.82 0.10 0.07
Matches are distributed among these distances:
39 39 0.20
40 138 0.72
41 13 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:25857041 original size:79 final size:80
Alignment explanation
Indices: 25856879--25857056 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
25856869 AGATACAAAT
* * *
25856879 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAAACCGGGTTAAGTCCCGAAAGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAAGCATTC
** ** *
25856944 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * * *
25856959 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAAGCATTC
*
25857023 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
25857038 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
25857057 TACGTGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAAGCATTC
GAACGAGGAGCTAAA
Found at i:25875812 original size:17 final size:17
Alignment explanation
Indices: 25875787--25875836 Score: 77
Period size: 17 Copynumber: 3.1 Consensus size: 17
25875777 TGTAAATAAT
25875787 AACTACTAGAAATCATA
1 AACTACTAGAAATCATA
*
25875804 AATTACTAGAAATC--A
1 AACTACTAGAAATCATA
25875819 AACTACTAGAAATCATA
1 AACTACTAGAAATCATA
25875836 A
1 A
25875837 TTAGCTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 14 0.48
17 15 0.52
ACGTcount: A:0.54, C:0.16, G:0.06, T:0.24
Consensus pattern (17 bp):
AACTACTAGAAATCATA
Found at i:25875827 original size:15 final size:15
Alignment explanation
Indices: 25875787--25875833 Score: 67
Period size: 15 Copynumber: 3.0 Consensus size: 15
25875777 TGTAAATAAT
25875787 AACTACTAGAAATCATA
1 AACTACTAGAAATC--A
*
25875804 AATTACTAGAAATCA
1 AACTACTAGAAATCA
25875819 AACTACTAGAAATCA
1 AACTACTAGAAATCA
25875834 TAATTAGCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
15 15 0.54
17 13 0.46
ACGTcount: A:0.53, C:0.17, G:0.06, T:0.23
Consensus pattern (15 bp):
AACTACTAGAAATCA
Found at i:25877595 original size:28 final size:28
Alignment explanation
Indices: 25877563--25877618 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
25877553 TTTTGACTAG
25877563 TAGGAGTAATATTACAGGTGAAAAAATT
1 TAGGAGTAATATTACAGGTGAAAAAATT
* *
25877591 TAGGAGTAATATTAGAGGTGCAAAAATT
1 TAGGAGTAATATTACAGGTGAAAAAATT
25877619 AGTTTTTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.23, T:0.29
Consensus pattern (28 bp):
TAGGAGTAATATTACAGGTGAAAAAATT
Found at i:25880927 original size:21 final size:22
Alignment explanation
Indices: 25880901--25880941 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
25880891 CAAGTCTATC
*
25880901 AAATAAACATA-AACTTCAAAG
1 AAATAAACATACAAATTCAAAG
*
25880922 AAATAAGCATACAAATTCAA
1 AAATAAACATACAAATTCAA
25880942 CCATTTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.61, C:0.15, G:0.05, T:0.20
Consensus pattern (22 bp):
AAATAAACATACAAATTCAAAG
Found at i:25881611 original size:42 final size:41
Alignment explanation
Indices: 25881518--25881619 Score: 150
Period size: 42 Copynumber: 2.5 Consensus size: 41
25881508 TGAAATGGCC
* *
25881518 CTGCTCACACGAGCTGTGGGTCGGCATGTAGCTACACGATG
1 CTGCTCACACGAGCTGTGGGTCAGAATGTAGCTACACGATG
*
25881559 CTACTCACACGAGCTGTGGGTCAGAATGTAAGCTACACGATG
1 CTGCTCACACGAGCTGTGGGTCAGAATGT-AGCTACACGATG
* *
25881601 CTGCTTACACGAGTTGTGG
1 CTGCTCACACGAGCTGTGG
25881620 AGAATTCACA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
41 26 0.48
42 28 0.52
ACGTcount: A:0.23, C:0.25, G:0.29, T:0.24
Consensus pattern (41 bp):
CTGCTCACACGAGCTGTGGGTCAGAATGTAGCTACACGATG
Found at i:25891239 original size:17 final size:17
Alignment explanation
Indices: 25891217--25891251 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
25891207 CATAGATATT
25891217 AACTAACACAAAAATAA
1 AACTAACACAAAAATAA
**
25891234 AACTAATGCAAAAATAA
1 AACTAACACAAAAATAA
25891251 A
1 A
25891252 TACATAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.69, C:0.14, G:0.03, T:0.14
Consensus pattern (17 bp):
AACTAACACAAAAATAA
Found at i:25899777 original size:75 final size:77
Alignment explanation
Indices: 25899654--25899864 Score: 336
Period size: 75 Copynumber: 2.8 Consensus size: 77
25899644 TGAGTCCCCC
* * * *
25899654 AAGGGGTTGCTAAGTGTTGTTTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTA-T
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATATT
25899718 TTTAAATGTG-A
66 TTTAAATGTGAA
*
25899729 AAGGGGTTACTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATATT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATATT
*
25899794 TTTGAATGTGAA
66 TTTAAATGTGAA
* *
25899806 AAGGGGTTGCTAAGTGCTAATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGAATCCAC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCAC
25899865 TGATAACGGA
Statistics
Matches: 125, Mismatches: 9, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
75 58 0.46
76 10 0.08
77 57 0.46
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (77 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGTGGTTGCTAAGTGCTGATTCCACCATATT
TTTAAATGTGAA
Found at i:25899780 original size:33 final size:33
Alignment explanation
Indices: 25899733--25899858 Score: 101
Period size: 33 Copynumber: 3.5 Consensus size: 33
25899723 ATGTGAAAGG
*
25899733 GGTTACTAAGTGCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* *
25899766 GGTTGCTAAGTGCTGATTCCACC-ATATTTTTGAATGTGAAAAGG
1 GGTTGCTAAGTGCTGATTCC-CCGA-A----T-CAT-TG----GT
*
25899810 GGTTGCTAAGTGCTAATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
25899843 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
25899859 ATCCACTGAT
Statistics
Matches: 73, Mismatches: 7, Indels: 26
0.69 0.07 0.25
Matches are distributed among these distances:
33 36 0.49
34 3 0.04
37 2 0.03
38 3 0.04
39 3 0.04
40 2 0.03
43 3 0.04
44 21 0.29
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:25915613 original size:71 final size:69
Alignment explanation
Indices: 25915528--25915673 Score: 220
Period size: 71 Copynumber: 2.1 Consensus size: 69
25915518 TATTATCTTC
*
25915528 AAGTAAGTTTTTTTATTTAAAAAAATTTATGAGCCAGATAATGAAAATAGAGACCCCAAATACGG
1 AAGTAAGTTTTTTTATTTAAAAAAATTTATGAGCCAGATAATCAAAATAGAGACCCCAAATACGG
25915593 AAGA
66 AAGA
* * * * *
25915597 AAGTAAGTTTTTTTTTATTTAAAAAACTTTGTGAGCCAGATAATCAAAATAGAGATCCTAAATAT
1 AAGTAAG--TTTTTTTATTTAAAAAAATTTATGAGCCAGATAATCAAAATAGAGACCCCAAATAC
25915662 GGAAGA
64 GGAAGA
25915668 AAGTAA
1 AAGTAA
25915674 ATCAACACAC
Statistics
Matches: 69, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
69 7 0.10
71 62 0.90
ACGTcount: A:0.45, C:0.09, G:0.16, T:0.30
Consensus pattern (69 bp):
AAGTAAGTTTTTTTATTTAAAAAAATTTATGAGCCAGATAATCAAAATAGAGACCCCAAATACGG
AAGA
Found at i:25919514 original size:20 final size:20
Alignment explanation
Indices: 25919472--25919514 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
25919462 CTAACCAAAG
** *
25919472 ATATACTATAAATATTAATA
1 ATATACTATAAATAGAAAAA
25919492 ATATACTATAAATAGAAAAA
1 ATATACTATAAATAGAAAAA
25919512 ATA
1 ATA
25919515 AATGCAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (20 bp):
ATATACTATAAATAGAAAAA
Found at i:25949725 original size:16 final size:16
Alignment explanation
Indices: 25949704--25949736 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25949694 TCTAATGAGG
25949704 TTTTTTT-TTTCTAAA
1 TTTTTTTATTTCTAAA
*
25949719 TTTTTTTATTTCTCAA
1 TTTTTTTATTTCTAAA
25949735 TT
1 TT
25949737 AGGTGCTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTTTTATTTCTAAA
Found at i:25964418 original size:26 final size:27
Alignment explanation
Indices: 25964389--25964439 Score: 86
Period size: 26 Copynumber: 1.9 Consensus size: 27
25964379 GACCGTAATG
25964389 CCCCTAGAGGGTAAATGACT-ATTTTT
1 CCCCTAGAGGGTAAATGACTGATTTTT
*
25964415 CCCCTCGAGGGTAAATGACTGATTT
1 CCCCTAGAGGGTAAATGACTGATTT
25964440 GTGCTATGGT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 19 0.83
27 4 0.17
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (27 bp):
CCCCTAGAGGGTAAATGACTGATTTTT
Found at i:25970231 original size:17 final size:17
Alignment explanation
Indices: 25970209--25970243 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
25970199 CATAGATATT
25970209 AACTAACACAAAAATAA
1 AACTAACACAAAAATAA
**
25970226 AACTAATGCAAAAATAA
1 AACTAACACAAAAATAA
25970243 A
1 A
25970244 TACATAAAGT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.69, C:0.14, G:0.03, T:0.14
Consensus pattern (17 bp):
AACTAACACAAAAATAA
Found at i:25972611 original size:16 final size:16
Alignment explanation
Indices: 25972590--25972657 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
25972580 TTTGGTTCGC
25972590 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
25972606 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
25972622 TGTATTGGATTAAAGG
1 TGTATTGGATTAGAGG
25972638 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
25972654 TGTA
1 TGTA
25972658 ATAGCAAATC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:25972913 original size:16 final size:16
Alignment explanation
Indices: 25972873--25972927 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
25972863 TTAATCATAT
*
25972873 TTAAACATA-ATTTTTA
1 TTAAA-ATATATTTTAA
25972889 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
25972904 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
25972922 -TAAAAT
1 TTAAAAT
25972928 TCTTAATAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:25972920 original size:18 final size:17
Alignment explanation
Indices: 25972893--25972927 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25972883 TTTTTATTAA
*
25972893 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
25972911 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
25972928 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:25973040 original size:18 final size:17
Alignment explanation
Indices: 25973013--25973047 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
25973003 TTACTATTAA
*
25973013 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
25973031 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
25973048 TCTTAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:25973093 original size:61 final size:60
Alignment explanation
Indices: 25972908--25973098 Score: 155
Period size: 61 Copynumber: 3.2 Consensus size: 60
25972898 TTTTAATTAA
* *
25972908 AATATATAATTTAATAAAATTCTTAATAATT-AATATTCTTATATTAATTTACTGAAATCAT
1 AATATATAATTTAATAAAATTCTTAAT-ATTAAATATTCTTATATAAATTTTCT-AAATCAT
* * * * * *
25972969 AATATATGATACT-GTAAAA-T-ATAA-ATTAACATAATTAC-TAT-TAAATATATT-TTAATTA
1 AATATATAAT-TTAATAAAATTCTTAATATTAA-AT-ATT-CTTATATAAAT-T-TTCTAAATCA
*
25973027 A
60 T
*
25973028 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTTCTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCT-AAATCAT
25973089 AATATATAAT
1 AATATATAAT
25973099 ACTATGAAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 30
0.68 0.12 0.21
Matches are distributed among these distances:
57 3 0.03
58 2 0.02
59 30 0.31
60 18 0.18
61 39 0.40
62 6 0.06
ACGTcount: A:0.48, C:0.06, G:0.02, T:0.44
Consensus pattern (60 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATAAATTTTCTAAATCAT
Found at i:25973176 original size:120 final size:120
Alignment explanation
Indices: 25972871--25973154 Score: 446
Period size: 120 Copynumber: 2.4 Consensus size: 120
25972861 ATTTAATCAT
*
25972871 ATTTAAACATAATTTTTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAAT-
* * * *
25972936 ATT-AATATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATA
64 ATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
* *
25972992 AATTAACATAATTACTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
* *
25973057 TAAATATTCTTATATGAATTTTCTAAAATCATAATATATAATACTATGAAATATA
66 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
*
25973112 ATTTAACATAATTATTATTAAATATAATTTAA-TAAAATATATA
1 ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATA
25973155 TTTTCAATTA
Statistics
Matches: 150, Mismatches: 12, Indels: 4
0.90 0.07 0.02
Matches are distributed among these distances:
119 14 0.09
120 133 0.89
121 3 0.02
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
ATTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATA
Found at i:25983881 original size:77 final size:75
Alignment explanation
Indices: 25983641--25983920 Score: 347
Period size: 69 Copynumber: 3.8 Consensus size: 75
25983631 TGATTCCCCC
* **
25983641 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTTAGTGCTGATTCCACCATATT
1 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACTGTATT
25983706 TTAAATGTGA
66 TTAAATGTGA
* * * * *
25983716 AGGGGGTTGCTAAGTGCTGATTCCCC----CA-AGG-GGTTGCTAAGTGCTGATCCCACTGTATC
1 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACTGTATT
25983775 TTAAATGTGA
66 TTAAATGTGA
* *
25983785 AAGGGGTTGTTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGTTGATTCCACTGTATT
1 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACTGTA-T
*
25983850 TTTGAATGTGAA
65 TTTAAATGTG-A
* * * * * *
25983862 AAAGGGTTGCTAAGTGTTGATTCCCTGAATCATTGGTTGTTGCTACGTGCTGAATCCAC
1 AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCAC
25983921 CGAAAACGAA
Statistics
Matches: 173, Mismatches: 24, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
69 56 0.32
70 2 0.01
71 2 0.01
73 2 0.01
74 2 0.01
75 48 0.28
76 9 0.05
77 52 0.30
ACGTcount: A:0.21, C:0.16, G:0.27, T:0.35
Consensus pattern (75 bp):
AAGGGGTTGCTAAGTGTTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACTGTATT
TTAAATGTGA
Found at i:25990057 original size:27 final size:27
Alignment explanation
Indices: 25990026--25990203 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
25990016 TAAATTGTAC
25990026 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
25990053 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25990079 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
25990107 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
25990135 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
25990162 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
25990189 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
25990204 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:25990140 original size:82 final size:81
Alignment explanation
Indices: 25990027--25990182 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
25990017 AAATTGTACA
* *
25990027 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
25990091 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
25990108 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
25990173 TGCGAGTTGA
65 TGCGAATTGA
25990183 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:25990194 original size:82 final size:81
Alignment explanation
Indices: 25990023--25990203 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
25990013 GATTAAATTG
* *
25990023 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
25990088 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
25990104 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
25990168 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
25990186 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
25990204 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:25991603 original size:23 final size:23
Alignment explanation
Indices: 25991577--25991622 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
25991567 ACTGGTGAAT
25991577 TCAGTGTTCTCGTCTTAACAATA
1 TCAGTGTTCTCGTCTTAACAATA
25991600 TCAGTGTTCTCGTCTTAACAATA
1 TCAGTGTTCTCGTCTTAACAATA
25991623 GTTAAACGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.26, C:0.22, G:0.13, T:0.39
Consensus pattern (23 bp):
TCAGTGTTCTCGTCTTAACAATA
Found at i:26002832 original size:69 final size:69
Alignment explanation
Indices: 26002747--26002890 Score: 216
Period size: 69 Copynumber: 2.1 Consensus size: 69
26002737 TATTATCTTC
* * * *
26002747 AAGTAAGTTTTTTTATTTAAAAAAATTTATGAGCCAGATAATCGAAATAGAGACCCCAAATACGG
1 AAGTAAGTTTTTTTATTTAAAAAAATTTATAAGCCAGATAATCAAAATAAAGACCCCAAATACAG
26002812 AAGA
66 AAGA
* * * *
26002816 AAGTAATTTTTTTTATTTAAAAAACTTTGTAAGCCAGATAATCAAAATAAAGACCCTAAATACAG
1 AAGTAAGTTTTTTTATTTAAAAAAATTTATAAGCCAGATAATCAAAATAAAGACCCCAAATACAG
26002881 AAGA
66 AAGA
26002885 AAGTAA
1 AAGTAA
26002891 ATCAACACAC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.47, C:0.11, G:0.13, T:0.28
Consensus pattern (69 bp):
AAGTAAGTTTTTTTATTTAAAAAAATTTATAAGCCAGATAATCAAAATAAAGACCCCAAATACAG
AAGA
Found at i:26006704 original size:20 final size:20
Alignment explanation
Indices: 26006662--26006704 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
26006652 CTAACCAAAG
** *
26006662 ATATACTATAAATATTAATA
1 ATATACTATAAATAGAAAAA
26006682 ATATACTATAAATAGAAAAA
1 ATATACTATAAATAGAAAAA
26006702 ATA
1 ATA
26006705 AATGCAAACT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (20 bp):
ATATACTATAAATAGAAAAA
Found at i:26023496 original size:16 final size:16
Alignment explanation
Indices: 26023475--26023506 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
26023465 GTTTTCTTGC
*
26023475 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
26023491 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
26023507 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:26026360 original size:20 final size:20
Alignment explanation
Indices: 26026335--26026373 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
26026325 TACTTTCTCC
26026335 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
26026355 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
26026374 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:26026713 original size:50 final size:50
Alignment explanation
Indices: 26026573--26026765 Score: 151
Period size: 50 Copynumber: 3.9 Consensus size: 50
26026563 TAATAACATG
* * * ** *
26026573 CCAAAGCCATGTCCCAGACATGTTCTTACATGGGATGTTTC-T-T-GTACTA
1 CCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCG-A-TA
* * * * * ** *
26026622 CAAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATC-AGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGA-TA
* * *
26026672 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGATA
1 CCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGATA
* * *
26026722 CCAACGCCATGTCCTAGACATGGTCTTATGTGGGACCTCTCATA
1 CCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATA
26026766 ACCTCAATAA
Statistics
Matches: 112, Mismatches: 28, Indels: 7
0.76 0.19 0.05
Matches are distributed among these distances:
49 32 0.29
50 78 0.70
51 2 0.02
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACGTGGGACCTCTCATATCGATA
Found at i:26029802 original size:9 final size:9
Alignment explanation
Indices: 26029788--26029815 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
26029778 TGCAACTGAG
26029788 CTTTCAATT
1 CTTTCAATT
26029797 CTTTCAATT
1 CTTTCAATT
26029806 CTTTCAATT
1 CTTTCAATT
26029815 C
1 C
26029816 CAATGGGGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.25, G:0.00, T:0.54
Consensus pattern (9 bp):
CTTTCAATT
Done.